Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 204 of 218
Found at i:60318694 original size:20 final size:20
Alignment explanation
Indices: 60318657--60318694 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60318647 GGCCTTTAGA
*
60318657 TGGGTTAGGTTTGTTGGGTC
1 TGGGTTAGGTTTGGTGGGTC
60318677 TGGG-TAGGTTTAGGTGGG
1 TGGGTTAGGTTT-GGTGGG
60318695 CATTGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.08, C:0.03, G:0.50, T:0.39
Consensus pattern (20 bp):
TGGGTTAGGTTTGGTGGGTC
Found at i:60318802 original size:17 final size:17
Alignment explanation
Indices: 60318772--60318808 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60318762 ATAATTTCAA
*
60318772 GAGTCAATACGAAATTT
1 GAGTCAATAAGAAATTT
*
60318789 GAGTCCATAAGAAATTT
1 GAGTCAATAAGAAATTT
60318806 GAG
1 GAG
60318809 AAATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGTCAATAAGAAATTT
Found at i:60322425 original size:20 final size:20
Alignment explanation
Indices: 60322400--60322437 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60322390 AAATTTTGAG
60322400 ATTTTTGAAATATATTTTTA
1 ATTTTTGAAATATATTTTTA
*
60322420 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATATATTTT
60322438 GAACTGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTGAAATATATTTTTA
Found at i:60322478 original size:33 final size:32
Alignment explanation
Indices: 60322436--60322497 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 32
60322426 GAAATTTATT
60322436 TTGAACTGCCTTTTGATCCATTATTCGAGGGGA
1 TTGAACTGCCTTTTGATCC-TTATTCGAGGGGA
*
60322469 TTGAACTGCCTTTTGATCCTTATTTGAGG
1 TTGAACTGCCTTTTGATCCTTATTCGAGG
60322498 ATGTTTGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (32 bp):
TTGAACTGCCTTTTGATCCTTATTCGAGGGGA
Found at i:60325979 original size:4 final size:4
Alignment explanation
Indices: 60325970--60326007 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
60325960 TCATGTGTAT
60325970 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
60326008 GGCCTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:60326367 original size:17 final size:17
Alignment explanation
Indices: 60326337--60326373 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60326327 ATAATGTCAA
*
60326337 GAGTCAATACGAAATTT
1 GAGTCAATAAGAAATTT
*
60326354 GAGTCCATAAGAAATTT
1 GAGTCAATAAGAAATTT
60326371 GAG
1 GAG
60326374 AAATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGTCAATAAGAAATTT
Found at i:60327449 original size:20 final size:20
Alignment explanation
Indices: 60327424--60327461 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60327414 AAATTTTGAG
60327424 ATTTTTGAAATATATTTTTA
1 ATTTTTGAAATATATTTTTA
*
60327444 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATATATTTT
60327462 GAACTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTGAAATATATTTTTA
Found at i:60327936 original size:16 final size:17
Alignment explanation
Indices: 60327915--60327952 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
60327905 TTTAATCTTT
60327915 TAAAATTATAAAGAT-A
1 TAAAATTATAAAGATGA
*
60327931 TAAAA-TATTAAGATGA
1 TAAAATTATAAAGATGA
60327947 TAAAAT
1 TAAAAT
60327953 AATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
TAAAATTATAAAGATGA
Found at i:60328760 original size:16 final size:16
Alignment explanation
Indices: 60328715--60328757 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
60328705 GTAAAGTTTA
60328715 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
60328731 AATATTTTAATTAAGAT
1 AATATTTT-ATTAAAAT
60328748 AAT-TTTTATT
1 AATATTTTATT
60328758 TAATAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:60334692 original size:103 final size:104
Alignment explanation
Indices: 60334512--60334699 Score: 281
Period size: 103 Copynumber: 1.8 Consensus size: 104
60334502 TTTAAGAATG
* * *
60334512 TGTTGGGCTAAGTAACCAGGATGGGGTGTTTGGTTATCATCTTTCTTTGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
60334577 ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
66 ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
* * * *
60334616 TGTTGGGCTGAGTAACCGGGGT-GGGTGCTTGGTTGTCATCTCTCTTCGCG-CGAAAAGGTTCAA
1 TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTC-AAAAGGTTCAA
*
60334679 TATATTCTTAAGAAAAGAAAA
65 TATATTATTAAGAAAAGAAAA
60334700 AAAAAGAAGA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
102 1 0.01
103 55 0.73
104 19 0.25
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (104 bp):
TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
Found at i:60339794 original size:18 final size:20
Alignment explanation
Indices: 60339771--60339813 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60339761 ATTTTTTCAA
*
60339771 ATATT-ATTGATA-AATTTT
1 ATATTAATTAATATAATTTT
*
60339789 ATATTAATTAATATATTTTT
1 ATATTAATTAATATAATTTT
60339809 ATATT
1 ATATT
60339814 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTAATTAATATAATTTT
Found at i:60343069 original size:15 final size:16
Alignment explanation
Indices: 60343049--60343082 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
60343039 TCAGTTTTTT
60343049 TTCTTTCTT-TCTTTC
1 TTCTTTCTTATCTTTC
*
60343064 TTCTTTCTTATGTTTC
1 TTCTTTCTTATCTTTC
60343080 TTC
1 TTC
60343083 CGCCATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (16 bp):
TTCTTTCTTATCTTTC
Found at i:60355745 original size:20 final size:22
Alignment explanation
Indices: 60355720--60355772 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
60355710 TCCATTATAA
60355720 ATATTTTATTAA-TTATAC-AC
1 ATATTTTATTAATTTATACAAC
*
60355740 ATATTTGA-TAATTTATACATAC
1 ATATTTTATTAATTTATACA-AC
60355762 ATGATTTTATT
1 AT-ATTTTATT
60355773 GACATCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
22 4 0.15
23 5 0.19
24 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATTTTATTAATTTATACAAC
Found at i:60362575 original size:31 final size:30
Alignment explanation
Indices: 60362520--60362595 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
60362510 ACGTGAAAGG
* **
60362520 CTTAATTGATTTATT-ATTATTTTAGGAGGT
1 CTTAATTGATTT-TTAAGTATTTTAGGAGAA
*
60362550 CTTAATTGACTTTTTAAGTATTTTAGTAGAA
1 CTTAATTGA-TTTTTAAGTATTTTAGGAGAA
60362581 CTTAATTGATTTTTA
1 CTTAATTGATTTTTA
60362596 GGGACTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 17 0.43
31 23 0.57
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (30 bp):
CTTAATTGATTTTTAAGTATTTTAGGAGAA
Found at i:60362686 original size:18 final size:17
Alignment explanation
Indices: 60362660--60362693 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60362650 TTTTAATTTT
60362660 TTATAATATTTAATAAC
1 TTATAATATTTAATAAC
