Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold138
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: 1735418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 2489 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:840038 original size:28 final size:28
Alignment explanation
Indices: 839981--840381 Score: 173
Period size: 28 Copynumber: 13.6 Consensus size: 28
839971 CACCAACTTG
*
839981 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-GACT
* *
840010 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* *
840038 TGTGGGCTTTTAAAGATTGCTACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
*
840066 TGTGAGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* *
840094 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTGACT
* * * * *
840124 TGTGGGC-TTAAAAGGAAAAAAAGTGCTACGGAGT
1 TGTGGGCTTTTAAAGG-------TTGCCACTGACT
* ** * * *
840158 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT-TTAAAG-----G-TTGCCACTGACT
* * *** *
840193 TGTGGACTTTAGAAAACATGCCACCGACT
1 TGTGGGCTTT-TAAAGGTTGCCACTGACT
** * *
840222 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTT--TTAAAGGTTGCCACTGACT
* * *
840252 TGTAGGC-TTTGAAGGTTGCCACTGATT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* * *
840279 TGTGGACTTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTT--AAAGGTTGCCACTGACT
* *
840309 TATGGGCTTTGAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* *
840337 TGTGGGCTTTTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTGACT
*
840367 TGTGGG-TTTAAAAGG
1 TGTGGGCTTTTAAAGG
840382 AAAAAGAGTG
Statistics
Matches: 287, Mismatches: 59, Indels: 54
0.72 0.15 0.14
Matches are distributed among these distances:
27 33 0.11
28 95 0.33
29 34 0.12
30 82 0.29
34 14 0.05
35 23 0.08
36 5 0.02
41 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACT
Found at i:840117 original size:30 final size:30
Alignment explanation
Indices: 840007--840657 Score: 282
Period size: 30 Copynumber: 21.6 Consensus size: 30
839997 GTTTGCATCA
* *
840007 ACTTGTGTGCTTTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** *
840035 ACTTGTGGGCTTTT--AAAGATTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
840063 ACTTGTGAGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
840091 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** ** * *
840121 ACTTGTGGGCTTAAAAGGAAAAAAAGTGCTACGG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACTG
* * ** * *
840155 AGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * ** *
840190 AGTTGTGGACTTTAGAAAA-CATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
840219 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * *
840249 ATTTGTAGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * * *
840276 ATTTGTGGACTTTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
840306 ACTTATGGGC-TTTG-AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
840334 ACTTGTGGGCTTTTCAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * * *
840364 ACTTGTGGG-TTTAAAAGGAAAAAGAGTGCTACGG
1 ACTTGTGGGCTTT----TG-AAAAGGGTGCCACTG
* * ** * *
840398 AGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * ** *
840433 AGTTGTGGACTTTGGAAAA-CATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** *
840462 ACTTGTGGGCTTCGGAAAAGGGTGCCGCTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
840492 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * * *
840519 ATTTGTGGAC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
840548 ACTTGTGGGC-TTCGAAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* * * *
840578 ATTTGTGGG-TTTAAAAGGAAAAAGCGTGCCACGG
1 ACTTGTGGGCTTT----TG-AAAAGGGTGCCACTG
* * *
840612 AGTTGTGGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
840641 ACTTGTGGGCTTTTGAA
1 ACTTGTGGGCTTTTGAA
840658 GGGTGAGGAA
Statistics
Matches: 486, Mismatches: 102, Indels: 68
0.74 0.16 0.10
Matches are distributed among these distances:
27 44 0.09
28 87 0.18
29 101 0.21
30 131 0.27
31 3 0.01
33 1 0.00
34 63 0.13
35 56 0.12
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:840167 original size:34 final size:35
Alignment explanation
Indices: 840123--840196 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
840113 TGCCACTAAC
* * *
840123 TTGTGGGCTTA-AAAGGAAAAAAAGTGCTACGGAG
1 TTGTGAGCTTACAAAAGAAAAAAAGTGCCACGGAG
*
840157 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGAGCTTACAAAAGAAAAAAAGTGCCACGGAG
840192 TTGTG
1 TTGTG
840197 GACTTTAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (35 bp):
TTGTGAGCTTACAAAAGAAAAAAAGTGCCACGGAG
Found at i:840404 original size:34 final size:35
Alignment explanation
Indices: 840366--840440 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
840356 TGCCACTAAC
* * *
840366 TTGTGGGTTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
*
840400 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
840435 TTGTGG
1 TTGTGG
840441 ACTTTGGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 9 0.26
35 26 0.74
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (35 bp):
TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:840404 original size:243 final size:243
Alignment explanation
Indices: 840018--840586 Score: 948
Period size: 243 Copynumber: 2.3 Consensus size: 243
840008 CTTGTGTGCT
* * * * *
840018 TTTGAAGGTTGCCACTGACTTGTGGGCTTTT---AAAGATTGCTACTGACTTGTGAGCTTTTAAA
1 TTTGAAGGTTGCCACTGATTTGTGGACTTTTGAAAAAGA-TGCCACTGACTTGTGGGCTTTGAAA
*
840080 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAA
65 GGTTGCCACTGACTTGTGGGCTTTTCAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAA
840145 AGTGCTACGGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAGAAAAC
130 AGTGCTACGGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAGAAAAC
840210 ATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTAGGC
195 ATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTAGGC
*
840259 TTTGAAGGTTGCCACTGATTTGTGGACTTTTGAAAAAGATGCCACTGACTTATGGGCTTTGAAAG
1 TTTGAAGGTTGCCACTGATTTGTGGACTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAG
* *
840324 GTTGCCACTGACTTGTGGGCTTTTCAAAAGGGTGCCACTAACTTGTGGGTTTAAAAGGAAAAAGA
66 GTTGCCACTGACTTGTGGGCTTTTCAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAA
*
840389 GTGCTACGGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAACA
131 GTGCTACGGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAGAAAACA
* *
840454 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCGCTGATTTGTGGGC
196 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTAGGC
*
840502 TTTGAAGGTTGCCACTGATTTGTGGAC-TTTGAAAAAGATGCCACTGACTTGTGGGCTTCGAAAA
1 TTTGAAGGTTGCCACTGATTTGTGGACTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTG--AA
* *
840566 AGGGTGCCACTGATTTGTGGG
64 AGGTTGCCACTGACTTGTGGG
840587 TTTAAAAGGA
Statistics
Matches: 307, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
241 29 0.09
242 31 0.10
243 221 0.72
244 26 0.08
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (243 bp):
TTTGAAGGTTGCCACTGATTTGTGGACTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAG
GTTGCCACTGACTTGTGGGCTTTTCAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAA
GTGCTACGGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAGAAAACA
TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTAGGC
Found at i:840467 original size:29 final size:29
Alignment explanation
Indices: 840418--840653 Score: 136
Period size: 29 Copynumber: 7.9 Consensus size: 29
840408 TTACAAAAGA
* *
840418 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGACTTTGG
* * * *
840448 AAAACATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGACTTTGG
* * * *
840477 AAAAGGGTGCCGCTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGACTTTGG
* * * *
840506 -AAGGTTGCCACTGATTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGACTTTGG
* * *
840534 AAAAGATGCCACTGACTTGTGGGCTTCGA
1 AAAAGATGCCACTGACTTGTGGACTTTGG
* * *
840563 AAAAGGGTGCCACTGATTTGTGG-GTTTAAAAGG
1 AAAA-GATGCCACTGACTTGTGGACTTT----GG
* * * * *
840596 AAAAAGCGTGCCACGGAGTTGTGGGCTTTGA
1 -AAAAG-ATGCCACTGACTTGTGGACTTTGG
*
840627 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGACTTT
840654 TGAAGGGTGA
Statistics
Matches: 162, Mismatches: 33, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
27 20 0.12
28 2 0.01
29 72 0.44
30 43 0.27
31 1 0.01
33 2 0.01
34 19 0.12
35 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGACTTTGG
Found at i:840570 original size:86 final size:87
Alignment explanation
Indices: 840419--840652 Score: 294
Period size: 86 Copynumber: 2.6 Consensus size: 87
840409 TACAAAAGAA
* * * * *
840419 AAAGAGTGCCACGGAGTTGTGGACTTTGGAAAACATGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 AAAGCGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTCGAAAAAGGG
*
840484 TGCCGCTGATTTGTGGGCTTT-G
66 TGCCACTGATTTGTGGG-TTTAG
* *
840506 -AAG-GTTGCCACTGATTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTCGAAAAAGG
1 AAAGCG-TGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTCGAAAAAGG
840569 GTGCCACTGATTTGTGGGTTTAAAAGG
65 GTGCCACTGATTTGTGGGTTT---A-G
*
840596 AAAAAGCGTGCCACGGAGTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTT
1 --AAAGCGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTT
840653 TTGAAGGGTG
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
85 4 0.03
86 72 0.57
90 1 0.01
93 49 0.39
94 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (87 bp):
AAAGCGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTCGAAAAAGGG
TGCCACTGATTTGTGGGTTTAG
Found at i:840607 original size:34 final size:36
Alignment explanation
Indices: 840561--840629 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
840551 TGTGGGCTTC
* * *
840561 GAAAAAGGGTGCCACTGATTTGTGGG-TTT-AAAAG
1 GAAAAAGCGTGCCACGGAGTTGTGGGCTTTGAAAAG
840595 GAAAAAGCGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGCGTGCCACGGAGTTGTGGGCTTTGAAAA
840630 AGATGCCACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 23 0.77
35 3 0.10
36 4 0.13
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (36 bp):
GAAAAAGCGTGCCACGGAGTTGTGGGCTTTGAAAAG
Found at i:842107 original size:15 final size:14
Alignment explanation
Indices: 842089--842141 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 14
842079 CATCTGACCC
842089 TTTTTGTTGTTGTTG
1 TTTTT-TTGTTGTTG
*
842104 TTTTTTTTTTGTT-
1 TTTTTTTGTTGTTG
842117 TTTTTTTGTT-TTG
1 TTTTTTTGTTGTTG
*
842130 TTTTTTTTTTGT
1 TTTTTTTGTTGT
842142 GGAGGACGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 18 0.55
14 8 0.24
15 5 0.15
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTGTTG
Found at i:842119 original size:26 final size:26
Alignment explanation
Indices: 842089--842141 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
842079 CATCTGACCC
842089 TTTTTGTTGTTGTTGTTTTTTTTTTGT
1 TTTTTGTTGTT-TTGTTTTTTTTTTGT
*
842116 TTTTTTTTGTTTTGTTTTTTTTTTGT
1 TTTTTGTTGTTTTGTTTTTTTTTTGT
842142 GGAGGACGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (26 bp):
TTTTTGTTGTTTTGTTTTTTTTTTGT
Found at i:842141 original size:11 final size:11
Alignment explanation
Indices: 842101--842139 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
842091 TTTGTTGTTG
842101 TTGTTTTTTTT
1 TTGTTTTTTTT
842112 TTG-TTTTTTT
1 TTGTTTTTTTT
842122 TTGTTTTGTTTT
1 TTGTTTT-TTTT
842134 TT-TTTT
1 TTGTTTT
842140 GTGGAGGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 10 0.38
12 6 0.23
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:856108 original size:52 final size:51
Alignment explanation
Indices: 855967--856115 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
855957 CGAAATATGA
*
