Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold62
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1452230
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.24
Warning! 388291 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:1167378 original size:20 final size:20
Alignment explanation
Indices: 1167304--1167379 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
1167294 ATGCTTGCAA
*
1167304 TGTATTGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
* * * *
1167324 TATATCGATGCATGCTT-GCAA
1 TGTATCGATACAT--TTCTCAT
*
1167345 TGTATTGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
*
1167365 TGTATCGATGCATTT
1 TGTATCGATACATTT
1167380 TGGGTTTTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
19 2 0.05
20 25 0.61
21 12 0.29
22 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:1171465 original size:21 final size:20
Alignment explanation
Indices: 1171439--1171494 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1171429 TATATAAGTA
1171439 AATGTATCGATGCATGCTTGC
1 AATGTATCGATGCAT-CTTGC
* * *
1171460 AATGTATCGATACATTTTTC
1 AATGTATCGATGCATCTTGC
*
1171480 ATTGTATCGATGCAT
1 AATGTATCGATGCAT
1171495 TCTGGGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
AATGTATCGATGCATCTTGC
Found at i:1172459 original size:49 final size:49
Alignment explanation
Indices: 1172311--1173038 Score: 779
Period size: 49 Copynumber: 15.1 Consensus size: 49
1172301 CTTAGGAATG
*
1172311 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1172360 TTAAAAGATGACAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* *
1172413 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
1172462 TTAAAGGATGACAAAAGCGCCAATATGCTGATTTAAGGCCAGCGATATTAGAC
1 TTAAA-GATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
*
1172515 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
** *
1172564 TTAAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1172617 TTAAAGGTGAAGGTGCCAATGTGCTGATTCAAAGCCAGTGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
1172666 TT---G--G-AGGTGCAAATGTGCTGATTCAAGGCCAACTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* *
1172709 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* *
1172758 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1172801 TTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
*
1172850 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GATC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGA-C
* * * *
1172893 TTAAAGATGAAGATGCCAATATGCTGATTCAAGGCTAGCAATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1172942 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGTC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
1172985 TTAAAGA-CAATGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGC
1 TTAAAGATGAA-GGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
1173034 TTAAA
1 TTAAA
1173039 AAAAAATGCC
Statistics
Matches: 569, Mismatches: 72, Indels: 76
0.79 0.10 0.11
Matches are distributed among these distances:
42 2 0.00
43 144 0.25
44 1 0.00
45 2 0.00
46 4 0.01
47 2 0.00
48 3 0.01
49 260 0.46
50 20 0.04
52 17 0.03
53 114 0.20
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:1172746 original size:92 final size:92
Alignment explanation
Indices: 1172583--1173038 Score: 655
Period size: 92 Copynumber: 5.0 Consensus size: 92
1172573 GACAAAGGCA
* * * *
1172583 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* * **
1172648 AAGCCAGTGATATTGGACTTGGAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
* * * *
1172675 CAAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
**
1172740 AGGCCAGCGATATTGGACTTGGAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
* *
1172767 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
1172832 AGGCCAGCAATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
*
1172859 CCAATGTGCTGATTCAAGGCCAGCGACATT-GATCTTAAAGATGAAGATGCCAATATGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
1172923 AAGGCTAGCAATATTGGACTTAAAGGTG
65 AAGGCCAGCGATATTGGACTTAAAGGTG
* * *
1172951 CCAATGTGCTGATTCAAGGCCAGCCACATTGGTCTTAAAGA-CAATGGTGCCAATATGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGCCAATATGCTGATTC
* *
1173015 AAGGCCAACGATATTGGGCTTAAA
65 AAGGCCAGCGATATTGGACTTAAA
1173039 AAAAAATGCC
Statistics
Matches: 334, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
91 4 0.01
92 329 0.99
93 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGGTG
Found at i:1173123 original size:33 final size:32
Alignment explanation
Indices: 1173045--1173316 Score: 311
Period size: 32 Copynumber: 8.5 Consensus size: 32
1173035 TAAAAAAAAA
* *
1173045 TGCCACCAACTTGTGTGGGCTTT-AGAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGG-T
* * *
1173077 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
* *
1173110 TGCCATCGGCTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
* *
1173142 TGCCACCAACTTGTGTGGGCTTTG-GAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGG-T
*
1173174 TGCCACCAACTTGTGTGGGCTTTAGAGGAA-GGT
1 TGCCACCGACTTGTGTGGGCTTT-GA-GAAGGGT
1173207 TGCCACCGACTTGTGTGGGCTTTGAG-AGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
*
1173238 TGCCACCGACTTGTGTGGGCTTTGGAGAATGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
* * *
1173271 TGCCATCGACTTGTGTGGGCTTT-AGAGGGGG
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
* *
1173302 TGCCACGGAGTTGTG
1 TGCCACCGACTTGTG
1173317 GACTTTAAAA
Statistics
Matches: 209, Mismatches: 22, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
30 1 0.00
31 49 0.23
32 80 0.38
33 71 0.34
34 6 0.03
35 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
Found at i:1173211 original size:97 final size:96
Alignment explanation
Indices: 1173045--1173298 Score: 393
Period size: 97 Copynumber: 2.6 Consensus size: 96
1173035 TAAAAAAAAA
* **
1173045 TGCCACCAACTTGTGTGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGGAAGGT
* *
1173110 TGCCATCGGCTTGTGTGGGCTTTGAGAAGGGT
66 TGCCACCGACTTGTGTGGGCTTTGAG-AGGGT
1173142 TGCCACCAACTTGTGTGGGCTTTGGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGGAAGGT
1173207 TGCCACCGACTTGTGTGGGCTTTGAGAGGGT
66 TGCCACCGACTTGTGTGGGCTTTGAGAGGGT
* * * *
1173238 TGCCACCGACTTGTGTGGGCTTTGGAGAATGG-TTGCCATCGACTTGTGTGGGCTTTAGAGG
1 TGCCACCAACTTGTGTGGGCTTTGGAG--GGGATTGCCACCAACTTGTGTGGGCTTTAGAGG
1173299 GGGTGCCACG
Statistics
Matches: 146, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
96 31 0.21
97 113 0.77
98 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.29
Consensus pattern (96 bp):
TGCCACCAACTTGTGTGGGCTTTGGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGGAAGGT
TGCCACCGACTTGTGTGGGCTTTGAGAGGGT
Found at i:1173422 original size:34 final size:34
Alignment explanation
Indices: 1173300--1173598 Score: 351
Period size: 34 Copynumber: 8.8 Consensus size: 34
1173290 CTTTAGAGGG
* *
1173300 GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
*
1173334 GAGTGCCACGGAGTTGTGGACTTT-AGAAAGAAAAA
1 G-GTGCCACGGAGTTGTGGGCTTTGA-AAAGAAAAA
* * *
1173369 GAGTGCCAAGGAGTGGTGGGCTTTGAAAAGGAAAA
1 G-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
* *
1173404 GGTAG-CACGGTGTTGTGGGCTTTAAAAAG-AAAA
1 GGT-GCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
*
1173437 GGTGCCACGG-GGTGCTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTG-TGGGCTTTGAAAAGAAAAA
* *
1173471 GGTGCCATGGAGTGGTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
1173505 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTT---GAAAAGAAAAA
* *
1173542 GGTGCCACGAAGTTGTGGGCTCTG--AAG-AAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
*
1173573 GGTGCCACGAAGTTGTGGGCTTTGAA
1 GGTGCCACGGAGTTGTGGGCTTTGAA
1173599 GAAAAGATGC
Statistics
Matches: 234, Mismatches: 18, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
31 27 0.12
32 7 0.03
33 25 0.11
34 78 0.33
35 64 0.27
36 1 0.00
37 32 0.14
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
Found at i:1173575 original size:31 final size:31
Alignment explanation
Indices: 1173300--1173687 Score: 219
Period size: 31 Copynumber: 11.7 Consensus size: 31
1173290 CTTTAGAGGG
* * *
1173300 GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAA
1 GGTGCCACGAAGTTGTGGGCTTT--GAAG-AAAA
* *
1173334 GAGTGCCACGGAGTTGTGGACTTTAGAAAGAAAAA
1 G-GTGCCACGAAGTTGTGGGCTTT-G-AAG-AAAA
* * *
1173369 GAGTGCCAAGGAGTGGTGGGCTTTGAAAAGGAAAA
1 G-GTGCCACGAAGTTGTGGGCTTTG--AA-GAAAA
** *
1173404 GGTAG-CACGGTGTTGTGGGCTTTAAAAAGAAAA
1 GGT-GCCACGAAGTTGTGGGCTTT--GAAGAAAA
* *
1173437 GGTGCCACG-GGGTGCTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGAAGTTG-TGGGCTTTG--AAG-AAAA
* * *
1173471 GGTGCCATGGAGTGGTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGAAGTTGTGGGCTTTG--AAG-AAAA
*
1173505 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
1 GGTGCCACGAAGTTGTGGGCTTT---G--AAG-AAAA
*
1173542 GGTGCCACGAAGTTGTGGGCTCTGAAGAAAA
1 GGTGCCACGAAGTTGTGGGCTTTGAAGAAAA
1173573 GGTGCCACGAAGTTGTGGGCTTTGAAGAAAA
1 GGTGCCACGAAGTTGTGGGCTTTGAAGAAAA
* ** *
1173604 GATGCCACTG-AGTCATGGACTTTG--GAAAGA
1 GGTGCCAC-GAAGTTGTGGGCTTTGAAGAAA-A
* * *
1173634 GATGCCACTAAGTTGTGGACTTTGAAGAAAA
1 GGTGCCACGAAGTTGTGGGCTTTGAAGAAAA
* * * *
1173665 GATGCCACTAAGTCGTGGACTTT
1 GGTGCCACGAAGTTGTGGGCTTT
1173688 AGGACAAAAT
Statistics
Matches: 305, Mismatches: 28, Indels: 45
0.81 0.07 0.12
Matches are distributed among these distances:
29 4 0.01
30 21 0.07
31 75 0.25
32 12 0.04
33 23 0.08
34 75 0.25
35 62 0.20
36 1 0.00
37 32 0.10
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (31 bp):
GGTGCCACGAAGTTGTGGGCTTTGAAGAAAA
Found at i:1173647 original size:61 final size:61
Alignment explanation
Indices: 1173575--1173717 Score: 200
Period size: 61 Copynumber: 2.3 Consensus size: 61
1173565 GAAGAAAAGG
* * *
1173575 TGCCACGAAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCATGGACTTT-GGA-AAGAGA
1 TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCATGGACTTTAGGACAA-A-A
*
1173636 TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTAGGACAAAA
1 TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCATGGACTTTAGGACAAAA
**
1173697 TGCCACTGTGTTGTGGACTTT
1 TGCCACTAAGTTGTGGACTTT
1173718 AAAAAGGTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
61 68 0.92
62 4 0.05
63 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (61 bp):
TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCATGGACTTTAGGACAAAA
Found at i:1173718 original size:30 final size:30
Alignment explanation
Indices: 1173568--1173718 Score: 144
Period size: 31 Copynumber: 5.0 Consensus size: 30
1173558 GGGCTCTGAA
* * * * *
1173568 GAAAAGGTGCCACGAAGTTGTGGGCTTTGAA
1 GAAAAGATGCCACTAAGTCGTGGACTTT-AG
* *
1173599 GAAAAGATGCCACTGAGTCATGGACTTT-G
1 GAAAAGATGCCACTAAGTCGTGGACTTTAG
* *
1173628 GAAAGAGATGCCACTAAGTTGTGGACTTTGAA
1 GAAA-AGATGCCACTAAGTCGTGGACTTT-AG
1173660 GAAAAGATGCCACTAAGTCGTGGACTTTAG
1 GAAAAGATGCCACTAAGTCGTGGACTTTAG
** *
1173690 GACAAA-ATGCCACTGTGTTGTGGACTTTA
1 GA-AAAGATGCCACTAAGTCGTGGACTTTA
1173719 AAAAGGTATT
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
29 4 0.04
30 44 0.44
31 48 0.48
32 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (30 bp):
GAAAAGATGCCACTAAGTCGTGGACTTTAG
Found at i:1175048 original size:11 final size:10
Alignment explanation
Indices: 1175014--1175049 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
1175004 CCTTTACACT
1175014 TTTTTTTTTG
1 TTTTTTTTTG
1175024 TTTTTTTTTG
1 TTTTTTTTTG
*
1175034 TTTTTTTTTA
1 TTTTTTTTTG
1175044 TTTTTT
1 TTTTTT
1175050 ATCATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1175057 original size:20 final size:20
Alignment explanation
Indices: 1175014--1175060 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1175004 CCTTTACACT
* * **
1175014 TTTTTTTTTGTTTTTTTTTG
1 TTTTTTTTTATTTTTTATCA
1175034 TTTTTTTTTATTTTTTATCA
1 TTTTTTTTTATTTTTTATCA
1175054 TTTTTTT
1 TTTTTTT
1175061 AAGGGAACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.06, C:0.02, G:0.04, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTATTTTTTATCA
Found at i:1181719 original size:52 final size:52
Alignment explanation
Indices: 1181571--1181699 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1181561 CGAAATATGA
1181571 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
1181623 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1181675 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1181700 AAGATGAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:1181726 original size:13 final size:13
Alignment explanation
Indices: 1181708--1181732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1181698 CAAAGATGAG
1181708 TGTATCGATACAA
1 TGTATCGATACAA
1181721 TGTATCGATACA
1 TGTATCGATACA
1181733 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1181809 original size:19 final size:19
Alignment explanation
Indices: 1181785--1181836 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1181775 AGTGATACAT
1181785 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1181804 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1181823 TGTATCGATACAAA
1 TGTATCGATACAAA
1181837 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1182748 original size:25 final size:25
Alignment explanation
Indices: 1182710--1182758 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1182700 CAAACAAGTC
1182710 ATGAAAAAAAATCACACATGCAAAA
1 ATGAAAAAAAATCACACATGCAAAA
**
1182735 ATGAAAAAGTATCACACATGCAAA
1 ATGAAAAAAAATCACACATGCAAA
1182759 CACATAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.59, C:0.16, G:0.10, T:0.14
Consensus pattern (25 bp):
ATGAAAAAAAATCACACATGCAAAA
Found at i:1184205 original size:20 final size:20
Alignment explanation
Indices: 1184149--1184205 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1184139 TATATAAGTA
*
1184149 AATGTATCGATGCATGCTTGC
1 AATGTATCGATGCAT-TTTGC
* * *
1184170 AATGTATCAATACATTTTTC
1 AATGTATCGATGCATTTTGC
*
1184190 ATTGTATCGATGCATT
1 AATGTATCGATGCATT
1184206 CTGGGTTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (20 bp):
AATGTATCGATGCATTTTGC
Found at i:1187681 original size:166 final size:164
Alignment explanation
Indices: 1187476--1188094 Score: 748
Period size: 166 Copynumber: 3.7 Consensus size: 164
1187466 TCTTCTCCAT
* ** * *
1187476 AAATTTTTTCGGGAGGATTTTTCGTAATTTTTAATTTTTAAAATTCATCAAATC-TTTTTATTTA
1 AAATTTTTTCGGGA-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA-CATTATTATTTA
* *
1187540 TTTCATATTAATTCAGTTTTCAAAAATTTATTCATTTTCATGAGCTTTTGATTTTTTTCTTAAAA
64 TTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCTTAAAA
* *
1187605 TTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGA
129 -TTCCTTTTTTCTAAAATACGGTATTTTCTACTTTGA
* * *
1187642 AAATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAAGATTATAATGTAT
1 AAATTTTTTCGG-GAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTATTATTTAT
* * * * *
1187707 TCCATATTAATTCATTTTTCAAAAACTCATTCATTTTCCTGAGTTTTTTATATTTTTT-TTGAAA
65 TTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAT-TTTTTTCTT-AAA
* * * *
1187771 CTT-CTTTTTTTTCAAAATACGGTATTTTCTACTCTGT
128 ATTCCTTTTTTCT-AAAATACGGTATTTTCTACTTTGA
* * *
1187808 AAATTTTTTTGGGAAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAGTATCATTTAT
1 AAATTTTTTCGGG-AGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTATTATTTAT
* *
1187873 TTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTA-TTTTTTCTTCGAAA
65 TTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCTT--AAA
*
1187937 CATTCCTTTTTTC-AAAATACGGTGTTTTCTACTCCTT--
128 -ATTCCTTTTTTCTAAAATACGGTATTTTCTACT--TTGA
*** *
1187974 AAATTTTTTTAAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTAT
1 AAATTTTTTCGGGA-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTATTATTTAT
* * * *
1188039 TTCATATTAATTTATTTTTCAAAAATTCATTCATCTTCATGAGTTTTTGAATTTTT
65 TTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTT
1188095 GCTTTGAAAT
Statistics
Matches: 396, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
164 6 0.02
165 11 0.03
166 353 0.89
167 18 0.05
168 8 0.02
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (164 bp):
AAATTTTTTCGGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTATTATTTATT
TCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCTTAAAATT
CCTTTTTTCTAAAATACGGTATTTTCTACTTTGA
Found at i:1188058 original size:332 final size:332
Alignment explanation
Indices: 1187448--1188103 Score: 876
Period size: 332 Copynumber: 2.0 Consensus size: 332
1187438 TTCCTCTTAC
* * * *
1187448 TTTCAAACTACGGGAATTTCTTCTCCATAAATTTTTTCGGGAGGATTTTTCGTAATTTTTAATTT
1 TTTCAAAATACGGGAATTTCTACTCCATAAATTTTTTCGGGAAGATTTTTCGTAATTTTCAATTT
* * * *
1187513 TTAAAATTCATCAAATCTTTTTATTTATTTCATATTAATTCAGTTTTCAAAAATTTATTCATTTT
66 TTAAAATTCATCAAATCGTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTT
1187578 CATGAGCTTTTGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAA
131 CATGAGCTTTTGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAA
** * *
1187643 AATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAAGATTATAATGTATT
196 AATTTTTTAAGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAATGTATT
* * *
1187708 CCATATTAATTCATTTTTCAAAAACTCATTCATTTTCCTGAGTTTTTTATATTTTT-TTTGAAAC
261 CCATATTAATTCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGA-ATTTTTCTTTGAAAC
1187772 TTCTTTTT
325 TTCTTTTT