*
60362677 TTATATATATTTTATAA
1 TTATA-ATATTTAATAA
60362694 TTTTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATATTTAATAAC
Found at i:60362689 original size:28 final size:27
Alignment explanation
Indices: 60362648--60362739 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 27
60362638 AAAGAGCAAC
* *
60362648 AATTTTAATTTTTTATAATATT-TAATA
1 AATTATAATATTTTATAAT-TTATAATA
* * *
60362675 ACTTATATATATTTTATAATTTTCTAAAA
1 AATTATA-ATATTTTATAA-TTTATAATA
*
60362704 AATTATAATATTATGATAATTTATAATA
1 AATTATAATATT-TTATAATTTATAATA
*
60362732 AGTTATAA
1 AATTATAA
60362740 GTTTTTTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
27 5 0.10
28 31 0.60
29 16 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
AATTATAATATTTTATAATTTATAATA
Found at i:60362738 original size:46 final size:48
Alignment explanation
Indices: 60362660--60362753 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 48
60362650 TTTTAATTTT
**
60362660 TTATAATATTTAATAACTTATATATATTTTATAA-TTTTCTAA-AAAA
1 TTATAATATTTAATAACTTATATATAAGTTATAAGTTTTCTAATAAAA
* * *
60362706 TTATAATATTATGATAATTTATA-ATAAGTTATAAGTTTTTTAATAAAA
1 TTATAATATT-TAATAACTTATATATAAGTTATAAGTTTTCTAATAAAA
60362754 ATTACTATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 19 0.47
47 17 0.43
48 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (48 bp):
TTATAATATTTAATAACTTATATATAAGTTATAAGTTTTCTAATAAAA
Found at i:60363224 original size:28 final size:27
Alignment explanation
Indices: 60363193--60363261 Score: 63
Period size: 28 Copynumber: 2.4 Consensus size: 27
60363183 ATCAATCAAA
60363193 TTTTATAACATTTA-GCAATATTT-ATAAT
1 TTTTATAA-ATTTATG--ATATTTAATAAT
60363221 TTTT-TAAAATTTTATGATATTTAATAAT
1 TTTTAT-AAA-TTTATGATATTTAATAAT
60363249 TTTCTATAAATTT
1 TTT-TATAAATTT
60363262 TATAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
27 8 0.23
28 21 0.60
29 5 0.14
30 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTATAAATTTATGATATTTAATAAT
Found at i:60363226 original size:10 final size:10
Alignment explanation
Indices: 60363209--60363281 Score: 50
Period size: 9 Copynumber: 7.8 Consensus size: 10
60363199 AACATTTAGC
60363209 AATA-TTTAT
1 AATATTTTAT
60363218 AAT-TTTT-T
1 AATATTTTAT
*
60363226 AAAATTTTAT
1 AATATTTTAT
* *
60363236 GATATTTAAT
1 AATATTTTAT
60363246 AAT-TTTCTAT
1 AATATTT-TAT
60363256 AA-ATTTTAT
1 AATATTTTAT
**
60363265 AATAAATT-T
1 AATATTTTAT
60363274 AATATTTT
1 AATATTTT
60363282 CAATTTAGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
8 3 0.06
9 25 0.52
10 20 0.42
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
AATATTTTAT
Found at i:60363287 original size:55 final size:55
Alignment explanation
Indices: 60363231--60363336 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 55
60363221 TTTTTAAAAT
*
60363231 TTTA-TGATATTTA-ATAATTTTCTATAAATTT-TATAATAAATTTAATATTTTCAA
1 TTTAGTGATATTTATATAATTTTCTAT-AATTTCTAAAAT-AATTTAATATTTTCAA
* * *
60363285 TTTAGTTATTTTTATATAATTTTCTATAATTTCTAAAATATTTTAATATTTT
1 TTTAGTGATATTTATATAATTTTCTATAATTTCTAAAATAATTTAATATTTT
60363337 AAAAAAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 4 0.09
55 24 0.53
56 17 0.38
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (55 bp):
TTTAGTGATATTTATATAATTTTCTATAATTTCTAAAATAATTTAATATTTTCAA
Found at i:60366674 original size:29 final size:26
Alignment explanation
Indices: 60366576--60366674 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 26
60366566 ATGTTTAAAA
60366576 AATTT-ATATT-T-TTTTATATATTTAG
1 AATTTAATATTCTATTTTAT-T-TTTAG
* *
60366601 AATTTAATATTCT-TTGTATATTTAG
1 AATTTAATATTCTATTTTATTTTTAG
60366626 AATTTAATATTCATATTTTTATTTTTAG
1 AATTTAATATTC-TA-TTTTATTTTTAG
60366654 AAATTTAATCATTCTACTTTT
1 -AATTTAAT-ATTCTA-TTTT
60366675 CGAATTTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
25 22 0.35
26 6 0.10
27 6 0.10
28 10 0.16
29 14 0.23
30 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (26 bp):
AATTTAATATTCTATTTTATTTTTAG
Found at i:60373941 original size:11 final size:11
Alignment explanation
Indices: 60373925--60373959 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
60373915 TATAAATTTC
60373925 AAAAATTTATA
1 AAAAATTTATA
*
60373936 AAAAATTTACA
1 AAAAATTTATA
*
60373947 AAAAATATATA
1 AAAAATTTATA
60373958 AA
1 AA
60373960 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTTATA
Found at i:60373955 original size:20 final size:20
Alignment explanation
Indices: 60373918--60373959 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
60373908 TGGCAGATAT
*
60373918 AAATTTCAAAAATTTATAAA
1 AAATTTCAAAAATATATAAA
60373938 AAATTTACAAAAAATATATAAA
1 AAATTT-C-AAAAATATATAAA
60373960 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTTCAAAAATATATAAA
Found at i:60376822 original size:14 final size:14
Alignment explanation
Indices: 60376803--60376832 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60376793 GAGATTTATG
*
60376803 AATCTATTTATAAA
1 AATCTATATATAAA
60376817 AATCTATATATAAA
1 AATCTATATATAAA
60376831 AA
1 AA
60376833 AATCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATCTATATATAAA
Found at i:60385674 original size:17 final size:18
Alignment explanation
Indices: 60385652--60385686 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60385642 TGTAAGTAAT
60385652 TTAAAATT-TTCAATTAA
1 TTAAAATTATTCAATTAA
*
60385669 TTAAAATTATTTAATTAA
1 TTAAAATTATTCAATTAA
60385687 AAACCTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATTATTCAATTAA
Found at i:60387239 original size:17 final size:17
Alignment explanation
Indices: 60387219--60387255 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60387209 GTATTTTAAT
*
60387219 TTAAAAATTTAACAATA
1 TTAAAAATTTAAAAATA
*
60387236 TTAAATATTTAAAAATA
1 TTAAAAATTTAAAAATA
60387253 TTA
1 TTA
60387256 TGAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATTTAAAAATA
Found at i:60387770 original size:24 final size:24
Alignment explanation
Indices: 60387715--60387763 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
60387705 TGCCGGGGAT
*
60387715 TATGTTGTCCCTCCACCAGTACCA
1 TATGTTGACCCTCCACCAGTACCA
60387739 TATGTTGACCCTCCACCAGTACCA
1 TATGTTGACCCTCCACCAGTACCA
60387763 T
1 T
60387764 TGATTGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (24 bp):
TATGTTGACCCTCCACCAGTACCA
Found at i:60390062 original size:61 final size:61
Alignment explanation
Indices: 60389925--60390110 Score: 327
Period size: 61 Copynumber: 3.0 Consensus size: 61
60389915 GAACCCTCCA
60389925 AAAAAACACATATATATAAATTGTGAAAATAATGTGGGAATTTGCTTGTTATGATTTGTGT
1 AAAAAACACATATATATAAATTGTGAAAATAATGTGGGAATTTGCTTGTTATGATTTGTGT
* *