855967 AAATTTGCCTGCATGTATCGATACATTGAATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
856019 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
856071 AAATTTACCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
856116 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:856122 original size:13 final size:13
Alignment explanation
Indices: 856104--856128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
856094 CAAAGATCAG
856104 TGTATCGATACAA
1 TGTATCGATACAA
856117 TGTATCGATACA
1 TGTATCGATACA
856129 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:856210 original size:33 final size:33
Alignment explanation
Indices: 856173--856235 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
856163 GCTTAAATTG
856173 TATCGATACAAAAAAATATGTATCGATACATTA
1 TATCGATACAAAAAAATATGTATCGATACATTA
* ***
856206 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
856236 AATCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTA
Found at i:856585 original size:28 final size:28
Alignment explanation
Indices: 856543--857016 Score: 287
Period size: 28 Copynumber: 16.9 Consensus size: 28
856533 TCTACAACTA
856543 TGAAAAGATGCCACTGACTTGTGGGCTT
1 TGAAAAGATGCCACTGACTTGTGGGCTT
* * * *
856571 TGGAAAGGTGCCACTGACTTATTGGCTTT
1 TGAAAAGATGCCACTGACTTGTGGGC-TT
* *
856600 TGAAAAGATGCCATTGACTTGTGGTCTT
1 TGAAAAGATGCCACTGACTTGTGGGCTT
* * *
856628 TGAAAAAGATGCCATTGGCTTGTGGGCTA
1 TG-AAAAGATGCCACTGACTTGTGGGCTT
*
856657 TGAAAAGATGCCATTGACTTGTGGGCTT
1 TGAAAAGATGCCACTGACTTGTGGGCTT
* * *
856685 TGAAAATGATGCCATTGATTTGTGGACTT
1 TGAAAA-GATGCCACTGACTTGTGGGCTT
856714 TG-AAAGAAT-CCTACTGACTTGTGGGCTT
1 TGAAAAG-ATGCC-ACTGACTTGTGGGCTT
*
856742 TGAAAATG-TGCCACTCACTTG-GTGGCTT
1 TGAAAA-GATGCCACTGACTTGTG-GGCTT
* * **
856770 TGAAAGGGTGCCACAAACTTGTGGGCTT
1 TGAAAAGATGCCACTGACTTGTGGGCTT
* * * *
856798 TAAAAAGGATGCCACGGAGTTGTGGAC-T
1 TGAAAA-GATGCCACTGACTTGTGGGCTT
* * *
856826 T-AAAAGGATGCCACGGAGTTGTGGACTT
1 TGAAAA-GATGCCACTGACTTGTGGGCTT
* *
856854 T-AAAAGGATGCCA-TGGAGTTGTGGACTT
1 TGAAAA-GATGCCACT-GACTTGTGGGCTT
* ** * **
856882 T-AAAAGGATACCACAAAGTTGT-GAATT
1 TGAAAA-GATGCCACTGACTTGTGGGCTT
* *
856909 T-AAAAGGATGCCA-TGGAGTTGTGGACTT
1 TGAAAA-GATGCCACT-GACTTGTGGGCTT
* *
856937 T-AAAAGGATGCCAC-GAAGTTGTGGAC-T
1 TGAAAA-GATGCCACTG-ACTTGTGGGCTT
* * * *
856964 CGAAAAGGATGCCACGGAGTTGTGGACTT
1 TGAAAA-GATGCCACTGACTTGTGGGCTT
* *
856993 T-AAAAGGATGCCACGGAGTTGTGG
1 TGAAAA-GATGCCACTGACTTGTGG
857017 ACTTAAAAGG
Statistics
Matches: 382, Mismatches: 42, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
27 54 0.14
28 235 0.62
29 92 0.24
30 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
TGAAAAGATGCCACTGACTTGTGGGCTT
Found at i:856661 original size:57 final size:57
Alignment explanation
Indices: 856540--856877 Score: 271
Period size: 57 Copynumber: 6.0 Consensus size: 57
856530 GTGTCTACAA
* * * * *
856540 CTATGAAAAGATGCCACTGACTTGTGGGCTTTG-GAAAGGTGCCACTGACTTATTGG
1 CTATGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTGGG
* * * *
856596 CTTTTGAAAAGATGCCATTGACTTGTGGTCTTTGAAAAAGATGCCATTGGCTTGTGGG
1 C-TATGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTGGG
* * * *
856654 CTATGAAAAGATGCCATTGACTTGTGGGCTTTGAAAATGATGCCATTGATTTGTGGA
1 CTATGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTGGG
* * * *
856711 CTTTG-AAAGAAT-CCTACTGACTTGTGGGCTTTGAAAATG-TGCCACTCACTTG-GTGG
1 CTATGAAAAG-ATGCC-ACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTG-GG
* * * ** ** * *
856767 CTTTGAAAGGGTGCCACAAACTTGTGGGCTTT-AAAAAGGATGCCACGGAGTTGTGGA
1 CTATGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAA-GATGCCATTGACTTGTGGG
* * * * * *
856824 CT-T-AAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGGATGCCATGGAGTTGTGG
1 CTATGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTGG
856878 ACTTTAAAAG
Statistics
Matches: 233, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
55 25 0.11
56 63 0.27
57 126 0.54
58 19 0.08
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (57 bp):
CTATGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCATTGACTTGTGGG
Found at i:856838 original size:27 final size:27
Alignment explanation
Indices: 856800--858481 Score: 1915
Period size: 27 Copynumber: 61.9 Consensus size: 27
856790 GTGGGCTTTA
*
856800 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
856827 AAAAGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
* *
856855 AAAAGGATGCCATGGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
* * ** * *
856883 AAAAGGATACCACAAAGTTGTGAATTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
856910 AAAAGGATGCCATGGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
* * *
856938 AAAAGGATGCCACGAAGTTGTGGACTCG
1 AAAAGGTTGCCACGGAGTTGTGGACT-T
*
856966 AAAAGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
*
856994 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857021 AAAAGGTTACCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857048 AAAAGGTTGCCACGGAGTTGTAGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * **
857075 AAATGGTTTCCACGGAACTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857102 AAAAGGTTGCCATGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
857129 AAAAGCTTACCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
** *
857156 AAAAGGTTGCCATAGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857183 AAAAGGTTACCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857210 AAAAGGTTACCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
857237 AAAAGGTTACCACGGAGTTGTTGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * **
857264 AAAA-GTGTGCCATGGAGTTATTAACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
* * * *
857291 TAAAGGGTGTCACGGAGTTATGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * *
857318 AAAAGGTTGCGACAGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * *
857345 AAAAGGTTTCCACAGAGTTGTAGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
857372 AAAA-GTGTGCCACGGAGTTGTGGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
857399 AAAA-GTGTGCCACGGAGTTGTGGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
* * ** * *
857426 AAATGGGTGCCAAAGAGTTATAGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857453 AAAAGGTTGCCACAGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
*
857481 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857508 AAAAGGTTGCCACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
857535 AAAAGGTTACCACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
857562 AAAAGGTTGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
857589 AAATGGTTGCCACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * *
857616 AAAAGGTTGCCATGGAGCTATGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857643 AAAAGCTTGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * * *
857670 AAAAGGTTACCATGGAGTTGTTGACAT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * **
857697 AAAA-GTGTGCCATGGAGTTATTAACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
* * * * *
857724 TAAAGGGTGTCACAGAGTTATGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
857751 AAAAGGTTGCGACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
** * *
857778 AAAAGGTTTTCACAGAGTTGTAGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
857805 AAAA-GTGTGCCACGGAGTTGTGGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
*
857832 AAAA-GTGTGACACGGAGTTGTGGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
* ** * *
857859 AAAAGGGTGCCAAAGAATTGTAGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
857886 AAAAGGTTGCCACAGAGTTGTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
* * *
857914 AAAAGGGTGCCATGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * *
857941 AAAAGGTTACTACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
**
857968 AAAAGGTTGCCATAGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * *
857995 AAAAAGGATGTCACGGAGTTATGGACTTT
1 -AAAAGGTTGCCACGGAGTTGTGGAC-TT
* *
858024 AAAAGGATGCCACGGAGTTATGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
858051 AAAAGGTTGCCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
858078 AAAAAGGATGCCAAGGAGTTGTGGACTTT
1 -AAAAGGTTGCCACGGAGTTGTGGAC-TT
* * *
858107 AAAAGGATGCCACAGAGTTTTGGACTTT
1 AAAAGGTTGCCACGGAGTTGTGGAC-TT
* * *
858135 AAAAGGATGCCAGGGAGTTGTGGACAT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
**
858162 AAAAGGTTGCCACGGACCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
858189 AAAAGGTCGCCACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
** *
858216 AAAAGGTCACCACGGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
858243 AAAAGGTTGCCATGGAGTTCTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
858270 AAAAGGTTGCCACGGAGTTTTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* *
858297 AAAAGGTTGCCACGAAGTTGTGTACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
858324 AAAA-GTGTGCCACGGAGTTGTGGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
* *
858351 AAAA-GTGTGCCATGGAGTTGTCGACTT
1 AAAAGGT-TGCCACGGAGTTGTGGACTT
** *
858378 AAAAGGTTGCCATAGAGCTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
* * * *
858405 GAAAGGTTGGCACAGAGTTATGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
858432 AAAAGGTTGCCATGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
*
858459 AAAAGG-GGCCACGGAGTTGTGGA
1 AAAAGGTTGCCACGGAGTTGTGGA
858482 TTTTGAAAAG
Statistics
Matches: 1428, Mismatches: 207, Indels: 41
0.85 0.12 0.02
Matches are distributed among these distances:
26 25 0.02
27 1108 0.78
28 290 0.20
29 5 0.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
AAAAGGTTGCCACGGAGTTGTGGACTT
Found at i:864802 original size:50 final size:50
Alignment explanation
Indices: 864643--864812 Score: 178
Period size: 50 Copynumber: 3.3 Consensus size: 50
864633 GAAATAACGA
* * * *
864643 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATG-AAAATCGGTA-TTTTGAAAATAAAATCGG
** * * * * *
864695 AATTGGAGTATCCCCGATTAAAGGAGAAATGGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGA-AAATCGGTATTTTGAAAATAAAATCGG
* *
864748 GGTTGGAGTATCCCCGATTATGAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAATCGGTATTTTGAAAATAAAATCGG
864798 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
864813 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
50 36 0.38
51 3 0.03
52 16 0.17
53 33 0.34
54 8 0.08
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAATCGGTATTTTGAAAATAAAATCGG
Found at i:864858 original size:27 final size:28
Alignment explanation
Indices: 864795--864870 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
864785 AAAATAAAGT
*
864795 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
864823 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
864850 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
864871 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.58
28 19 0.42
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:867306 original size:13 final size:13
Alignment explanation
Indices: 867288--867313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
867278 ACAAAGATCC
867288 ATGTATCGATACA
1 ATGTATCGATACA
867301 ATGTATCGATACA
1 ATGTATCGATACA
867314 CAGAAAAATG
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:867309 original size:33 final size:33
Alignment explanation
Indices: 867267--867333 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
867257 AAAATTTCCA
***
867267 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
867300 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
867333 A
1 A
867334 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:867377 original size:19 final size:18