* * ** * * **
1187780 TTTCAAAATACGGTATTTTCTACTCTGTAAATTTTTTTGGGAAGATTTTTCTTGGTTTTCAATTT
1 TTTCAAAATACGGGAATTTCTACTCCATAAATTTTTTCGGGAAGATTTTTCGTAATTTTCAATTT
*
1187845 TTAAAATTCATCAAA-CAGTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTT
66 TTAAAATTCATCAAATC-GTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTT
* * * * *
1187909 TCATGAGTTTTTTA-TTTTTTCTTCGAAACA-TTCCTTTTTTC-AAAATACGGTGTTTTCTACTC
130 TCATGAGCTTTTGATTTTTTTCTT--AAA-ATTTCCCTTTTTCTAAAATACGGTATTTTATACT-
* *
1187971 CTT-AAATTTTTTTAAGAG-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTA
191 -TTGAAAATTTTTTAAGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAA
* * * *
1188034 TTTATTTCATATTAATTTATTTTTCAAAAATTCATTCATCTTCATGAGTTTTTGAATTTTTGCTT
255 TGTATTCCATATTAATTCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGAATTTTT-CTT
1188099 TGAAA
319 TGAAA
1188104 TCCTCATATT
Statistics
Matches: 281, Mismatches: 35, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
331 16 0.06
332 230 0.82
333 32 0.11
334 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.51
Consensus pattern (332 bp):
TTTCAAAATACGGGAATTTCTACTCCATAAATTTTTTCGGGAAGATTTTTCGTAATTTTCAATTT
TTAAAATTCATCAAATCGTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTT
CATGAGCTTTTGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAA
AATTTTTTAAGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAATGTATT
CCATATTAATTCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGAATTTTTCTTTGAAACT
TCTTTTT
Found at i:1188164 original size:166 final size:165
Alignment explanation
Indices: 1187450--1188184 Score: 745
Period size: 166 Copynumber: 4.4 Consensus size: 165
1187440 CCTCTTACTT
* * * * * * ** *
1187450 TCAAACTACGGGAATTTCTTCTCCATAAATTTTTTCGGGAGGATTTTTCGTAATTTTTAATTTTT
1 TCAAAATACGGTATTTTCTACTCCATAAATTTTTTTGGGA-GATTTTTCTTGGTTTTCAATTTTT
* *
1187515 AAAATTCATCAAATC-TTTTTATTTATTTCATATTAATTCAGTTTTCAAAAATTTATTCATTTTC
65 AAAATTCATCAAA-CATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTC
* * *
1187579 ATGAGCTTTTGATTTTTTTC-TTAAAATTTCC-CTTTTTC
129 ATGAGTTTTTGAATTTTTTCTTTGAAA---CCTCTTTTTC
* ** *
1187617 T-AAAATACGGTATTTTATACTTTGA-AAATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTT
1 TCAAAATACGGTATTTTCTAC-TCCATAAATTTTTTTGG-GAGATTTTTCTTGGTTTTCAATTTT
* * * * * *
1187680 TAAAATTCATCAAAGATTATAATGTATTCCATATTAATTCATTTTTCAAAAACTCATTCATTTTC
64 TAAAATTCATCAAACATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTC
* * * *
1187745 CTGAGTTTTT-TATATTTTT-TTTGAAACTTCTTTTTTT
129 ATGAGTTTTTGAAT-TTTTTCTTTGAAACCTC-TTTTTC
**
1187782 TCAAAATACGGTATTTTCTACTCTGTAAATTTTTTTGGGAAGATTTTTCTTGGTTTTCAATTTTT
1 TCAAAATACGGTATTTTCTACTCCATAAATTTTTTTGGG-AGATTTTTCTTGGTTTTCAATTTTT
* * *
1187847 AAAATTCATCAAACAGTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA
65 AAAATTCATCAAACATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
* * *
1187912 TGAGTTTTT-TATTTTTTCTTCGAAACATTCCTTTTT-
130 TGAGTTTTTGAATTTTTTCTTTGAAAC-CT-CTTTTTC
* * **
1187948 TCAAAATACGGTGTTTTCTACTCCTTAAATTTTTTTAAGAGGATTTTTCTTGGTTTTCAATTTTT
1 TCAAAATACGGTATTTTCTACTCCATAAATTTTTTTGGGA-GATTTTTCTTGGTTTTCAATTTTT
* * * *
1188013 AAAATTCATCAAACATCATTATTTATTTCATATTAATTTATTTTTCAAAAATTCATTCATCTTCA
65 AAAATTCATCAAACATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
* * *
1188078 TGAGTTTTTGAATTTTTGCTTTGAAATCCTCATATTC
130 TGAGTTTTTGAATTTTTTCTTTGAAA-CCTCTTTTTC
* * * * * * **
1188115 TCAAAAAATC-GAATTTTCTATTCCATAAATATTTTTGAGGGGA-TTTTCTTTGGTCTAAAATTT
1 TCAAAATA-CGGTATTTTCTACTCCATAAATTTTTTTG-GGAGATTTTTC-TTGGTTTTCAATTT
1188178 TTAAAAT
63 TTAAAAT
1188185 GTATCTTCTA
Statistics
Matches: 479, Mismatches: 69, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
163 1 0.00
164 1 0.00
165 15 0.03
166 384 0.80
167 74 0.15
168 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (165 bp):
TCAAAATACGGTATTTTCTACTCCATAAATTTTTTTGGGAGATTTTTCTTGGTTTTCAATTTTTA
AAATTCATCAAACATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCAT
GAGTTTTTGAATTTTTTCTTTGAAACCTCTTTTTC
Found at i:1188164 original size:332 final size:333
Alignment explanation
Indices: 1187460--1188184 Score: 850
Period size: 332 Copynumber: 2.2 Consensus size: 333
1187450 TCAAACTACG
* * * ** *
1187460 GGAA-TTTCTTCTCCATAAAT-TTTTTCGGGAGGATTTTTC-GTAATTTTTAATTTTTAAAATTC
1 GGAATTTTCTACTCCATAAATATTTTT-GGGAAGATTTTTCTTTGGTTTTAAATTTTTAAAATTC
* * * *
1187522 ATCAAATCTTTTTATTTATTTCATATTAATTCAGTTTTCAAAAATTTATTCATTTTCATGAGCTT
65 ATCAAATCGTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGCTT
*
1187587 TTGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAAAATTTTTTC
130 TTGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAAAATTTTTTA
* * *
1187652 GGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAAGATTATAATGTATTCCATATTAA
195 AGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAATGTATTCCATATTAA
* * * * * * *
1187717 TTCATTTTTCAAAAACTCATTCATTTTCCTGAGTTTTTTATATTTTTTTTGAAACTTCTTTTTTT
260 TTCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGATATTTTTTTTGAAACCTCTATATTC
*
1187782 TCAAAATAC
325 TCAAAAAAC
* ** * *
1187791 GGTATTTTCTACTCTGTAAATTTTTTTGGGAAGATTTTTC-TTGGTTTTCAATTTTTAAAATTCA
1 GGAATTTTCTACTCCATAAATATTTTTGGGAAGATTTTTCTTTGGTTTTAAATTTTTAAAATTCA
* *
1187855 TCAAA-CAGTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTT
66 TCAAATC-GTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGCTT
* * * * *
1187919 TTTA-TTTTTTCTTCGAAACA-TTCCTTTTTTC-AAAATACGGTGTTTTCTACTCCTT-AAATTT
130 TTGATTTTTTTCTT--AAA-ATTTCCCTTTTTCTAAAATACGGTATTTTATACT--TTGAAAATT
* * *
1187980 TTTTAAGAG-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCAT
190 TTTTAAGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAATGTATTCCAT
* *
1188044 ATTAATTTATTTTTCAAAAATTCATTCATCTTCATGAGTTTTTGA-ATTTTTGCTTTGAAATCCT
255 ATTAATTCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGATATTTTT--TTTGAAA-CCT
1188108 C-ATATTCTCAAAAAATC
317 CTATATTCTCAAAAAA-C
* * * *
1188125 -GAATTTTCTATTCCATAAATATTTTTGAGG-GGA-TTTTCTTTGGTCTAAAATTTTTAAAAT
1 GGAATTTTCTACTCCATAAATATTTTTG-GGAAGATTTTTCTTTGGTTTTAAATTTTTAAAAT
1188185 GTATCTTCTA
Statistics
Matches: 334, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
331 19 0.06
332 217 0.65
333 89 0.27
334 9 0.03
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (333 bp):
GGAATTTTCTACTCCATAAATATTTTTGGGAAGATTTTTCTTTGGTTTTAAATTTTTAAAATTCA
TCAAATCGTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGCTTT
TGATTTTTTTCTTAAAATTTCCCTTTTTCTAAAATACGGTATTTTATACTTTGAAAATTTTTTAA
GAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATAATGTATTCCATATTAAT
TCATTTTTCAAAAACTCATTCATCTTCATGAGTTTTTGATATTTTTTTTGAAACCTCTATATTCT
CAAAAAAC
Found at i:1192000 original size:28 final size:28
Alignment explanation
Indices: 1191928--1192770 Score: 669
Period size: 28 Copynumber: 29.8 Consensus size: 28
1191918 CTTTGACTAG
* *
1191928 GGTGCCACTAACTTGTGTGGGGTTTAAAAA
1 GGTGCCACTAAC-T-TGTGGGCTTTGAAAA
* *
1191958 TGGTTGGCGCTAACTTGTGGGCTTTGAAAA
1 -GG-TGCCACTAACTTGTGGGCTTTGAAAA
*
1191988 GGTGCCACTAACTTGTGAGCTTTTG-AAA
1 GGTGCCACTAACTTGTGGGC-TTTGAAAA
* * * *
1192016 GGTGCTATTGACTTGTGGGCTTTAAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
1192044 TGGTTGCCAATGACTTGTGGG-TTTGGAAAA
1 -GG-TGCCACTAACTTGTGGGCTTT-GAAAA
1192074 -GTGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
1192101 GGATGCCACTGACTTATGGGCTTTCCG-AAA
1 GG-TGCCACTAACTTGTGGGCTTT--GAAAA
*
1192131 GGTGCCACTGACTTGTGGGC-TTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
** * * *
1192158 GGTGCTGCTAACTTATAGGCTTTTGATAA
1 GGTGCCACTAACTTGTGGGC-TTTGAAAA
* *
1192187 GATGCCACTAACTTGTGGGCTTTAAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
1192215 GGTGCCAGTAA-TTCATGGACTTAGAAAA
1 GGTGCCACTAACTT-GTGGGCTTTGAAAA
* * *
1192243 GGTGCCACTAATTTGTGGACTTTG-AAT
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
1192270 GGATGCCACTGACTTGTGAGCTTTTG-AAA
1 GG-TGCCACTAACTTGTGGGC-TTTGAAAA
* *
1192299 GGATGCCACTGACTTGT-GGCTTTAAAAA
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
* *
1192327 GGTTCCACTAACTTGTGAGCTTT-AAGAA
1 GGTGCCACTAACTTGTGGGCTTTGAA-AA
*
1192355 GGATGCCACTGACTTGTGGGCTTTCG-AAA
1 GG-TGCCACTAACTTGTGGGCTTT-GAAAA
* * *
1192384 GGTGCCATTGACTTGTAGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
1192412 GGTGCCACTAACTTGTGGGCTTTTGAAAA
1 GGTGCCACTAACTTGTGGGC-TTTGAAAA
* * * * *
1192441 GATGCTATTGACTTATGGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
1192469 GGTGCTACTAATTTGTGGACTTGGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
1192497 GGTGCCACCAATTTGTGGACTTT-AAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
1192524 GGATGCCACTAACATATGCGCTTTGAAAG
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
* *
1192553 GGTGCCACTGACTTGTGGGCTTTTGGAAA
1 GGTGCCACTAACTTGTGGGC-TTTGAAAA
* * * *
1192582 GGTGCCGCTGATTTGTGGACTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
1192609 GGATGCCACTGACTTGTGAGCTTTGAAAG
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
*
1192638 GGTGCCACTAACTTATGGGCTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
1192665 GGATGCCACTGACTTGTGGACTTT-AAAA
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
*
1192693 GGGTGGCACTAACTTGTGGGCTTT-AAAA
1 -GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
1192721 GGGTGCCGCCAACTTGTGCGCTTT-AGAAA
1 -GGTGCCACTAACTTGTGGGCTTTGA-AAA
* *
1192750 GGTGCCA-TGACTTATGGGCTT
1 GGTGCCACTAACTTGTGGGCTT
1192771 AAAAGGATGC
Statistics
Matches: 661, Mismatches: 116, Indels: 74
0.78 0.14 0.09
Matches are distributed among these distances:
26 1 0.00
27 90 0.14
28 345 0.52
29 175 0.26
30 38 0.06
31 4 0.01
32 8 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAA
Found at i:1192137 original size:85 final size:83
Alignment explanation
Indices: 1191970--1192780 Score: 673
Period size: 85 Copynumber: 9.6 Consensus size: 83
1191960 GTTGGCGCTA
* * *
1191970 ACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGAGCTTTTG-AAAGG-TGCTATTGACTTGTG
1 ACTTGTGGG-TTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAAGGATGCCACTGACTTGTG
* *
1192033 GGCTTTAAAAATGGTTGCCAATG
64 GGCTTT-GAAA-GG-TGCCACTG
*
1192056 ACTTGTGGGTTTGGAAAA-GTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGG
1 ACTTGTGGGTTT-GAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGG
1192120 GCTTTCCGAAAGGTGCCACTG
65 GCTTT--GAAAGGTGCCACTG
* ** * * * *
1192141 ACTTGTGGGCTTGAAAAGGTGCTGCTAACTTATAGGCTTTTGATAA-GATGCCACTAACTTGTGG
1 ACTTGTGGGTTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAAGGATGCCACTGACTTGTGG
* *
1192205 GCTTTAAAAAGGTGCCAGT-
65 GCTTT-GAAAGGTGCCACTG
* * * * * * *
1192224 AATTCATGGACTTAGAAAAGGTGCCACTAATTTGTGGACTTTG-AATGGATGCCACTGACTTGTG
1 ACTT-GTGG-GTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
*
1192288 AGCTTTTGAAAGGATGCCACTG
64 GGC-TTTGAAAGG-TGCCACTG
* * * *
1192310 ACTTGTGGCTTTAAAAAGGTTCCACTAACTTGTGAGCTTT-AAGAAGGATGCCACTGACTTGTGG
1 ACTTGTGGGTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAA-AAGGATGCCACTGACTTGTGG
*
1192374 GCTTTCGAAAGGTGCCATTG
65 GCTTT-GAAAGGTGCCACTG
* * * *
1192394 ACTTGTAGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAA-GATGCTATTGACTTATG
1 ACTTGT-GGGTTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAAGGATGCCACTGACTTGTG
* *
1192458 GGCTTTGAAAAGGTGCTACTA
64 GGCTTTG-AAAGGTGCCACTG
* * * * * * * * * *
1192479 ATTTGTGGACTTGGAAAAGGTGCCACCAATTTGTGGACTTT-AAAAGGATGCCACTAACATATGC
1 ACTTGTGG-GTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGG
1192543 GCTTTGAAAGGGTGCCACTG
65 GCTTTGAAA-GGTGCCACTG
* * * * *
1192563 ACTTGTGGGCTTTTGGAAAGGTGCCGCTGATTTGTGGACTTTG-AAAGGATGCCACTGACTTGTG
1 ACTTGTGGG--TTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* *
1192627 AGCTTTGAAAGGGTGCCACTA
64 GGCTTTGAAA-GGTGCCACTG
* * * * * *
1192648 ACTTATGGGCTTTG-AAAGGATGCCACTGACTTGTGGACTTT-AAAAGGGTGGCACTAACTTGTG
1 ACTTGTGGG-TTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * **
1192711 GGCTTTAAAAGGGTGCCGCCA
64 GGCTTTGAAA-GGTGCCACTG
* * *
1192732 ACTTGTGCGCTTT-AGAAAGGTGCCA-TGACTTATGGGC-TT-AAAAGGATGC
1 ACTTGTG-GGTTTGA-AAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGC
1192781 TAGGGAGTTG
Statistics
Matches: 599, Mismatches: 96, Indels: 64
0.79 0.13 0.08
Matches are distributed among these distances:
82 10 0.02
83 26 0.04
84 205 0.34
85 304 0.51
86 49 0.08
87 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (83 bp):
ACTTGTGGGTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGG
CTTTGAAAGGTGCCACTG
Found at i:1192359 original size:254 final size:252
Alignment explanation
Indices: 1191983--1192727 Score: 817
Period size: 254 Copynumber: 2.9 Consensus size: 252
1191973 TGTGGGCTTT
* * * * **
1191983 GAAAAGGTGCCACTAACTTGT-GAGCTTTTGAAAGG-TGCTATTGACTTGTGGGCTTTAAAAATG
1 GAAAAGGTGCCACTAATTTGTGGA-C-TTTGAAAGGATGCCACTGACTTGTGAGCTTTTGAAA-G
* * *
1192046 GTTGCCAATGACTTGTGGGTTTGGAAAA-GTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCAC
63 GATGCCACTGACTTGTGGCTTT-GAAAAGGTGCCACTAACTTGT-GGCTTT-AAAAGGATGCCAC
* **
1192110 TGACTTATGGGCTTTCCGAAAGGTGCCACTGACTTGTGGGC-TTGAAAAGGTGCTGCTAACTTAT
125 TGACTTGTGGGCTTT-CGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTAT
* * *
1192174 AGGCTTTTGATAAGATGCCACTAACTTGTGGGCTTTAAAAAGGTGCCAGTAATTCATGGACTTA
189 AGGCTTTTGAAAAGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAATTCATGGACTTA
*
1192238 GAAAAGGTGCCACTAATTTGTGGACTTTGAATGGATGCCACTGACTTGTGAGCTTTTGAAAGGAT
1 GAAAAGGTGCCACTAATTTGTGGACTTTGAAAGGATGCCACTGACTTGTGAGCTTTTGAAAGGAT
* *
1192303 GCCACTGACTTGTGGCTTTAAAAAGGTTCCACTAACTTGTGAGCTTTAAGAAGGATGCCACTGAC
66 GCCACTGACTTGTGGCTTTGAAAAGGTGCCACTAACTTGTG-GCTTTAA-AAGGATGCCACTGAC
* * * *
1192368 TTGTGGGCTTTCGAAAGGTGCCATTGACTTGTAGGCTTTGAAAAGGTGCCACTAACTTGTGGGCT
129 TTGTGGGCTTTCGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATAGGCT
* * * * * ** *
1192433 TTTGAAAAGATGCTATTGACTTATGGGCTTTGAAAAGGTGCTACTAATTTGTGGACTTG
194 TTTGAAAAGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAATTCATGGACTTA
* * * * * * *
1192492 GAAAAGGTGCCACCAATTTGTGGACTTTAAAAGGATGCCACTAACATATGCGC-TTTGAAAGGGT
1 GAAAAGGTGCCACTAATTTGTGGACTTTGAAAGGATGCCACTGACTTGTGAGCTTTTGAAAGGAT
* * * * *
1192556 GCCACTGACTTGTGGGCTTTTGGAAAGGTGCCGCTGATTTGTGGACTTTGAAAGGATGCCACTGA
66 GCCACTGACTTGT-GGC-TTTGAAAAGGTGCCACTAACTTGTGG-CTTTAAAAGGATGCCACTGA
* * * * *
1192621 CTTGTGAGCTTT-GAAAGGGTGCCACTAACTTATGGGCTTTG-AAAGGATGCCACTGACTTGT-G
128 CTTGTGGGCTTTCGAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTATAG
* * * *
1192683 GAC-TTT-AAAAGGGTGGCACTAACTTGTGGGCTTTAAAAGGGTGCC
191 G-CTTTTGAAAA-GATGCCACTAACTTATGGGCTTTAAAAAGGTGCC
1192728 GCCAACTTGT
Statistics
Matches: 417, Mismatches: 60, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
252 4 0.01
253 92 0.22
254 253 0.61
255 66 0.16
256 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (252 bp):
GAAAAGGTGCCACTAATTTGTGGACTTTGAAAGGATGCCACTGACTTGTGAGCTTTTGAAAGGAT
GCCACTGACTTGTGGCTTTGAAAAGGTGCCACTAACTTGTGGCTTTAAAAGGATGCCACTGACTT
GTGGGCTTTCGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATAGGCTTT
TGAAAAGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAATTCATGGACTTA
Found at i:1192919 original size:27 final size:28
Alignment explanation
Indices: 1192255--1193089 Score: 461
Period size: 28 Copynumber: 29.9 Consensus size: 28
1192245 TGCCACTAAT
* * * *
1192255 TTGTGGACTTTGAATGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * *
1192283 TTGT-GAGCTTTTGAAAGGATGCCACTGAC
1 TTGTGGA-C-TTTAAAAGGATGCCACGGAG
* ** *
1192312 TTGTGG-CTTTAAAAAGG-TTCCACTAAC
1 TTGTGGACTTT-AAAAGGATGCCACGGAG
* *
1192339 TTGT-GAGCTTTAAGAAGGATGCCACTGAC
1 TTGTGGA-CTTTAA-AAGGATGCCACGGAG
* * ** *
1192368 TTGTGGGCTTTCGAAAGG-TGCCATTGAC
1 TTGTGGACTTT-AAAAGGATGCCACGGAG
** *
1192396 TTGTAGG-CTTTGAAAAGG-TGCCACTAAC
1 TTGT-GGACTTT-AAAAGGATGCCACGGAG
* * ** *
1192424 TTGTGGGCTTTTGAAAA-GATGCTATTGAC
1 TTGTGGAC-TTT-AAAAGGATGCCACGGAG
* * * ** *
1192453 TTATGGGCTTTGAAAAGG-TGCTACTAAT
1 TTGTGGACTTT-AAAAGGATGCCACGGAG
* ** *
1192481 TTGTGGACTTGGAAAAGG-TGCCACCAAT
1 TTGTGGACTT-TAAAAGGATGCCACGGAG
** *
1192509 TTGTGGACTTTAAAAGGATGCCACTAAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * * * *
1192537 ATATGCG-CTTTGAAAGGGTGCCACTGAC
1 TTGTG-GACTTTAAAAGGATGCCACGGAG
* * * * *
1192565 TTGTGGGCTTTTGGAAAGG-TGCCGCTGAT
1 TTGTGGAC-TTT-AAAAGGATGCCACGGAG
* * *
1192594 TTGTGGACTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * ** *
1192622 TTGT-GAGCTTTGAAAGGGTGCCACTAAC
1 TTGTGGA-CTTTAAAAGGATGCCACGGAG
* * * * *
1192650 TTATGGGCTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * ** *
1192678 TTGTGGACTTTAAAAGGGTGGCACTAAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * ** *
1192706 TTGTGGGCTTTAAAAGGGTGCCGCCAAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1192734 TTGTGCG-CTTTAGAAAGG-TGCCA-TGAC
1 TTGTG-GACTTTA-AAAGGATGCCACGGAG
* * * *
1192761 TTATGGGC-TTAAAAGGATGCTAGGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1192788 TTGTGAACTTTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1192816 TTGTGGACTTTAAGAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1192844 TTGTGGACATTAAAAGGATGACACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
1192872 TTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1192900 TTGTGGAC-TTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1192927 TTATGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * *
1192955 TTATGGAC-TTAGAAGGATACCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * **
1192982 TTGTGGACTTTGAAAGGATACCATAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
** *
1193010 TTGTGGAC-TTAAAAGGATGTGACAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
1193037 TTGTGGAC-TTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1193064 TTGTGGACTTTGAAAAGAAATGCCAC
1 TTGTGGACTTT-AAAAG-GATGCCAC
1193090 TGAATCGTGG
Statistics
Matches: 677, Mismatches: 95, Indels: 68
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.01
26 9 0.01
27 145 0.21
28 403 0.60
29 99 0.15
30 16 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGATGCCACGGAG
Found at i:1201175 original size:51 final size:50
Alignment explanation
Indices: 1201118--1201232 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 50
1201108 AATTAATTAG
*
1201118 ATGTATCGATACATTGAAAAATGTATCAATATAGCTGGGTAAAAAAAAAGA
1 ATGTATCGATACATTGAAAAATGTATCAATACAGCTGGGT-AAAAAAAAGA
* *
1201169 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCAATACAGCTGGGTAAAAAAAAGA
1201219 ATGTATCGATACAT
1 ATGTATCGATACAT
1201233 GTACTGTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 23 0.38
51 38 0.62
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCAATACAGCTGGGTAAAAAAAAGA
Found at i:1203531 original size:157 final size:155
Alignment explanation
Indices: 1203249--1203829 Score: 625
Period size: 155 Copynumber: 3.7 Consensus size: 155
1203239 CCAGGTCCAT
* * * * * *
1203249 TTTTATGTCGAAGGTGGGCATTTAAGATAGATTCATCCCATCTCTAGT-CTTTTTAAGTTCTTTA
1 TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTCTATAGTCCTTTTTAAGTCCTTTA
* * *
1203313 GAGGTATTGGGATACTTTCACATCGAAGGTATCCCCTCGGGGTATTTTCATAATTTTTTAGAACC
66 G-GGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAACC
* * *
1203378 AAGTCCTAAGTTATCATCGGGTCTGT
130 AAGTCCTAGGTTATCACCGGGTCTGC
* * * *
1203404 TTTTATGCTGACGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTTTA
1 TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTCTATAGTCCTTTTTAAGTCCTTTA
* * * *
1203469 GAGCGTATCAGGATACATTCACGTCGACGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAAT
66 G-G-GTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAAC
* * * * *
1203534 CGAGTCTTAGGTTGTCACCAGGTCTAC
129 CAAGTCCTAGGTTATCACCGGGTCTGC
* * ** *
1203561 TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCTTCTCTA-AACTTTTTAAGTCTTTTA
1 TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTCTATAGTCCTTTTTAAGTCCTTTA
* * * * ** *
1203625 GGGTTATCGGGATACTTTTACGTTGAAGGTATACTCATAGGGACATTTT-GTAATTTTTTAGAAC
66 GGG-TATCGGGATACTTTCACGTCGAAGGTAT-CCCCTAGGGGTATTTTCATAATTTTTTAGAAC
* * * *
1203689 CAACTCCTAGGTCATCACCGAGTCCGC
129 CAAGTCCTAGGTTATCACCGGGTCTGC
* *
1203716 TTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTA-AATCCTTTTTAAGTCCTT
1 TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCC--TTCTATAGTCCTTTTTAAGTCCTT
* *
1203780 TAGGTGTATCGGG-TAC-TTCTACGTCAAAGGTATCCCTTAGGGGTACTTTT
64 TAGG-GTATCGGGATACTTTC-ACGTCGAAGGTATCCCCTAGGGGTA-TTTT
1203830 AAAATGTTTC
Statistics
Matches: 349, Mismatches: 67, Indels: 19
0.80 0.15 0.04
Matches are distributed among these distances:
154 1 0.00
155 141 0.40
156 65 0.19
157 141 0.40
158 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (155 bp):
TTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTCTATAGTCCTTTTTAAGTCCTTTA
GGGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAGAACCA
AGTCCTAGGTTATCACCGGGTCTGC
Found at i:1207331 original size:22 final size:24
Alignment explanation
Indices: 1207306--1207353 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
1207296 AAAAAGAAAA
1207306 AAAAAACA-AAAATAAAAAAG-GC
1 AAAAAACATAAAATAAAAAAGTGC
* *
1207328 -AAAAGCATGAAATAAAAAAGTGC
1 AAAAAACATAAAATAAAAAAGTGC
1207351 AAA
1 AAA
1207354 TGGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 2 0.10
24 2 0.10
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.08
Consensus pattern (24 bp):
AAAAAACATAAAATAAAAAAGTGC
Found at i:1209521 original size:79 final size:79
Alignment explanation
Indices: 1209322--1210505 Score: 939
Period size: 79 Copynumber: 14.9 Consensus size: 79
1209312 CATAGTATGG
* * * * *
1209322 GGTTGGAGCATCCACTT-GAAAATAACGAGGTTAGAGTATCCCCAATGATGAAAAATTGATGTTT
1 GGTTGGAGTATCC-CTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTT
*
1209386 TAGAAATAAAA-CTA
65 TAGAAATAAAATCGA
* * * * *
1209400 GGGTTGAAG-ATCTCC-TCGAAAATAATGGGGTTGGAGTATCCCCGATGTTGAAAAATCGGTGGT
1 -GGTTGGAGTATC-CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGAT-GT
* *
1209463 GTCA-AAATAAAATCGA
63 TTTAGAAATAAAATCGA
* * * *
1209479 GGTTGGAGTATCCCTTTGAAAATAACGGGATTGGAGTATCCCCGATGGTGAAAATTTGATATTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTT
* *
1209544 AGAAATAAAATTGG
66 AGAAATAAAATCGA
* * ** * * *
1209558 GGTTGGAATATCCTCTTAG-AAATAATAGGGTTGGAGTATCCCCAATAGTGGAAAAATTGGTGTT
1 GGTTGGAGTATCC-CTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATTGATGTT
* *
1209622 TTAGGAATAAAACCGA
64 TTAGAAATAAAATCGA
* * * * *
1209638 TGTTAGAGTATCCCCTCGAAAA-AA-GTAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTT
1 GGTTGGAGTATCCCTTCGAAAATAACG--GGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTT
* * *
1209701 TTAAAAATAAAACCGG
64 TTAGAAATAAAATCGA
* * * * *
1209717 GGTTGGAGTATCCCTTTGAAAATAAAGGGGTTGGAGTATTCCCAATGGTGGAAAAA-T-CTGTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATTGATGTTT
* *
1209780 AAGGAATAAAATCG-
65 TAGAAATAAAATCGA
* * * ** * *
1209794 GGTTTGAAGTGTCCCCAT-GAAAATAACAAGGTTGGAGTATCCTCGATGGT-AGAAAATTGATAT
1 GG-TTGGAGTAT-CCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGA-AAAATTGATGT
* *
1209857 TTTAAAAATAAAATTG-
63 TTTAGAAATAAAATCGA
* * *
1209873 GGATTGGAGTATCCCCTC-AGAAATAACGGGGTTAGG-TTATCCCCGATGGTGAAAAAATCGATG
1 GG-TTGGAGTATCCCTTCGA-AAATAACGGGGTT-GGAGTATCCCCGATGGTG-AAAAATTGATG
*
1209936 TTTT-GTGAATAAAAAT-G-
62 TTTTAG-AAAT-AAAATCGA
* * * *
1209953 GGATTGGAGTAT-CCTCTCGAAAATAATGGGGTTTGGAGTATCCCCGATAGTGAAAAATCGATAT
1 GG-TTGGAGTATCCCT-TCGAAAATAACGGGG-TTGGAGTATCCCCGATGGTGAAAAATTGATGT
*
1210017 TTTAGAAATAAAA-CTA
63 TTTAGAAATAAAATCGA
* * * ** * * * *
1210033 GGGTTGGAGTGTCTCCTTAG-AAATAACAGGAATGGAGTATCCCCAATAGTGAAAATTTGGTGTT
1 -GGTTGGAGTATC-CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTT
*
1210097 TTAGAAATAAATTC-A
64 TTAGAAATAAAATCGA
* * * * *
1210112 GGGTTGGAGTATCTCTTAGAAAATAACAGGGTTGGAGTATTCCCGATAGTGGAAAAATTGATGTT
1 -GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATTGATGTT
* *
1210177 TTAGGAATAAAACCGA
64 TTAGAAATAAAATCGA
* * * * * * *
1210193 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGA-TATCCCCAATGATGGAAAATCGATATTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTT
*
1210257 AGAAATAAAATCAA
66 AGAAATAAAATCGA
* * * * * * *
1210271 GGTTGGAGTAT-CCTATCAAAAATAACGGGGTTAGAGTATCACCGATGGTGGAAAATCGGTATTT
1 GGTTGGAGTATCCCT-TCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTT
1210335 TAGAAATAAAATC-A
65 TAGAAATAAAATCGA
* * **
1210349 GGGTTGGAGTTATCTCC-TCAAAAATAACGGGGTTGGAGTATCCTCGATAATGGAAAAATTGATG
1 -GGTTGGAG-TATC-CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATTGATG
* *
1210413 TTTTAGGAATAAAATCGG
62 TTTTAGAAATAAAATCGA
* * * * * * *
1210431 GGTTGGAGTATCCCCTT-AAAAATAATGGGGTTAGAGTGTCCCCGATGGTGGAAAATCGATATTT
1 GGTTGGAGTAT-CCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTT
1210495 TAGAAATAAAA
65 TAGAAATAAAA
1210506 ACATCAATAA
Statistics
Matches: 890, Mismatches: 164, Indels: 102
0.77 0.14 0.09
Matches are distributed among these distances:
76 1 0.00
77 9 0.01
78 174 0.20
79 379 0.43
80 260 0.29
81 62 0.07
82 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTT
AGAAATAAAATCGA
Found at i:1209678 original size:159 final size:160
Alignment explanation
Indices: 1209322--1210505 Score: 981
Period size: 159 Copynumber: 7.5 Consensus size: 160
1209312 CATAGTATGG
* * * * * * *
1209322 GGTTGGAGCATCCACTTGAAAATAA-CGAGGTTAGAGTATCCCCAATGAT-GAAAAATTGATGTT
1 GGTTGGAGTATCCCCTCGAAAATAATAG-GGTTAGAGTATCCCCGATGGTGGAAAAATTGATATT
* * * * * *
1209385 TTAGAAATAAAACTAGGGTTGAAG-AT-CTCCTCGAAAATAATGGGGTTGGAGTATCCCCGAT-G
65 TTAGAAATAAAACTGGGGTTGGAGTATCCTCTTAG-AAATAACGGGGTTGGAGTATCCCCAATAG
* * * * * *
1209447 TTGAAAAATCGGTGGTGTCA-AAATAAAATCGA
129 TGGAAAAATTGAT-GTTTTAGGAATAAAATCGA
* * * * *
1209479 GGTTGGAGTATCCCTTTGAAAATAA-CGGGATTGGAGTATCCCCGATGGT-GAAAATTTGATATT
1 GGTTGGAGTATCCCCTCGAAAATAATAGGG-TTAGAGTATCCCCGATGGTGGAAAAATTGATATT
* * **
1209542 TTAGAAATAAAATTGGGGTTGGAATATCCTCTTAGAAATAATAGGGTTGGAGTATCCCCAATAGT
65 TTAGAAATAAAACTGGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTGGAGTATCCCCAATAGT
* *
1209607 GGAAAAATTGGTGTTTTAGGAATAAAACCGA
130 GGAAAAATTGATGTTTTAGGAATAAAATCGA
* * * *
1209638 TGTTAGAGTATCCCCTCGAAAA-AAGTAGGGTTAGAGTATCCCCGATGGT-AAAAAATTGATGTT
1 GGTTGGAGTATCCCCTCGAAAATAA-TAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATATT
* * * * * *
1209701 TTAAAAATAAAACCGGGGTTGGAGTATCC-CTTTGAAAATAAAGGGGTTGGAGTATTCCCAATGG
65 TTAGAAATAAAACTGGGGTTGGAGTATCCTCTTAG-AAATAACGGGGTTGGAGTATCCCCAATAG
* *
1209765 TGGAAAAA-T-CTGTTTAAGGAATAAAATCG-
129 TGGAAAAATTGATGTTTTAGGAATAAAATCGA
* * * * * * *
1209794 GGTTTGAAGTGTCCCCAT-GAAAATAACAAGGTTGGAGTATCCTCGATGGTAG-AAAATTGATAT
1 GG-TTGGAGTATCCCC-TCGAAAATAATAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATAT
* * * * * * * *
1209857 TTTAAAAATAAAATTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTAGG-TTATCCCCGATG
64 TTTAGAAATAAAACTGGGGTTGGAGTATCCTCTTAGAAATAACGGGGTT-GGAGTATCCCCAATA
* *
1209921 GTGAAAAAATCGATGTTTT-GTGAATAAAAAT-G-
128 GTGGAAAAATTGATGTTTTAG-GAAT-AAAATCGA
* * * * *
1209953 GGATTGGAGTATCCTCTCGAAAATAATGGGGTTTGGAGTATCCCCGATAGT-GAAAAATCGATAT
1 GG-TTGGAGTATCCCCTCGAAAATAATAGGG-TTAGAGTATCCCCGATGGTGGAAAAATTGATAT
* * * **
1210017 TTTAGAAATAAAACTAGGGTTGGAGTGT-CTCCTTAGAAATAACAGGAATGGAGTATCCCCAATA
64 TTTAGAAATAAAACTGGGGTTGGAGTATCCT-CTTAGAAATAACGGGGTTGGAGTATCCCCAATA
* * * *
1210081 GT-GAAAATTTGGTGTTTTAGAAATAAATTC-A
128 GTGGAAAAATTGATGTTTTAGGAATAAAATCGA
* * * * * * * *
1210112 GGGTTGGAGTATCTCTTAGAAAATAACAGGGTTGGAGTATTCCCGATAGTGGAAAAATTGATGTT
1 -GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATATT
* * * * * *
1210177 TTAGGAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGA-TATCCCCAAT-GA
65 TTAGAAATAAAACTGGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTGGAGTATCCCCAATAG-
* * * *
1210240 TGG-AAAATCGATATTTTAGAAATAAAATCAA
129 TGGAAAAATTGATGTTTTAGGAATAAAATCGA
** * ** * * *
1210271 GGTTGGAGTATCCTATCAAAAATAACGGGGTTAGAGTATCACCGATGGTGG-AAAATCGGTATTT
1 GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATATTT
* * * * *
1210335 TAGAAATAAAA-TCAGGGTTGGAGTTAT-CTCCTCAAAAATAACGGGGTTGGAGTATCCTCGATA
66 TAGAAATAAAACT-GGGGTTGGAG-TATCCT-CTTAGAAATAACGGGGTTGGAGTATCCCCAATA
* *
1210398 ATGGAAAAATTGATGTTTTAGGAATAAAATCGG
128 GTGGAAAAATTGATGTTTTAGGAATAAAATCGA
** * * *
1210431 GGTTGGAGTATCCCCTTAAAAATAATGGGGTTAGAGTGTCCCCGATGGTGG-AAAATCGATATTT
1 GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATATTT
1210495 TAGAAATAAAA
66 TAGAAATAAAA
1210506 ACATCAATAA
Statistics
Matches: 836, Mismatches: 153, Indels: 73
0.79 0.14 0.07
Matches are distributed among these distances:
156 3 0.00
157 220 0.26
158 167 0.20
159 268 0.32
160 178 0.21
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (160 bp):
GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATGGTGGAAAAATTGATATTT
TAGAAATAAAACTGGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTGGAGTATCCCCAATAGTG
GAAAAATTGATGTTTTAGGAATAAAATCGA
Found at i:1213707 original size:44 final size:44
Alignment explanation
Indices: 1213659--1213776 Score: 164
Period size: 44 Copynumber: 2.7 Consensus size: 44
1213649 CATCCTACTT
* * * *
1213659 TTTGAAGACAAAGGGAAAACAAGGAAATGAAATGTGTCCTGCCC
1 TTTGAGGACAAAGGGAAAAGAAGGAAATGAAATATGCCCTGCCC
* *
1213703 TTTGAGGACAAAAGGAAAAGAAGGAAATGAAATATGCCCTGCTC
1 TTTGAGGACAAAGGGAAAAGAAGGAAATGAAATATGCCCTGCCC
* *
1213747 TTTGAGGATAAAGGGAAAAGAAAGAAATGA
1 TTTGAGGACAAAGGGAAAAGAAGGAAATGA
1213777 GTCCTACTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (44 bp):
TTTGAGGACAAAGGGAAAAGAAGGAAATGAAATATGCCCTGCCC
Found at i:1214146 original size:125 final size:125
Alignment explanation
Indices: 1213778--1214232 Score: 616
Period size: 125 Copynumber: 3.7 Consensus size: 125
1213768 AAGAAATGAG
* * *
1213778 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAAACATC
1 TCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGACATC
* * **
1213842 CCGCTCTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGTG
65 CTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * *
1213902 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCATC
1 TCCTACTCTTTGAAGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACATC
* * *
1213966 TTGCAT-TTTAAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAAGGCA
65 CTGC-TCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
*
1214026 TCCTATTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACATCC
1 TCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACATCC
* **
1214091 TGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAAAACA
66 TGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * * **
1214151 TTCTGCTCTTT-AAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATATGTC
1 TCCTACTCTTTGAA-GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACATC
*
1214215 TTGCTCTTTGAGGACTAA
65 CTGCTCTTTGAGGACTAA
1214233 TGGGTGAAGG
Statistics
Matches: 294, Mismatches: 29, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
123 63 0.21
124 87 0.30
125 140 0.48
126 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (125 bp):
TCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACATCC
TGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
Found at i:1214238 original size:62 final size:62
Alignment explanation
Indices: 1213778--1214232 Score: 612
Period size: 62 Copynumber: 7.3 Consensus size: 62
1213768 AAGAAATGAG
* * *
1213778 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAAACA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGACA
* ***
1213840 TCCCGCTCTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
*
1213902 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCA
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
* * * * *
1213964 TCTTGCAT-TTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAAGGCA
1 TCCTGC-TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
** *
1214026 TCCTATTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
* *
1214088 TCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAAAACA
1 TCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
* * * * **
1214151 TTCTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
*
1214213 TCTTGCTCTTTGAGGACTAA
1 TCCTGCTCTTTGAGGACTAA
1214233 TGGGTGAAGG
Statistics
Matches: 349, Mismatches: 37, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
61 34 0.10
62 220 0.63
63 95 0.27
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACA
Found at i:1215296 original size:13 final size:13
Alignment explanation
Indices: 1215274--1215319 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 13
1215264 TCTCACCAAG
1215274 GTTTTTT-TTTTT
1 GTTTTTTGTTTTT
1215286 G-TTTTTG-TTTT
1 GTTTTTTGTTTTT
1215297 GTTTTGTTGTTTTT
1 GTTTT-TTGTTTTT
*
1215311 CTTTTTTGT
1 GTTTTTTGT
1215320 AGAAGAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 10 0.34
12 4 0.14
13 7 0.24
14 8 0.28
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (13 bp):
GTTTTTTGTTTTT
Found at i:1215306 original size:19 final size:18
Alignment explanation
Indices: 1215274--1215317 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
1215264 TCTCACCAAG
*
1215274 GTTTTTTTTTTTGTTTTT
1 GTTTTTTTTGTTGTTTTT
1215292 GTTTTGTTTTGTTGTTTTT
1 GTTTT-TTTTGTTGTTTTT
*
1215311 CTTTTTT
1 GTTTTTT
1215318 GTAGAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (18 bp):
GTTTTTTTTGTTGTTTTT
Found at i:1220742 original size:78 final size:79
Alignment explanation
Indices: 1220430--1220761 Score: 326
Period size: 79 Copynumber: 4.2 Consensus size: 79
1220420 CCTCGGAGTA
* * * * *
1220430 CGGGGTTAGAGCATCCCCTCAGAAATAA-TAGCATTGGAGTATCCCCGATGGTGGAAAATCGATG
1 CGGGGTTAGAGTATCCCCTCAAAAATAACGAG-ATTGGAGTATCCCCGATGGTGAAAAATCGATA
*
1220494 TTTTAGAAATAAAAT
65 TTTTAAAAATAAAAT
** * * ** * * * * * * * *
1220509 TAGGGTTGGAATATCCCCTGGAAAATAAGGGGGTTAGAGTATTCCCGATGGTGAAAAATTGGTGT
1 CGGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCGATGGTGAAAAATCGATAT
* **
1220574 TGTCGAAATAAAAT
66 TTTAAAAATAAAAT
* * ** * * * *
1220588 CAGGGTTGGAGTATCCCCTTGAAAATAACAAGATTGGAGAATCCCTGATGGAGAAAAATCGATAT
1 CGGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCGATGGTGAAAAATCGATAT
1220653 TTTAAAAATAAAAT
66 TTTAAAAATAAAAT
* **
1220667 CGGGGTTAGAGTATCCCCTCAAAAATAACGAG-TTGGAGTATCCCCGATTGTGAAAAATTAATAT
1 CGGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCGATGGTGAAAAATCGATAT
1220731 TTTAAAAATAAAAT
66 TTTAAAAATAAAAT
*
1220745 CGGGGTTACAGTATCCC
1 CGGGGTTAGAGTATCCC
1220762 TAATAAGAAA
Statistics
Matches: 204, Mismatches: 48, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
78 56 0.27
79 147 0.72
80 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCGATGGTGAAAAATCGATAT
TTTAAAAATAAAAT
Found at i:1220867 original size:209 final size:211
Alignment explanation