60389986 AAAAAACACATATATATATAAATTGTGAAAATATTGTGGGGATTTGCTTGTTATGATTTGTGT
1 AAAAAACAC--ATATATATAAATTGTGAAAATAATGTGGGAATTTGCTTGTTATGATTTGTGT
*
60390049 AAAAAACACATATATATAAATTGTGAAAATAATGTGGGAATTTGGTTGTTATGATTTGTGT
1 AAAAAACACATATATATAAATTGTGAAAATAATGTGGGAATTTGCTTGTTATGATTTGTGT
60390110 A
1 A
60390111 TGTTTAACTG
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
61 59 0.50
63 59 0.50
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (61 bp):
AAAAAACACATATATATAAATTGTGAAAATAATGTGGGAATTTGCTTGTTATGATTTGTGT
Found at i:60395857 original size:11 final size:11
Alignment explanation
Indices: 60395824--60395858 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
60395814 TGCATGATAT
*
60395824 TGAACATTATA
1 TGAAAATTATA
60395835 TGAAAATGTATA
1 TGAAAAT-TATA
60395847 TGAAAATTATA
1 TGAAAATTATA
60395858 T
1 T
60395859 ATCTTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (11 bp):
TGAAAATTATA
Found at i:60398317 original size:32 final size:32
Alignment explanation
Indices: 60398271--60398352 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
60398261 TGTCAATTAT
*
60398271 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAACTTAAAACATAATAAA
* * * *
60398303 TTCAATATCTAACAAATTTAAGACATAATAAT
1 TTCAATATCCAACAAACTTAAAACATAATAAA
*
60398335 TTCAAAATCCAACAAACT
1 TTCAATATCCAACAAACT
60398353 AATTTCTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAACTTAAAACATAATAAA
Found at i:60406834 original size:4 final size:4
Alignment explanation
Indices: 60406827--60406858 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
60406817 GAAATTAATT
60406827 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
60406859 ATAACATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:60413073 original size:9 final size:9
Alignment explanation
Indices: 60413040--60413078 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
60413030 AGTAAATTTG
60413040 ATTTTTAAA
1 ATTTTTAAA
60413049 A-TTTTAAA
1 ATTTTTAAA
*
60413057 ATTGTTAAA
1 ATTTTTAAA
60413066 ATTTTTAATA
1 ATTTTTAA-A
60413076 ATT
1 ATT
60413079 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 14 0.54
10 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:60413149 original size:29 final size:30
Alignment explanation
Indices: 60413107--60413164 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
60413097 ATCTTTTCTA
*
60413107 TTTTAGTAATTTTTAATTTTAAATAATTTT
1 TTTTAGTAATTTTTAATTTTAAAAAATTTT
* *
60413137 TTTTA-TATTTTTTCATTTTAAAAAATTT
1 TTTTAGTAATTTTTAATTTTAAAAAATTT
60413165 AGGGTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTAGTAATTTTTAATTTTAAAAAATTTT
Found at i:60431203 original size:21 final size:22
Alignment explanation
Indices: 60431179--60431225 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
60431169 CTCTGCTCAA
* *
60431179 ACTCTACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
60431200 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
60431222 ACTC
1 ACTC
60431226 ACTCCTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:60436273 original size:228 final size:231
Alignment explanation
Indices: 60435854--60436304 Score: 696
Period size: 228 Copynumber: 1.9 Consensus size: 231
60435844 CATTAAACTA
*
60435854 AGTTTTATTATAATGTCATTTTTTACATGAATATTAAGTGAGTAATTTTTTTATATATATTTTAA
1 AGTTTTATTATAATGTCATTTTTTACATGAATATTAAGTAAGTAATTTTTTTATATATATTTTAA
* * *
60435919 AGTGTCACACTAATGAATTTAACAGAACAATTTAATGGTGTTAACAATTAGATCTAAATTCTAAA
66 AGTATCACACTAATAAATTTAACACAACAATTTAATGGTG------ATTAGATCTAAATTCTAAA
*
60435984 ATCTAAAAAAAAAAGAGACTAAGTTATTGGAAATAAAATTAGAAAGACTAAATTCTAAATGTATA
125 ATCTAAAAAAAAAAGAGACTAAGTTATTGGAAATAAAAGTAGAAAGACTAAATTCTAAATGTATA
*
60436049 AAGTATAGAGGAGTTTGGAGCATATTTTTTTTTGTTAAATTC
190 AAATATAGAGGAGTTTGGAGCATATTTTTTTTTGTTAAATTC
*
60436091 AGTTTTATTATAATGTCATTTTTTTTACATGAATGTTAAGTAAGTAATTTTTTT-T-TATATTTT
1 AGTTTTATTATAATGTCA--TTTTTTACATGAATATTAAGTAAGTAATTTTTTTATATATATTTT
* *
60436154 AAAGTATCACACTAATAAATTTAACACAACAATTTAAT-G-G-TTAGATCTAAATTCTGACATCT
64 AAAGTATCACACTAATAAATTTAACACAACAATTTAATGGTGATTAGATCTAAATTCTAAAATCT
* *
60436216 AAAAAAAAGAGAGACTAAGTTATTGGAAATAAAAGTAGAAAGACTAAATTTTAAATGTATAAAAT
129 AAAAAAAAAAGAGACTAAGTTATTGGAAATAAAAGTAGAAAGACTAAATTCTAAATGTATAAAAT
60436281 ATAGAGGAGTTTGGAGCATATTTT
194 ATAGAGGAGTTTGGAGCATATTTT
60436305 AACCTTATTA
Statistics
Matches: 201, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
228 105 0.52
235 1 0.00
236 1 0.00
237 61 0.30
238 1 0.00
239 32 0.16
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (231 bp):
AGTTTTATTATAATGTCATTTTTTACATGAATATTAAGTAAGTAATTTTTTTATATATATTTTAA
AGTATCACACTAATAAATTTAACACAACAATTTAATGGTGATTAGATCTAAATTCTAAAATCTAA
AAAAAAAAGAGACTAAGTTATTGGAAATAAAAGTAGAAAGACTAAATTCTAAATGTATAAAATAT
AGAGGAGTTTGGAGCATATTTTTTTTTGTTAAATTC
Found at i:60438773 original size:23 final size:23
Alignment explanation
Indices: 60438745--60438798 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
60438735 TCTCCTTATG
* * *
60438745 CTTCTTTTCTTATTTTTTTTCTT
1 CTTCTTTTCTTATTTCTCTTCAT
* *
60438768 CTTCTTCTCTTCTTTCTCTTCAT
1 CTTCTTTTCTTATTTCTCTTCAT
60438791 CTTCTTTT
1 CTTCTTTT
60438799 ACCACCTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (23 bp):
CTTCTTTTCTTATTTCTCTTCAT
Found at i:60443521 original size:15 final size:15
Alignment explanation
Indices: 60443501--60443532 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60443491 GATGTTATTG
60443501 TTGTTCTGATTGTAA
1 TTGTTCTGATTGTAA
60443516 TTGTTCTGATTGTAA
1 TTGTTCTGATTGTAA
60443531 TT
1 TT
60443533 ATATTGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (15 bp):
TTGTTCTGATTGTAA
Found at i:60449987 original size:2 final size:2
Alignment explanation
Indices: 60449980--60450004 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60449970 GAAATTTTAA
60449980 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 A
60450005 AGTTTCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60451615 original size:18 final size:18
Alignment explanation
Indices: 60451594--60451631 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
60451584 CCAAAAGGAT
60451594 CTGTGAGTGTCGAAGCAC
1 CTGTGAGTGTCGAAGCAC
*
60451612 CTGTGAGTGTTGAAGCAC
1 CTGTGAGTGTCGAAGCAC
60451630 CT
1 CT
60451632 ACAGTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
CTGTGAGTGTCGAAGCAC
Found at i:60451809 original size:18 final size:18
Alignment explanation
Indices: 60451795--60451829 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60451785 CCAAAAGGAG
60451795 CTGCGAGTGTCAAAGCAA
1 CTGCGAGTGTCAAAGCAA
* *
60451813 CTGTGAGTGTCGAAGCA
1 CTGCGAGTGTCAAAGCA
60451830 CCTACAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (18 bp):