Alignment explanation
Indices: 867353--867420 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
867343 CAGTAGCTAA
867353 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
867372 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
867387 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
867404 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
867421 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:867393 original size:13 final size:13
Alignment explanation
Indices: 867375--867399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
867365 ACAATACTTA
867375 TGTATCGATACAT
1 TGTATCGATACAT
867388 TGTATCGATACA
1 TGTATCGATACA
867400 AAACTTATGT
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:867397 original size:32 final size:32
Alignment explanation
Indices: 867356--867418 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
867346 TAGCTAATTA
*
867356 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
867388 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
867419 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:867500 original size:21 final size:21
Alignment explanation
Indices: 867476--867532 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
867466 CATTTGTAGG
867476 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
867497 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
867518 ATGTATCGATACATT
1 ATGTATCGATACATT
867533 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:871081 original size:20 final size:20
Alignment explanation
Indices: 871052--871228 Score: 148
Period size: 20 Copynumber: 8.7 Consensus size: 20
871042 GTAAAAGGAC
*
871052 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
871072 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
871092 A-AGATGTATCGATACGTTTGG
1 AGA-ATGTATCGATAC-ATTGA
*
871113 ATAATGTATCGATACATTCGA
1 AGAATGTATCGATACATT-GA
* *
871134 A-AATATATCGATACGTCTG-
1 AGAATGTATCGATACAT-TGA
*
871153 GGTAATGTATCGATACATTGGA
1 AG-AATGTATCGATACATT-GA
**
871175 AG-ATGTATCGATATGTCTG-
1 AGAATGTATCGATACAT-TGA
*
871194 GGTAATGTATCGATACATTGA
1 AG-AATGTATCGATACATTGA
*
871215 AAAATGTATCGATA
1 AGAATGTATCGATA
871229 TATCTGGGTA
Statistics
Matches: 126, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.02
20 76 0.60
21 46 0.37
22 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:871123 original size:41 final size:41
Alignment explanation
Indices: 871074--871239 Score: 244
Period size: 41 Copynumber: 4.0 Consensus size: 41
871064 TACATTGAAG
* *
871074 AATGTATCGATACATTGAAAGATGTATCGATACGTTTGGAT
1 AATGTATCGATACATTGAAAGATGTATCGATACGTCTGGGT
*
871115 AATGTATCGATACATTCGAAA-ATATATCGATACGTCTGGGT
1 AATGTATCGATACATT-GAAAGATGTATCGATACGTCTGGGT
* *
871156 AATGTATCGATACATTGGAAGATGTATCGATATGTCTGGGT
1 AATGTATCGATACATTGAAAGATGTATCGATACGTCTGGGT
* **
871197 AATGTATCGATACATTGAAAAATGTATCGATATATCTGGGT
1 AATGTATCGATACATTGAAAGATGTATCGATACGTCTGGGT
871238 AA
1 AA
871240 AAATGTGACT
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 3 0.03
41 107 0.94
42 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (41 bp):
AATGTATCGATACATTGAAAGATGTATCGATACGTCTGGGT
Found at i:871200 original size:82 final size:82
Alignment explanation
Indices: 871054--871239 Score: 261
Period size: 82 Copynumber: 2.3 Consensus size: 82
871044 AAAAGGACAG
* *
871054 AATATATCGATACAT-TGAAG-AATGTATCGATACATTGAAAGATGTATCGATACGTTTGGATAA
1 AATATATCGATACATCTG-GGTAATGTATCGATACATTGAAAGATGTATCGATACGTCTGGATAA
871117 TGTATCGATACATTCG-AA
65 TGTATCGATACATT-GAAA
* * * *
871135 AATATATCGATACGTCTGGGTAATGTATCGATACATTGGAAGATGTATCGATATGTCTGGGTAAT
1 AATATATCGATACATCTGGGTAATGTATCGATACATTGAAAGATGTATCGATACGTCTGGATAAT
871200 GTATCGATACATTGAAA
66 GTATCGATACATTGAAA
* *
871217 AATGTATCGATATATCTGGGTAA
1 AATATATCGATACATCTGGGTAA
871240 AAATGTGACT
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
81 16 0.17
82 77 0.83
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (82 bp):
AATATATCGATACATCTGGGTAATGTATCGATACATTGAAAGATGTATCGATACGTCTGGATAAT
GTATCGATACATTGAAA
Found at i:872735 original size:14 final size:15
Alignment explanation
Indices: 872708--872737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
872698 TTATTATGTT
872708 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
872723 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
872738 GGTTTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:872750 original size:123 final size:123
Alignment explanation
Indices: 872399--872753 Score: 503
Period size: 124 Copynumber: 2.9 Consensus size: 123
872389 TATTTTTAAT
* * *
872399 AAAAATAATATTTAATTAACTTTAAAAAAATTATATTAATAAATTAAAATATT-A--ATTA--TT
1 AAAAATAATATTTAATTAAGTTT-AAAAAATTACATTAACAAATTAAAATATTAATTATTATGTT
* * *
872459 TTTTAAAATAAAAAA-TTTAAATAAAAATAAAAAGGATTTATTATTAT--TTTTTAATAAAATT
65 TTTTAAAATAAAAAATTTTAAAT---TA-AAAAAGG-TTTTTTATTATAATTTTTAATAAAATA
872520 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAAT-TTAATTATTATGTTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATGTTT
*
872584 TTATAGAAATAAAAAATTTTAAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATA
66 TT-TA-AAATAAAAAATTTTAAATTAAAAAAGGTTTTTTATTATAATTTTTAATAAAATA
*
872644 AAAAATAATATTTAATTAAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATGTTT
872709 TTTAAAATAAAAAATTTTAAATTAAAAAAGGTTTTTTATTATAAT
66 TTTAAAATAAAAAATTTTAAATTAAAAAAGGTTTTTTATTATAAT
872754 AATATTTTTT
Statistics
Matches: 214, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
119 2 0.01
120 25 0.12
121 22 0.10
122 14 0.07
123 47 0.22
124 69 0.32
125 19 0.09
126 10 0.05
127 6 0.03
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (123 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATGTTT
TTTAAAATAAAAAATTTTAAATTAAAAAAGGTTTTTTATTATAATTTTTAATAAAATA
Found at i:873221 original size:111 final size:114
Alignment explanation
Indices: 873071--873355 Score: 355
Period size: 111 Copynumber: 2.5 Consensus size: 114
873061 AATGTTATTG
* * *
873071 TTTTAATTTGTTAATGCAAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAA
1 TTTTAATTTGTTAATG-TAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAA
873136 TAATAATAATAAA-TACTT-TTT-A-TTTTTA-TAAAAATATATAATTAATA
65 TAATAATAATAAACTACTTATTTAATTTTTTATTAAAAA-A-ATAATTAATA
*
873183 TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAAT
**
873248 AATAATAATAAACCCTTTTTAATTTAATTTTTTATTTTAAAAAAATAATTAATA
66 AATAATAATAAA--CTACTT-ATTTAATTTTTTA--TTAAAAAAATAATTAATA
* * * * *
873302 TTTTAATTTATTAATGTAAAATTTTTTAAAGTTAGTTAAATATTATTTGTTATT
1 TTTTAATTTGTTAATGT-AATTTTTTTAAACTTAATTAAATATTATTTTTTATT
873356 GAAATATTTA
Statistics
Matches: 150, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
111 57 0.38
112 16 0.11
114 3 0.02
116 3 0.02
117 1 0.01
118 6 0.04
119 26 0.17
120 32 0.21
121 6 0.04
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (114 bp):
TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAAT
AATAATAATAAACTACTTATTTAATTTTTTATTAAAAAAATAATTAATA
Found at i:875385 original size:17 final size:17
Alignment explanation
Indices: 875354--875387 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
875344 TGTTGTATAG
*
875354 GCAAATTAAATTAAGTT
1 GCAAATTAAACTAAGTT
*
875371 GCAAATTAAGCTAAGTT
1 GCAAATTAAACTAAGTT
875388 AAACGATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (17 bp):
GCAAATTAAACTAAGTT
Found at i:884146 original size:18 final size:18
Alignment explanation
Indices: 884107--884146 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
884097 ATATTTATAT
**
884107 ATAAAATTAATTTGTTGT
1 ATAAAATTAATTTGTTAA
*
884125 ATAAAATTAATTTTTTAA
1 ATAAAATTAATTTGTTAA
884143 ATAA
1 ATAA
884147 TTTATTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:884330 original size:3 final size:3
Alignment explanation
Indices: 884324--884367 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
884314 ATATACTTGA
884324 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
884368 GAGTAAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:886983 original size:16 final size:15
Alignment explanation
Indices: 886941--886998 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
886931 GTTAATCTCA
886941 GGTTTAGGTTCTCTTG
1 GGTTTAGGTTCT-TTG
*
886957 GG-TTCGAGTTCTTTAG
1 GGTTTAG-GTTCTTT-G
886973 GGTTTAGGTTCTTTCG
1 GGTTTAGGTTCTTT-G
886989 GGTTTAGGTT
1 GGTTTAGGTT
886999 TTTTCAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.14
16 28 0.78
17 3 0.08
ACGTcount: A:0.09, C:0.10, G:0.33, T:0.48
Consensus pattern (15 bp):
GGTTTAGGTTCTTTG
Found at i:887003 original size:16 final size:16
Alignment explanation
Indices: 886972--887024 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
886962 GAGTTCTTTA
*
886972 GGGTTTAGGTTCTTTC
1 GGGTTTAGGTTTTTTC
886988 GGGTTTAGGTTTTTTC
1 GGGTTTAGGTTTTTTC
** *
887004 AAGTTTAGGCTTTTTC
1 GGGTTTAGGTTTTTTC
887020 GGGTT
1 GGGTT
887025 CGACCTGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.09, C:0.09, G:0.30, T:0.51
Consensus pattern (16 bp):
GGGTTTAGGTTTTTTC
Found at i:887059 original size:16 final size:16
Alignment explanation
Indices: 887035--887073 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
887025 CGACCTGTCC
*
887035 CGAGTTTGGGCTATTT
1 CGAGTTTGGACTATTT
* *
887051 CGGGTTTGGATTATTT
1 CGAGTTTGGACTATTT
887067 CGAGTTT
1 CGAGTTT
887074 AAATTTTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (16 bp):
CGAGTTTGGACTATTT
Found at i:889471 original size:20 final size:21
Alignment explanation
Indices: 889434--889485 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
889424 CGACAAGTCA
* * *
889434 GTATCAATATATTTACTT-AT
1 GTATCGATACATTAACTTGAT
*
889454 GTATCGATACATTAACTTGTT
1 GTATCGATACATTAACTTGAT
889475 GTATCGATACA
1 GTATCGATACA
889486 AATTGTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (21 bp):
GTATCGATACATTAACTTGAT
Found at i:890120 original size:58 final size:58
Alignment explanation
Indices: 890057--890194 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 58
890047 ATACTAGTAC
* * *
890057 TAAAATGCATGAAACTGCATAATAGT-TTCTAAACCATAAAAAATGACTAAAATGGTCA
1 TAAAATGCATAAAACTGCATAAAAGTCCT-TAAACCATAAAAAATGACTAAAATGGTCA
* * * * ** *
890115 TAAAATGCATAAAATTGCATAAAAGTCCTTAAAGCATAACAAATTACTAAAATGACCT
1 TAAAATGCATAAAACTGCATAAAAGTCCTTAAACCATAAAAAATGACTAAAATGGTCA
* *
890173 TAGAATGCAT-AAATTGCATAAA
1 TAAAATGCATAAAACTGCATAAA
890195 TAAGCTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 12 0.18
58 55 0.81
59 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (58 bp):
TAAAATGCATAAAACTGCATAAAAGTCCTTAAACCATAAAAAATGACTAAAATGGTCA
Found at i:890147 original size:29 final size:30
Alignment explanation
Indices: 890115--890262 Score: 91
Period size: 29 Copynumber: 5.1 Consensus size: 30
890105 AAAATGGTCA
*
890115 TAAAATGCATAAAATTGCATAAAA-GTCCT
1 TAAAATGCATAAAATTGCATAAAATGACCT
*
890144 T-AAA-GCATAACAAATTAC-TAAAATGACCT
1 TAAAATGCAT-A-AAATTGCATAAAATGACCT
* * *
890173 TAGAATGCAT-AAATTGCAT-AAATAAGCT
1 TAAAATGCATAAAATTGCATAAAATGACCT
* ** *
890201 TAAAA--CATGTCAAATAAC-TAAAATAACCT
1 TAAAATGCA--TAAAATTGCATAAAATGACCT
* *
890230 TAAAATGCATGAAATTGCAT-AAATGATCT
1 TAAAATGCATAAAATTGCATAAAATGACCT
890259 TAAA
1 TAAA
890263 TCATAGCAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
26 2 0.02
27 4 0.04
28 28 0.31
29 48 0.53
30 3 0.03
31 6 0.07
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (30 bp):
TAAAATGCATAAAATTGCATAAAATGACCT
Found at i:890273 original size:58 final size:57
Alignment explanation
Indices: 890115--890367 Score: 258
Period size: 58 Copynumber: 4.4 Consensus size: 57
890105 AAAATGGTCA
* * * * * *