Indices: 1220580--1220962 Score: 484
Period size: 209 Copynumber: 1.8 Consensus size: 211
1220570 GTGTTGTCGA
* * *
1220580 AATAAAATCAGGGTTGGAGTATCCCCTTGAAAATAACAAGATTGGAGAATCCCTGATGGAGAAAA
1 AATAAAATCAGGGTTAGAGTATCCCCTTGAAAATAACAAGATTGGAGAATCCCCGATAGAGAAAA
* * *
1220645 ATCGATATTTTAAAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAG-TTGGAGTATC
66 ATCAATATTTTAAAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATC
* *
1220709 CCCGATTGT-GAAAAATTAATATTTTAAAAATAAAATCGGGGTTACAGTATCCCTAATAAGAAAA
131 CCCGATGGTAGAAAAATTAATATTTTAAAAATAAAATCAGGGTTACAGTATCCCTAATAAGAAAA
1220773 AAATCAGTGTTTTTGG
196 AAATCAGTGTTTTTGG
* * * * * *
1220789 AATAAAATTAGGGTTAGAGTATCCTCTCT-AAAATAACGAGGTTGGAGTATCCCCGATAGTGAAA
1 AATAAAATCAGGGTTAGAGTATCCCCT-TGAAAATAACAAGATTGGAGAATCCCCGATAGAGAAA
* * * * *** * *
1220853 AATCAATGTTTTAAAAATAAAACCAGGGTTGGAGTGTGCCCTTGGAAATAATGGGATTGGAGTAT
65 AATCAATATTTTAAAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTAT
* * * **
1220918 CCTCGATGGTAGAAAAATTGATGTTTTAGGAATAAAATCAGGGTT
130 CCCCGATGGTAGAAAAATTAATATTTTAAAAATAAAATCAGGGTT
1220963 GGAATGTCCT
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
209 96 0.67
210 18 0.13
211 29 0.20
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (211 bp):
AATAAAATCAGGGTTAGAGTATCCCCTTGAAAATAACAAGATTGGAGAATCCCCGATAGAGAAAA
ATCAATATTTTAAAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAGTATC
CCCGATGGTAGAAAAATTAATATTTTAAAAATAAAATCAGGGTTACAGTATCCCTAATAAGAAAA
AAATCAGTGTTTTTGG
Found at i:1220872 original size:79 final size:79
Alignment explanation
Indices: 1220771--1221668 Score: 650
Period size: 79 Copynumber: 11.3 Consensus size: 79
1220761 CTAATAAGAA
* * * * *
1220771 AAAAATC-AGTGTTTTTGGAATAAAATTAGGGTTAGAGTATCCTCTCTAAAATAACGAGGTTGGA
1 AAAAATCGA-TGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTAAAATAACGAGGTTGGA
*
1220835 GTATCCCCGATAGTG
65 GTATCCCCGATGGTG
* * * * * * *
1220850 AAAAATCAATGTTTTAAAAATAAAACCAGGGTTGGAGTGTGCCCT-TGGAAATAATG-GGATTGG
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCT-AAAATAACGAGG-TTGG
*
1220913 AGTATCCTCGATGGTAG
64 AGTATCCCCGATGGT-G
* * * * *
1220930 AAAAATTGATGTTTTAGGAATAAAATCAGGGTTGGAATGTCCTCACTCTCGAAAATAACGGGGTT
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCC-C-CTCT--AAAATAACGAGGTT
* *
1220995 GGAGTATCCTCGACGGTCG
62 GGAGTATCCCCGATGGT-G
* * * * *
1221014 -AAAATCAATATTTTTGAAATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAAC-AGGGTTAGG
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTAAAATAACGA-GGTT-GG
**
1221077 -GTATCCCTAATGGTGG
64 AGTATCCCCGATGGT-G
* * * * *
1221093 AAAAATCAATGTTTTGGGAATAAAATCA-GGTTGGAGTATCCCCTCAAAAATAATGAGGTCTGG-
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTAAAATAACGAGGT-TGGA
*
1221156 GTATCCTCGATGGTG
65 GTATCCCCGATGGTG
* * * **
1221171 AAAAATCGGTGTTTTAG-AATAAAATC-GAGGTTAGAGTGTCCCCTAAAAAATAAC-AGGATTGG
1 AAAAATCGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTCTAAAATAACGAGG-TTGG
**
1221233 AGTATCCCTAATGGTG
64 AGTATCCCCGATGGTG
* * * * ** * * * **
1221249 AAAATTTGATATTTTAAAAATAAAATC-GAGGTTGTTGTATCTCCT-TGAAAATAATGGGGTTAA
1 AAAAATCGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTCT-AAAATAACGAGGTTGG
*
1221312 AGTAT-CCCGATAGTG
64 AGTATCCCCGATGGTG
* * * * *
1221327 AAAAAATCGATGTTTTAGGAATAAAA-CTAGGGTAGGAGTATCCCCTCAAAAATAATGGGGTTGG
1 -AAAAATCGATGTTTTAGAAATAAAATC-AGGGTTGGAGTATCCCCTCTAAAATAACGAGGTTGG
*
1221391 AATA-CCCCGATGGTG
64 AGTATCCCCGATGGTG
* * ** * * * * * *
1221406 GAAAATTGATACTTTAAAAATAAAACCGGGGTTGGAGTGTTCCCTC-AGAAATAAC-AGCATTGG
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTA-AAATAACGAG-GTTGG
1221469 AGTATCCCCGATGGTG
64 AGTATCCCCGATGGTG
* * * * *
1221485 GAAAATCGATATTTTAGAAATAAAATCAGGGTTGGAGTGTCCCCT-AAGAAATAACGGGGTTGGA
1 AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTA-AAATAACGAGGTTGGA
**
1221549 GTATCCCCGATAATG
65 GTATCCCCGATGGTG
* * * ** * *
1221564 AAAAAATCGATGTTTTA-AGACTAAAACCGGGGTTAAACTATCCCCT-TGAAAATAACGGGGTTG
1 -AAAAATCGATGTTTTAGA-AATAAAATCAGGGTTGGAGTATCCCCTCT-AAAATAACGAGGTTG
**
1221627 GAGTATCCTTGATGGTG
63 GAGTATCCCCGATGGTG
*
1221644 AAAAATCGATATTTTAGAAATAAAA
1 AAAAATCGATGTTTTAGAAATAAAA
1221669 ACATCAATGA
Statistics
Matches: 653, Mismatches: 130, Indels: 72
0.76 0.15 0.08
Matches are distributed among these distances:
77 17 0.03
78 120 0.18
79 314 0.48
80 131 0.20
81 5 0.01
82 2 0.00
83 35 0.05
84 27 0.04
85 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
AAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCTAAAATAACGAGGTTGGAG
TATCCCCGATGGTG
Found at i:1221238 original size:157 final size:159
Alignment explanation
Indices: 1220800--1221668 Score: 724
Period size: 157 Copynumber: 5.5 Consensus size: 159
1220790 ATAAAATTAG
* * * * * * *
1220800 GGTTAGAGTATCCTCTCTAAAATAACGAGGTTGGAGTATCCCCGATAGTGAAAAATCAATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATTTT
* * * *** * * *
1220865 AAAAATAAAACCAGGGTTGGAGTGTGCCCTTGGAAATAATGGGATTGGAGTAT-CCTCGATGGTA
66 AGAAATAAAATCAGGGTTGGAGTGTCCCCTAAAAAATAACGGGGTTGGAGTATCCCT-GATGGTG
* *
1220929 GAAAAATTGATGTTTTAGGAATAAAATC-A
130 GAAAAATCGATGTTTTAAGAATAAAATCGA
* * * * *
1220958 GGGTTGGAATGTCCTCACTCTCGAAAATAACGGGGTTGGAGTATCCTCGACGGTCG-AAAATCAA
1 -GGTTGG-A-GT-ATC-CCCTCGAAAATAACGAGGTTGGAGTATCCTCGATGGT-GAAAAATCGA
* * * ** * *
1221022 TATTTTTGAAATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTAGG-GTATCCCTA
60 TATTTTAGAAATAAAATCAGGGTTGGAGTGTCCCCTAAAAAATAACGGGGTT-GGAGTATCCCTG
* **
1221086 ATGGTGGAAAAATCAATGTTTTGGGAATAAAATC-A
124 ATGGTGGAAAAATCGATGTTTTAAGAATAAAATCGA
* * * *
1221121 GGTTGGAGTATCCCCTCAAAAATAATGAGGTCTGG-GTATCCTCGATGGTGAAAAATCGGTGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGT-TGGAGTATCCTCGATGGTGAAAAATCGATATTT
* * * *
1221185 TAG-AATAAAATC-GAGGTTAGAGTGTCCCCTAAAAAATAACAGGATTGGAGTATCCCTAATGGT
65 TAGAAATAAAATCAG-GGTTGGAGTGTCCCCTAAAAAATAACGGGGTTGGAGTATCCCTGATGGT
* * * *
1221248 -GAAAATTTGATATTTTAAAAATAAAATCGA
129 GGAAAAATCGATGTTTTAAGAATAAAATCGA
** * * * * ** * *
1221278 GGTTGTTGTATCTCCTTGAAAATAATGGGGTTAAAGTATCC-CGATAGTGAAAAAATCGATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCTCGATGGTG-AAAAATCGATATTT
* * * * * * *
1221342 TAGGAATAAAA-CTAGGGTAGGAGTATCCCCTCAAAAATAATGGGGTTGGAATA-CCCCGATGGT
65 TAGAAATAAAATC-AGGGTTGGAGTGTCCCCTAAAAAATAACGGGGTTGGAGTATCCCTGATGGT
* ** * * *
1221405 GG-AAAATTGATACTTTAAAAATAAAACCGG
129 GGAAAAATCGATGTTTTAAGAATAAAATCGA
* * * * *
1221435 GGTTGGAGTGTTCCCTC-AGAAATAAC-AGCATTGGAGTATCCCCGATGGTGGAAAATCGATATT
1 GGTTGGAGTATCCCCTCGA-AAATAACGAG-GTTGGAGTATCCTCGATGGTGAAAAATCGATATT
* * **
1221498 TTAGAAATAAAATCAGGGTTGGAGTGTCCCCTAAGAAATAACGGGGTTGGAGTATCCCCGATAAT
64 TTAGAAATAAAATCAGGGTTGGAGTGTCCCCTAAAAAATAACGGGGTTGGAGTATCCCTGATGGT
* * * *
1221563 GAAAAAATCGATGTTTTAAGACTAAAACCGG
129 GGAAAAATCGATGTTTTAAGAATAAAATCGA
** * * * *
1221594 GGTTAAACTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTTGATGGTGAAAAATCGATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATTTT
1221659 AGAAATAAAA
66 AGAAATAAAA
1221669 ACATCAATGA
Statistics
Matches: 573, Mismatches: 111, Indels: 52
0.78 0.15 0.07
Matches are distributed among these distances:
156 34 0.06
157 213 0.37
158 95 0.17
159 94 0.16
160 5 0.01
161 3 0.01
162 8 0.01
163 115 0.20
164 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (159 bp):
GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATTTT
AGAAATAAAATCAGGGTTGGAGTGTCCCCTAAAAAATAACGGGGTTGGAGTATCCCTGATGGTGG
AAAAATCGATGTTTTAAGAATAAAATCGA
Found at i:1221319 original size:236 final size:233
Alignment explanation
Indices: 1220789--1221668 Score: 745
Period size: 236 Copynumber: 3.7 Consensus size: 233
1220779 GTGTTTTTGG
* * * ** *
1220789 AATAAAATTAGGGTTAGAGTATCCTCTCTAAAATAAC-GAGGTTGGAGTATCCCCGATAGT-GAA
1 AATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACAG-GGTTAAAGTAT-CCCAATAGTGGAA
** * * ***
1220852 AAATCAATGTTTTAAAAATAAAACCAGGGTTGGAGTGTGCCCTTGGAAATAATGGGATTGGAGTA
64 AAATCAATGTTTTAGGAATAAAA-CAGGGTTGGAGTATCCCCTCAAAAATAATGGG-TTGG-GTA
* *
1220917 TCCTCGATGGTAGAAAAATTGATGTTTTAGGAATAAAATC-AGGGTTGGAATGTCCTCACTCTCG
126 TCCTCGATGGT-GAAAAATTGATGTTTTA-GAATAAAATCGA-GGTTGGAGTGT-C-C-C-CTCA
* * * * *
1220981 AAAATAACGGGGTTGGAGTAT-CCTCGACGGTCGAAAATCAATATTTTTGA
184 AAAATAACAGGATTGGAGTATCCCT-GATGGTCGAAAATCGATATTTTAGA
** *
1221031 AATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTAGGGTATCCCTAATGGTGGAAA
1 AATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTAAAGTATCCC-AATAGTGGAAA
*
1221096 AATCAATGTTTTGGGAATAAAATCA-GGTTGGAGTATCCCCTCAAAAATAATGAGGTCTGGGTAT
65 AATCAATGTTTTAGGAATAAAA-CAGGGTTGGAGTATCCCCTCAAAAATAATG-GGT-TGGGTAT
* * * *
1221160 CCTCGATGGTGAAAAATCGGTGTTTTAGAATAAAATCGAGGTTAGAGTGTCCCCTAAAAAATAAC
127 CCTCGATGGTGAAAAATTGATGTTTTAGAATAAAATCGAGGTTGGAGTGTCCCCTCAAAAATAAC
* * *
1221225 AGGATTGGAGTATCCCTAATGGT-GAAAATTTGATATTTTAAA
192 AGGATTGGAGTATCCCTGATGGTCGAAAA-TCGATATTTTAGA
** * ** * *
1221267 AATAAAATC-GAGGTTGTTGTAT-CTCCTTGAAAATAATGGGGTTAAAGTATCCCGATAGTGAAA
1 AATAAAATCAG-GGTTGGAGTATCCT-CTCGAAAATAACAGGGTTAAAGTATCCCAATAGTGGAA
* * *
1221330 AAATCGATGTTTTAGGAATAAAACTAGGGTAGGAGTATCCCCTCAAAAATAATGGGGTT-GGAAT
64 AAATCAATGTTTTAGGAATAAAAC-AGGGTTGGAGTATCCCCTCAAAAATAAT-GGGTTGGGTAT
* * * * * * * * *
1221394 ACCCCGATGGTGGAAAATTGATACTTTAAAAATAAAACCGGGGTTGGAGTGTTCCCTCAGAAATA
127 -CCTCGATGGTGAAAAATTGAT-GTTTTAGAATAAAATCGAGGTTGGAGTGTCCCCTCAAAAATA
* * *
1221459 ACAGCATTGGAGTATCCCCGATGGTGGAAAATCGATATTTTAGA
190 ACAGGATTGGAGTATCCCTGATGGTCGAAAATCGATATTTTAGA
* * * * ** * * *
1221503 AATAAAATCAGGGTTGGAGTGTCCCCT-AAGAAATAACGGGGTTGGAGTATCCCCGATAATGAAA
1 AATAAAATCAGGGTTGGAGTATCCTCTCGA-AAATAACAGGGTTAAAGTAT-CCCAATAGTGGAA
* * * * ** * ** *
1221567 AAATCGATGTTTTAAGACTAAAACCGGGGTTAAACTATCCCCTTGAAAATAACGGGGTTGGAGTA
64 AAATCAATGTTTTAGGAATAAAA-CAGGGTTGGAGTATCCCCTCAAAAATAA-TGGGTTGG-GTA
* * *
1221632 TCCTTGATGGTGAAAAATCGATATTTTAGAAATAAAA
126 TCCTCGATGGTGAAAAATTGATGTTTTAG-AATAAAA
1221669 ACATCAATGA
Statistics
Matches: 524, Mismatches: 89, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
234 5 0.01
235 56 0.11
236 205 0.39
237 74 0.14
238 27 0.05
239 4 0.01
240 19 0.04
241 19 0.04
242 84 0.16
243 31 0.06
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (233 bp):
AATAAAATCAGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTAAAGTATCCCAATAGTGGAAAA
ATCAATGTTTTAGGAATAAAACAGGGTTGGAGTATCCCCTCAAAAATAATGGGTTGGGTATCCTC
GATGGTGAAAAATTGATGTTTTAGAATAAAATCGAGGTTGGAGTGTCCCCTCAAAAATAACAGGA
TTGGAGTATCCCTGATGGTCGAAAATCGATATTTTAGA
Found at i:1224254 original size:29 final size:29
Alignment explanation
Indices: 1224212--1224268 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
1224202 CAGATAAAGA
1224212 GGGACAGCTGTAGACACCGAATTTCGTCC
1 GGGACAGCTGTAGACACCGAATTTCGTCC
* * **
1224241 GGGATAGCTGTAGATACTTAATTTCGTC
1 GGGACAGCTGTAGACACCGAATTTCGTC
1224269 TAGGCCCCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (29 bp):
GGGACAGCTGTAGACACCGAATTTCGTCC
Found at i:1225407 original size:163 final size:162
Alignment explanation
Indices: 1225044--1225490 Score: 425
Period size: 163 Copynumber: 2.7 Consensus size: 162
1225034 AATTACGTGG
* * * * ** *
1225044 TTTTCTTCTCCGAAAATTCTTTCGG-GAGGTTTTTTCTTAATTTTAAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGCAAATTTTTTCGGAGA-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * * * *
1225108 ATATTTTTATTTATTTCATATTAATTTAGTTTTCAAAAATTCACTCATTTTCA-TGAGCTTTTAT
65 ACATTATTATTTATTTC-----AATTTATTTTTCAAAAATTCATTCATTTTCATTCAGCTTTTAT
* *
1225172 TTTTTTCCTTGAAATTCCCTTTTTTTCGAAATATAGTA
125 TTTTTTCCTTCAAATTCCCTTTTTTTCGAAATACAGTA
* * * *
1225210 TTTTTTGCTCCGTAAATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATAAAA
1 TTTTCTACTCCGCAAATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA
* **
1225275 CATTATCATTTATTTCAATTTATTTTTCAAAAATTCATTCATTTTCATTCATTTTTTTATTTTTT
66 CATTATTATTTATTTCAATTTATTTTTCAAAAATTCATTCATTTTCATTCA-GCTTTTATTTTTT
* ** * *
1225340 TCCTTCAAACTT-TCTTTTTTTTTAAATACGGTG
130 TCCTTCAAA-TTCCCTTTTTTTCGAAATACAGTA
* * * * *
1225373 TTTTCTACTTCGCAAATTTTTT-TGAGGCGATTTTTATTGGTTTTCAACTTTTAAAATTCATCAA
1 TTTTCTACTCCGCAAATTTTTTCGGA-GAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * * *
1225437 ACATCATTATTTATTTTATATTAATTCACTGTTCAAAAATTCATTCATCTTCAT
65 ACATTATTATTTATTTCA-ATTTATT---T-TTCAAAAATTCATTCATTTTCAT
1225491 GAGTTTTTGA
Statistics
Matches: 233, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
161 29 0.12
162 4 0.02
163 101 0.43
164 8 0.03
166 66 0.28
167 3 0.01
168 22 0.09
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.53
Consensus pattern (162 bp):
TTTTCTACTCCGCAAATTTTTTCGGAGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA
CATTATTATTTATTTCAATTTATTTTTCAAAAATTCATTCATTTTCATTCAGCTTTTATTTTTTT
CCTTCAAATTCCCTTTTTTTCGAAATACAGTA
Found at i:1226180 original size:11 final size:11
Alignment explanation
Indices: 1226147--1226185 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1226137 GGCTTCAGCT
1226147 GAAAAGAGAGAA
1 GAAAAGAGA-AA
1226159 GAAAA-AGAAA
1 GAAAAGAGAAA
1226169 GAAAAGAGAAA
1 GAAAAGAGAAA
1226180 GTAAAA
1 G-AAAA
1226186 AAAGGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 7 0.28
11 9 0.36
12 9 0.36
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (11 bp):
GAAAAGAGAAA
Found at i:1228118 original size:19 final size:19
Alignment explanation
Indices: 1228094--1228143 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1228084 AAACAGTAAC
1228094 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
* *
1228113 TGTATCAATACATAAGTTT
1 TGTATCGATACATAAGTGT
1228132 TGTATCGATACA
1 TGTATCGATACA
1228144 ATGTATCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1228217 original size:33 final size:33
Alignment explanation
Indices: 1228175--1228237 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1228165 GCCAAGGAAA
1228175 TGTATCGATACATT-A-CTATATGTATCGATATAT
1 TGTATCGATACATTGATCT-T-TGTATCGATATAT
1228208 TGTATCGATACATTGATCTTTGTATCGATA
1 TGTATCGATACATTGATCTTTGTATCGATA
1228238 CATCTGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 24 0.86
34 2 0.07
35 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTGATCTTTGTATCGATATAT
Found at i:1238826 original size:13 final size:13
Alignment explanation
Indices: 1238805--1238842 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1238795 AAAAACAAAT
1238805 AAAAA-AAGAAAA
1 AAAAACAAGAAAA
*
1238817 AAAACCAAGAAAA
1 AAAAACAAGAAAA
1238830 AAAAACAA-AAAA
1 AAAAACAAGAAAA
1238842 A
1 A
1238843 TAGAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAACAAGAAAA
Found at i:1238828 original size:31 final size:30
Alignment explanation
Indices: 1238793--1238883 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
1238783 CACTTATACC
*
1238793 AGAAAAACAAATAAAAAAAGAAAAAAAACCA
1 AGAAAAACAAA-AAAAAAACAAAAAAAACCA
* * *
1238824 AGAAAAAAAAACAAAAAAATAGAAAAAACCA
1 AGAAAAACAAA-AAAAAAACAAAAAAAACCA
* *
1238855 AAAACAAACAAAAAACAAACAAACAAAAA
1 AGAA-AAACAAAAAAAAAACAAA-AAAAA
1238884 AGGGGTCAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 38 0.78
32 11 0.22
ACGTcount: A:0.81, C:0.12, G:0.04, T:0.02
Consensus pattern (30 bp):
AGAAAAACAAAAAAAAAACAAAAAAAACCA
Found at i:1238841 original size:8 final size:8
Alignment explanation
Indices: 1238828--1238884 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
1238818 AAACCAAGAA
1238828 AAAAAAAC
1 AAAAAAAC
*
1238836 AAAAAAAT
1 AAAAAAAC
1238844 AGAAAAAACC
1 A-AAAAAA-C
1238854 AAAAACAA-
1 AAAAA-AAC
1238862 ACAAAAAAC
1 A-AAAAAAC
*
1238871 AAACAAAC
1 AAAAAAAC
1238879 AAAAAA
1 AAAAAA
1238885 GGGGTCAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 22 0.55
9 15 0.38
10 3 0.08
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1238849 original size:17 final size:17
Alignment explanation
Indices: 1238829--1238884 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 17
1238819 AACCAAGAAA
*
1238829 AAAAAACAAAAA-AATAG
1 AAAAAACAAAAACAA-AC
1238846 AAAAAACCAAAAACAAAC
1 AAAAAA-CAAAAACAAAC
1238864 AAAAAAC--AAACAAAC
1 AAAAAACAAAAACAAAC
1238879 AAAAAA
1 AAAAAA
1238885 GGGGTCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 14 0.39
17 7 0.19
18 13 0.36
19 2 0.06
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAACAAAAACAAAC
Found at i:1238850 original size:39 final size:39
Alignment explanation
Indices: 1238796--1238882 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
1238786 TTATACCAGA
* *
1238796 AAAACAAATAAAAAAAGAAAAAAAACCAAGAAAAAA-AAAC
1 AAAA-AAATAAAAAAA-AAAAAAAACAAACAAAAAACAAAC
* **
1238836 AAAAAAATAGAAAAAACCAAAAACAAACAAAAAACAAAC
1 AAAAAAATAAAAAAAAAAAAAAACAAACAAAAAACAAAC
1238875 AAACAAAA
1 AAA-AAAA
1238883 AAGGGGTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 15 0.38
39 17 0.43
40 8 0.20
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.02
Consensus pattern (39 bp):
AAAAAAATAAAAAAAAAAAAAAACAAACAAAAAACAAAC
Found at i:1238863 original size:11 final size:11
Alignment explanation
Indices: 1238795--1238884 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 11
1238785 CTTATACCAG
*
1238795 AAAAACAAATA
1 AAAAACAAACA
1238806 AAAAA-AGAA-A
1 AAAAACA-AACA
* *
1238816 AAAAACCAAGA
1 AAAAACAAACA
1238827 AAAAA-AAACA
1 AAAAACAAACA
* *
1238837 AAAAA-ATAGA
1 AAAAACAAACA
1238847 AAAAACCAAA-A
1 AAAAA-CAAACA
*
1238858 ACAAACAAA-A
1 AAAAACAAACA
1238868 AACAAACAAACA
1 AA-AAACAAACA