CTGCGAGTGTCAAAGCAA
Found at i:60451819 original size:201 final size:198
Alignment explanation
Indices: 60451473--60451987 Score: 746
Period size: 201 Copynumber: 2.6 Consensus size: 198
60451463 GAGTGTTGAG
60451473 GCACCTACGGTTAATGAAGTTGATGATGGTGGCTCAAGCGTTACCAGTGGTAAGTTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGAT-A-GGTGGCTCAAGCGTTA-CAGTGGTAAGTTGAGGAGAAG
* * *
60451538 GACATGCTATGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATCTGTGAGTG
63 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGTG
* * * * * *
60451603 TCGAAGCACCTGTGAGTGTTGAAGCACCTACAGTTAATGAAGTTGGTAACAGTGGTTCGATGGTT
128 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
60451668 AATGAA
193 AATGAA
* * *
60451674 GCACCTACAGCTAATGAAGTTGATAACGGTGGCTCAAGCATTACTAGTGGTAAGTTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGAT-A-GGTGGCTCAAGCGTTAC-AGTGGTAAGTTGAGGAGAAG
* *
60451739 GACATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGTCCAAAAGGAGCTGCGAGTG
63 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGTG
60451804 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
128 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
60451869 AATGAA
193 AATGAA
* * * * * *
60451875 GCACCTACGGTTAACGAAGTTGCT-GATGGCTC-GGCTGTTAGCAGTGGGAAATTGAGGAGAAGG
1 GCACCTACGGTTAATGAAGTTGATAGGTGGCTCAAGC-GTTA-CAGTGGTAAGTTGAGGAGAAGG
* *
60451938 ACATGCTACGAGTGCGGACAAAAGGGTCATATCTCTTCTGCTTGCCCAAA
64 ACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAA
60451988 TAAGAAATCT
Statistics
Matches: 282, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
197 2 0.01
198 75 0.27
199 1 0.00
200 1 0.00
201 203 0.72
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (198 bp):
GCACCTACGGTTAATGAAGTTGATAGGTGGCTCAAGCGTTACAGTGGTAAGTTGAGGAGAAGGAC
ATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGTGTCA
AAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTTAAT
GAA
Found at i:60452885 original size:21 final size:21
Alignment explanation
Indices: 60452861--60452915 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
60452851 TAATTTTAGT
60452861 TTTTTAGTGGAAAA-CTTGGAA
1 TTTTTAGTGGAAAAGCTT-GAA
*
60452882 -TTTTAGAGGAAAAGCTTGAA
1 TTTTTAGTGGAAAAGCTTGAA
*
60452902 TTTTTATTGGAAAA
1 TTTTTAGTGGAAAA
60452916 ATTATTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (21 bp):
TTTTTAGTGGAAAAGCTTGAA
Found at i:60457892 original size:15 final size:15
Alignment explanation
Indices: 60457872--60457901 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60457862 TTCCGAAGAA
*
60457872 GGAAAGAGGCTAAAC
1 GGAAAGAAGCTAAAC
60457887 GGAAAGAAGCTAAAC
1 GGAAAGAAGCTAAAC
60457902 ATTTCAGAAG
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:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (15 bp):
GGAAAGAAGCTAAAC
Found at i:60458980 original size:36 final size:36
Alignment explanation
Indices: 60458940--60459070 Score: 138
Period size: 36 Copynumber: 3.6 Consensus size: 36
60458930 AATAGAAGTG
*
60458940 ATAATTACAAATTTAAAAATAAATAGAATTTAAATT
1 ATAATTATAAATTTAAAAATAAATAGAATTTAAATT
* * * * *
60458976 ATAATTATTAA-TTAAAAATTTGAAATAAAATTGAAGTG
1 ATAATTATAAATTTAAAAA--T-AAATAGAATTTAAATT
*
60459014 ATAATTATAGATTTAAAAATAAATAGAATTTAAATT
1 ATAATTATAAATTTAAAAATAAATAGAATTTAAATT
* * *
60459050 ATATTTATTAATTAAAAAATA
1 ATAATTATAAATTTAAAAATA
60459071 CATGTTAATT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
35 7 0.09
36 38 0.51
37 2 0.03
38 21 0.28
39 7 0.09
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (36 bp):
ATAATTATAAATTTAAAAATAAATAGAATTTAAATT
Found at i:60459002 original size:74 final size:74
Alignment explanation
Indices: 60458874--60459067 Score: 280
Period size: 74 Copynumber: 2.6 Consensus size: 74
60458864 TTAAATTCAC
* * * *
60458874 ATTTAAAAATAATTATAATGTTTAATTTAGAATTATTAATTAAAAAGTTAAAATAAAATAGAAGT
1 ATTTAAAAATAAATAGAA--TTTAAATTATAATTATTAATTAAAAAGTTAAAATAAAATAGAAGT
60458939 GATAATTACAA
64 GATAATTACAA
* * *
60458950 ATTTAAAAATAAATAGAATTTAAATTATAATTATTAATTAAAAATTTGAAATAAAATTGAAGTGA
1 ATTTAAAAATAAATAGAATTTAAATTATAATTATTAATTAAAAAGTTAAAATAAAATAGAAGTGA
* *
60459015 TAATTATAG
66 TAATTACAA
*
60459024 ATTTAAAAATAAATAGAATTTAAATTATATTTATTAATTAAAAA
1 ATTTAAAAATAAATAGAATTTAAATTATAATTATTAATTAAAAA
60459068 ATACATGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 92 0.85
76 16 0.15
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.38
Consensus pattern (74 bp):
ATTTAAAAATAAATAGAATTTAAATTATAATTATTAATTAAAAAGTTAAAATAAAATAGAAGTGA
TAATTACAA
Found at i:60461235 original size:16 final size:16
Alignment explanation
Indices: 60461214--60461265 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
60461204 TTTGGTTCGC
60461214 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60461230 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
60461246 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
60461262 TGTA
1 TGTA
60461266 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60461312 original size:45 final size:44
Alignment explanation
Indices: 60461246--60461340 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
60461236 GGATTAGAGG
* * *
60461246 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
60461291 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
60461335 TGTAAT
1 TGTAAT
60461341 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:60461523 original size:18 final size:17
Alignment explanation
Indices: 60461502--60461536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60461492 TTATTATTTA
*
60461502 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60461520 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60461537 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60461530 original size:28 final size:27
Alignment explanation
Indices: 60461460--60461532 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
60461450 TTTATTATCA
*
60461460 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
60461488 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
60461515 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
60461533 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:60461670 original size:18 final size:17
Alignment explanation
Indices: 60461649--60461683 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60461639 TTATTATTAA
*
60461649 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60461667 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60461684 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60461695 original size:147 final size:149
Alignment explanation