890115 TAAAATGCATAAAATTGCATAAAAGTCCTTAAAGCATAACAAATTACTAAAATGACCT
1 TAAAATGCATGAAATTGCATAAATG-GCTTAAAACATGACAAATTACTAAAATAACCT
* * * *
890173 TAGAATGCAT-AAATTGCATAAATAAGCTTAAAACATGTCAAATAACTAAAATAACCT
1 TAAAATGCATGAAATTGCATAAAT-GGCTTAAAACATGACAAATTACTAAAATAACCT
* * *
890230 TAAAATGCATGAAATTGCATAAATGATCTTAAATCAT-AGCAAATTACTAAAATAACCC
1 TAAAATGCATGAAATTGCATAAATG-GCTTAAAACATGA-CAAATTACTAAAATAACCT
* ** * **
890288 TAAAATTCATGAAATTAAAGAAATGGCTATAAAACATGACAAATTACTAAAATAATAT
1 TAAAATGCATGAAATTGCATAAATGGCT-TAAAACATGACAAATTACTAAAATAACCT
* *
890346 AAAAATGCATGAAATTACATAA
1 TAAAATGCATGAAATTGCATAA
890368 TAACCCTTAA
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
57 49 0.31
58 110 0.69
59 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (57 bp):
TAAAATGCATGAAATTGCATAAATGGCTTAAAACATGACAAATTACTAAAATAACCT
Found at i:890274 original size:115 final size:116
Alignment explanation
Indices: 890115--890367 Score: 305
Period size: 115 Copynumber: 2.2 Consensus size: 116
890105 AAAATGGTCA
* * * *
890115 TAAAATGCATAAAATTGCATAAAAGTCCTTAAAGCATAACAAATTACTAAAATGACCTTAGAATG
1 TAAAATGCATGAAATTGCATAAAAGTCCTTAAAGCATAACAAATTACTAAAATAACCCTAAAATG
** * * *
890180 CAT-AAATTGCATAAATAAGCT-TAAAACATGTCAAATAACTAAAATAACCT
66 CATGAAATTAAAGAAAT-AGCTATAAAACATGACAAATAACTAAAATAACAT
* * *
890230 TAAAATGCATGAAATTGCATAAATGAT-CTTAAATCATAGCAAATTACTAAAATAACCCTAAAAT
1 TAAAATGCATGAAATTGCATAAAAG-TCCTTAAAGCATAACAAATTACTAAAATAACCCTAAAAT
* * * *
890294 TCATGAAATTAAAGAAATGGCTATAAAACATGACAAATTACTAAAATAATAT
65 GCATGAAATTAAAGAAATAGCTATAAAACATGACAAATAACTAAAATAACAT
* *
890346 AAAAATGCATGAAATTACATAA
1 TAAAATGCATGAAATTGCATAA
890368 TAACCCTTAA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
115 61 0.52
116 56 0.48
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (116 bp):
TAAAATGCATGAAATTGCATAAAAGTCCTTAAAGCATAACAAATTACTAAAATAACCCTAAAATG
CATGAAATTAAAGAAATAGCTATAAAACATGACAAATAACTAAAATAACAT
Found at i:890302 original size:29 final size:29
Alignment explanation
Indices: 890212--890304 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
890202 AAAACATGTC
* * *
890212 AAATAACTAAAATAACCTTAAAATGCATG
1 AAATTACTAAAATAACCCTAAAATTCATG
* * * *
890241 AAATTGC-ATAAATGA-TCTTAAA-TCATAG
1 AAATTACTA-AAATAACCCTAAAATTCAT-G
890269 CAAATTACTAAAATAACCCTAAAATTCATG
1 -AAATTACTAAAATAACCCTAAAATTCATG
890299 AAATTA
1 AAATTA
890305 AAGAAATGGC
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
27 3 0.06
28 6 0.13
29 27 0.57
30 7 0.15
31 4 0.09
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATTACTAAAATAACCCTAAAATTCATG
Found at i:890377 original size:116 final size:114
Alignment explanation
Indices: 890116--890398 Score: 291
Period size: 116 Copynumber: 2.4 Consensus size: 114
890106 AAATGGTCAT
* * * * * *
890116 AAAATGCATAAAATTGCATAA-AAGTCCTTAAAGCATAACAAATTACTAAAATGACCTTAGAATG
1 AAAATGCATGAAATTGCATAATAA--CCTTAAATCATAGCAAATTACTAAAATAACCCTAAAATG
** * * * *
890180 CATAAATTGCATAAATAAGCTTAAAACATGTCAAATAACTAAAATAACCTT
64 CATAAATTAAAGAAATAAGCTTAAAACATGACAAATAACTAAAATAACATA
* * *
890231 AAAATGCATGAAATTGCATAAATGATCTTAAATCATAGCAAATTACTAAAATAACCCTAAAATTC
1 AAAATGCATGAAATTGCAT-AATAACCTTAAATCATAGCAAATTACTAAAATAACCCTAAAATGC
* * *
890296 ATGAAATTAAAGAAAT-GGCTATAAAACATGACAAATTACTAAAATAATATA
65 AT-AAATTAAAGAAATAAGCT-TAAAACATGACAAATAACTAAAATAACATA
* * * * *
890347 AAAATGCATGAAATTACATAATAACCCTTAAGTCATGGGAAATGACTAAAAT
1 AAAATGCATGAAATTGCATAATAA-CCTTAAATCATAGCAAATTACTAAAAT
890399 GGTTCTAAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
115 60 0.43
116 77 0.56
117 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (114 bp):
AAAATGCATGAAATTGCATAATAACCTTAAATCATAGCAAATTACTAAAATAACCCTAAAATGCA
TAAATTAAAGAAATAAGCTTAAAACATGACAAATAACTAAAATAACATA
Found at i:891186 original size:15 final size:16
Alignment explanation
Indices: 891163--891197 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
891153 CTCCATCTAC
891163 TCTTATTTTTTT-CTT
1 TCTTATTTTTTTCCTT
*
891178 TCTTCTTTTTTTCCTT
1 TCTTATTTTTTTCCTT
891194 TCTT
1 TCTT
891198 GTTTATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTATTTTTTTCCTT
Found at i:891978 original size:20 final size:21
Alignment explanation
Indices: 891953--891993 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
891943 CCCAATGATA
891953 TATCGATATA-TTCATGAATG
1 TATCGATATACTTCATGAATG
891973 TATCGATATATCTTCATGAAT
1 TATCGATATA-CTTCATGAAT
891994 TTCATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
TATCGATATACTTCATGAATG
Found at i:894796 original size:58 final size:57
Alignment explanation
Indices: 894711--894819 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 57
894701 TTGCATTTAA
*
894711 ACCTCTATTTACTATAACATTTAATAACTATATATAAACCCACATATTTACTCCAGCGT
1 ACCTCTATTTACTATAACATGTAATAACTATAT-TAAACCC-CATATTTACTCCAGCGT
* * * * *
894770 ACCT-TATTTATTATAGCATGTAATAACTCTCTTTAACCCCATATTTACTC
1 ACCTCTATTTACTATAACATGTAATAACTATATTAAACCCCATATTTACTC
894820 TAATAATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 11 0.25
57 6 0.14
58 23 0.52
59 4 0.09
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.39
Consensus pattern (57 bp):
ACCTCTATTTACTATAACATGTAATAACTATATTAAACCCCATATTTACTCCAGCGT
Found at i:896177 original size:12 final size:14
Alignment explanation
Indices: 896145--896186 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
896135 TTATATCGTA
896145 TATTTTTTATTATG
1 TATTTTTTATTATG
896159 TCATTTTTTATTAT-
1 T-ATTTTTTATTATG
*
896173 T-TTTTATATTATG
1 TATTTTTTATTATG
896186 T
1 T
896187 TTATGTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 2 0.08
15 12 0.48
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TATTTTTTATTATG
Found at i:898436 original size:9 final size:8
Alignment explanation
Indices: 898419--898476 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 8
898409 AAGTGTAATA
898419 AAAATTATT
1 AAAA-TATT
898428 AAATATATT
1 AAA-ATATT
898437 AAAAT-TT
1 AAAATATT
*
898444 AAAATATA
1 AAAATATT
*
898452 AAAATAAT
1 AAAATATT
898460 ATAAATATT
1 A-AAATATT
898469 AAATATAT
1 AAA-ATAT
898477 ATTATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 7 0.17
8 12 0.29
9 21 0.51
10 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATATT
Found at i:898461 original size:26 final size:25
Alignment explanation
Indices: 898428--898477 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
898418 AAAAATTATT
898428 AAATATATTAAA-ATTTAAA-ATATAA
1 AAATATA-TAAATA-TTAAATATATAA
898453 AAATAATATAAATATTAAATATATA
1 AAAT-ATATAAATATTAAATATATA
898478 TTATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATATAAATATTAAATATATAA
Found at i:899022 original size:19 final size:19
Alignment explanation
Indices: 899000--899041 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
898990 GATATAATTT
899000 TATTGAAATAT-CATGTTAA
1 TATT-AAATATACATGTTAA
* *
899019 TATTAATTATACATGTTAT
1 TATTAAATATACATGTTAA
899038 TATT
1 TATT
899042 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (19 bp):
TATTAAATATACATGTTAA
Found at i:899318 original size:15 final size:17
Alignment explanation
Indices: 899290--899321 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
899280 TATTAAATAT
899290 AAATATATATTTTAAAA
1 AAATATATATTTTAAAA
899307 AAATAT-TA-TTTAAAA
1 AAATATATATTTTAAAA
899322 TTTTTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATATTTTAAAA
Found at i:899722 original size:17 final size:18
Alignment explanation
Indices: 899700--899734 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
899690 AAGGATTTAA
899700 ATTTTAATTAAA-AATAT
1 ATTTTAATTAAATAATAT
899717 ATTTTAATTAAATAATAT
1 ATTTTAATTAAATAATAT
899735 TTATTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTAATTAAATAATAT
Found at i:899744 original size:20 final size:17
Alignment explanation
Indices: 899704--899751 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
899694 ATTTAAATTT
*
899704 TAATTAAAAATATATTT
1 TAATTAAAAATATATTA
899721 TAATTAAATAATATTTATTA
1 TAATTAAA-AATA--TATTA
*
899741 TAATTATAAAT
1 TAATTAAAAAT
899752 GTAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 8 0.31
18 4 0.15
19 3 0.12
20 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTAAAAATATATTA
Found at i:904288 original size:19 final size:19
Alignment explanation
Indices: 904261--904301 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
904251 TTGGTGTTTG
904261 TTTTCTTTTCTTTCTT-TTT
1 TTTTCTTTTCTTT-TTCTTT
*
904280 TTTTTTTTTCTTTTTCTTT
1 TTTTCTTTTCTTTTTCTTT
904299 TTT
1 TTT
904302 GAACTGGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTCTTT
Found at i:904301 original size:15 final size:15
Alignment explanation
Indices: 904261--904301 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
904251 TTGGTGTTTG
*
904261 TTTTCTTTTCTTTCT
1 TTTTCTTTTTTTTCT
*
904276 TTTTTTTTTTTTTCT
1 TTTTCTTTTTTTTCT
904291 TTTTCTTTTTT
1 TTTTCTTTTTT
904302 GAACTGGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTTTTCT
Found at i:904664 original size:34 final size:35
Alignment explanation
Indices: 904614--904683 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
904604 TTTTTAAAAA
*
904614 AAAAATTTATTAATATTTTATATT-ATCAATTAAT
1 AAAAATTTATTAATATTTTAAATTAATCAATTAAT
* *
904648 AAAATTTTATTTATATTTTAAATTAGATCAATTAAT
1 AAAAATTTATTAATATTTTAAATTA-ATCAATTAAT
904684 TACAAAGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 21 0.68
36 10 0.32
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (35 bp):
AAAAATTTATTAATATTTTAAATTAATCAATTAAT
Found at i:906405 original size:2 final size:2
Alignment explanation
Indices: 906398--906426 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
906388 TTCATGTAAA
906398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
906427 ATTTCAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:908325 original size:46 final size:47
Alignment explanation
Indices: 908242--908335 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
908232 CTTGCAATAC
* * *
908242 ATTTGTAAAGGGAGCCTTAGAATGACATTTGAAGGAAA-TAAGAGAA
1 ATTTGTAAAGGGAACCTTAGAATAACATTTGAAGGAAAGAAAGAGAA
* *
908288 ATTTGTGAAGGGAACCTTAGAATAAGATTT-AAGGGAAAGAAAGAGAA
1 ATTTGTAAAGGGAACCTTAGAATAACATTTGAA-GGAAAGAAAGAGAA
908335 A
1 A
908336 GAAAATTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.05
46 31 0.76
47 8 0.20
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (47 bp):
ATTTGTAAAGGGAACCTTAGAATAACATTTGAAGGAAAGAAAGAGAA
Found at i:908747 original size:19 final size:20
Alignment explanation
Indices: 908723--908764 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
908713 CCTTTTGCAC
*
908723 AATTTAATCA-ATAAAAATA
1 AATTTAATCATAAAAAAATA
*
908742 AATTTAATTATAAAAAAATA
1 AATTTAATCATAAAAAAATA
908762 AAT
1 AAT
908765 ACTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTTAATCATAAAAAAATA
Found at i:908776 original size:20 final size:20
Alignment explanation
Indices: 908735--908776 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
908725 TTTAATCAAT
* *
908735 AAAAATAAATTTAATTATAA
1 AAAAATAAATCTAATTAAAA
908755 AAAAATAAATACTAA-TAAAA
1 AAAAATAAAT-CTAATTAAAA
908775 AA
1 AA
908777 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATAAATCTAATTAAAA
Found at i:910078 original size:11 final size:10
Alignment explanation
Indices: 910026--910075 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
910016 TTATAAAACA
910026 TATT-ATTTT
1 TATTAATTTT
910035 TATTTAATTTT
1 TA-TTAATTTT
*
910046 TAATAATTTT
1 TATTAATTTT
910056 ATATT--TTTT
1 -TATTAATTTT
910065 TATTAATTTT
1 TATTAATTTT
910075 T
1 T
910076 TATACTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 14 0.41
11 10 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTAATTTT
Found at i:910086 original size:29 final size:31
Alignment explanation
Indices: 910025--910086 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
910015 ATTATAAAAC
*
910025 ATATTATTTTTATTTAATTTTTAATAATTTT
1 ATATTATTTTTATTTAATTTTTAATAATATT
* *
910056 ATATT-TTTTTA-TTAATTTTTTATACTATT
1 ATATTATTTTTATTTAATTTTTAATAATATT
910085 AT
1 AT
910087 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.61
30 6 0.21
31 5 0.18
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (31 bp):
ATATTATTTTTATTTAATTTTTAATAATATT
Found at i:912567 original size:3 final size:3
Alignment explanation
Indices: 912559--912596 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
912549 ACGCTTGAAA
912559 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A
912597 GTTGCAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:914112 original size:23 final size:21
Alignment explanation
Indices: 914065--914112 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
914055 AAAGTTAAAT
*
914065 TTTATATTTTTATTAAATTTT
1 TTTATATTTTTATTAAATTTA
914086 TTTATATTTTTATTTAAAATTTA
1 TTTATATTTTTA-TT-AAATTTA
914109 TTTA
1 TTTA
914113 GTAATAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 2 0.08
23 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATATTTTTATTAAATTTA
Found at i:914205 original size:22 final size:21
Alignment explanation
Indices: 914148--914206 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
914138 AAAAAATGTA
914148 ATTTACAATAT-TTAATTTTAT
1 ATTTA-AATATATTAATTTTAT
* *
914169 ATTAAAATATAATTATTTTTAAT
1 ATTTAAATAT-ATTAATTTT-AT
914192 ATTTAAATATATTAA
1 ATTTAAATATATTAA
914207 ATTGTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 5 0.16
21 4 0.13
22 11 0.35
23 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAATATATTAATTTTAT
Found at i:914515 original size:19 final size:18
Alignment explanation
Indices: 914442--914515 Score: 55
Period size: 19 Copynumber: 4.1 Consensus size: 18
914432 AAATATAATC
* *
914442 ATTTAATATATTAACATAT
1 ATTTAATATATAAAAAT-T
914461 ATTTAAGTAT-TAAAAATT
1 ATTTAA-TATATAAAAATT
**
914479 ATTTTAA-A-ATAATTATT
1 A-TTTAATATATAAAAATT
914496 ATTTAATATAATAAAAATT
1 ATTTAATAT-ATAAAAATT
914515 A
1 A
914516 AATTAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
18 2 0.05
19 24 0.56
20 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (18 bp):
ATTTAATATATAAAAATT
Found at i:914677 original size:38 final size:37
Alignment explanation
Indices: 914632--914705 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
914622 TACCCATTGT
*
914632 TTATTATATTA-CTTAAAAGTCATTAAAATAATATTTTA
1 TTATTATATTATATTAAAA-T-ATTAAAATAATATTTTA
* *
914670 TTATTATATTATATTATAATATTAAAATTATATTTT
1 TTATTATATTATATTAAAATATTAAAATAATATTTT
914706 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 15 0.47
38 12 0.38
39 5 0.16
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (37 bp):
TTATTATATTATATTAAAATATTAAAATAATATTTTA
Found at i:914684 original size:13 final size:13
Alignment explanation
Indices: 914659--914693 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
914649 AGTCATTAAA
*
914659 ATAATATTTTATT
1 ATAATATTATATT
*
914672 ATTATATTATATT
1 ATAATATTATATT
914685 ATAATATTA
1 ATAATATTA
914694 AAATTATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATATTATATT
Found at i:915664 original size:26 final size:26
Alignment explanation
Indices: 915634--915709 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
915624 TATTGATAAG
915634 TTTTTATTTAAATTATTAAAAATTAT
1 TTTTTATTTAAATTATTAAAAATTAT
* * *
915660 TTTTTATTCACATGAATTAAAAATATAT
1 TTTTTATTTAAAT-TATTAAAAAT-TAT
* *
915688 TATTTA-ATAAATTA--AAAAATTA
1 TTTTTATTTAAATTATTAAAAATTA
915710 AATGGATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
23 2 0.05
24 6 0.15
26 12 0.30
27 12 0.30
28 8 0.20
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
TTTTTATTTAAATTATTAAAAATTAT
Found at i:919319 original size:2 final size:2
Alignment explanation
Indices: 919312--919338 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
919302 AGGTGATAAG
919312 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
919339 GTTGTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:922138 original size:3 final size:3
Alignment explanation
Indices: 922130--922168 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
922120 GGACACATAT
922130 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
922169 TGTTATTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:922543 original size:18 final size:18
Alignment explanation
Indices: 922514--922555 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
922504 ATTTAACATG
922514 AATAA-TTATTTTA-AAA
1 AATAATTTATTTTATAAA
922530 AATAATTTATTTTTATAAA
1 AATAATTTA-TTTTATAAA
922549 AA-AATTT
1 AATAATTT
922556 CTAACAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 3 0.13
18 10 0.43
19 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATAATTTATTTTATAAA
Found at i:923902 original size:62 final size:62
Alignment explanation
Indices: 923775--924350 Score: 708
Period size: 62 Copynumber: 9.2 Consensus size: 62
923765 TATGGAAGAA
* * * *
923775 TCAAAGAGCATGATGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGACA-CCTTTAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* *
923836 TCAAAGAGCAGGACGTTTTTTTTTTTTCAAAGCCCACACGAGTTGGTGGTACCCTTTAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * *
923898 TCAAAGAGTAGGACGTCTTTTTTCTTTTC-AAGCCCACACGAGTTGGTGCCATCCTTTAGTCC
1 TCAAAGAGCAGGACGT-TTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* *
923960 TCAAAGAGCAGGACGTCTTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACTCTTTAGTCC
1 TCAAAGAGCAGGACGT-TTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * ** * * * *
924023 TCAAAGAGTAAGATGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGACATCCTTCAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* ** * * *
924085 TCAAAGAGTAGGACGTCATTTTCTTTTCAAAGTCCACACGAGTTGATGGTACCCTTTAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * **
924147 TCAAAGAGCAGCACGCTTTTTTCTTTTCAAAGATCACACGAGTTGGTGGCACCCTTTAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * *
924209 TCAAAGAGCAAGACGCTTTTTCCTTTTTAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCC
1 TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * *
924271 TCAAGGAGCAGGACACTTTCCTTTCTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGT
1 TCAAAGAGCAGGAC-GTTT--TTT-T-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
924335 CC
61 CC
*
924337 TCAAGGAGCAGGAC
1 TCAAAGAGCAGGAC
924351 ACTTTCCTTA
Statistics
Matches: 448, Mismatches: 59, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
61 45 0.10
62 294 0.66
63 54 0.12
65 3 0.01
66 47 0.10
67 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (62 bp):
TCAAAGAGCAGGACGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
Found at i:924639 original size:42 final size:41
Alignment explanation
Indices: 924358--925377 Score: 851
Period size: 41 Copynumber: 23.9 Consensus size: 41
924348 GACACTTTCC
* * *
924358 TTATTTCCTTTTTTCCTTTGTCCTCAAAGAACAAGA--CATTT
1 TTATTTCC-TTTTTCCTTTGTCCTCAAAGAGCAGGACGCA-CT
* * * *
924399 TTCATTTCTTTCTTTCCCCTTTTGTCCTTAAAGAGCATGACGTACT
1 TT-ATTTCCTT-TTT--CC-TTTGTCCTCAAAGAGCAGGACGCACT
* * * * *
924445 TCATTTTCTCTTTTCCCTTTGTCCTCAAGGAGCAGGACACTCACC
1 TTA-TTTC-CTTTTTCCTTTGTCCTCAAAGAGCAGG--ACGCACT
* * *
924490 TCATTTCCTTTTTTTCCTTTAGTGCTCAAAGAGCACGACGC-C-
1 TTATTTCC--TTTTTCCTTT-GTCCTCAAAGAGCAGGACGCACT
* * * * *
924532 -T-TTTCCTTTTCTCTTTTATCCTCAAAGAGCA-AAAGACATT
1 TTATTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACG-CACT
* *
924572 TTGTTTCCTTCTTTTCTCTTTTGTCCTTAAAGAGCAGGACGCATTCT
1 TTATTTCC-T-TTTTC-C-TTTGTCCTCAAAGAGCAGGACGCA--CT
* * *
924619 TT-TTTCCTTTTTCCTTTGTCCTCAAAAAGCA-GAGCACACC
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGA-CGCACT
* *
924659 TCATTTCCTTATTTTCCCTTTGTTCTCAAAGAGCAGGACGCACT
1 TTATTTCC-T-TTTT-CCTTTGTCCTCAAAGAGCAGGACGCACT
* * * *
924703 TCATTTTCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACT
1 TTA-TTTCCT-TTTTC-CTTTGTCCTCAAAGAGCAGGACGCACT
*
924747 TCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACT
1 TTATTTCC-T-TTTT-CC-TTTGTCCTCAAAGAGCAGGACGCACT
* *
924792 TTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACT
1 TTATTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACGCACT
* * * * *
924834 TTATTTCCTTTTCCCTTTGTCCTAAAAAAGTAGGACACACT
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
* *
924875 TTATCTCCTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACT
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
* * *
924916 TCATTTCCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACT
1 TTATTTCC-T-TTTTC-CTTTGTCCTCAAAGAGCAGGACGCACT
*
924960 TCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACT
1 TTATTTCC-T-TTTT-CC-TTTGTCCTCAAAGAGCAGGACGCACT
* *
925005 TTATTTCC-TTTTCTCTTTCGTCCTCAAAGAGTAGGATGCACT
1 TTATTTCCTTTTTC-CTTT-GTCCTCAAAGAGCAGGACGCACT
* * * * *
925047 TTATTTCCTTTTCCCTTTGTCCTAAAAAAGTAGGACACACT
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
* *
925088 TTATCTCCTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACT
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
* * *
925129 TCATTTCCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACT
1 TTATTTCC-T-TTTTC-CTTTGTCCTCAAAGAGCAGGACGCACT
*
925173 TCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACT
1 TTATTTCC-T-TTTT-CC-TTTGTCCTCAAAGAGCAGGACGCACT
* *
925218 TTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACT
1 TTATTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACGCACT
* * * * *
925260 TTATTTCCTTTTCCCTTTGTCCTAAAAAAGTAGGACACACT
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
* * *
925301 TTATCTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACCCA-T
1 TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
*
925341 TTCA-TT-CTCTTTTCTTTTGTCCTCAAAGAGCAGGACG
1 TT-ATTTCCT-TTTTCCTTTGTCCTCAAAGAGCAGGACG
925378 TGCTCTTTTT
Statistics
Matches: 805, Mismatches: 119, Indels: 111
0.78 0.11 0.11
Matches are distributed among these distances:
37 2 0.00
38 17 0.02
39 7 0.01
40 36 0.04
41 192 0.24
42 146 0.18
43 53 0.07
44 164 0.20
45 154 0.19
46 28 0.03
47 6 0.01
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (41 bp):
TTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACT
Found at i:924687 original size:44 final size:44
Alignment explanation
Indices: 924360--925377 Score: 803
Period size: 44 Copynumber: 23.9 Consensus size: 44
924350 CACTTTCCTT
* * ****
924360 ATTTCCTT-TTTT-CCTTTGTCCTCAAAGAACAAGACATTTTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * * * *
924402 ATTTCTTTCTTTCCCCTTTTGTCCTTAAAGAGCATGACGTACTTC
1 ATTTCCTTATTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTC
* * * * *
924447 ATTTTC-TCTTTTCCCTTTGTCCTCAAGGAGCAGGACACTCACCTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGG--ACGCACTTC
* * *
924492 ATTTCCTT-TTTTTCCTTTAGTGCTCAAAGAGCACGACGC-C-T-
1 ATTTCCTTATTTTCCCTTT-GTCCTCAAAGAGCAGGACGCACTTC
* * * * * * *
924533 -TTTCCTT-TTCT-CTTTTATCCTCAAAGAGCA-AAAGACATTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACG-CACTTC
* * * *
924574 GTTTCCTTCTTTTCTCTTTTGTCCTTAAAGAGCAGGACGCA-TTC
1 ATTTCCTTATTTTC-CCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
924618 TTTTTTCC-T-TTTT-CCTTTGTCCTCAAAAAGCA-GAGCACACCTC
1 --ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGA-CGCACTTC
*
924661 ATTTCCTTATTTTCCCTTTGTTCTCAAAGAGCAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
924705 ATTTTCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