1238880 AAAAA
1 AAAAA
1238885 GGGGTCAAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
10 31 0.48
11 28 0.44
12 5 0.08
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.02
Consensus pattern (11 bp):
AAAAACAAACA
Found at i:1240164 original size:28 final size:28
Alignment explanation
Indices: 1240132--1240608 Score: 569
Period size: 28 Copynumber: 17.1 Consensus size: 28
1240122 CATTTATCTC
* *
1240132 TTCAAAGCCCACAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240160 TTCAAAGCCCATAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240187 CTTCAAAGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240216 TTCAAAGCCCACAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGC--ACCCT
* *
1240246 TTCAAAGCCCACACAAATCAGTGGCATCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
*
1240276 TCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240304 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240332 TTCAAAGCCCACAAGTCAATGGTA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240359 CTTCAAAGCCCATAAGTCAGTGGCACCCT
1 -TTCAAAGCCCACAAGTCAGTGGCACCCT
1240388 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
***
1240416 TTCAAAGCCCACAAGTCAGTGGCATATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1240444 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240472 TTCAAAGCCTACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1240500 TTAAAAGCCCACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240528 TT--------ACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240548 TTCAAAGCCCACAAGTCAGCGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240576 TTAAAAGCCCATGCAAGTCGGTGGCAACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGC-ACCCT
1240607 TT
1 TT
1240609 TTAAATCACC
Statistics
Matches: 385, Mismatches: 45, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
20 17 0.04
27 5 0.01
28 305 0.79
29 7 0.02
30 30 0.08
31 9 0.02
32 12 0.03
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1241504 original size:20 final size:20
Alignment explanation
Indices: 1241479--1241533 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1241469 TTTTACCCAG
*
1241479 ATGTATCGATACATAT-ATGA
1 ATGTATCGATACAT-TCATCA
* *
1241499 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTCATCA
1241519 ATGTATCGATACATT
1 ATGTATCGATACATT
1241534 TTATCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCATCA
Found at i:1245052 original size:150 final size:149
Alignment explanation
Indices: 1244767--1245054 Score: 343
Period size: 150 Copynumber: 1.9 Consensus size: 149
1244757 TTCCAAACCT
* * *
1244767 AAATAAATATCAATTATTTTCAAGTCTTTTATGTTTCTATGGATATCCGTAAGGGTATAAAAGAT
1 AAATAAATATCAATCATTTTCAAGTCTTTTATATTTCTATGGATATCCATAAGGGTATAAAAGAT
* *
1244832 TTCAAAAAACTTTTCGTATCTTTTCGAGTATCCATTAAGGTACGAAATGATTTTTTAGAAATAAT
66 TT-AAAAAACTTTTCGTATCTTTGCGAGTATCCATTAAGATACGAAATGATTTTTTAGAAATAAT
1244897 TAAATTAACTCTCCTCACTA
130 TAAATTAACTCTCCTCACTA
* * * * * *
1244917 AAATAAATATTAATCATTTTTAA-TCTTTTATA-TTCTTATGGGTATCTATAGGGGTATTAAAGG
1 AAATAAATATCAATCATTTTCAAGTCTTTTATATTTC-TATGGATATCCATAAGGGTA-TAAAAG
* * *
1244980 ATTT-TAAAATTTTTCGTAT-TTTGGCGAGTTTCCATTAAGATACGAAATGATGTTTTTTAAGAA
64 ATTTAAAAAACTTTTCGTATCTTT-GCGAGTATCCATTAAGATACGAAATGA--TTTTTT-AGAA
*
1245043 A-ATTTAAATTAA
125 ATAATTAAATTAA
1245055 ATAAGGGACA
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
147 3 0.03
148 40 0.34
149 24 0.21
150 45 0.38
151 5 0.04
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (149 bp):
AAATAAATATCAATCATTTTCAAGTCTTTTATATTTCTATGGATATCCATAAGGGTATAAAAGAT
TTAAAAAACTTTTCGTATCTTTGCGAGTATCCATTAAGATACGAAATGATTTTTTAGAAATAATT
AAATTAACTCTCCTCACTA
Found at i:1248502 original size:154 final size:154
Alignment explanation
Indices: 1248325--1249132 Score: 700
Period size: 154 Copynumber: 5.2 Consensus size: 154
1248315 ATAAATAAGA
* ** *** * ***
1248325 TGAACGTATCCTAAATATTCACCTTTGGCATAAAAGTGGACCTAACAACAACCTAGGAGTTGGTT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCCAGTGACAACCTAGGAGTTGGTT
* ** *
1248390 TTGGAAAATTACTAAAATGCTCCTAGGAGATACTTTTGACGTAGA-ATTACTTGATACCCCTAAA
66 CTAAAAAATTACTAAAATGCTCCTAGGAGATACCTTTGACGTA-ACATTACTTGATACCCCTAAA
* * *
1248454 GGACATATAAAGGATATGGATTGGG
130 GGACTTAAAAAGGATATGGATGGGG
* * *
1248479 TGAACCTATTCTAAATGCCCACCTTTGGCATAAAAGCAAACCTAGTGACAACCTAGGAGTTGGTT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCCAGTGACAACCTAGGAGTTGGTT
* * * * * *
1248544 CTGAAAAATTA-TGCAAATGCCCCTAGGGGAGACCTTTGACGTAACAGTGT-C-CGATACCCCTA
66 CTAAAAAATTACT-AAAATGCTCCTAGGAGATACCTTTGACGTAACA-T-TACTTGATACCCCTA
*
1248606 AAGGACTTAAAAAGGTTATGGATGGGG
128 AAGGACTTAAAAAGGATATGGATGGGG
* * * *** * * * * *
1248633 TGAACCTATCTTAAATACCCACCTTCGGCATACAAGTGGACCCAGTGACAACTTAAGACTCGATT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCCAGTGACAACCTAGGAGTTGGTT
* * * * * * * * * * *
1248698 TTAGAAAATTACAAAAATGCTCCTACGAGATACCTTCGACGTAATAGTGCCTCATACCCCTAATG
66 CTAAAAAATTACTAAAATGCTCCTAGGAGATACCTTTGACGTAACATTACTTGATACCCCTAAAG
* *
1248763 GACTTAAAAATGATATGGATAGGG
131 GACTTAAAAAGGATATGGATGGGG
* * *
1248787 TGAACCTATCCTAAATACTCATCCTTT-GCATAAAAGCAAACCCGGTGACAACCTAGGATTTGGT
1 TGAACCTATCCTAAATACCCA-CCTTTGGCATAAAAGCAAACCCAGTGACAACCTAGGAGTTGGT
* * * * * * *
1248851 TCAAAAAAATTACGAAAATAC-CCTTAGG-GAATAACTTTGACGTAAAAATACTTGATACCACTA
65 TCTAAAAAATTACTAAAATGCTCC-TAGGAG-ATACCTTTGACGTAACATTACTTGATACCCCTA
*
1248914 AAGGACTTAAAAAGGATTTATAGATGGGG
128 AAGGACTTAAAAAGGA--TATGGATGGGG
* * * * * *
1248943 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACCTAGTGACAACCTAAGAAATCGAT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCCAGTGACAACCT-AGGAGTTGGT
* * * * * * * *
1249008 TATAAAAAAATTA-TGAAAAT-CCCCTTA-GAGATACCATCGACGTAAAAGTACCTAATACCCCT
65 TCT-AAAAAATTACT-AAAATGCTCC-TAGGAGATACCTTTGACGTAACATTACTTGATACCCCT
* * * *
1249070 AAAGGGCTTAAAAAGGATTTAGATAGGG
127 AAAGGACTTAAAAAGGATATGGATGGGG
*
1249098 CGAACCTATCCTAAATACCCACCTTTGGCATAAAA
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAA
1249133 TGGACTCGGT
Statistics
Matches: 528, Mismatches: 108, Indels: 35
0.79 0.16 0.05
Matches are distributed among these distances:
152 1 0.00
153 6 0.01
154 343 0.65
155 54 0.10
156 54 0.10
157 50 0.09
158 20 0.04
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (154 bp):
TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCCAGTGACAACCTAGGAGTTGGTT
CTAAAAAATTACTAAAATGCTCCTAGGAGATACCTTTGACGTAACATTACTTGATACCCCTAAAG
GACTTAAAAAGGATATGGATGGGG
Found at i:1248891 original size:308 final size:308
Alignment explanation
Indices: 1248388--1249132 Score: 888
Period size: 308 Copynumber: 2.4 Consensus size: 308
1248378 TAGGAGTTGG
* * * * * * *
1248388 TTTTGGAAAATTACTAAAATGCTCCTAGGAGATACTTTTGACGTAGAATTACTTGATACCCCTAA
1 TTTTAGAAAATTACAAAAATGCTCCTA-GAGATACCTTCGACGTA-AAGTACCTAATACCCCTAA
* * * * *
1248453 AGGACATATAAAGGATATGGATTGGGTGAACCTATTCTAAATGCCCACCTTTGGCATAAAAGCAA
64 AGGACTTAAAAAGGATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAA
* ** * * * * *
1248518 ACCTAGTGACAACCTAGGAGTTGGTTCTGAAAAATTATGCAAATGCCCCTAGGGGAGACCTTTGA
129 ACCCAGTGACAACCTAGGAGTTGGTTCAAAAAAATTACGAAAATACCCCTAGGGAAGAACTTTGA
* * * * * *
1248583 CGTAACAGT-GTCCGATACCCCTAAAGGACTTAAAAAGG-TTATGGATGGGGTGAACCTATCTTA
194 CGTAAAAATACT-CGATACCACTAAAGGACTTAAAAAGGATTATAGATGGGGTGAACCTATCCTA
* ** * *
1248646 AATACCCACCTTCGGCATACAAGTGGACCCAGTGACAACTTAAG-ACTCGA
258 AATACCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGAAATCGA
* *
1248696 TTTTAGAAAATTACAAAAATGCTCCTACGAGATACCTTCGACGTAATAGTGCCTCATACCCCTAA
1 TTTTAGAAAATTACAAAAATGCTCCTA-GAGATACCTTCGACGTAA-AGTACCTAATACCCCTAA
* * *
1248761 TGGACTTAAAAATGATATGGATAGGGTGAACCTATCCTAAATACTCATCCTTT-GCATAAAAGCA
64 AGGACTTAAAAAGGATATGGATAGGGTGAACCTATCCTAAATACCCA-CCTTTGGCATAAAAGCA
* * * *
1248825 AACCCGGTGACAACCTAGGATTTGGTTCAAAAAAATTACGAAAATACCCTTAGGGAATAACTTTG
128 AACCCAGTGACAACCTAGGAGTTGGTTCAAAAAAATTACGAAAATACCCCTAGGGAAGAACTTTG
*
1248890 ACGTAAAAATACTTGATACCACTAAAGGACTTAAAAAGGATTTATAGATGGGGTGAACCTATCCT
193 ACGTAAAAATACTCGATACCACTAAAGGACTTAAAAAGGA-TTATAGATGGGGTGAACCTATCCT
* *
1248955 AAATACCCACCTTTGGCATAAAAGCAGACCTAGTGACAACCTAAGAAATCGA
257 AAATACCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGAAATCGA
* * ** * *
1249007 TTATAAAAAAATTATGAAAAT-CCCCTTAGAGATACCATCGACGTAAAAGTACCTAATACCCCTA
1 TT-TTAGAAAATTACAAAAATGCTCC-TAGAGATACCTTCGACGT-AAAGTACCTAATACCCCTA
* * * *
1249071 AAGGGCTTAAAAAGGATTTAGATAGGGCGAACCTATCCTAAATACCCACCTTTGGCATAAAA
63 AAGGACTTAAAAAGGATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAA
1249133 TGGACTCGGT
Statistics
Matches: 369, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
307 1 0.00
308 189 0.51
309 6 0.02
310 66 0.18
311 89 0.24
312 18 0.05
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (308 bp):
TTTTAGAAAATTACAAAAATGCTCCTAGAGATACCTTCGACGTAAAGTACCTAATACCCCTAAAG
GACTTAAAAAGGATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAAAC
CCAGTGACAACCTAGGAGTTGGTTCAAAAAAATTACGAAAATACCCCTAGGGAAGAACTTTGACG
TAAAAATACTCGATACCACTAAAGGACTTAAAAAGGATTATAGATGGGGTGAACCTATCCTAAAT
ACCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGAAATCGA
Found at i:1249245 original size:310 final size:309
Alignment explanation
Indices: 1248394--1249245 Score: 795
Period size: 308 Copynumber: 2.8 Consensus size: 309
1248384 TTGGTTTTGG
* * * ** * * * * * *
1248394 AAAATTACTAAAATGCTCCTAGGAGATACTTTTGACGTAGAATTACTTGATACCCCTAAAGGACA
1 AAAATTACAAAAATGCCCCTACGAGATACCATCGACGTAAAAGTACCTAATACCCCTAAAGGACT
* * * * * * **
1248459 TATAAAGGATATGGATTGGGTGAACCTATTCTAAATGCCCA-CCTTTGGCATAAAAGCAAACCTA
66 TAAAAAGGATATAGATAGGGCGAACCTATCCTAAATACCCATCCTTT-GCATAAAAG-AAACCCG
** * * ** *** * * * * * **
1248523 GTGACAACCTAGGAGTTGGTTCTGAAAAATTATGCAAATGCCCCTAGGGGAGACCTTTGACGTAA
129 GTGACAACCTAAAACTTGATTCAAAAAAATTACAAAAATACCCTTAGGGAATAACTTCAACGTAA
* * ** * *
1248588 CAGTGTCCGATACCCCTAAAGGACTTAAAAAGG--TTATGGATGGGGTGAACCTATCTTAAATAC
194 AAATACCCGATACCCCTAAAGGACTTAAAAAGGATTTATAGATGGGGTGAACCTATCCTAAATAC
* ** * * * *
1248651 CCACCTTCGGCATACAAGTGGACCCAGTGACAACTTAAGACTCGATTTTAG
259 CCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGAATCGATTTAAA
* * * * * *
1248702 AAAATTACAAAAATGCTCCTACGAGATACCTTCGACGTAATAGTGCCTCATACCCCTAATGGACT
1 AAAATTACAAAAATGCCCCTACGAGATACCATCGACGTAAAAGTACCTAATACCCCTAAAGGACT
* * * *
1248767 TAAAAATGATATGGATAGGGTGAACCTATCCTAAATACTCATCCTTTGCATAAAAGCAAACCCGG
66 TAAAAAGGATATAGATAGGGCGAACCTATCCTAAATACCCATCCTTTGCATAAAAG-AAACCCGG
** * * * **
1248832 TGACAACCTAGGATTTGGTTCAAAAAAATTACGAAAATACCCTTAGGGAATAACTTTGACGTAAA
130 TGACAACCTAAAACTTGATTCAAAAAAATTACAAAAATACCCTTAGGGAATAACTTCAACGTAAA
** *
1248897 AATACTTGATACCACTAAAGGACTTAAAAAGGATTTATAGATGGGGTGAACCTATCCTAAATACC
195 AATACCCGATACCCCTAAAGGACTTAAAAAGGATTTATAGATGGGGTGAACCTATCCTAAATACC
* *
1248962 CACCTTTGGCATAAAAGCAGACCTAGTGACAACCTAAGAAATCGATTATAAA
260 CACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAG-AATCGATT-TAAA
** *
1249014 AAAATTATGAAAAT-CCCCTTA-GAGATACCATCGACGTAAAAGTACCTAATACCCCTAAAGGGC
1 AAAATTACAAAAATGCCCC-TACGAGATACCATCGACGTAAAAGTACCTAATACCCCTAAAGGAC
* * *
1249077 TTAAAAAGGATTTAGATAGGGCGAACCTATCCTAAATACCCA-CCTTTGGCATAAAATG-GACTC
65 TTAAAAAGGATATAGATAGGGCGAACCTATCCTAAATACCCATCCTTT-GCATAAAA-GAAACCC
* ** * * *
1249140 GGTGATAACCTAAAACTTGATTTTAAAAAATTACAAAAATGCCCTTATGGG-ATACCTTCAATGT
128 GGTGACAACCTAAAACTTGATTCAAAAAAATTACAAAAATACCCTTA-GGGAATAACTTCAACGT
* *
1249204 AAAAGTACCCGATGCCCCTAAAAGG-CTTAAAAAGGATTTATA
192 AAAAATACCCGATACCCCT-AAAGGACTTAAAAAGGATTTATA
1249246 AATGTAAAGG
Statistics
Matches: 452, Mismatches: 82, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
308 184 0.41
309 5 0.01
310 147 0.33
311 99 0.22
312 17 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (309 bp):
AAAATTACAAAAATGCCCCTACGAGATACCATCGACGTAAAAGTACCTAATACCCCTAAAGGACT
TAAAAAGGATATAGATAGGGCGAACCTATCCTAAATACCCATCCTTTGCATAAAAGAAACCCGGT
GACAACCTAAAACTTGATTCAAAAAAATTACAAAAATACCCTTAGGGAATAACTTCAACGTAAAA
ATACCCGATACCCCTAAAGGACTTAAAAAGGATTTATAGATGGGGTGAACCTATCCTAAATACCC
ACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGAATCGATTTAAA
Found at i:1250402 original size:22 final size:21
Alignment explanation
Indices: 1250350--1250404 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1250340 TTTCAATATC
*
1250350 AATAAATGTTTTAGAGTTATG
1 AATAAATGTTTTAGAGTTATA
*
1250371 AATAAATGTTTTCGAGCTT-TA
1 AATAAATGTTTTAGAG-TTATA
1250392 AATCAAATGTTTT
1 AAT-AAATGTTTT
1250405 TAAGTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
AATAAATGTTTTAGAGTTATA
Found at i:1250649 original size:13 final size:13
Alignment explanation
Indices: 1250631--1250666 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1250621 TGACACATTG
1250631 TATCGATACAATC
1 TATCGATACAATC
1250644 TATCGATACAATC
1 TATCGATACAATC
1250657 TATCGATACA
1 TATCGATACA
1250667 TGAAGAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (13 bp):
TATCGATACAATC
Found at i:1252284 original size:3 final size:3
Alignment explanation
Indices: 1252269--1252306 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1252259 AACCATCAAA
* *
1252269 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1252307 GGTTGACTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1256824 original size:13 final size:13
Alignment explanation
Indices: 1256806--1256830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1256796 CAATGTTCTT
1256806 TGTATCGATACAA
1 TGTATCGATACAA
1256819 TGTATCGATACA
1 TGTATCGATACA
1256831 TGGGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1259235 original size:22 final size:21
Alignment explanation
Indices: 1259183--1259237 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1259173 TTTCAATATC
*
1259183 AATAAATGTTTTAGAGTTATG
1 AATAAATGTTTTAGAGTTATA
*
1259204 AATAAATGTTTTCGAGCTT-TA
1 AATAAATGTTTTAGAG-TTATA
1259225 AATCAAATGTTTT
1 AAT-AAATGTTTT
1259238 TAAGTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
AATAAATGTTTTAGAGTTATA
Found at i:1260813 original size:12 final size:12
Alignment explanation
Indices: 1260788--1260821 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1260778 CAATTTTATC
*
1260788 TTTTTTCTTTTCT
1 TTTTTTC-TCTCT
1260801 TTTTTTCTCTCT
1 TTTTTTCTCTCT
1260813 TTTTTTCTC
1 TTTTTTCTC
1260822 CAAGATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:1261516 original size:165 final size:166
Alignment explanation
Indices: 1261340--1261902 Score: 458
Period size: 167 Copynumber: 3.4 Consensus size: 166
1261330 GTTGCTGTTT
* * * * **
1261340 AATAATAATATTTGATAAATTCTAAAAATTAAAAACAATGAAAAATTCTCCCAAAAATATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACAATG-AAAATCCTCCCAAAAAAATTTACA
* * * * * *
1261405 GAGTAGGAAACTCAATTTTTC-AAGGAA-AGGGGAATTTCAAAG-AAAAATTTAA-AACTCATGA
65 GAGAAGAAAACTCAATATTTCGAA--AATAGGAGAATTTCAAAGAAAAAATTCAAGAACTCACGA
* *
1261466 AAATAAATTAAATTTTAAAAAGTGAATTAATATGAATTA
128 AAATAAATGAAATTTTAAAAACTGAATTAATATGAATTA
* *
1261505 AATAATAATATTTGATGAATTTTAAAAA-TAAAAACCCCATGAAAATCCTCTCAAAAAAATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAA--CAATGAAAATCCTCCCAAAAAAATTTAC
* * * *
1261569 AGAGAAGAAAACTCCATATTTCGAAAATATGAGACTTTCAAGGAAAAAATTCAAGAACTCACGAA
64 AGAGAAGAAAACTCAATATTTCGAAAATAGGAGAATTTCAAAGAAAAAATTCAAGAACTCACGAA
* * * *
1261634 AATGAATGAATTTTTGAAAACTGATTTAATATGAATTA
129 AATAAATGAAATTTTAAAAACTGAATTAATATGAATTA
* * * * * * *
1261672 AAAAATATTATTTCATGAATTTTAAAAATTAAAAACTAA-GAAACATCCCCCCCAAAACATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAAC-AATGAAA-ATCCTCCCAAAAAAATTTAC
* ** * ** * ** * * * * * *
1261736 AAAGTGGAAAACTCCATATTTTAAAAACAAAAGACTTTCGAGGAAAAAAATCAAAAACTCATGAA
64 AGAGAAGAAAACTCAATATTTCGAAAATAGGAGAATTTCAAAGAAAAAATTCAAGAACTCACGAA
* * * * * * *
1261801 AGTCATTGAATTTTTGAAAACT-AATTTACTATGAACTA
129 AATAAATGAAATTTTAAAAACTGAA-TTAATATGAATTA
* * * * *
1261839 AATAATAATATTTAATGAATTTTAAAATTTAAAAACTGAA-AAAAATCCCCCCAAAAACATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAAC--AATGAAAATCCTCCCAAAAAAATTTAC
1261903 GGAATAAAAA
Statistics
Matches: 328, Mismatches: 59, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
164 8 0.02
165 73 0.22
166 21 0.06
167 215 0.66
168 11 0.03
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (166 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACAATGAAAATCCTCCCAAAAAAATTTACAG
AGAAGAAAACTCAATATTTCGAAAATAGGAGAATTTCAAAGAAAAAATTCAAGAACTCACGAAAA
TAAATGAAATTTTAAAAACTGAATTAATATGAATTA
Found at i:1261692 original size:167 final size:166
Alignment explanation
Indices: 1261439--1261902 Score: 486
Period size: 167 Copynumber: 2.8 Consensus size: 166
1261429 GAAAGGGGAA
* * * * * * *
1261439 TTTCAAAG-AAAAATTTAAAACTCATGAAAATAAATTAAATTTTAAAAAGTGAATTAATATGAAT
1 TTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAAT
* * * *
1261503 TAAATAATAATATTTGATGAATTTTAAAAATAAAAACCCCATGAAA-ATCCTCTCAAAAAAATTT
66 TAAATAATAATATTTAATGAATTTTAAAAATAAAAA-CCCAAGAAACATCCCCCCAAAAAAATTT
* * * **
1261567 ACAGAGAAGAAAACTCCATATTTCGAAAATATGAGAC
130 ACAAAGAAGAAAACTCCATATTTCAAAAACAAAAGAC
* *
1261604 TTTCAAGGAAAAAATTCAAGAACTCACGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAA
1 TTTCAAGGAAAAAATTCAA-AACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAA
* * * * * *
1261669 TTAAAAAATATTATTTCATGAATTTTAAAAATTAAAAA-CTAAGAAACATCCCCCCCAAAACATT
65 TTAAATAATAATATTTAATGAATTTTAAAAA-TAAAAACCCAAGAAACATCCCCCCAAAAAAATT