Indices: 60461421--60461695 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
60461411 ATGATTATTG
*
60461421 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
60461486 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGT
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGT
60461551 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
60461570 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
60461633 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
60461696 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGT
AGAAATTTGTTTTGGTAAA
Found at i:60461802 original size:17 final size:17
Alignment explanation
Indices: 60461751--60461802 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
60461741 AAATATAAAT
60461751 TAAAATA-ATAATTT--
1 TAAAATATATAATTTAA
60461765 T-AAATATAT--TTTAA
1 TAAAATATATAATTTAA
60461779 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
60461797 TAAAAT
1 TAAAAT
60461803 TCTAATAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.10
13 5 0.16
14 3 0.10
15 1 0.03
16 8 0.26
17 6 0.19
18 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:60461808 original size:29 final size:29
Alignment explanation
Indices: 60461748--60461808 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
60461738 GTAAAATATA
* *
60461748 AATTAAAATAATAATTTTAAATATATTTT
1 AATTAAAATAATAATTTTAAATAAATTCT
60461777 AATTAAAATATATAA-TTT-AATAAAATTCT
1 AATTAAAATA-ATAATTTTAAAT-AAATTCT
60461806 AAT
1 AAT
60461809 AATCAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 21 0.75
30 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTAAAATAATAATTTTAAATAAATTCT
Found at i:60461854 original size:118 final size:119
Alignment explanation
Indices: 60461629--60461922 Score: 482
Period size: 119 Copynumber: 2.5 Consensus size: 119
60461619 TTACTCATAT
*
60461629 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATT-TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
60461694 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
64 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
60461750 TTAAAATAATAATTTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCA
1 TTAAAATAATAATTTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
60461814 ATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 ATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* * *
60461868 TTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTTTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
60461923 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
118 67 0.41
119 84 0.51
120 8 0.05
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (119 bp):
TTAAAATAATAATTTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:60465052 original size:22 final size:22
Alignment explanation
Indices: 60465021--60465064 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60465011 TACACCAAAA
* *
60465021 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
60465043 TAGGCCTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
60465065 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:60465200 original size:43 final size:43
Alignment explanation
Indices: 60465136--60465298 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
60465126 GCGTCGCTAA
* * *
60465136 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
*
60465179 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* * *
60465222 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* **
60465265 TTTTAGCGGCGCTTTTCAAACAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAA
60465299 AATATATCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
Found at i:60468709 original size:14 final size:14
Alignment explanation
Indices: 60468690--60468726 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
60468680 TAAAACCCTA
*
60468690 AATCCCTAACTCCT
1 AATCCCTAACTCAT
60468704 AATCCCTAACTCAT
1 AATCCCTAACTCAT
*
60468718 AACCCCTAA
1 AATCCCTAA
60468727 ACCTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAACTCAT
Found at i:60468742 original size:21 final size:21
Alignment explanation
Indices: 60468682--60468750 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
60468672 CCGACCCTTA
*
60468682 AAACCCTAAATCCCTAACTCCT
1 AAACCCTAAATCCC-AACCCCT
* * **
60468704 AATCCCTAACTCATAACCCCT
1 AAACCCTAAATCCCAACCCCT
* *
60468725 AAACCTTAAATCCCAACCCTT
1 AAACCCTAAATCCCAACCCCT
60468746 AAACC
1 AAACC
60468751 ATAATCCTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCCCAACCCCT
Found at i:60469900 original size:41 final size:40
Alignment explanation
Indices: 60469824--60470015 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 40
60469814 AATATTTTTT
* **
60469824 GCGGCGCTTTTTAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
60469864 GCGGCGCTTTATCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTT-TCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
60469905 GCGGCGCTTCTTCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
60469946 GCGGCGCTTCTCCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
*
60469987 GCAGCGCTTTTCGAAAAACGCCGCTAAAG
1 GCGGCGCTTTTC-AAAAACGCCGCTAAAG
60470016 CCCTGAAAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 25 0.18
41 110 0.79
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:60470115 original size:39 final size:38
Alignment explanation
Indices: 60470053--60470187 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
60470043 TGTGCTTGGG
* ** * * *
60470053 TTTTTTGCGGCGCTTTTTGAAAAATGCCACTAATGTTCA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATGTTGA
* *
60470092 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATACTGGA
1 TTTTTAGCGGCGTTTTCC-AAAAACGCCGCTAAT-GTTGA
* * *
60470132 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATG-TTGA
60470172 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
60470188 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCCAAAAACGCCGCTAATGTTGA
Found at i:60470188 original size:40 final size:41
Alignment explanation
Indices: 60470072--60470188 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
60470062 GCGCTTTTTG
* * *
60470072 AAAAATGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * *
60470111 AAAAACGCCGCTAATACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* *
60470151 TAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
60470189 TGTTCAAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.20
40 46 0.71
41 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:60473671 original size:28 final size:28
Alignment explanation