924749 ATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTT
1 ATTTCCTTATTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
924794 ATTTCCTT-TTCT-CTTTTGTCCTCAAAGAGCAGGATGCACTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * * *
924836 ATTTCC---TTTTCCCTTTGTCCTAAAAAAGTAGGACACACTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
924877 ATCTCC-T-TTTT-CCTTTGTCCTCAAGGAGCAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * *
924918 ATTTCCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
924962 ATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTT
1 ATTTCCTTATTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
925007 ATTTCC---TTTTCTCTTTCGTCCTCAAAGAGTAGGATGCACTTT
1 ATTTCCTTATTTTCCCTTT-GTCCTCAAAGAGCAGGACGCACTTC
* * * * *
925049 ATTTCC---TTTTCCCTTTGTCCTAAAAAAGTAGGACACACTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
925090 ATCTCC-T-TTTT-CCTTTGTCCTCAAGGAGCAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * *
925131 ATTTCCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
925175 ATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTT
1 ATTTCCTTATTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
925220 ATTTCCTT-TTCT-CTTTTGTCCTCAAAGAGCAGGATGCACTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * * *
925262 ATTTCC---TTTTCCCTTTGTCCTAAAAAAGTAGGACACACTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* * * *
925303 ATCTCC-T-TTTT-CCTTTGTCCTCAAAGAGCAAGACCCATTTC
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
* *
925344 A-TT-C-TCTTTT-CTTTTGTCCTCAAAGAGCAGGACG
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACG
925378 TGCTCTTTTT
Statistics
Matches: 804, Mismatches: 132, Indels: 82
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.00
38 13 0.02
39 6 0.01
40 43 0.05
41 176 0.22
42 159 0.20
43 39 0.05
44 180 0.22
45 165 0.21
46 21 0.03
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.40
Consensus pattern (44 bp):
ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC
Found at i:924930 original size:213 final size:213
Alignment explanation
Indices: 924454--925377 Score: 1320
Period size: 213 Copynumber: 4.3 Consensus size: 213
924444 TTCATTTTCT
* * * * * *
924454 CTTTTCCCTTTGTCCTCAAGGAGCAGGACACTCACCTCATTTCCTTTTTTTC-CTTTAGTGCTCA
1 CTTTTTCCTTTGTCCTCAAGGAGCAGG--ACGCACTTCATTTCCTTATTTTCTCTTT-GTCCTTA
* * * * * * * *
924518 AAGAGCACGACGC-C-T--TTT-C--CTTTTCTCTTTTATCCTCAAAGAGCA-AAAGACATTTTG
63 AAGAGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACG-CACTTTA
* * *
924575 TTTCCTTCTTTTCTCTTTTGTCCTTAAAGAGCAGGACGCATTCTTT-TTTCCTTTTTCCTTTGTC
127 TTT-C--CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCA--CTTTATTTCCTTTTCCCTTTGTC
* * * * *
924639 CTCAAAAAGCA-GAGCACACCTCATTTC
187 CTAAAAAAGTAGGA-CACACTTTATCTC
* * *
924666 CTTATTTTCCCTTTGTTCTCAAAGAGCAGGACGCACTTCATTTTCTTATTTTCTCTTTGTCCTTA
1 C-T-TTTT-CCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTA
924731 AAGAGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTAT
63 AAGAGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTAT
924796 TTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAA
128 TTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAA
924861 AAGTAGGACACACTTTATCTC
193 AAGTAGGACACACTTTATCTC
924882 CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
924947 AGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC
66 AGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC
* *
925012 CTTTTCTCTTTCGTCCTCAAAGAGTAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAAAAG
131 CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAAAAG
925077 TAGGACACACTTTATCTC
196 TAGGACACACTTTATCTC
925095 CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
925160 AGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC
66 AGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC
925225 CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAAAAG
131 CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAAAAG
925290 TAGGACACACTTTATCTC
196 TAGGACACACTTTATCTC
* * * * * *
925308 CTTTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCA-TT-C-TCTTTTCT-TTTGTCCTCAAAG
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
*
925369 AGCAGGACG
66 AGTAGGACG
925378 TGCTCTTTTT
Statistics
Matches: 659, Mismatches: 39, Indels: 31
0.90 0.05 0.04
Matches are distributed among these distances:
209 20 0.03
210 7 0.01
211 1 0.00
212 3 0.00
213 482 0.73
214 12 0.02
215 25 0.04
216 37 0.06
217 36 0.05
218 1 0.00
219 1 0.00
220 32 0.05
221 2 0.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (213 bp):
CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAG
AGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC
CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCTAAAAAAG
TAGGACACACTTTATCTC
Found at i:925279 original size:172 final size:168
Alignment explanation
Indices: 924326--925377 Score: 893
Period size: 172 Copynumber: 6.1 Consensus size: 168
924316 GTTGGTGGCA
* * * * * *
924326 CCTTTTAGTCCTCAAGGAGCAGGACACTTTCCTTATTTCCTTTTTTCCTTTGTCCTCAAAGAACA
1 CCTTTT-GTCCTCAAAGAGCAGGACGC--ACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCA
* * * * *
924391 AGA--CATTTTTCATTTCTTTCTTTCCCCTTTTGTCCTTAAAGAGCATGACGTACTTCATTTTCT
63 GGACGCA-CTTT-ATTTC--TCTTTTCCC-TTTGTCCTTAAAGAGCAGGACGCACTTCA-TTTC-
* * * * * *
924454 CTTTTCCCTTTGTCCTCAAGGAGCAGGACACTCACCTCATTTCCTTTTTTT
121 CTTTTTCCTTTGTCCTCAAAGAGCAGG--ACGCACTTCATTT-CTCTTTTC
* * * * * *
924505 CCTTTAGTGCTCAAAGAGCACGACGC-C--T-TTTCCTTTTCTCTTTTATCCTCAAAGAGCA-AA
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGA
* * * * *
924565 AGACATTTTGTTTCCTTCTTTTCTCTTTTGTCCTTAAAGAGCAGGACGCA-TTCTTTTTTCCTTT
66 CG-CACTTTATTT-C-TCTTTTC-CCTTTGTCCTTAAAGAGCAGGACGCACTTC--ATTTCCTTT
* * * *
924629 TTCCTTTGTCCTCAAAAAGCA-GAGCACACCTCATTTCCTTATTTTC
125 TTCCTTTGTCCTCAAAGAGCAGGA-CGCACTTCATTT-C-TCTTTTC
* * * * * *
924675 CC-TTTGTTCTCAAAGAGCAGGACGCACTTCATTTTCTTATTTTCTCTTTGTCCTTAAAGAGTAG
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTT-TTCTC-CTTTGTCCTCAAAGAGCAG
* * *
924739 GACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTT
64 GACGCACTTTATTT-C-TCTTTTCCC-TTTGTCCTTAAAGAGCAGGACGCACTTCATTTCCTTTT
* * *
924804 CTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTC-CTTTTC
126 -TCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCTCTTTTC
* * * * * *
924847 CC-TTTGTCCTAAAAAAGTAGGACACACTTTATCTCCTTTT-TCCTTTGTCCTCAAGGAGCAGGA
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGA
* * * *
924910 CGCACTTCATTTCCTTATTTTCTCTTTGTCCTTAAAGAGTAGGACGCACTTCATTTCCTTCTTTT
66 CGCACTTTATTT-C-TCTTTTCCCTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCC-T-TTTT
*
924975 CCCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC-CTTTTC
127 -CC-TTTGTCCTCAAAGAGCAGGACGCACTTCATTTCTCTTTTC
* * * * * * *
925018 TCTTTCGTCCTCAAAGAGTAGGATGCACTTTATTTCCTTTTC-CCTTTGTCCTAAAAAAGTAGGA
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGA
* * * * *
925082 CACACTTTATCTC-CTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTATTTTCT
66 CGCACTTTATTTCTCTTTTCCCTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCC-T-TTTTC-
* *
925146 CTTTGTCCTTAAAGAGTAGGACGCACTTCATTTCCTTCTTTTC
128 CTTTGTCCTCAAAGAGCAGGACGCACTTCATTT-C-TCTTTTC
*
925189 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGA
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGA
* * * * * * *
925254 TGCACTTTATTTC-CTTTTCCCTTTGTCCTAAAAAAGTAGGACACACTTTATCTCCTTTTTCCTT
66 CGCACTTTATTTCTCTTTTCCCTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCCTTTTTCCTT
* * *
925318 TGTCCTCAAAGAGCAAGACCCATTTCA-TTCTCTTTT-
131 TGTCCTCAAAGAGCAGGACGCACTTCATTTCTCTTTTC
925354 -CTTTTGTCCTCAAAGAGCAGGACG
1 CCTTTTGTCCTCAAAGAGCAGGACG
925378 TGCTCTTTTT
Statistics
Matches: 728, Mismatches: 114, Indels: 77
0.79 0.12 0.08
Matches are distributed among these distances:
164 24 0.03
166 6 0.01
167 1 0.00
168 64 0.09
169 144 0.20
170 20 0.03
171 113 0.16
172 218 0.30
173 13 0.02
174 17 0.02
175 81 0.11
176 6 0.01
178 16 0.02
179 5 0.01
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.40
Consensus pattern (168 bp):
CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGA
CGCACTTTATTTCTCTTTTCCCTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCCTTTTTCCTT
TGTCCTCAAAGAGCAGGACGCACTTCATTTCTCTTTTC
Found at i:926774 original size:20 final size:20
Alignment explanation
Indices: 926749--926801 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
926739 ATCAATACAT
926749 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTA-CAAA
* *
926769 TGTATCGATACTTGTTAGAAA
1 TGTATCGATACATG-TACAAA
926790 TGTATCGATACA
1 TGTATCGATACA
926802 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 14 0.50
22 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGTACAAA
Found at i:926879 original size:13 final size:13
Alignment explanation
Indices: 926861--926886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
926851 TACACACAAT
926861 ATGTATCGATACA
1 ATGTATCGATACA
926874 ATGTATCGATACA
1 ATGTATCGATACA
926887 TCCCAAAATG
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:926903 original size:33 final size:32
Alignment explanation
Indices: 926843--926906 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
926833 CTTAACTGTT
*
926843 TGTATCGATACACACAATATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
926875 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
926907 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:929718 original size:28 final size:28
Alignment explanation
Indices: 929656--929723 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
929646 CACAATCGAG
* *
929656 GATACTCTAACCCTATTATTTCTGAGGT
1 GATACTCTAATCCTATTATTTCTGAGGA
*
929684 GAGACTCTAATCCTATTATTTCTGAGGA
1 GATACTCTAATCCTATTATTTCTGAGGA
*
929712 GATACTCCAATC
1 GATACTCTAATC
929724 TCGGTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (28 bp):
GATACTCTAATCCTATTATTTCTGAGGA
Found at i:929824 original size:107 final size:106
Alignment explanation
Indices: 929582--929800 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 106
929572 TCACAAATAT
* * * * * *
929582 TCCAACCCTGTTATTTCTGAGGAGATACTCCAATCCCGGTTTTATTTTCGAAACATCAATTTTTC
1 TCCAATCCTATTATTTCTCA-GAAATACTCCAATCCCGGTTTTATTTTCAAAACATCAATTTTCC
* * *
929647 ACAATCGAGGATACTCTAACCCTATTATTTCTGAGGTGAGAC
65 ACAATCGAGGATACTCCAACCCTATTATTTCTGAAGAGAGAC
* * * * * *
929689 TCTAATCCTATTATTTCTGAGGAGATACTCCAATCTCGGTTTTATTTTTAAAACATCGATTTTCC
1 TCCAATCCTATTATTTCTCA-GAAATACTCCAATCCCGGTTTTATTTTCAAAACATCAATTTTCC
* * *
929754 ACAATC-AGGGATACTCCAACCCTGTTATTTTTGAAGAGATAC
65 ACAATCGA-GGATACTCCAACCCTATTATTTCTGAAGAGAGAC
929796 TCCAA
1 TCCAA
929801 CCTCGATTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 1 0.01
107 95 0.99
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (106 bp):
TCCAATCCTATTATTTCTCAGAAATACTCCAATCCCGGTTTTATTTTCAAAACATCAATTTTCCA
CAATCGAGGATACTCCAACCCTATTATTTCTGAAGAGAGAC
Found at i:929849 original size:74 final size:74
Alignment explanation
Indices: 929753--929900 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
929743 ATCGATTTTC
* * *
929753 CACAATCAGGGATACTCCAACCCTGTTATTTTTGAAGAGATACTCCAACCTCGATTTTATTTTCA
1 CACAATCAGGGATACTCCAACCCTATTATTTTCGAAGAGATACTCCAACCCCGATTTTATTTTCA
*
929818 AAATACTAA
66 AAACACTAA
* * * *
929827 CACAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTCA
1 CACAATCAGGGATACTCCAACCCTATTATTTTCGAAGAGATACTCCAACCCCGATTTTATTTTCA
929892 AAACACTAA
66 AAACACTAA
929901 TTTTTCACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (74 bp):
CACAATCAGGGATACTCCAACCCTATTATTTTCGAAGAGATACTCCAACCCCGATTTTATTTTCA
AAACACTAA