* ** *
1261733 TATAAAGTGGAAAACTCCATATTTTAAAAACAAAAGAC
129 TACAAAGAAGAAAACTCCATATTTCAAAAACAAAAGAC
* * * * * * *
1261771 TTTCGAGGAAAAAAATCAAAAACTCATGAAAGTCATTGAATTTTTGAAAACTAATTTACTATGAA
1 TTTCAAGGAAAAAATTC-AAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAA
* * ** * *
1261836 CTAAATAATAATATTTAATGAATTTTAAAATTTAAAAACTGAA-AAAAATCCCCCCAAAAACATT
65 TTAAATAATAATATTTAATGAATTTTAAAA-ATAAAAACCCAAGAAACATCCCCCCAAAAAAATT
1261900 TAC
129 TAC
1261903 GGAATAAAAA
Statistics
Matches: 247, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
165 7 0.03
166 15 0.06
167 215 0.87
168 10 0.04
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (166 bp):
TTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAAT
TAAATAATAATATTTAATGAATTTTAAAAATAAAAACCCAAGAAACATCCCCCCAAAAAAATTTA
CAAAGAAGAAAACTCCATATTTCAAAAACAAAAGAC
Found at i:1262807 original size:13 final size:13
Alignment explanation
Indices: 1262789--1262814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1262779 TACACCAAGT
1262789 ATGTATCGATACA
1 ATGTATCGATACA
1262802 ATGTATCGATACA
1 ATGTATCGATACA
1262815 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1264041 original size:20 final size:22
Alignment explanation
Indices: 1264011--1264051 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1264001 ATTTCCCGTG
1264011 TGAATGTATCGATACA-ATTTT
1 TGAATGTATCGATACATATTTT
1264032 TGAA-GTATCGATACATATTT
1 TGAATGTATCGATACATATTT
1264052 GAAAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (22 bp):
TGAATGTATCGATACATATTTT
Found at i:1264125 original size:13 final size:12
Alignment explanation
Indices: 1264107--1264164 Score: 70
Period size: 10 Copynumber: 5.0 Consensus size: 12
1264097 AATTTTTTTG
1264107 TGTATCGATACA
1 TGTATCGATACA
1264119 TTGTATCGAT--A
1 -TGTATCGATACA
1264130 TGTATCGATACA
1 TGTATCGATACA
1264142 TTGTATCGAT--A
1 -TGTATCGATACA
1264153 TGTATCGATACA
1 TGTATCGATACA
1264165 AGTTTGGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 18 0.45
11 2 0.05
12 2 0.05
13 18 0.45
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:1264137 original size:23 final size:23
Alignment explanation
Indices: 1264107--1264164 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
1264097 AATTTTTTTG
1264107 TGTATCGATACATTGTATCGATA
1 TGTATCGATACATTGTATCGATA
1264130 TGTATCGATACATTGTATCGATA
1 TGTATCGATACATTGTATCGATA
1264153 TGTATCGATACA
1 TGTATCGATACA
1264165 AGTTTGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (23 bp):
TGTATCGATACATTGTATCGATA
Found at i:1266713 original size:13 final size:13
Alignment explanation
Indices: 1266695--1266732 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1266685 ATAATCCCCC
1266695 TGTATCGATACAG
1 TGTATCGATACAG
*
1266708 TGTATCGATACAT
1 TGTATCGATACAG
1266721 TGTATCGATACA
1 TGTATCGATACA
1266733 AAGAAAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1268831 original size:15 final size:15
Alignment explanation
Indices: 1268811--1268841 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1268801 ATTTCGTTTG
*
1268811 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1268826 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1268841 G
1 G
1268842 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1272927 original size:13 final size:13
Alignment explanation
Indices: 1272909--1272933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1272899 AATTTTTTTG
1272909 TGTATCGATACAT
1 TGTATCGATACAT
1272922 TGTATCGATACA
1 TGTATCGATACA
1272934 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1274806 original size:21 final size:21
Alignment explanation
Indices: 1274748--1274822 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
1274738 AAACTTTGAA
1274748 AAGAAAATAAATGAA-TT-GC-
1 AAGAAAATAAA-GAATTTAGCT
*
1274767 AAGTAGAAATAAAGAATTTCGCT
1 AAG-A-AAATAAAGAATTTAGCT
*
1274790 AATGAAAATAATG-ATTTAGCT
1 AA-GAAAATAAAGAATTTAGCT
1274811 AAGAAAAATAAA
1 AAG-AAAATAAA
1274823 AACTTGCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 25 0.54
22 9 0.20
23 3 0.07
24 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGAAAATAAAGAATTTAGCT
Found at i:1276570 original size:15 final size:15
Alignment explanation
Indices: 1276550--1276580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1276540 GCAAGATGTC
*
1276550 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1276565 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1276580 C
1 C
1276581 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1278448 original size:8 final size:8
Alignment explanation
Indices: 1278435--1278468 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
1278425 ATTTGATTAA
1278435 ATTTTGTG
1 ATTTTGTG
1278443 ATTTTGTG
1 ATTTTGTG
1278451 ATTTTGTG
1 ATTTTGTG
1278459 ATTTTGTG
1 ATTTTGTG
1278467 AT
1 AT
1278469 GAATGATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1278673 original size:20 final size:20
Alignment explanation
Indices: 1278603--1278679 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 20
1278593 ATGTCCAAAA
*
1278603 TGTATCGATACATGTTT-TT
1 TGTATCGATACATCTTTCTT
**
1278622 GTGTATCGATACATCTGGAAATTCAA
1 -TGTATCGATACATCT-----TTCTT
1278648 TGTATCGATACATCTTTCTT
1 TGTATCGATACATCTTTCTT
*
1278668 TGTATCAATACA
1 TGTATCGATACA
1278680 ATGTATTGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 28 0.62
25 17 0.38
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATCTTTCTT
Found at i:1278860 original size:20 final size:20
Alignment explanation
Indices: 1278817--1278862 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1278807 AAATCTTTTG
1278817 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1278838 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1278858 CAAAA
1 CAAAA
1278863 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1281292 original size:13 final size:13
Alignment explanation
Indices: 1281274--1281299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1281264 TACACCAAGT
1281274 ATGTATCGATACA
1 ATGTATCGATACA
1281287 ATGTATCGATACA
1 ATGTATCGATACA
1281300 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1281318 original size:34 final size:32
Alignment explanation
Indices: 1281256--1281320 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1281246 TAGCCAAACT
**
1281256 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1281288 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1281321 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1282464 original size:85 final size:85
Alignment explanation
Indices: 1282397--1282609 Score: 313
Period size: 86 Copynumber: 2.5 Consensus size: 85
1282387 CGTTAAACTG
1282397 ACAAGTCAACAAAAGATGAAAAGATTTACCTAGGACTAAGCCAACAAGTAGCCATTGAAA-AAAA
1 ACAAGTCAACAAAAGATGAAAAGATTTACCTAGGACTAAGCCAACAAGTAGCCATT-AAATAAAA
1282461 AGGTTGACCGGGCATGAACCA
65 AGGTTGACCGGGCATGAACCA
* * * * * *
1282482 ACAAGTTAACAAAAGGTGAAAAAAAATTACCTTGGACTAAGCCAACAGGTAGCCATTAAATAAAA
1 ACAAGTCAACAAAAGATG-AAAAGATTTACCTAGGACTAAGCCAACAAGTAGCCATTAAATAAAA
1282547 AGGTTGACCGGGCATGAACCA
65 AGGTTGACCGGGCATGAACCA
* *
1282568 ACAAGTCAACAAAGGATGAAAAGATTTATCC-GGGACTAAGCC
1 ACAAGTCAACAAAAGATGAAAAGATTTA-CCTAGGACTAAGCC
1282610 GATAGATAAG
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
85 37 0.33
86 76 0.67
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (85 bp):
ACAAGTCAACAAAAGATGAAAAGATTTACCTAGGACTAAGCCAACAAGTAGCCATTAAATAAAAA
GGTTGACCGGGCATGAACCA
Found at i:1282727 original size:41 final size:39
Alignment explanation
Indices: 1282682--1282813 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 39
1282672 ATCAATGAAA
* *
1282682 GATAAAAGATTTACTTAGGACTAAGCCGACAAGTAAATAAG
1 GATAAAA-ATTTAC-CAGGACTAAGCCGACAAGTAAACAAG
* * * ** *
1282723 GATAAAAAGTTGACCAGGACTAAACCAATTAGTCAACAGAG
1 GATAAAAA-TTTACCAGGACTAAGCCGACAAGTAAACA-AG
*
1282764 GATAAAAAATTTACCGGGGACTAAGCCGACAAGTAAACAAGG
1 GAT-AAAAATTTACC-AGGACTAAGCCGACAAGTAAACAA-G
1282806 GATAAAAA
1 GATAAAAA
1282814 GGTGACCAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
40 18 0.25
41 27 0.38
42 26 0.37
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.17
Consensus pattern (39 bp):
GATAAAAATTTACCAGGACTAAGCCGACAAGTAAACAAG
Found at i:1282809 original size:42 final size:41
Alignment explanation
Indices: 1282698--1282813 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
1282688 AGATTTACTT
* *
1282698 AGGACTAAGCCGACAAGTAAATAA-GGATAAAAAGTTGACC
1 AGGACTAAGCCGACAAGTAAACAAGGGATAAAAAATTGACC
* * ** * *
1282738 AGGACTAAACCAATTAGTCAAC-AGAGGATAAAAAATTTACC
1 AGGACTAAGCCGACAAGTAAACAAG-GGATAAAAAATTGACC
*
1282779 GGGGACTAAGCCGACAAGTAAACAAGGGATAAAAA
1 -AGGACTAAGCCGACAAGTAAACAAGGGATAAAAA
1282814 GGTGACCAAG
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
39 1 0.02
40 16 0.28
41 14 0.24
42 25 0.43
43 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.15
Consensus pattern (41 bp):
AGGACTAAGCCGACAAGTAAACAAGGGATAAAAAATTGACC
Found at i:1283127 original size:42 final size:42
Alignment explanation
Indices: 1282916--1283127 Score: 135
Period size: 42 Copynumber: 5.1 Consensus size: 42
1282906 GGGGTAATAA
* *
1282916 GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAGG
1 GTTTACCAAGGACTGAGCCGATAGGTAAACAATGGATGAAAG
* * ** * * * * * * *
1282958 GTTAATCGGGGACTAAACCGATGGGTCACCAAGGGGAT-AAGG
1 GTTTACCAAGGACTGAGCCGATAGGTAAACAA-TGGATGAAAG
* * * **
1283000 GTTTACCAAGGACTGAGCCCACAGGTGAACAAAAGATG-AAG
1 GTTTACCAAGGACTGAGCCGATAGGTAAACAATGGATGAAAG
* * * * *
1283041 GTTGACC-AGAGACTGAGCTGATAGGTCAACAA-GTCATGAGAG
1 GTTTACCAAG-GACTGAGCCGATAGGTAAACAATG-GATGAAAG
* * *
1283083 GTTTACCGAGGATTGAGTCGATAGGTAAACAATGGATGAAAG
1 GTTTACCAAGGACTGAGCCGATAGGTAAACAATGGATGAAAG
1283125 GTT
1 GTT
1283128 GACTAGGGAC
Statistics
Matches: 123, Mismatches: 40, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
40 2 0.02
41 32 0.26
42 82 0.67
43 7 0.06
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (42 bp):
GTTTACCAAGGACTGAGCCGATAGGTAAACAATGGATGAAAG
Found at i:1283153 original size:84 final size:84
Alignment explanation
Indices: 1282916--1283153 Score: 230
Period size: 84 Copynumber: 2.8 Consensus size: 84
1282906 GGGGTAATAA
* * * *
1282916 GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAGGGTT-AATCGGGGACTAAACCGAT
1 GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAAGGTTGACT-AGGGACTAAACTGAT
* * *
1282980 GGGTCACCAAGGGGATAAGG
65 AGGTCAACAAGGGCATAAGG
* * * * ** * * * *
1283000 GTTTACCAAGGACTGAGCCCACAGGTGAACAAAAGATG-AAGGTTGACCAGAGACTGAGCTGATA
1 GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAAGGTTGACTAGGGACTAAACTGATA
* *
1283064 GGTCAACAA-GTCATGAGAG
66 GGTCAACAAGGGCATAAG-G
* * *
1283083 GTTTACCGAGGATTGAGTCGATAGGTAAACAATGGATGAAAGGTTGACTAGGGACTAAATTGATA
1 GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAAGGTTGACTAGGGACTAAACTGATA
*
1283148 AGTCAA
66 GGTCAA
1283154 AAAAGGATAA
Statistics
Matches: 118, Mismatches: 33, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
82 5 0.04
83 54 0.46
84 59 0.50
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (84 bp):
GTTTACCAAGGATTGAGCCGATAGGTAAACAATGGATGAAAGGTTGACTAGGGACTAAACTGATA
GGTCAACAAGGGCATAAGG
Found at i:1283312 original size:84 final size:83
Alignment explanation
Indices: 1283199--1283629 Score: 407
Period size: 84 Copynumber: 5.1 Consensus size: 83
1283189 ATAATAGACA
* * * * * *
1283199 AATGGTATGACGGTTGACCAGAGAATGAGCTGACAAGTCACTGTAAGGGTAATAGGTTTACTAGG
1 AATGG-ATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTTACTAGG
* **
1283264 AACTAGGCCGCTAGGTAAAC
65 -ACTAAGCCAATAGGTAAAC
* * *
1283284 AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAGGGTGATGGGTTTACCGAGG
1 AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTTA-CTAGG
*
1283349 ACTAAGCTAATAGGTAAAC
65 ACTAAGCCAATAGGTAAAC
* * * * * * ** **
1283368 AATGGATGAAGGTTGATCAGAGACTGAGCTAACGGGTCATTATACGGACAATGGGTTTACCGGGG
1 AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTTA-CTAGG
1283433 ACTAAGCCAATAGGTAAAC
65 ACTAAGCCAATAGGTAAAC
* * * * * * * * *
1283452 AATGAATAAAGGTTGATCGAAGACTGAGGTGACAGGT-ATTATAAAGGTAATGGGTTTGCCAAGG
1 AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTT-ACTAGG
*
1283516 GCTAAGCCAAT-GAGTAAAC
65 ACTAAGCCAATAG-GTAAAC
* * * * * * *
1283535 AATGGATGAAGGTTAACCGAAGACTGAGCTAACAAGTCACCATAAGAGTAATGGGTTTACTGAAG
1 AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTTACT-AGG
*
1283600 ACTAAGCCAATAAGTAAAC
65 ACTAAGCCAATAGGTAAAC
1283619 AATGAGATGAA
1 AATG-GATGAA
1283630 AATTATTTCC
Statistics
Matches: 283, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
82 1 0.00
83 66 0.23
84 201 0.71
85 15 0.05
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (83 bp):
AATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACTATAAGGGTAATGGGTTTACTAGGA
CTAAGCCAATAGGTAAAC
Found at i:1283590 original size:167 final size:167
Alignment explanation
Indices: 1283199--1283623 Score: 451
Period size: 167 Copynumber: 2.5 Consensus size: 167
1283189 ATAATAGACA
* * * * * * *
1283199 AATGGTATGACGGTTGACCAGAGAATGAGCTGACAAGTCACTGTAAGGGTAATAGGTTTACTAGG
1 AATGG-ATGAAGGTTAACCAGAGACTGAGCTAACAAGTCACTATAA-GGTAATGGGTTTACTGGG
* * ** * *
1283264 AACTAGGCCGCTAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAA
64 GACTAAGCCAATAGGTAAACAATGAATAAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAA
* * * *
1283329 GGGTGATGGGTTTACCGAGGACTAAGCTAATAGGTAAAC
129 AGGTAATGGGTTTACCAAGGACTAAGCCAATAGGTAAAC
* * ** * * * *
1283368 AATGGATGAAGGTTGATCAGAGACTGAGCTAACGGGTCATTATACGGACAATGGGTTTACCGGGG
1 AATGGATGAAGGTTAACCAGAGACTGAGCTAACAAGTCACTATAAGG-TAATGGGTTTACTGGGG
* * * **
1283433 ACTAAGCCAATAGGTAAACAATGAATAAAGGTTGATCGAAGACTGAGGTGACAGGT-ATTATAAA
65 ACTAAGCCAATAGGTAAACAATGAATAAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAA
* *
1283497 GGTAATGGGTTTGCCAAGGGCTAAGCCAAT-GAGTAAAC
130 GGTAATGGGTTTACCAAGGACTAAGCCAATAG-GTAAAC
* **
1283535 AATGGATGAAGGTTAACC-GAAGACTGAGCTAACAAGTCACCATAAGAGTAATGGGTTTACTGAA
1 AATGGATGAAGGTTAACCAG-AGACTGAGCTAACAAGTCACTATAAG-GTAATGGGTTTACTGGG
*
1283599 GACTAAGCCAATAAGTAAACAATGA
64 GACTAAGCCAATAGGTAAACAATGA
1283624 GATGAAAATT
Statistics
Matches: 210, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
166 2 0.01
167 111 0.53
168 92 0.44
169 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (167 bp):
AATGGATGAAGGTTAACCAGAGACTGAGCTAACAAGTCACTATAAGGTAATGGGTTTACTGGGGA
CTAAGCCAATAGGTAAACAATGAATAAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAG
GTAATGGGTTTACCAAGGACTAAGCCAATAGGTAAAC
Found at i:1283760 original size:42 final size:42
Alignment explanation
Indices: 1283714--1283930 Score: 123
Period size: 42 Copynumber: 5.1 Consensus size: 42
1283704 GCGATTGATA
* * * *
1283714 AAGAAGTCTCCTGGGTCTTAGCCGATAGGCAGACAAAAAATG
1 AAGAAGTCTCCTGGGTCTAAACCAATAGGCAGACAAAAGATG
* * * * *
1283756 AAGAAGTCTCCCGAGTCTAAACTAATAGACAGACAAAAGATA
1 AAGAAGTCTCCTGGGTCTAAACCAATAGGCAGACAAAAGATG
* * * * *
1283798 AAAAAGTCT-CTCGTGTTTGAGCCAATAGGCAGACAAAGAGATG
1 AAGAAGTCTCCT-GGGTCTAAACCAATAGGCAGACAAA-AGATG
* ** * * * * *
1283841 AAGGAGTCTTTTGGGTCTAAACCGACAGGTAGACAAAGGATA
1 AAGAAGTCTCCTGGGTCTAAACCAATAGGCAGACAAAAGATG
* * * * * *
1283883 AAAAAGATTTCGC-GGGTCTAAACCGATAGGAACATAAAGAGATG
1 AAGAAG-TCTC-CTGGGTCTAAACCAATAGGCAGACAAA-AGATG
1283927 AAGA
1 AAGA
1283931 TTGGAATGAG
Statistics
Matches: 127, Mismatches: 42, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
41 1 0.01
42 67 0.53
43 52 0.41
44 7 0.06
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (42 bp):
AAGAAGTCTCCTGGGTCTAAACCAATAGGCAGACAAAAGATG
Found at i:1284422 original size:78 final size:79
Alignment explanation
Indices: 1284283--1284567 Score: 321
Period size: 78 Copynumber: 3.7 Consensus size: 79
1284273 ATTGGAAACA
* * * * * *
1284283 TATGGGAAGTGCCCCTCATGGCCATGTGATACATCAATACCATTTAGAGTTTGAGAA-GAAGGGA
1 TATGGGAAGTGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAATGAAGGGA
*
1284347 TACGACTGGAAGTG
66 TATGACTGGAAGTG
*
1284361 TATGGG-AGTGCCCCTCTTGGCCATTTGATGCATCAATATCATCTAGTGTTTAAGAATGAA-GGA
1 TATGGGAAGTGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAATGAAGGGA
1284424 TATGACTGGAAGTG
66 TATGACTGGAAGTG
* * * * * * * * *
1284438 AATGGGAAATGCCTCTCTTAGCCATGTGATGCAACAATATCCTTTAG-GAATTAGGAATG-AGGG
1 TATGGGAAGTGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTG-TTTAAGAATGAAGGG
* *
1284501 ATATGACAGGAAGCG
65 ATATGACTGGAAGTG
* *
1284516 -AGTGGGAGGTGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTGTTT
1 TA-TGGGAAGTGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTT
1284568 GAGAGAAAGT
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
77 67 0.39
78 104 0.60
79 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (79 bp):
TATGGGAAGTGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAATGAAGGGA
TATGACTGGAAGTG
Found at i:1286349 original size:7 final size:7
Alignment explanation
Indices: 1286329--1286374 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
1286319 TATTTCCTCA
*
1286329 TCTTATT
1 TCTTTTT
*
1286336 TCGTTTT
1 TCTTTTT
1286343 TCTTTTT
1 TCTTTTT
1286350 TCTTTTT
1 TCTTTTT
*
1286357 TCTTATT
1 TCTTTTT
1286364 TCTCTTTT
1 TCT-TTTT
1286372 TCT
1 TCT
1286375 GCACTTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:1286366 original size:14 final size:14
Alignment explanation
Indices: 1286329--1286374 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