Indices: 60473623--60473692 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 28
60473613 TTCAGAGAAA
* * * *
60473623 AATTTT-AA-AAAAATTTAAGAATTGAG
1 AATTTTGAATAAAAAATCAAGAATTAAC
60473649 AATTTTGAATAAAAAATCAAGAATTAAC
1 AATTTTGAATAAAAAATCAAGAATTAAC
**
60473677 AATTGAGAATAAAAAA
1 AATTTTGAATAAAAAA
60473693 AATTTGAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 6 0.17
27 2 0.06
28 28 0.78
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.29
Consensus pattern (28 bp):
AATTTTGAATAAAAAATCAAGAATTAAC
Found at i:60475919 original size:17 final size:17
Alignment explanation
Indices: 60475883--60475920 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
60475873 ATCATCGGTT
*
60475883 AAATTTTAAATTTACCA
1 AAATTTTAAATTTACAA
*
60475900 AAATTTTAAATTTAGAA
1 AAATTTTAAATTTACAA
60475917 AAAT
1 AAAT
60475921 ATATCATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATTTTAAATTTACAA
Found at i:60478533 original size:832 final size:832
Alignment explanation
Indices: 60476930--60478590 Score: 3322
Period size: 832 Copynumber: 2.0 Consensus size: 832
60476920 TAACCTTTAA
60476930 ATTTTTACTCTATAATTTACTCAATAAATAAATAATCGAAAACCTAGTTGGGTGAAACCATTCTA
1 ATTTTTACTCTATAATTTACTCAATAAATAAATAATCGAAAACCTAGTTGGGTGAAACCATTCTA
60476995 GTATACTTTAATTGAATCCTCTAATCAAAATCAAAATTAATTAAAATTATCTCTATTTGATCAAT
66 GTATACTTTAATTGAATCCTCTAATCAAAATCAAAATTAATTAAAATTATCTCTATTTGATCAAT
60477060 TAATTCAATTTTAATTAAATTTTGATTAGTTTTAATCCTTTGTTTCTAATTGTGGGTATAGGATA
131 TAATTCAATTTTAATTAAATTTTGATTAGTTTTAATCCTTTGTTTCTAATTGTGGGTATAGGATA
60477125 TTATAATCGGCAGTACAGACACAACATCTACAACAATGGAATGGGCGATGACGGAATTACTACGA
196 TTATAATCGGCAGTACAGACACAACATCTACAACAATGGAATGGGCGATGACGGAATTACTACGA
60477190 CACCCAAATAAACTACGAAGAGTCACCGAGGAATTGGATGCAATAATTGGGGACCAAACTAGCGT
261 CACCCAAATAAACTACGAAGAGTCACCGAGGAATTGGATGCAATAATTGGGGACCAAACTAGCGT
60477255 TGAAGAGTCCCATCTTCCTCGTTTGCCCTACTTAGAAGCAGTGCTGAAAGAAACGTTCCGAATTC
326 TGAAGAGTCCCATCTTCCTCGTTTGCCCTACTTAGAAGCAGTGCTGAAAGAAACGTTCCGAATTC
60477320 ACCCACCGGCTCCCTTGTTATTTCCGCACATGTCGAGCGAGACCACAATCGTAGCTGGTTACACC
391 ACCCACCGGCTCCCTTGTTATTTCCGCACATGTCGAGCGAGACCACAATCGTAGCTGGTTACACC
60477385 ATCCCTAAAAATTCCAATATTTTCTTCAACGTGTGGGCAATACAAAGGGATGCCGAGTTCTGGGA
456 ATCCCTAAAAATTCCAATATTTTCTTCAACGTGTGGGCAATACAAAGGGATGCCGAGTTCTGGGA
60477450 AGACCCTCTTCGATTCGAGCCAGAAAGGTTCTTGAAAGACACTGAGAAAAGGAATTATACAGGAA
521 AGACCCTCTTCGATTCGAGCCAGAAAGGTTCTTGAAAGACACTGAGAAAAGGAATTATACAGGAA
60477515 ATTGTTTCCATTTTTTCCCGTTTGGATCGGGGAGGAGGATTTGTGTTGGGATTCCATTGGCAGAG
586 ATTGTTTCCATTTTTTCCCGTTTGGATCGGGGAGGAGGATTTGTGTTGGGATTCCATTGGCAGAG
60477580 AAAATTATGATGCAGATTTTGGCGACATTGTTGCATTGTTTTGAATGGGAATTGCCAAATGGGAG
651 AAAATTATGATGCAGATTTTGGCGACATTGTTGCATTGTTTTGAATGGGAATTGCCAAATGGGAG
60477645 AAAACCTGATGTAAAAGAGAAGCTACAATTGGTGTTGTCGAAGGCGGAGCCGCTTGTTGTTGTGC
716 AAAACCTGATGTAAAAGAGAAGCTACAATTGGTGTTGTCGAAGGCGGAGCCGCTTGTTGTTGTGC
60477710 CTATTGTGCGTTTATCTAATTTGAGGCAATACGAATAAATGTGTGGTTATAT
781 CTATTGTGCGTTTATCTAATTTGAGGCAATACGAATAAATGTGTGGTTATAT
60477762 ATTTTTACTCTATAATTTACTCAATAAATAAATAATCGAAAACCTAGTTGGGTGAAACCATTCTA
1 ATTTTTACTCTATAATTTACTCAATAAATAAATAATCGAAAACCTAGTTGGGTGAAACCATTCTA
60477827 GTATACTTTAATTGAATCCTCTAATCAAAATCAAAATTAATTAAAATTATCTCTATTTGATCAAT
66 GTATACTTTAATTGAATCCTCTAATCAAAATCAAAATTAATTAAAATTATCTCTATTTGATCAAT
60477892 TAATTCAATTTTAATTAAATTTTGATTAGTTTTAATCCTTTGTTTCTAATTGTGGGTATAGGATA
131 TAATTCAATTTTAATTAAATTTTGATTAGTTTTAATCCTTTGTTTCTAATTGTGGGTATAGGATA
60477957 TTATAATCGGCAGTACAGACACAACATCTACAACAATGGAATGGGCGATGACGGAATTACTACGA
196 TTATAATCGGCAGTACAGACACAACATCTACAACAATGGAATGGGCGATGACGGAATTACTACGA
60478022 CACCCAAATAAACTACGAAGAGTCACCGAGGAATTGGATGCAATAATTGGGGACCAAACTAGCGT
261 CACCCAAATAAACTACGAAGAGTCACCGAGGAATTGGATGCAATAATTGGGGACCAAACTAGCGT
60478087 TGAAGAGTCCCATCTTCCTCGTTTGCCCTACTTAGAAGCAGTGCTGAAAGAAACGTTCCGAATTC
326 TGAAGAGTCCCATCTTCCTCGTTTGCCCTACTTAGAAGCAGTGCTGAAAGAAACGTTCCGAATTC
60478152 ACCCACCGGCTCCCTTGTTATTTCCGCACATGTCGAGCGAGACCACAATCGTAGCTGGTTACACC
391 ACCCACCGGCTCCCTTGTTATTTCCGCACATGTCGAGCGAGACCACAATCGTAGCTGGTTACACC
60478217 ATCCCTAAAAATTCCAATATTTTCTTCAACGTGTGGGCAATACAAAGGGATGCCGAGTTCTGGGA
456 ATCCCTAAAAATTCCAATATTTTCTTCAACGTGTGGGCAATACAAAGGGATGCCGAGTTCTGGGA
60478282 AGACCCTCTTCGATTCGAGCCAGAAAGGTTCTTGAAAGACACTGAGAAAAGGAATTATACAGGAA
521 AGACCCTCTTCGATTCGAGCCAGAAAGGTTCTTGAAAGACACTGAGAAAAGGAATTATACAGGAA
60478347 ATTGTTTCCATTTTTTCCCGTTTGGATCGGGGAGGAGGATTTGTGTTGGGATTCCATTGGCAGAG
586 ATTGTTTCCATTTTTTCCCGTTTGGATCGGGGAGGAGGATTTGTGTTGGGATTCCATTGGCAGAG
60478412 AAAATTATGATGCAGATTTTGGCGACATTGTTGCATTGTTTTGAATGGGAATTGCCAAATGGGAG
651 AAAATTATGATGCAGATTTTGGCGACATTGTTGCATTGTTTTGAATGGGAATTGCCAAATGGGAG
60478477 AAAACCTGATGTAAAAGAGAAGCTACAATTGGTGTTGTCGAAGGCGGAGCCGCTTGTTGTTGTGC
716 AAAACCTGATGTAAAAGAGAAGCTACAATTGGTGTTGTCGAAGGCGGAGCCGCTTGTTGTTGTGC
60478542 CTATTGTGCGTTTATCTAATTTGAGGCAATACGAATAAATGTGTGGTTA
781 CTATTGTGCGTTTATCTAATTTGAGGCAATACGAATAAATGTGTGGTTA
60478591 AAATATGTTT
Statistics
Matches: 829, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
832 829 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (832 bp):
ATTTTTACTCTATAATTTACTCAATAAATAAATAATCGAAAACCTAGTTGGGTGAAACCATTCTA
GTATACTTTAATTGAATCCTCTAATCAAAATCAAAATTAATTAAAATTATCTCTATTTGATCAAT
TAATTCAATTTTAATTAAATTTTGATTAGTTTTAATCCTTTGTTTCTAATTGTGGGTATAGGATA
TTATAATCGGCAGTACAGACACAACATCTACAACAATGGAATGGGCGATGACGGAATTACTACGA
CACCCAAATAAACTACGAAGAGTCACCGAGGAATTGGATGCAATAATTGGGGACCAAACTAGCGT
TGAAGAGTCCCATCTTCCTCGTTTGCCCTACTTAGAAGCAGTGCTGAAAGAAACGTTCCGAATTC
ACCCACCGGCTCCCTTGTTATTTCCGCACATGTCGAGCGAGACCACAATCGTAGCTGGTTACACC
ATCCCTAAAAATTCCAATATTTTCTTCAACGTGTGGGCAATACAAAGGGATGCCGAGTTCTGGGA
AGACCCTCTTCGATTCGAGCCAGAAAGGTTCTTGAAAGACACTGAGAAAAGGAATTATACAGGAA
ATTGTTTCCATTTTTTCCCGTTTGGATCGGGGAGGAGGATTTGTGTTGGGATTCCATTGGCAGAG
AAAATTATGATGCAGATTTTGGCGACATTGTTGCATTGTTTTGAATGGGAATTGCCAAATGGGAG
AAAACCTGATGTAAAAGAGAAGCTACAATTGGTGTTGTCGAAGGCGGAGCCGCTTGTTGTTGTGC
CTATTGTGCGTTTATCTAATTTGAGGCAATACGAATAAATGTGTGGTTATAT
Found at i:60489462 original size:23 final size:22
Alignment explanation
Indices: 60489422--60489473 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
60489412 AAAAAAATAT
60489422 ATATTTATATTATATTATTTTA
1 ATATTTATATTATATTATTTTA
* *
60489444 ATATTTAATATTTTTTTATTTT-
1 ATATTT-ATATTATATTATTTTA
*
60489466 TTATTTAT
1 ATATTTAT
60489474 TGAAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
23 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATATTTATATTATATTATTTTA
Found at i:60491987 original size:18 final size:18
Alignment explanation
Indices: 60491939--60491987 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