Found at i:929936 original size:51 final size:51
Alignment explanation
Indices: 929864--929980 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
929854 ATTTTCGAGG
* *
929864 GGATACTCCAACCCCGGTTTTATTTTCAAAACA-CTAATTTTTCACCATCGA
1 GGATACTCCAACCCCGATTTTATTTTCAAAACATC-AATTTTTCACAATCGA
* * * * *
929915 GGATACTCTAACTCCGATTTTATTTTCAGAACATCGATTTTTCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGA
929966 GGATACTCCAACCCC
1 GGATACTCCAACCCC
929981 ATTATTTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGA
Found at i:930000 original size:79 final size:78
Alignment explanation
Indices: 929917--930097 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 78
929907 ACCATCGAGG
* * *
929917 ATACTCTAACTCCGATTTTATTTTC-AGAACATCGATTTTTCACAATCGGGGATACTCCAACCCC
1 ATACTCTAAC-CCG-TTTTATTTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
*
929981 ATTATTTTTGAGGGA
64 ATTATTTCTGAGGGA
*
929996 ATACTCTAACCCTGGTTTTA-TTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAGCCCC
1 ATACTCTAACCC--GTTTTATTTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
* *
930060 GTTATTTCTGAGGGG
64 ATTATTTCTGAGGGA
*
930075 ATACTCCAACCCCGTCTTTATTT
1 ATACTCTAA-CCCGT-TTTATTT
930098 GTAAAATATT
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
78 8 0.09
79 74 0.84
80 6 0.07
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (78 bp):
ATACTCTAACCCGTTTTATTTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCAT
TATTTCTGAGGGA
Found at i:930103 original size:79 final size:79
Alignment explanation
Indices: 929951--930103 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
929941 CAGAACATCG
* * *
929951 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGAATACTCTAACCCTGGTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGAATACTCCAACCCTCGTTTTA
930016 TTTCTAAAACACCA
66 TTTCTAAAACACCA
* * *
930030 ATTTTTCACAATCGGGGATACTCCAGCCCCGTTATTTCTGAGGGGATACTCCAACCC-CGTCTTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGAATACTCCAACCCTCGT-TTT
*
930094 ATTTGTAAAA
65 ATTTCTAAAA
930104 TATTAAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 2 0.03
79 64 0.97
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGAATACTCCAACCCTCGTTTTA
TTTCTAAAACACCA
Found at i:931865 original size:26 final size:26
Alignment explanation
Indices: 931833--931907 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
931823 CCTATTATAT
*
931833 TATTTATTAATAAATAAAATTATTTA
1 TATTTATTAATAAATAAAATTAATTA
**
931859 TATTTATTTTTAAA-AAAATTTTAATTA
1 TATTTATTAATAAATAAAA--TTAATTA
*
931886 TATTTTTTTAAT-AATAAAATTA
1 TA-TTTATTAATAAATAAAATTA
931908 CATCATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
25 4 0.10
26 15 0.38
27 10 0.26
28 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTATTAATAAATAAAATTAATTA
Found at i:932226 original size:2 final size:2
Alignment explanation
Indices: 932219--932252 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
932209 ACCAAACTAA
932219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
932253 TCAATGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:935735 original size:3 final size:3
Alignment explanation
Indices: 935727--935769 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
935717 TTCTTTTTTG
935727 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
935770 CTTCATTGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:936627 original size:20 final size:20
Alignment explanation
Indices: 936604--936641 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
936594 TTTATATATA
936604 ATAATAAAAAATTATAAATT
1 ATAATAAAAAATTATAAATT
936624 ATAATAAAAAATTATAAA
1 ATAATAAAAAATTATAAA
936642 ATATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATAAAAAATTATAAATT
Found at i:936647 original size:23 final size:21
Alignment explanation
Indices: 936595--936640 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
936585 ATGTTTAAAT
*
936595 TTAT-ATATAATAATAAAAAA
1 TTATAATATTATAATAAAAAA
936615 TTATAA-ATTATAATAAAAAA
1 TTATAATATTATAATAAAAAA
936635 TTATAA
1 TTATAA
936641 AATATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTATAATATTATAATAAAAAA
Found at i:936700 original size:24 final size:26
Alignment explanation
Indices: 936673--936727 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
936663 ATATGAATAA
*
936673 CAAATAAAT-AAATTATATTTAT-TT
1 CAAATAAATAAAAATATATTTATATT
936697 CAAAT-AATAAAAATATATTTATATT
1 CAAATAAATAAAAATATATTTATATT
936722 -AAATAA
1 CAAATAA
936728 TAATTAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
CAAATAAATAAAAATATATTTATATT
Found at i:937035 original size:26 final size:24
Alignment explanation
Indices: 936984--937036 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
936974 TGTAAATTTT
*
936984 TATTTTTAATATTTATTAATAAAA
1 TATTTTTAATATTTATTAACAAAA
*
937008 TATTTTTATATAATTTATTAACAGAA
1 TATTTTTA-AT-ATTTATTAACAAAA
937034 TAT
1 TAT
937037 AAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.32
25 2 0.08
26 15 0.60
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTTTTAATATTTATTAACAAAA
Found at i:937079 original size:36 final size:37
Alignment explanation
Indices: 937034--937104 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 37
937024 ATTAACAGAA
937034 TATAAATATATAT-TAATAATGTAT-CCAAT-ATAAATT
1 TATAAATATATATAT-ATAAT-TATCCCAATGATAAATT
*
937070 TATATATATATATATATAATTATCCCAATGATAAA
1 TATAAATATATATATATAATTATCCCAATGATAAA
937105 ATAGTAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 3 0.10
36 22 0.71
37 6 0.19
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
TATAAATATATATATATAATTATCCCAATGATAAATT
Found at i:937508 original size:14 final size:13
Alignment explanation
Indices: 937489--937518 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
937479 AAGTTGAAAC
937489 TCTTTTTTTTCTTT
1 TCTTTTTTTT-TTT
937503 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
937516 TCT
1 TCT
937519 AAGGGCCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:940442 original size:2 final size:2
Alignment explanation
Indices: 940435--940463 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
940425 ATTGTCTCTT
940435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
940464 CAATTGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:941509 original size:19 final size:19
Alignment explanation
Indices: 941485--941526 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
941475 ACTTAGTGAT
941485 AATATTATTATACTCATTA
1 AATATTATTATACTCATTA
* *
941504 AATATTCTTATGCTCATTA
1 AATATTATTATACTCATTA
941523 AATA
1 AATA
941527 ATTGTGTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATTATTATACTCATTA
Found at i:942179 original size:20 final size:21
Alignment explanation
Indices: 942139--942180 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
942129 AAAGGAAAAA
* *
942139 TTAGTAAAATTATTAAAATAT
1 TTAGTAAAAATAATAAAATAT
942160 TTAGTAAAAATAAT-AAATAT
1 TTAGTAAAAATAATAAAATAT
942180 T
1 T
942181 ACAATGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTAGTAAAAATAATAAAATAT
Found at i:943209 original size:9 final size:9
Alignment explanation
Indices: 943191--943222 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
943181 AAATCTCATT
943191 AAATATAAA
1 AAATATAAA
943200 AAAT-TAAA
1 AAATATAAA
943208 AAATATAAA
1 AAATATAAA
943217 AAATAT
1 AAATAT
943223 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATATAAA
Found at i:946314 original size:20 final size:17
Alignment explanation
Indices: 946289--946328 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
946279 TTTCATAAAA
946289 AATAAAAATAATAAAATAAT
1 AATAAAAA-AA-AAAAT-AT
946309 AATAAAAAAAAAAATAT
1 AATAAAAAAAAAAATAT
946326 AAT
1 AAT
946329 TAATTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 2 0.10
20 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAAAAAAAAATAT
Found at i:946327 original size:14 final size:16
Alignment explanation
Indices: 946283--946332 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
946273 ATATCATTTC
*
946283 ATAAAAAATAAAAATA
1 ATAAAAAATATAAATA
946299 ATAAAATAATAATAAA-A
1 ATAAAA-AAT-ATAAATA
*
946316 A-AAAAAATATAATTA
1 ATAAAAAATATAAATA
946331 AT
1 AT
946333 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.14
15 5 0.18
16 10 0.36
17 5 0.18
18 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAAATATAAATA
Found at i:946336 original size:28 final size:26
Alignment explanation
Indices: 946283--946343 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
946273 ATATCATTTC
*
946283 ATAAAAAATAAAAATAATAAAATAAT
1 ATAAAAAAAAAAAATAATAAAATAAT
* *
946309 AATAAAAAAAAAAATATAATTAATTAAT
1 -ATAAAAAAAAAAA-ATAATAAAATAAT
946337 -TAAAAAA
1 ATAAAAAA
946344 TTAATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 7 0.23
27 12 0.40
28 11 0.37
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
ATAAAAAAAAAAAATAATAAAATAAT
Found at i:946536 original size:22 final size:22
Alignment explanation
Indices: 946494--946536 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
946484 TTAAATAATT
**
946494 TAAAATTTTTAATTTTTTTATA
1 TAAAATTTTTAATTTAATTATA
946516 TAAAATTTTT-ATCTTAATTAT
1 TAAAATTTTTAAT-TTAATTAT
946537 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAAATTTTTAATTTAATTATA
Found at i:949118 original size:3 final size:3
Alignment explanation
Indices: 949110--949148 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
949100 AATAAAAAGG
949110 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
949149 GGAACGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:957077 original size:21 final size:19
Alignment explanation
Indices: 957051--957100 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
957041 TGATCAATTA
957051 ATTAAAATAAAATTTTAAAT
1 ATTAAAATAAAATTTT-AAT
957071 ACTTAAAA-AATAATTTTAAT
1 A-TTAAAATAA-AATTTTAAT
957091 ATT-AAATAAA
1 ATTAAAATAAA
957101 TATTACTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 7 0.26
21 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAATAAAATTTTAAT
Found at i:957080 original size:23 final size:20
Alignment explanation
Indices: 957054--957102 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 20
957044 TCAATTAATT
957054 AAAATAAAATTTTAAATACTTAA
1 AAAAT-AAATTTT-AATA-TTAA
957077 AAAAT-AATTTTAATATTAA
1 AAAATAAATTTTAATATTAA
957096 ATAAATA
1 A-AAATA
957103 TTACTTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 6 0.25
23 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAAATTTTAATATTAA
Found at i:957101 original size:20 final size:20
Alignment explanation
Indices: 957061--957124 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
957051 ATTAAAATAA
957061 AATTTTAAATACTTAAA-AAAT
1 AATTTT-AATA-TTAAATAAAT
957082 AATTTTAATATTAAATAAAT
1 AATTTTAATATTAAATAAAT
*
957102 -ATTACTT-ATAGTAAATAAAT
1 AATT--TTAATATTAAATAAAT
957122 AAT
1 AAT
957125 AAAAGCATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 8 0.21
20 20 0.53
21 10 0.26
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTTAATATTAAATAAAT
Found at i:958140 original size:27 final size:27
Alignment explanation
Indices: 958110--958165 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
958100 ATTATGATAA
* *
958110 ATATTAATAATAAAAATATTAAATTAT
1 ATATTAACAATAAAAACATTAAATTAT
* *
958137 ATATTAACAATCAAAACATTATATTAT
1 ATATTAACAATAAAAACATTAAATTAT
958164 AT
1 AT
958166 TATGATCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATTAACAATAAAAACATTAAATTAT
Found at i:958498 original size:14 final size:15
Alignment explanation
Indices: 958479--958507 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
958469 ATTAATTCTG
958479 AAGAGAG-AAGAAGA
1 AAGAGAGAAAGAAGA
958493 AAGAGAGAAAGAAGA