1286319 TATTTCCTCA
*
1286329 TCTTATTTCGTTTT
1 TCTTATTTCTTTTT
*
1286343 TCTTTTTTCTTTTT
1 TCTTATTTCTTTTT
1286357 TCTTATTTCTCTTTT
1 TCTTATTTCT-TTTT
1286372 TCT
1 TCT
1286375 GCACTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTATTTCTTTTT
Found at i:1286427 original size:18 final size:18
Alignment explanation
Indices: 1286400--1286442 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1286390 TACATGCTTT
*
1286400 TTTTCATTTTCATTTTTC
1 TTTTCTTTTTCATTTTTC
* *
1286418 TTTTCTTTTTCTTTTTTG
1 TTTTCTTTTTCATTTTTC
1286436 TTTTCTT
1 TTTTCTT
1286443 ATTTAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTCATTTTTC
Found at i:1289077 original size:18 final size:18
Alignment explanation
Indices: 1289054--1289090 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1289044 CAAGATGAAT
1289054 CACTCATTCGACTTAATC
1 CACTCATTCGACTTAATC
1289072 CACTCATTCGACTTAATC
1 CACTCATTCGACTTAATC
1289090 C
1 C
1289091 TAAATAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.35, G:0.05, T:0.32
Consensus pattern (18 bp):
CACTCATTCGACTTAATC
Found at i:1290215 original size:154 final size:153
Alignment explanation
Indices: 1290009--1290370 Score: 471
Period size: 154 Copynumber: 2.4 Consensus size: 153
1289999 ATAAATAAGA
* * *
1290009 TGAACCTATCCTAAATCCCACCTTTGGCATAAAAGCAGACCTAGCGACAACCTATG-AGTTGGTT
1 TGAACCTATCCTAAATACCACCTTCGGCATAAAAGCAGACCTAGTGACAACCTA-GAAGTTGGTT
* * *** * * * * *
1290073 GTAGAAAATTACT-AAAATGTCCCTAGGGGATACTTTTGATGTATA-AGTACCTGATACCCCTAA
65 CTAAAAAATTA-TGAAAACACCCCTAGGGGAGACATTCGACGTA-ACAGTACCTAATACCCCTAA
*
1290136 AGGATTTAAAAAGGATATGGATGGGG
128 AGGACTTAAAAAGGATATGGATGGGG
* * * *
1290162 TGAACCTATTCTAAATACTCACCTACGGCATAAAAGCAGACTTGGTGACAACCTAGAAGTTGGTT
1 TGAACCTATCCTAAATAC-CACCTTCGGCATAAAAGCAGACCTAGTGACAACCTAGAAGTTGGTT
*
1290227 CTAAAAAATTATGAAAACACCCCTAGGGGAGACATTCGACGTAACAGTGCCTAATACCCCTAAAG
65 CTAAAAAATTATGAAAACACCCCTAGGGGAGACATTCGACGTAACAGTACCTAATACCCCTAAAG
1290292 GACTTAAAAAGGATATGGATGGGG
130 GACTTAAAAAGGATATGGATGGGG
*
1290316 TGAACCTATCCTAAATACCTACCTTCGGCAT-AAAGTAGACCTAGTGACAACCTAG
1 TGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGCAGACCTAGTGACAACCTAG
1290371 GACTCAATTT
Statistics
Matches: 180, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
153 41 0.23
154 139 0.77
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (153 bp):
TGAACCTATCCTAAATACCACCTTCGGCATAAAAGCAGACCTAGTGACAACCTAGAAGTTGGTTC
TAAAAAATTATGAAAACACCCCTAGGGGAGACATTCGACGTAACAGTACCTAATACCCCTAAAGG
ACTTAAAAAGGATATGGATGGGG
Found at i:1294126 original size:21 final size:21
Alignment explanation
Indices: 1294097--1294137 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1294087 CACAACAGAT
*
1294097 ACTTTATGAACTTCTATTGAC
1 ACTTCATGAACTTCTATTGAC
* *
1294118 ACTTCATGAGCTTGTATTGA
1 ACTTCATGAACTTCTATTGA
1294138 TACATAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
ACTTCATGAACTTCTATTGAC
Found at i:1301175 original size:51 final size:52
Alignment explanation
Indices: 1301104--1301221 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
1301094 AATTAACTAG
* *
1301104 ATGTATCGATACATTAAAAAAAGTATCGATACATCTGGGT-AAAAATACAGA
1 ATGTATCGATACATTAAAAAAAGTATCGATACATCTAGGTAAAAAAAACAGA
* * * * *
1301155 ATGTATCGATATATTGAAAAATGTATCGATACATCTAGGTAAAAAAAATATA
1 ATGTATCGATACATTAAAAAAAGTATCGATACATCTAGGTAAAAAAAACAGA
1301207 ATGTATCGATACATT
1 ATGTATCGATACATT
1301222 TACTGTCCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 36 0.62
52 22 0.38
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACATTAAAAAAAGTATCGATACATCTAGGTAAAAAAAACAGA
Found at i:1311090 original size:80 final size:80
Alignment explanation
Indices: 1310906--1311098 Score: 189
Period size: 80 Copynumber: 2.4 Consensus size: 80
1310896 TTTCCCTAGT
**
1310906 GAGAAAAGTCTAATTTAGTTGGTTAGGTAG-A-AAACCAATGATGCTACACCTTTTAAGGAGGTT
1 GAGAAAAGTCTAATTTAGTTGGTTAGGTAGAAGAAACCAATGATGCTACACCTTTTAAAAAGGTT
1310969 AAGCCTTATTAAGAA
66 AAGCCTTATTAAGAA
* * * * * * * * * *
1310984 AAAAGAAATTCCAATTAAGTTAGTTAGGTAGAAGAATAGCAA-GGT-TTGCACCTTTTAAAAAGG
1 GAGA-AAAGTCTAATTTAGTTGGTTAGGTAGAAGAA-ACCAATGATGCTACACCTTTTAAAAAGG
*
1311047 TTAAG-CTCTATTTAGAGA
64 TTAAGCCT-TATTAAGA-A
*
1311065 GAGAAAAGTCTAATTTAGTTGGTTAGGTAAAAGA
1 GAGAAAAGTCTAATTTAGTTGGTTAGGTAGAAGA
1311099 TTTGTAGCGA
Statistics
Matches: 89, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
78 2 0.02
79 24 0.27
80 52 0.58
81 7 0.08
82 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (80 bp):
GAGAAAAGTCTAATTTAGTTGGTTAGGTAGAAGAAACCAATGATGCTACACCTTTTAAAAAGGTT
AAGCCTTATTAAGAA
Found at i:1311343 original size:63 final size:63
Alignment explanation
Indices: 1311267--1311535 Score: 308
Period size: 63 Copynumber: 4.3 Consensus size: 63
1311257 ATTATTAGCT
1311267 TTATGTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTC
1 TTAT-TTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTC
* * * *
1311331 TTATTTAAGTCCACTTTAGTTGATTTAACGAGAAGAGCAATAAAGTTGGCACCTTTAG-TTTC
1 TTATTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTC
* ** * * **
1311393 TTATTTAAGTCCACTTTAGTTGGTTTAGTGAGAAGATTAGTAAGGTCAACA-TCTTTAGTTTTC
1 TTATTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACT-TTTAGTTTTC
* * * * * * ** * *
1311456 TTGTTTAAGTCTACTTTTGTTGGTTTAGCTAGAAGATCAATAAAATTGGTACATTTAATTTTC
1 TTATTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTC
*
1311519 TTGTTTAAGTCCACTTT
1 TTATTTAAGTCCACTTT
1311536 GGTTAGTTAA
Statistics
Matches: 171, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
62 50 0.29
63 117 0.68
64 4 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (63 bp):
TTATTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTC
Found at i:1311497 original size:125 final size:126
Alignment explanation
Indices: 1311267--1311553 Score: 337
Period size: 125 Copynumber: 2.3 Consensus size: 126
1311257 ATTATTAGCT
* **
1311267 TTATGTTAAGTCCACTTTAGTTGGTTTAGCGAGAAGAGCAATAAAGTTGACACTTTTAGTTTTCT
1 TTAT-TTAAGTCCACTTTAGTTGGTTTAGTGAGAAGAGCAATAAAGTCAACACTTTTAGTTTTCT
* *
1311332 TATTTAAGTCCACTTTAGTTGATTTAACGAGAAGAGCAATAAAGTTGGCACCTTT-AGTTTC
65 TATTTAAGTCCACTTTAGTTGATTTAACGAGAAGAGCAATAAAATTGGCACATTTAAGTTTC
** * *
1311393 TTATTTAAGTCCACTTTAGTTGGTTTAGTGAGAAGATTAGTAAGGTCAACA-TCTTTAGTTTTCT
1 TTATTTAAGTCCACTTTAGTTGGTTTAGTGAGAAGAGCAATAAAGTCAACACT-TTTAGTTTTCT
* * * * * * * * *
1311457 TGTTTAAGTCTACTTTTGTTGGTTTAGCTAGAAGATCAATAAAATTGGTACATTTAATTTTC
65 TATTTAAGTCCACTTTAGTTGATTTAACGAGAAGAGCAATAAAATTGGCACATTTAAGTTTC
* * * *
1311519 TTGTTTAAGTCCACTTTGGTTAGTTAAGT-AGAAGA
1 TTATTTAAGTCCACTTTAGTTGGTTTAGTGAGAAGA
1311554 CTAGCAAAAT
Statistics
Matches: 137, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
124 1 0.01
125 102 0.74
126 34 0.25
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (126 bp):
TTATTTAAGTCCACTTTAGTTGGTTTAGTGAGAAGAGCAATAAAGTCAACACTTTTAGTTTTCTT
ATTTAAGTCCACTTTAGTTGATTTAACGAGAAGAGCAATAAAATTGGCACATTTAAGTTTC
Found at i:1315077 original size:51 final size:50
Alignment explanation
Indices: 1314994--1315132 Score: 120
Period size: 51 Copynumber: 2.7 Consensus size: 50
1314984 TGAAAAATTT
** ** **
1314994 AATATTTT-GAAGATAAAAACAGGGTTACAGTATCCCTAATGGTGAGAAATC
1 AATATTTTGGAA-ATAAAAATGGGGTTGGAGTATCCCTAATGGTGA-AAAAA
* *
1315045 AATATTTTGGAAATAAAAATGGGGTTGGAGTATTTCC-GATGGTGAAAAAA
1 AATATTTTGGAAATAAAAATGGGGTTGGAGTA-TCCCTAATGGTGAAAAAA
** * *
1315095 AGATATTTTGGAAGCAAAATTGCGGTTGGAGTATCCCT
1 A-ATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCT
1315133 TTAGAAATAA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
50 7 0.10
51 58 0.82
52 6 0.08
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (50 bp):
AATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTAATGGTGAAAAAA
Found at i:1315206 original size:79 final size:79
Alignment explanation
Indices: 1315066--1315997 Score: 795
Period size: 79 Copynumber: 11.8 Consensus size: 79
1315056 AATAAAAATG
** ** * * ** * *
1315066 GGGTTGGAGTATTTCCGATGGTGAAAAAAAGATATTTTGGAAGCAAAAT-TGCGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAG-GGTTAGAGTATC
* * *
1315130 CCTTTAGAAATAACG
65 CCCTCAGAAATAACA
** * * * *
1315145 GGGTTAAAGTATCCCCGATGGTGAAAATTTGATATTTTAAAAATAAAATCAGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATCC
* * *
1315210 CCTCAAAAACAATA
66 CCTCAGAAATAACA
* ** * * * * * *
1315224 GGGTCGGAGTA-CCCTCGATTATGGAAAATCGGTGTTGTAGAAATAAAACCGGGGTTTGAGTATC
1 GGGTTGGAGTATCCC-CGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATC
*
1315288 CCCTC-GAAAATAATA
65 CCCTCAG-AAATAACA
* * *
1315303 GGGTTGGAGTATCCCCGATGGTGGAAAAT-TAGTGTTTTAGAAATAAAATC-GAGGTTAGTGTAT
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTAGAAATAAAATCAG-GGTTAGAGTAT
1315366 CCCCTCAGAAATAACA
64 CCCCTCAGAAATAACA
* * * *
1315382 GGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAAGGTTAAAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATCC
* *
1315447 CCTC-GAAAACAATA
66 CCTCAG-AAATAACA
* * * * * *
1315461 GGGTCGGAGTA-CCCTCGATGGTGAAAAATCGATATTATAGAAATAAAA-CTAGGGTTAAAATAC
1 GGGTTGGAGTATCCC-CGATGGTGAAAAATCGATGTTTTAGAAATAAAATC-AGGGTTAGAGTAT
*
1315524 CCCCTCAGAAATAA-T
64 CCCCTCAGAAATAACA
* * * *
1315539 GGGTTAGAGTATCCCCGATGGTGGAAAATC-AGTGTTTTAGAAATAAAATCAAGGTTAGTGTAT-
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTAGAAATAAAATCAGGGTTAGAGTATC
*
1315602 CCCTCAAAAATAAC-
65 CCCTCAGAAATAACA
* * *
1315616 GAGATTAGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAATCAGGGTTAGAGTATC
1 G-GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATC
* * * *
1315681 CTCTCAAAAACAATA
65 CCCTCAGAAATAACA
* ** * *
1315696 GGGTCGGAGTA-CCCTCGACAGTGAAAAATCGATGTTGTAGAAATAAAA-CTGGGGTTAGAGTA-
1 GGGTTGGAGTATCCC-CGATGGTGAAAAATCGATGTTTTAGAAATAAAATC-AGGGTTAGAGTAT
** * *
1315758 CCATTTTAGAAATAA-T
64 CC-CCTCAGAAATAACA
* * * *
1315774 GGCGTTGGAGTATCCTCGATAGTGGAAAATC-AGTGTTTTAGAAATAAAATC-GAGGTTGGAGTA
1 GG-GTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTAGAAATAAAATCAG-GGTTAGAGTA
*
1315837 TCCCCTCGGAAATAACA
63 TCCCCTCAGAAATAACA
* * * * * * **
1315854 GGGTTGGAGTATCTCTGATGGTAAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTT
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATCC
** *
1315919 TTTCAAAAATAAC-
66 CCTCAGAAATAACA
* *
1315932 GAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAATCAGGGTTGGAGTATC
1 G-GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATC
1315997 C
65 C
1315998 GGTTGGAGTA
Statistics
Matches: 691, Mismatches: 128, Indels: 68
0.78 0.14 0.08
Matches are distributed among these distances:
77 14 0.02
78 120 0.17
79 541 0.78
80 16 0.02
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTAGAGTATCC
CCTCAGAAATAACA
Found at i:1316003 original size:13 final size:13
Alignment explanation
Indices: 1315985--1316010 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1315975 ATAAAATCAG
1315985 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1315998 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1316011 CCTCGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
GGTTGGAGTATCC
Found at i:1316152 original size:79 final size:79
Alignment explanation
Indices: 1315999--1316168 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 79
1315989 GGAGTATCCG
* * *
1315999 GTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATTGCTGTTTCA
1 GTTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCCGATAGTGAAAAATTGCTATTTCA
* *
1316064 AAAATAAAACCAA-
66 AAAAGAAAACAAAT
* * *
1316077 GATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCTGATAGTGGAAAATTAG-TATTT
1 G-TTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCCGATAGTGAAAAATT-GCTATTT
* *
1316141 TAGAAAGAAAACAAAT
64 CAAAAAGAAAACAAAT
1316157 GTTGGAGTATCC
1 GTTGGAGTATCC
1316169 TCAATGGTGC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 76 0.96
80 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCCGATAGTGAAAAATTGCTATTTCA
AAAAGAAAACAAAT
Found at i:1316163 original size:171 final size:171
Alignment explanation
Indices: 1315827--1316168 Score: 409
Period size: 171 Copynumber: 2.0 Consensus size: 171
1315817 ATAAAATCGA
* * * * *
1315827 GGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCTCTGATGGTAAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATCGATGTTTC
* ** * **** *
1315892 AGAAATAAAACCGGGGTTGGAGTATTTTTTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGA
66 AAAAATAAAACCAAGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATAGTGA
* * * * *
1315957 AAAATCGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCC
131 AAAATAGATATTTTAGAAAGAAAATCAAGGTTGGAGTATCC
* * * *
1315998 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATTGCTGTTTC
1 GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATCGATGTTTC
* *
1316063 AAAAATAAAACCAAGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCTGATAGTGG
66 AAAAATAAAACCAAGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATAGT-G
* *
1316128 AAAATTAG-TATTTTAGAAAGAAAA-CAAATGTTGGAGTATCC
130 AAAAATAGATATTTTAGAAAGAAAATC-AAGGTTGGAGTATCC
1316169 TCAATGGTGC
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
170 1 0.01
171 134 0.94
172 7 0.05
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (171 bp):
GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATCGATGTTTC
AAAAATAAAACCAAGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATAGTGA
AAAATAGATATTTTAGAAAGAAAATCAAGGTTGGAGTATCC
Found at i:1316315 original size:78 final size:78
Alignment explanation
Indices: 1316157--1316458 Score: 290
Period size: 78 Copynumber: 3.8 Consensus size: 78
1316147 GAAAACAAAT
* * * * *
1316157 GTTGGAGTATCCTCAATGGTGCAAAATCAGTGTTATATAAATAAAACTGGGGTTAGAGTATTCCC
1 GTTGGAGTATCCTCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACTGGGGTTAGAGTA-TCCC
* *
1316222 -TCGAAAACAATGGG
65 TTC-AAAATAACGGG
* * * *
1316236 GTTAGAGTATCC-CTGATGGTG-AAAATTGGTGTTTTAGAAATAAAACTGTGGTTGGAGTATCCC
1 GTTGGAGTATCCTC-GATGGTGAAAAATTAGTGTTTTAGAAATAAAACTGGGGTTAGAGTATCCC
1316299 TTTCAAAATAACGGG
65 -TTCAAAATAACGGG
* * ***** * *
1316314 GTTGGAGCATCCTCGATGTTGAAAAATTAGTGTTTTTTTTTTTAAAAATTAGGGTTAGAGTAT-C
1 GTTGGAGTATCCTCGATGGTGAAAAATTAGTG-TTTTAGAAAT-AAAACTGGGGTTAGAGTATCC
1316378 CTGTCAGAAATAACGGG
64 CT-TCA-AAATAACGGG
* *
1316395 GTTGGAGTATCCTCGATGGTGAAAAATTAGTGTTTTAGAAACAAAA-TCGGGGTTTGAGTATCCC
1 GTTGGAGTATCCTCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACT-GGGGTTAGAGTATCCC
1316459 CAATGGTGGA
Statistics
Matches: 179, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
77 4 0.02
78 59 0.33
79 45 0.25
80 16 0.09
81 55 0.31
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (78 bp):
GTTGGAGTATCCTCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCT
TCAAAATAACGGG
Found at i:1316456 original size:51 final size:51
Alignment explanation
Indices: 1316391--1316491 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
1316381 TCAGAAATAA
* * * * *
1316391 CGGGGTTGGAGTATCCTCGATGGTGAAAAATTAGTGTTTTAGAAACAAAAT
1 CGGGGTTGGAGTATCCCCAATGGTGAAAAATAAATATTTTAGAAACAAAAT
* * *
1316442 CGGGGTTTGAGTATCCCCAATGGTGGAAAATAAATATTTTAGAAATAAAA
1 CGGGGTTGGAGTATCCCCAATGGTGAAAAATAAATATTTTAGAAACAAAA
1316492 ACATCACTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATGGTGAAAAATAAATATTTTAGAAACAAAAT
Found at i:1318883 original size:20 final size:20
Alignment explanation
Indices: 1318858--1318896 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1318848 AACCAAGAAT
1318858 GTATCGATACAATGATAAAG
1 GTATCGATACAATGATAAAG
* *
1318878 GTATCGCTACAATTATAAA
1 GTATCGATACAATGATAAA
1318897 TATGTATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACAATGATAAAG
Found at i:1318933 original size:20 final size:20
Alignment explanation
Indices: 1318897--1318938 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1318887 CAATTATAAA
*
1318897 TATGTATCGATTCATTTACT
1 TATGTATCGATACATTTACT
* *
1318917 TATGTATCGATAGATTTCCT
1 TATGTATCGATACATTTACT
1318937 TA
1 TA
1318939 GCAGTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (20 bp):
TATGTATCGATACATTTACT
Found at i:1319780 original size:61 final size:60
Alignment explanation
Indices: 1319504--1320448 Score: 764
Period size: 61 Copynumber: 15.4 Consensus size: 60
1319494 AGAGAGAGGG
* * * * *
1319504 GTCCTACTCTTTGACGACTAGAAGGTGCCACCAGCTTGCGTGGGCTTT-AAAAGAAAAAAGGAAG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG----AA--AAG
*
1319568 T
60 C
** * *
1319569 GTCCTGCTCTTTGAGGACTAAAAAATGCCACCAATTTGTATGGGCTTTGAAAA-AAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GC
* * * ** * * *
1319629 GTCCTGCTCTTTGAGCACTAAAAGATGCCACCAACTTATGCAGGCTTTAAAAAG-GAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
* * **
1319688 GTCTTTCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTTAGCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GC
** * * * * * *
1319749 GTCCTATTTTTTGAGGACTAAAAGTTGCCACCAACTTGTGTTGGATTT-AAAAGGAAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
*
1319808 GTCCTACTCTTTGAGGACTAGAAAGGTGCCACCAA-TTGGTGTGGGCTTT-AAAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTT-GTGTGGGCTTTGAAAA-GA-AAAGC
* * *
1319870 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAA-GC
* * *
1319931 GTCATGCTCTTTGAGTACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGGAAA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAA-G--C
* * * * * * * *
1319995 GTATCCTACTCTTTGAGAATTAAAAGGTGCCACCAATTTATGTGGGCTTTAAAAAGGAAAGT