60491929 CAAATTAGAT
*
60491939 AAAAATGATTATTTTATAA
1 AAAAATTATT-TTTTATAA
*
60491958 AAAAATTAATTTTTTCTAA
1 AAAAATT-ATTTTTTATAA
60491977 AAAAATTATTT
1 AAAAATTATTT
60491988 CATTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 20 0.74
20 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAAATTATTTTTTATAA
Found at i:60492278 original size:14 final size:15
Alignment explanation
Indices: 60492259--60492292 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
60492249 TTTAAAAATA
60492259 TTTTTATTTTT-ATT
1 TTTTTATTTTTAATT
60492273 TTTTTATTTTTAATT
1 TTTTTATTTTTAATT
60492288 TTTTT
1 TTTTT
60492293 TTGTGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTTAATT
Found at i:60492282 original size:20 final size:20
Alignment explanation
Indices: 60492257--60492294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60492247 ACTTTAAAAA
60492257 TATTTTT-ATTTTTATTTTTT
1 TATTTTTAATTTTT-TTTTTT
60492277 TATTTTTAATTTTTTTTT
1 TATTTTTAATTTTTTTTT
60492295 GTGTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (20 bp):
TATTTTTAATTTTTTTTTTT
Found at i:60492283 original size:15 final size:14
Alignment explanation
Indices: 60492259--60492292 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
60492249 TTTAAAAATA
*
60492259 TTTTTATTTTTATT
1 TTTTTATTTTAATT
60492273 TTTTTATTTTTAATT
1 TTTTTA-TTTTAATT
60492288 TTTTT
1 TTTTT
60492293 TTGTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTAATT
Found at i:60493725 original size:6 final size:6
Alignment explanation
Indices: 60493705--60493755 Score: 84
Period size: 6 Copynumber: 8.2 Consensus size: 6
60493695 AACAATTTTT
60493705 TTAATA TTCATATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TT-A-ATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
60493755 T
1 T
60493756 ATTTTATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 36 0.84
7 2 0.05
8 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:60500449 original size:23 final size:23
Alignment explanation
Indices: 60500423--60500495 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
60500413 AGTGCCACAT
60500423 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
60500446 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
60500469 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
60500492 TGAT
1 TGAT
60500496 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:60500595 original size:8 final size:8
Alignment explanation
Indices: 60500582--60500610 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
60500572 ACCCGGGACT
60500582 CACTGTAA
1 CACTGTAA
60500590 CACTGTAA
1 CACTGTAA
60500598 CACTGTAA
1 CACTGTAA
60500606 CACTG
1 CACTG
60500611 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:60500755 original size:18 final size:17
Alignment explanation
Indices: 60500729--60500767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
60500719 ATTTTCCTTC
60500729 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
60500746 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
60500764 CACA
1 CACA
60500768 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:60510044 original size:5 final size:5
Alignment explanation
Indices: 60510034--60510062 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
60510024 GCATGCTTGG
60510034 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
60510063 CCCAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:60510237 original size:14 final size:15
Alignment explanation
Indices: 60510212--60510241 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60510202 TTTAATCTAA
60510212 ATTTTAAATTGATTT
1 ATTTTAAATTGATTT
60510227 ATTTT-AATTGATTT
1 ATTTTAAATTGATTT
60510241 A
1 A
60510242 AGTCTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
ATTTTAAATTGATTT
Found at i:60514239 original size:3 final size:3
Alignment explanation
Indices: 60514193--60514227 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
60514183 AACATAAACA
60514193 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
60514228 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:60515935 original size:44 final size:42
Alignment explanation
Indices: 60515840--60516168 Score: 188
Period size: 46 Copynumber: 7.6 Consensus size: 42
60515830 TTTAATCCAT
* * * * *
60515840 TCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCCTCGATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-CTCTGCTTGATCTGC
* *
60515883 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCTCT-GCTT-GATCTGC
* * * * * *
60515927 TCCACTGTAACCTCAGGAAGATAAGATCTGAAATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTGATCTGC
* *
60515973 TCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTC
1 TCCACTGTAATCTCAGGGAGATAAGATCTCTGCT-TGATCTGC
* * * * *
60516014 TCTACTGTAA-CTTCAGAGAGATACGATC-CT--TTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCTCTGCTTGATCTGC
* * * *
60516053 TCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCT-CT-GC-TTGATCTGC
* * * * *
60516097 TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTGATCTGC
60516143 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
60516169 CCTGTATTAT
Statistics
Matches: 222, Mismatches: 44, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.11
40 6 0.03
41 27 0.12
42 5 0.02
43 25 0.11
44 63 0.28
45 2 0.01
46 64 0.29
47 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
TCCACTGTAATCTCAGGGAGATAAGATCTCTGCTTGATCTGC
Found at i:60515988 original size:46 final size:45
Alignment explanation
Indices: 60515876--60516168 Score: 220
Period size: 46 Copynumber: 6.7 Consensus size: 45
60515866 TAGTGTCCTC
* * * *
60515876 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTC
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTT
* * *
60515920 AATCTGCTCCACTGTAACCTCAGGAAGATAAGATCTGAAATTCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTT
* * * *
60515966 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTT
* * * *
60516007 GATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-ATCCTTT
1 GATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTT
* * * * * *
60516046 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTT
*
60516090 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTT
* *
60516136 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGA
60516169 CCTGTATTAT
Statistics
Matches: 192, Mismatches: 39, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 65 0.34
45 1 0.01
46 69 0.36
47 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTT
Found at i:60528906 original size:3 final size:3
Alignment explanation