1 AAGAGAGAAAGAAGA
958508 GACAAGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAGAGAGAAAGAAGA
Found at i:963539 original size:156 final size:157
Alignment explanation
Indices: 963356--963645 Score: 386
Period size: 156 Copynumber: 1.9 Consensus size: 157
963346 CAAATATATC
* * *
963356 TTTGACATGAAAGTATCATAATAATTCTAATGAACTTGGTCCTAAGACAAAATTACTAAAATACC
1 TTTGACATGAAAGTATCATAATAATTCTAAAGAACTCGATCCTAAGACAAAATTACTAAAATACC
* **
963421 CGTAAGACGTACTTTTAACGTGAAAATATCTT-GTAATTTTAAAGGACTCAATAATATCATGAAA
66 CGTAAGACGTACTTTTAACATGAAAATATCTTGGTAACCTTAAAGGACTCAATAATATCATGAAA
963485 ATGATGAATCTATCCATAAAGCACACA
131 ATGATGAATCTATCCATAAAGCACACA
* * * * ** * *
963512 TTTGACATGAAAGTATCCA-AGTGATTCTAAAGGACTCGATTCTAAGATGAGATTACTAAAATGC
1 TTTGACATGAAAGTAT-CATAATAATTCTAAAGAACTCGATCCTAAGACAAAATTACTAAAATAC
* ** * *
963576 CCTTAATTCGTACTTTTAACATGAAAGTATCTTGGTAACCTTAAAGGACTCGATAATATCATGAA
65 CCGTAAGACGTACTTTTAACATGAAAATATCTTGGTAACCTTAAAGGACTCAATAATATCATGAA
963641 AATGA
130 AATGA
963646 AAACATACCC
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
156 78 0.69
157 35 0.31
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (157 bp):
TTTGACATGAAAGTATCATAATAATTCTAAAGAACTCGATCCTAAGACAAAATTACTAAAATACC
CGTAAGACGTACTTTTAACATGAAAATATCTTGGTAACCTTAAAGGACTCAATAATATCATGAAA
ATGATGAATCTATCCATAAAGCACACA
Found at i:966363 original size:63 final size:63
Alignment explanation
Indices: 966276--966790 Score: 280
Period size: 63 Copynumber: 8.2 Consensus size: 63
966266 GATTAGGACA
* * * * *
966276 AAACCATAATAGTTAAGAAAATGACCAAGATAGAACCTTTTGTTAGAAAGATTGAGC-AGGGTG
1 AAACCATAATAGTTAAGGAGATGACCAAGGTAGAACCTTTTGTCAGAAAGATTGA-CTAAGGTG
* * * * * * *
966339 AAACAATAATAGTGAAGGAGATGACTAGGGCAAAACCTTTTATCAGAAAGATTGACTAAGGTG
1 AAACCATAATAGTTAAGGAGATGACCAAGGTAGAACCTTTTGTCAGAAAGATTGACTAAGGTG
* * * * * *
966402 AAACCATAACAGTTAAGGAG-T-AACTAGCATAGAACCTTTTGTCAGAAAG-TTAACCAAGGTG
1 AAACCATAATAGTTAAGGAGATGACCAAG-GTAGAACCTTTTGTCAGAAAGATTGACTAAGGTG
* * * ** ** * * *
966463 AAACCATAATAGTCAAGGA-AGTGACCAGGGTAGAAACTTCAGTTGGAATGATTGACTAGGGTA
1 AAACCATAATAGTTAAGGAGA-TGACCAAGGTAGAACCTTTTGTCAGAAAGATTGACTAAGGTG
* * ** * **
966526 AAACCATAATAGTTAAGAAGGTGACCAAGGTAGAA-CTTTCAATCAAAAAGATTGACCGAGGTG
1 AAACCATAATAGTTAAGGAGATGACCAAGGTAGAACCTTT-TGTCAGAAAGATTGACTAAGGTG
* * * *** ** * * * **
966589 AAAACATAATAGTCAAAGATG-TGACTGGGGT-GAAACCTTAAGTCAAAAAAATTGACTAGGGCA
1 AAACCATAATAGTTAAGGA-GATGACCAAGGTAG-AACCTTTTGTCAGAAAGATTGACTAAGGTG
* * * * * * * **
966652 AAACCATAATAGTT-AGAGAAATGACCAAGGTAGAATCTTTAGT-TGTAAAAATTAACTAGGGCA
1 AAACCATAATAGTTAAG-GAGATGACCAAGGTAGAACCTTTTGTCAG-AAAGATTGACTAAGGTG
* * * * * *
966715 AAACCATAATAGTCAAGGAGATAACC-AGGACAGAACCTTTAGTCAAAAAGATTGA-TGAGGATG
1 AAACCATAATAGTTAAGGAGATGACCAAGG-TAGAACCTTTTGTCAGAAAGATTGACTAAGG-TG
*
966778 AAATCATAATAGT
1 AAACCATAATAGT
966791 CAAAAAGGTG
Statistics
Matches: 337, Mismatches: 96, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
61 29 0.09
62 45 0.13
63 256 0.76
64 7 0.02
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (63 bp):
AAACCATAATAGTTAAGGAGATGACCAAGGTAGAACCTTTTGTCAGAAAGATTGACTAAGGTG
Found at i:966516 original size:124 final size:125
Alignment explanation
Indices: 966305--966542 Score: 286
Period size: 124 Copynumber: 1.9 Consensus size: 125
966295 AATGACCAAG
* * * * * *
966305 ATAGAACCTTTTGTTAGAAAGATTGAGCAGGGTGAAACAATAATAGTGAAGGAGATGACTAGGGC
1 ATAGAACCTTTTGTCAGAAAGATTAACCAAGGTGAAACAATAATAGTCAAGGAGATGACCAGGGC
* *
966370 AAAACCTTTTATCAGAAAGATTGACTAAGGTGAAACCATAACAGTTAAGGAGTAACTAGC
66 AAAACCTTTCATCAGAAAGATTGACTAAGGTAAAACCATAACAGTTAAGGAGTAACTAGC
*
966430 ATAGAACCTTTTGTCAGAAAG-TTAACCAAGGTGAAACCATAATAGTCAAGGA-AGTGACCAGGG
1 ATAGAACCTTTTGTCAGAAAGATTAACCAAGGTGAAACAATAATAGTCAAGGAGA-TGACCAGGG
* ** * * *
966493 TAGAAA-C-TTCAGTTGGAATGATTGACTAGGGTAAAACCATAATAGTTAAG
65 CA-AAACCTTTCA-TCAGAAAGATTGACTAAGGTAAAACCATAACAGTTAAG
966543 AAGGTGACCA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
123 4 0.04
124 68 0.72
125 23 0.24
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (125 bp):
ATAGAACCTTTTGTCAGAAAGATTAACCAAGGTGAAACAATAATAGTCAAGGAGATGACCAGGGC
AAAACCTTTCATCAGAAAGATTGACTAAGGTAAAACCATAACAGTTAAGGAGTAACTAGC
Found at i:966816 original size:189 final size:189
Alignment explanation
Indices: 966463--966816 Score: 421
Period size: 189 Copynumber: 1.9 Consensus size: 189
966453 AACCAAGGTG
* * ** * *
966463 AAACCATAATAGTCAAGGAAGTGACCAGGGTAGAAACTTCAGTTGGAATGATTGACTAGGGTAAA
1 AAACCATAATAGTCAAGGAAATGACCAAGGTAGAAACTTCAGTTGGAAAAATTAACTAGGGCAAA
* * * *
966528 ACCATAATAGTTAAGAAGGTGACCAAGGTAGAACTTTCAATCAAAAAGATTGACCGAGGTGAAAA
66 ACCATAATAGTCAAGAAGATAACCAAGGCAGAACTTTCAATCAAAAAGATTGACCGAGGTGAAAA
* * * **
966593 CATAATAGTCAAAGATGTGACTGGGGTGAAACCTTAAGTCAAAAAAATTGACTAGGGCA
131 CATAATAGTCAAAAAGGTGACTAGGGCAAAACCTTAAGTCAAAAAAATTGACTAGGGCA
* * * *
966652 AAACCATAATAGT-TAGAGAAATGACCAAGGTAGAATCTTTAGTTGTAAAAATTAACTAGGGCAA
1 AAACCATAATAGTCAAG-GAAATGACCAAGGTAGAAACTTCAGTTGGAAAAATTAACTAGGGCAA
* * *
966716 AACCATAATAGTCAAGGAGATAACC-AGGACAGAACCTTT-AGTCAAAAAGATTGA-TGAGGATG
65 AACCATAATAGTCAAGAAGATAACCAAGG-CAGAA-CTTTCAATCAAAAAGATTGACCGAGG-TG
*
966778 AAATCATAATAGTCAAAAAGGTGA-TCAGGGCAAAACCTT
127 AAAACATAATAGTCAAAAAGGTGACT-AGGGCAAAACCTT
966817 TAGTTGGAAA
Statistics
Matches: 137, Mismatches: 23, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
188 10 0.07
189 123 0.90
190 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (189 bp):
AAACCATAATAGTCAAGGAAATGACCAAGGTAGAAACTTCAGTTGGAAAAATTAACTAGGGCAAA
ACCATAATAGTCAAGAAGATAACCAAGGCAGAACTTTCAATCAAAAAGATTGACCGAGGTGAAAA
CATAATAGTCAAAAAGGTGACTAGGGCAAAACCTTAAGTCAAAAAAATTGACTAGGGCA
Found at i:966914 original size:63 final size:63
Alignment explanation
Indices: 966782--967021 Score: 225
Period size: 63 Copynumber: 3.8 Consensus size: 63
966772 AGGATGAAAT
* * * *
966782 CATAATAGTCAAAAAGGTGATCAGGGCAAAACCTTT-AGTTGGAAAGATTGACCAACACAAAAC
1 CATAATAGTCAAAGAGGTGACCAAGGCAAAA-CTTTCAGTTGGAAAGATTGACCAACGCAAAAC
** * * * * * *
966845 TTTAATAATCAAGGAGGTGACCAAGGCAGAACTTTCAGTCGGAAAGATTGACCAATGCGAAAC
1 CATAATAGTCAAAGAGGTGACCAAGGCAAAACTTTCAGTTGGAAAGATTGACCAACGCAAAAC
* * * * * *
966908 CATAATAGTTAAAGAAGTGACCATAGTG--AAACTTTTAGTTGTAAAGATTAACCAAGGCAAAAC
1 CATAATAGTCAAAGAGGTGACCA-AG-GCAAAACTTTCAGTTGGAAAGATTGACCAACGCAAAAC
* * * * *
966971 CATAATAGTCAATGAGGTGACTAAGGCAAAACCTCCAGTTGAAAAGATTGA
1 CATAATAGTCAAAGAGGTGACCAAGGCAAAACTTTCAGTTGGAAAGATTGA
967022 TGACGACAAA
Statistics
Matches: 138, Mismatches: 34, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
61 1 0.01
62 6 0.04
63 128 0.93
64 2 0.01
65 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (63 bp):
CATAATAGTCAAAGAGGTGACCAAGGCAAAACTTTCAGTTGGAAAGATTGACCAACGCAAAAC
Found at i:967039 original size:126 final size:123
Alignment explanation
Indices: 966447--967046 Score: 354
Period size: 126 Copynumber: 4.8 Consensus size: 123
966437 CTTTTGTCAG
** * * * * * *
966447 AAAG-TTAACCAAGGTGAAACCATAATAGTCAAGGAAGTGACCAGGGTAGAAACTTCAGTTGGAA
1 AAAGATTAACCAAGGCAAAACCATAATAGTCAAGGAGGTGA-CAAGGCAGAACCTTCAGTCGAAA
* * ** * ***
966511 TGATTGACT-AGGGTAAAACCATAATAGTT-AAGAAGGTGACCAAG-GTAGAACTTTCAATCAA
65 AGATTGA-TGACGACAAAACCATAATAGTTAAAGAA-GTGACCAAGTG-A-AACTTT-AGTTGT
* * * * * ** ** * *
966572 AAAGATTGACCGAGGTGAAAA-CATAATAGTCAAAGATGTGACTGGGGTGAAACCTTAAGTCAAA
1 AAAGATTAACCAAGG-CAAAACCATAATAGTCAAGGAGGTGACAAGGCAG-AACCTTCAGTCGAA
* * * * * *
966636 AAAATTGACT-AGGGCAAAACCATAATAGTTAGAGAAATGACCAAGGTAGAATCTTTAGTTGT
64 AAGATTGA-TGACGACAAAACCATAATAGTTAAAGAAGTGACCAA-GT-GAAACTTTAGTTGT
* * * * * * * *
966698 AAAAATTAACTAGGGCAAAACCATAATAGTCAAGGAGATAACCAGGACAGAACCTTTAGTCAAAA
1 AAAGATTAACCAAGGCAAAACCATAATAGTCAAGGAGGTGACAAGG-CAGAACCTTCAGTCGAAA
* ** * * * * *
966763 AGATTGATGAGGATGAAATCATAATAGTCAAA-AAGGTGATC-AGGGCAAAACCTTTAGTTGG
65 AGATTGATGACGACAAAACCATAATAGTTAAAGAA-GTGACCAAGTG--AAA-CTTTAGTTGT
* ** ** * * *
966824 AAAGATTGACCAACACAAAACTTTAATAATCAAGGAGGTGACCAAGGCAGAACTTTCAGTCGGAA
1 AAAGATTAACCAAGGCAAAACCATAATAGTCAAGGAGGTGA-CAAGGCAGAACCTTCAGTCGAAA
** * *
966889 AGATTGACCAATG-CGAAACCATAATAGTTAAAGAAGTGACCATAGTGAAACTTTTAGTTGT
65 AGATTGA-TGACGACAAAACCATAATAGTTAAAGAAGTGACCA-AGTGAAAC-TTTAGTTGT
* * * *
966950 AAAGATTAACCAAGGCAAAACCATAATAGTCAATGAGGTGACTAAGGCAAAACCTCCAGTTGAAA
1 AAAGATTAACCAAGGCAAAACCATAATAGTCAAGGAGGTGAC-AAGGCAGAACCTTCAGTCGAAA
*
967015 AGATTGATGACGACAAAACTATAATAGTTAAA
65 AGATTGATGACGACAAAACCATAATAGTTAAA
967047 TAAAAGAGTA
Statistics
Matches: 360, Mismatches: 93, Indels: 43
0.73 0.19 0.09
Matches are distributed among these distances:
123 1 0.00
124 1 0.00
125 23 0.06
126 308 0.86
127 22 0.06
128 4 0.01
129 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (123 bp):
AAAGATTAACCAAGGCAAAACCATAATAGTCAAGGAGGTGACAAGGCAGAACCTTCAGTCGAAAA
GATTGATGACGACAAAACCATAATAGTTAAAGAAGTGACCAAGTGAAACTTTAGTTGT
Found at i:968573 original size:23 final size:22
Alignment explanation
Indices: 968508--968573 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
968498 AATATAAATT
* * *
968508 TAAACTTAAACCTATTTAAATC
1 TAAACTAAAACCTAATTAAACC
*
968530 TAAAGTAAAATCC-AATCTAAACC
1 TAAACTAAAA-CCTAAT-TAAACC
968553 TAAACTAAAAGCCTAATTAAA
1 TAAACTAAAA-CCTAATTAAA
968574 ACAAAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 10 0.29
23 22 0.63
24 3 0.09
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (22 bp):
TAAACTAAAACCTAATTAAACC
Found at i:968961 original size:20 final size:20
Alignment explanation
Indices: 968932--969091 Score: 129
Period size: 20 Copynumber: 8.7 Consensus size: 20
968922 TTTACCCGGA
968932 TGTATCGATACATTT-TGCAT
1 TGTATCGATACATTTCT-CAT
*
968952 TGTATTGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
968972 TGTATCGAT--A-----CAT
1 TGTATCGATACATTTCTCAT
*
968985 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTTCTCAT
969005 TGTATCGAT--A-----CAT
1 TGTATCGATACATTTCTCAT
*
969018 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTTCTCAT
*
969038 TGTATCGATACATTT-TACAA
1 TGTATCGATACATTTCT-CAT
*
969058 TGTATCGATACATTT-TACAA
1 TGTATCGATACATTTCT-CAT
969078 TGTATCGATACATT
1 TGTATCGATACATT
969092 CAGGCATTTT
Statistics
Matches: 120, Mismatches: 4, Indels: 32
0.77 0.03 0.21
Matches are distributed among these distances:
13 24 0.20
15 2 0.02
18 2 0.02
19 1 0.01
20 90 0.75
21 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:968995 original size:33 final size:33
Alignment explanation
Indices: 968949--969051 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
968939 ATACATTTTG
* *
968949 CATTGTATTGATACATTTCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
968982 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
969015 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
969048 CATT
1 CATT
969052 TTACAATGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:969006 original size:53 final size:51
Alignment explanation
Indices: 968932--969091 Score: 162
Period size: 53 Copynumber: 3.0 Consensus size: 51
968922 TTTACCCGGA
* *
968932 TGTATCGATACATTTTGCATTGTATTGATACATTTCTCATTGTATCGATACAT
1 TGTATCGATACATTTTACATTGTATCGATACATTT-TCA-TGTATCGATACAT
* ** * *
968985 TGTATCGATACATTGCT-CATTGTATCGATACATTGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTACATTGTATCGATACATT-T-TC-ATGTATCGATACAT
*
969038 TGTATCGATACATTTTACAATGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACATTTTACATTGTATCGATACATTTT-C-ATGTATCGATACAT
969091 T
1 T
969092 CAGGCATTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
51 1 0.01
52 9 0.10
53 67 0.77
54 9 0.10
55 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (51 bp):
TGTATCGATACATTTTACATTGTATCGATACATTTTCATGTATCGATACAT
Done.