1 G--TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
* * * * *
1320057 ATCTTGCT-TTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAGT
1 GTCCTGCTCTTT-GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
* * *
1320116 GT-C-GCTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTGAAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGC
* ** * * *
1320176 ATCCAACTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTAGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GC
* * * * * *
1320237 ATCCTGCTTTTTGAGGACTAAAATGTGCCACCAACTTGTATAGGCTTTGAAAGAAAAAAGGAAAG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----G--AAAAGAAAAG
*
1320302 T
60 C
* ** * * * * *
1320303 GTCCTGCTCTTTGAGAACTAAAAGGTATCACCAACTTATATGGGCTTTAAAAAGGAAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
* * ** *
1320363 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGCAGACTTT-AAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAA-GC
* * *
1320424 ATCCTACTCTTTGAGGATTAAAAGG
1 GTCCTGCTCTTTGAGGACTAAAAGG
1320449 ATAAAAGGTT
Statistics
Matches: 724, Mismatches: 120, Indels: 76
0.79 0.13 0.08
Matches are distributed among these distances:
57 9 0.01
58 30 0.04
59 92 0.13
60 185 0.26
61 222 0.31
62 43 0.06
64 2 0.00
65 43 0.06
66 86 0.12
67 12 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGC
Found at i:1320171 original size:306 final size:306
Alignment explanation
Indices: 1319504--1320437 Score: 1125
Period size: 306 Copynumber: 3.0 Consensus size: 306
1319494 AGAGAGAGGG
* * * * * * *
1319504 GTCCTACTCTTTGACGACTAG-AAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGAAAAAAGGAAG
1 GTCCTACTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTAAAAGGAGAAA-GCA-
** * *
1319568 TGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAATTTGTATGGGCTTTGAAA-AAAAAGGCGTC
64 --TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
* * *
1319632 CTGCTCTTTGAGCACTAAAAGATGCCACCAACTTATGCAGGCTTT-----AAAAAGG-AAGTGTC
127 CTGCTCTTTGAGCACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAGAAAAAAGGAAAGTGTC
* * * * ** * * * *
1319691 TTTCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTTAGCTTTGAAAAGAAAAGGCGTCCTAT
192 CTACTCTTTGAGAACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGGAAA-GTGTCCT-G
* * * * *
1319756 TTTTTGAGGACTAAAAGTTGCCACCAACTTGTGTTGGATTTAAAAGGAAAGT
255 CTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAGT
* *
1319808 GTCCTACTCTTTGAGGACTAGAAAGGTGCCACCAATTGGTGTGGGCTTTAAAAGGAGAAAGCATC
1 GTCCTACTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTAAAAGGAGAAAGCATC
* * *
1319873 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGTGTCATGC
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGC
* * *
1319938 TCTTTGAGTACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGAAAGTATCCTA
131 TCTTTGAGCACTAAAAGGTGCCACCAACTTGTGTAGGCTTT-AAAGAAAAAAGGAAAGTGTCCTA
* * * *
1320003 CTCTTTGAGAATTAAAAGGTGCCACCAATTTATGTGGGCTTTAAAAAGGAAAGTATCTTGCTTTT
195 CTCTTTGAGAACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGGAAAGTGTCCTGCTTTT
*
1320068 CGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGT
260 -GAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAGT
* *
1320116 GT-C-GCTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTGAAAGGAGAAAGCATC
1 GTCCTACTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTAAAAGGAGAAAGCATC
** * * * *
1320179 CAACTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTAGGCTTTGAAAGGAAAAGGCATCCTGC
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGC
* * * * *
1320244 TTTTTGAGGACTAAAATGTGCCACCAACTTGTATAGGCTTTGAAAGAAAAAAGGAAAGTGTCCTG
131 TCTTTGAGCACTAAAAGGTGCCACCAACTTGTGTAGGCTTT-AAAGAAAAAAGGAAAGTGTCCTA
** *
1320309 CTCTTTGAGAACTAAAAGGTATCACCAACTTATATGGGCTTTAAAAAGGAAAGTGTCCTGCTCTT
195 CTCTTTGAGAACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGGAAAGTGTCCTGCT-TT
* * *
1320374 TGAGGACTGAAAGGTGCCACTAACTTGTGCAGACTTTAAAAGGAAAAG-
259 TGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG-AAAGT
1320422 GCATCCTACTCTTTGA
1 G--TCCTACTCTTTGA
1320438 GGATTAAAAG
Statistics
Matches: 541, Mismatches: 73, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
301 46 0.09
302 49 0.09
304 22 0.04
305 32 0.06
306 263 0.49
307 12 0.02
308 57 0.11
309 52 0.10
310 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (306 bp):
GTCCTACTCTTTGAAGACTAGAAAGGTGCCACCAACTGGTGTGGGCTTTAAAAGGAGAAAGCATC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGC
TCTTTGAGCACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAGAAAAAAGGAAAGTGTCCTAC
TCTTTGAGAACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGGAAAGTGTCCTGCTTTTG
AGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAGT
Found at i:1322469 original size:11 final size:12
Alignment explanation
Indices: 1322453--1322481 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1322443 CGATACCTCT
1322453 AAAGGACT-TAA
1 AAAGGACTATAA
1322464 AAAGGACTATAA
1 AAAGGACTATAA
1322476 AAAGGA
1 AAAGGA
1322482 TGGACCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (12 bp):
AAAGGACTATAA
Found at i:1322795 original size:157 final size:156
Alignment explanation
Indices: 1322393--1323687 Score: 953
Period size: 156 Copynumber: 8.3 Consensus size: 156
1322383 GCTATGTTTA
* * * * * * *
1322393 AGAACAATTACAAAAATACCCCT-GAAAGATACCTTCGACGTAGAAGTA-CTCGATACCTCTAAA
1 AGAAAAATTATAAAAATGCCCCTAG-AAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAA
** * * ** * * * *
1322456 GGACTTAAAAAGGACTATAAAAAGGATGGACCTTTCCTAAACACCCACCTTTGGCTTAAAAGTGG
65 GGACTTAAAAAGGAC-ATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGG
** * * *
1322521 ACCCAGTGACGACCTAGGAGTTGGTT-T
129 ACCTGGTGATGACCTAGGACTCGGTTCT
* * ** * * * * * *
1322548 -TAAAATTTACGAAAATACCTCTACG-GGTATACCTTCGATGTAAAAGTATCTCGACAACCCTAA
1 AGAAAAATTATAAAAATGCCCCTA-GAAG-ATACCTTCGATGTAAAAGTATCCCGATACCCCTAA
* * * * **
1322611 AAGACTTAAAAA-CACTTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGC
64 AGGACTTAAAAAGGAC--ATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGC
* *
1322675 GAACCTGGCGATGACCTAGGACTCGGTTCT
127 GGACCTGGTGATGACCTAGGACTCGGTTCT
* * * * * *
1322705 AGAAAAATTATGAAAATGCCCCTAGCAGATACCTTCGACGTGAATGTATCCCGGTACCCCTAAAG
1 AGAAAAATTATAAAAATGCCCCTAGAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAAG
* * ** * *
1322770 GACTTAAAAAAGATCATGAATGGGATGAACCTATCCTAAATATCTATCTTTGACATAAAAGTGGA
66 GACTTAAAAAGGA-CATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGA
* ** *
1322835 CCTGGTGACT-ACCTAAGACTTAGTTTT
130 CCTGGTGA-TGACCTAGGACTCGGTTCT
** * * *
1322862 AG-AAAATTATAAAAATG-CCCTAGGGGATACCTTCGACGTAAAAGTA-CCTGATACCCCTAAAC
1 AGAAAAATTATAAAAATGCCCCTAGAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAAG
* * **
1322924 GACTTAAAAAGGATCATGAATAGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCGGA
66 GACTTAAAAAGGA-CATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGA
* * * *
1322989 CTTGGTGA-CATTCTAGGACTTGGTTCT
130 CCTGGTGATGA-CCTAGGACTCGGTTCT
* * *
1323016 A-AAAATTTATGAAAATGCCCCTATG-AGATACCTTCGATGTAAAAGTA-CCTGATACCCCTAAA
1 AGAAAAATTATAAAAATGCCCCTA-GAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAA
* ** ** * * * * * **
1323078 GGACTTAATAAGGATTTTAAAAAGGATAAACCTATCTTAAATGCCTATCTTCGGCATAAAAGCAA
65 GGACTTAAAAAGGA-CATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGG
* * * * * *
1323143 ACCCGATGACGGCCTAAGACTTGGTTCT
129 ACCTGGTGATGACCTAGGACTCGGTTCT
* * * * * ** *
1323171 A-AAAAATTACAAAAATACCCTTAAAAGATACCTTCGATGTGAAAGTATCTTGGTACCCCTAAAG
1 AGAAAAATTATAAAAATGCCCCTAGAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAAG
* * * * * *
1323235 GACTCAAAAAGGACTATAAAAGGGGTGAACCAATCCTACATGCCTA-CTTTCGACATACAAGCGG
66 GACTTAAAAAGGAC-ATAAATGGGATGAACCTATCCTAAATGCCTACCTTT-GACATAAAAGCGG
** * * *
1323299 ACCCAGCGATGACCTAGGACTCAGTTTT
129 ACCTGGTGATGACCTAGGACTCGGTTCT
* * * * * * * * *
1323327 AGAAAAATTACAAAAATACCCCTAGAAAATACCTTCG-GGTGAAAGTTTCTCGGTACTCCTAAAG
1 AGAAAAATTATAAAAATGCCCCTAGAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAAG
* * *
1323391 GACTTAAAAAGGACTATAAAAATGGG-TGAACCTATCCTAAATGCCTACCTTTAATATAAAAGCA
66 GACTTAAAAAGGAC-AT--AAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCG
** *
1323455 GA-CTCGACGATGACTTAGGACTCGGTTCT
128 GACCT-GGTGATGACCTAGGACTCGGTTCT
* * * *
1323484 AAAAAAATTATCAAAATGCCCCTA-AAGGTATACCTTCGATGTAAAAGTATCTCGATAACCCTAA
1 AGAAAAATTATAAAAATGCCCCTAGAA-G-ATACCTTCGATGTAAAAGTATCCCGATACCCCTAA
* * * *
1323548 AGGACTTAAAAA-GACTAGAAATGGTAATGAACCTATCCTAAATGCCCACCTTTGACATAAAAGT
64 AGGACTTAAAAAGGAC-ATAAATGG-GATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGC
**
1323612 GGACCCAGTGATGACCTAGGACTCGGTTC-
127 GGACCTGGTGATGACCTAGGACTCGGTTCT
* ** * * * *
1323641 AAAAAAATTACCAAAATGCGCCTAGGGATATACCTT-GACGTAAAAGT
1 AGAAAAATTATAAAAATGCCCCTA-GAAGATACCTTCGATGTAAAAGT
1323688 TTCATGGTAA
Statistics
Matches: 921, Mismatches: 185, Indels: 67
0.79 0.16 0.06
Matches are distributed among these distances:
153 1 0.00
154 125 0.14
155 197 0.21
156 233 0.25
157 232 0.25
158 99 0.11
159 34 0.04
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (156 bp):
AGAAAAATTATAAAAATGCCCCTAGAAGATACCTTCGATGTAAAAGTATCCCGATACCCCTAAAG
GACTTAAAAAGGACATAAATGGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGAC
CTGGTGATGACCTAGGACTCGGTTCT
Found at i:1323110 original size:155 final size:153
Alignment explanation
Indices: 1322398--1323687 Score: 929
Period size: 157 Copynumber: 8.3 Consensus size: 153
1322388 GTTTAAGAAC
* * * * * *
1322398 AATTACAAAAATACCCCTGAAAGATACCTTCGACGTAGAAGTA-CTCGATACCTCTAAAGGACTT
1 AATTATAAAAATGCCCCT-AGAGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTT
* * * ** * * * * *
1322462 AAAAAGGACTATAAAAAGGATGGACCTTTCCTAAACACCCACCTTTGGCTTAAAAGTGGACCCAG
65 AAAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACCCGG
* *
1322527 TGACGACCTAGGAGTTGGTT-TTAAA
130 TGAC--CCTAGGACTTGGTTCTAAAA
* ** * * * * * * *
1322552 ATTTACGAAAATACCTCTACGGGTATACCTTCGATGTAAAAGTATCTCGACAACCCTAAAAGACT
1 AATTATAAAAATGCCCCTA-GAG-ATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACT
* * * ** *
1322617 TAAAAA-CACTTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGCGAACCT
64 TAAAAAGGA-TTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACC-
* *
1322681 GGCGATGA-CCTAGGACTCGGTTCTAGAAA
127 --CGGTGACCCTAGGACTTGGTTCTA-AAA
* * * * *
1322710 AATTATGAAAATGCCCCTAGCAGATACCTTCGACGTGAATGTATCC-CGGTACCCCTAAAGGACT
1 AATTATAAAAATGCCCCTAG-AGATACCTTCGATGTAAAAGTA-CCTCGATACCCCTAAAGGACT
* * * ** ** * * *
1322774 TAAAAAAGATCATGAATGGGATGAACCTATCCTAAATATCTATCTTTGACATAAAAGTGGACCTG
64 TAAAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACCCG
* * * *
1322839 GTGACTACCTAAGACTTAGTTTTAGAA
129 GTGAC--CCTAGGACTTGGTTCTAAAA
* * *
1322866 AATTATAAAAATG-CCCTAGGGGATACCTTCGACGTAAAAGTACCT-GATACCCCTAAACGACTT
1 AATTATAAAAATGCCCCTA-GAGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTT
* * * ** **
1322929 AAAAAGGATCATGAATAGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCGGACTTGG
65 AAAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACCCGG
*
1322994 TGACATTCTAGGACTTGGTTCTAAAA
130 TGAC--CCTAGGACTTGGTTCTAAAA
* *
1323020 ATTTATGAAAATGCCCCTATGAGATACCTTCGATGTAAAAGTACCT-GATACCCCTAAAGGACTT
1 AATTATAAAAATGCCCCTA-GAGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTT
* * * * * * * ** *
1323084 AATAAGGATTTTAAAAAGGATAAACCTATCTTAAATGCCTATCTTCGGCATAAAAGCAAACCCGA
65 AAAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACCCGG
*
1323149 TGACGGCCTAAGACTTGGTTCTAAAA
130 TGAC--CCTAGGACTTGGTTCTAAAA
* * * * * * * * *
1323175 AATTACAAAAATACCCTTAAAAGATACCTTCGATGTGAAAGTATCTTGGTACCCCTAAAGGACTC
1 AATTATAAAAATGCCCCT-AGAGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTT
* * * * * *
1323240 AAAAAGGACTATAAAAGGGGTGAACCAATCCTACATGCCTA-CTTTCGACATACAAGCGGACCCA
65 AAAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTT-GACATAAAAGCGGACCC-
** *
1323304 GCGATGA-CCTAGGACTCAGTTTTAGAAA
128 G-G-TGACCCTAGGACTTGGTTCTA-AAA
* * * * * ** * *
1323332 AATTACAAAAATACCCCTAGAAAATACCTTCG-GGTGAAAGTTTCTCGGTACTCCTAAAGGACTT
1 AATTATAAAAATGCCCCTAG-AGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTT
* * * * *
1323396 AAAAAGGACTATAAAAATGGGTGAACCTATCCTAAATGCCTACCTTTAATATAAAAGCAGACTCG
65 AAAAAGGATTATAAAAA-GGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGAC-C-
* * *
1323461 ACGATGA-CTTAGGACTCGGTTCTAAAAA
127 -CGGTGACCCTAGGACTTGGTTCT-AAAA
* * * *
1323489 AATTATCAAAATGCCCCTAAAGGTATACCTTCGATGTAAAAGTATCTCGATAACCCTAAAGGACT
1 AATTATAAAAATGCCCCTAGA-G-ATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACT
* * * * *
1323554 TAAAAA-GACTA-GAAATGGTAATGAACCTATCCTAAATGCCCACCTTTGACATAAAAGTGGACC
64 TAAAAAGGATTATAAAAAGG--ATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACC
* *
1323617 CAGTGATGA-CCTAGGACTCGGTTCAAAAA
127 C-G-G-TGACCCTAGGACTTGGTTCTAAAA
** * * *
1323646 AATTACCAAAATGCGCCTAGGGATATACCTT-GACGTAAAAGT
1 AATTATAAAAATGCCCCTA--GAGATACCTTCGATGTAAAAGT
1323688 TTCATGGTAA
Statistics
Matches: 913, Mismatches: 181, Indels: 82
0.78 0.15 0.07
Matches are distributed among these distances:
153 1 0.00
154 128 0.14
155 199 0.22
156 224 0.25
157 226 0.25
158 94 0.10
159 40 0.04
160 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (153 bp):
AATTATAAAAATGCCCCTAGAGATACCTTCGATGTAAAAGTACCTCGATACCCCTAAAGGACTTA
AAAAGGATTATAAAAAGGATGAACCTATCCTAAATGCCTACCTTTGACATAAAAGCGGACCCGGT
GACCCTAGGACTTGGTTCTAAAA
Found at i:1325491 original size:25 final size:25
Alignment explanation
Indices: 1325456--1325544 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
1325446 CTGTTTACCG
*
1325456 TTGCTTTCTTCTTCATCAAATGCCA
1 TTGCTTGCTTCTTCATCAAATGCCA
*
1325481 TTGCTTGCTTCTTCAGTTGC-TA-G-CA
1 TTGCTTGCTTCTTCA--T-CAAATGCCA
* **
1325506 TTGCATGCTTCTTCATCAGCTGCC-
1 TTGCTTGCTTCTTCATCAAATGCCA
1325530 TTGCTTGCTTCTTCA
1 TTGCTTGCTTCTTCA
1325545 GCTGCTACCG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 15 0.29
25 31 0.60
26 1 0.02
27 2 0.04
28 1 0.02
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (25 bp):
TTGCTTGCTTCTTCATCAAATGCCA
Found at i:1325545 original size:21 final size:20
Alignment explanation
Indices: 1325511--1325549 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1325501 TAGCATTGCA
1325511 TGCTTCTTCATCAGCTGCCT
1 TGCTTCTTCATCAGCTGCCT
*
1325531 TGCTTGCTTCTTCAGCTGC
1 TGCTT-CTTCATCAGCTGC
1325550 TACCGTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.08, C:0.33, G:0.18, T:0.41
Consensus pattern (20 bp):
TGCTTCTTCATCAGCTGCCT
Found at i:1327387 original size:17 final size:18
Alignment explanation
Indices: 1327365--1327398 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1327355 TTTTTCATTT
1327365 TTTC-TTTCCATTTTTTG
1 TTTCTTTTCCATTTTTTG
*
1327382 TTTCTTTTTCATTTTTT
1 TTTCTTTTCCATTTTTT
1327399 TGTTGCTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTCTTTTCCATTTTTTG
Found at i:1327415 original size:19 final size:19
Alignment explanation
Indices: 1327375--1327419 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1327365 TTTCTTTCCA
*
1327375 TTTTTTGTTTCTTTTTCAT
1 TTTTTTGTTGCTTTTTCAT
*
1327394 TTTTTTGTTGCTGTTTT-TT
1 TTTTTTGTTGCT-TTTTCAT
1327413 TTTTTTG
1 TTTTTTG
1327420 AAAATAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTTTGTTGCTTTTTCAT
Found at i:1338440 original size:13 final size:13
Alignment explanation
Indices: 1338422--1338446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1338412 TAATTCTTCA
1338422 TGTATCGATACAG
1 TGTATCGATACAG
1338435 TGTATCGATACA
1 TGTATCGATACA
1338447 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1338541 original size:19 final size:19
Alignment explanation
Indices: 1338496--1338570 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
1338486 CTACCAGTTT
*
1338496 CATGTATCGATACAATTGA
1 CATGTATCGATACAATGGA
*
1338515 GTATGTATCGATACAATGGA
1 -CATGTATCGATACAATGGA
1338535 CATGTATCGATACAATGGA
1 CATGTATCGATACAATGGA
*
1338554 CATGTATCGATATAATG
1 CATGTATCGATACAATG
1338571 TATCGATACA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 34 0.67
20 17 0.33
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGGA
Found at i:1338546 original size:39 final size:38
Alignment explanation
Indices: 1338496--1338570 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
1338486 CTACCAGTTT
* *
1338496 CATGTATCGATACAATTGAGTATGTATCGATACAATGGA
1 CATGTATCGATACAATGGA-CATGTATCGATACAATGGA
*
1338535 CATGTATCGATACAATGGACATGTATCGATATAATG
1 CATGTATCGATACAATGGACATGTATCGATACAATG
1338571 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.45
39 18 0.55
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (38 bp):
CATGTATCGATACAATGGACATGTATCGATACAATGGA
Found at i:1340361 original size:51 final size:51
Alignment explanation
Indices: 1340255--1340369 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
1340245 AAAAACAACG
* * * *
1340255 GGGTTGGAATATCCCCGATGGTGAGAAATTGATATTTTGGAAATAAAAATG
1 GGGTTGGAGTATCCCCAATGGTGAGAAATTGATATTTTGGAAACAAAAATA
* * *
1340306 GGGTTAGAGTATCCCCAATGGTGA-AAAGTTGATATTTTGGAAGCAAAATTA
1 GGGTTGGAGTATCCCCAATGGTGAGAAA-TTGATATTTTGGAAACAAAAATA
1340357 GGGTTGGAGTATC
1 GGGTTGGAGTATC
1340370 TTTTCGGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 3 0.05
51 52 0.95
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATGGTGAGAAATTGATATTTTGGAAACAAAAATA
Done.