Indices: 60528895--60528967 Score: 103
Period size: 3 Copynumber: 24.3 Consensus size: 3
60528885 CAATAATACC
* * *
60528895 AAT ACT AAT AAT AGT AA- AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60528942 AAAT AAT AAT AAT AAT AAT AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT A
60528968 GCAAAAGTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.03
3 57 0.92
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60529466 original size:12 final size:12
Alignment explanation
Indices: 60529449--60529476 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
60529439 AGCTCCAGTC
60529449 GCCGTCCGTCGT
1 GCCGTCCGTCGT
60529461 GCCGTCCGTCGT
1 GCCGTCCGTCGT
60529473 GCCG
1 GCCG
60529477 GCGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.36, T:0.21
Consensus pattern (12 bp):
GCCGTCCGTCGT
Found at i:60543006 original size:19 final size:19
Alignment explanation
Indices: 60542963--60543046 Score: 80
Period size: 19 Copynumber: 4.1 Consensus size: 19
60542953 ATTACAAAAC
60542963 AATTCAAAATAATTTTTCAAA
1 AATTCAAAATAATTTTT--AA
*
60542984 AATTTAAAATAATTTTTAA
1 AATTCAAAATAATTTTTAA
*
60543003 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TTAA
60543022 AATTCCAAAACTTATATTTTTAA
1 AATT-CAAAA--TA-ATTTTTAA
60543045 AA
1 AA
60543047 AATTATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.08
19 18 0.34
20 5 0.09
21 16 0.30
22 1 0.02
23 5 0.09
24 4 0.08
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTCAAAATAATTTTTAA
Found at i:60548656 original size:15 final size:15
Alignment explanation
Indices: 60548636--60548666 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60548626 TCTGGTCACC
*
60548636 TGTTTGAAAATTTGT
1 TGTTTGAAAACTTGT
60548651 TGTTTGAAAACTTGT
1 TGTTTGAAAACTTGT
60548666 T
1 T
60548667 TGAAGACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TGTTTGAAAACTTGT
Found at i:60560115 original size:3 final size:3
Alignment explanation
Indices: 60560094--60560135 Score: 66
Period size: 3 Copynumber: 13.3 Consensus size: 3
60560084 AATTTACAAG
60560094 ATT ATGT ATT ATGT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
60560136 CGTGTCACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:60562498 original size:11 final size:11
Alignment explanation
Indices: 60562482--60562516 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
60562472 AAATGAGATT
60562482 TTATTATTTTA
1 TTATTATTTTA
60562493 TTATTATTTTA
1 TTATTATTTTA
60562504 TTATTATTTTA
1 TTATTATTTTA
60562515 TT
1 TT
60562517 TAATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:60568021 original size:18 final size:18
Alignment explanation
Indices: 60567984--60568026 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
60567974 GAAAACATCA
* *
60567984 TTCAACCCAAACAATGAT
1 TTCAAACCAAACAATAAT
*
60568002 TTCAAACCAAACATTAAT
1 TTCAAACCAAACAATAAT
*
60568020 TTTAAAC
1 TTCAAAC
60568027 TAGGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (18 bp):
TTCAAACCAAACAATAAT
Found at i:60569189 original size:3 final size:3
Alignment explanation
Indices: 60569181--60569227 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
60569171 ATAAAGAAAG
60569181 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
60569228 GAGAATTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60574345 original size:3 final size:3
Alignment explanation
Indices: 60574337--60574362 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60574327 AGAAAGAAAG
60574337 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
60574363 ATAAAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60574975 original size:13 final size:13
Alignment explanation
Indices: 60574954--60574990 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
60574944 CTATTTAGAA
60574954 TCAATTAAAATAT
1 TCAATTAAAATAT
*
60574967 TCAAAT-AAATAT
1 TCAATTAAAATAT
60574979 TCAATTAAAATA
1 TCAATTAAAATA
60574991 AATTAAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (13 bp):
TCAATTAAAATAT
Found at i:60576315 original size:3 final size:3
Alignment explanation
Indices: 60576307--60576336 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60576297 TGTCATTCTC
60576307 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60576337 GTGGATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60578195 original size:18 final size:19
Alignment explanation
Indices: 60578172--60578209 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60578162 CATATGGATT
60578172 TAAAAT-AAATTTTAAAAA
1 TAAAATAAAATTTTAAAAA
60578190 TAAAATAAAATTTTAAAAA
1 TAAAATAAAATTTTAAAAA
60578209 T
1 T
60578210 CCAAAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATAAAATTTTAAAAA
Found at i:60580694 original size:19 final size:19
Alignment explanation
Indices: 60580670--60580706 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60580660 TATCATTAAT
*
60580670 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
60580689 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
60580707 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:60580842 original size:20 final size:17
Alignment explanation
Indices: 60580795--60580833 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
60580785 TATTAAATAA
60580795 TTTATTAAAATAATTAAT
1 TTTATT-AAATAATTAAT
60580813 TTTATT-AATAATTAAT
1 TTTATTAAATAATTAAT
60580829 TTTAT
1 TTTAT
60580834 GACTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.71
18 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAATAATTAAT
Found at i:60580901 original size:13 final size:14
Alignment explanation
Indices: 60580878--60580910 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60580868 TAATATTGAA
60580878 ATATATAATATTTT
1 ATATATAATATTTT
60580892 ATAT-TAATATTTT
1 ATATATAATATTTT
*
60580905 AAATAT
1 ATATAT
60580911 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATAATATTTT
Found at i:60586100 original size:16 final size:17
Alignment explanation
Indices: 60586060--60586102 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
60586050 TTCATACTTT
* *
60586060 ATAATTATTATAAATGA
1 ATAAATATTATAAAAGA
*
60586077 AAAAATATTATAAAAG-
1 ATAAATATTATAAAAGA
60586093 ATAAATATTA
1 ATAAATATTA
60586103 AACATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
ATAAATATTATAAAAGA
Found at i:60588261 original size:28 final size:28
Alignment explanation
Indices: 60588219--60588299 Score: 126
Period size: 28 Copynumber: 2.8 Consensus size: 28
60588209 TTTTTATTAT
60588219 TTAATTATAAAAATTATAAAATAATGAC
1 TTAATTATAAAAATTATAAAATAATGAC
* *
60588247 TTAATTATAAGAATTATAAAATAGTGAC
1 TTAATTATAAAAATTATAAAATAATGAC
60588275 TTAATTATAAAAATATATATAAATA
1 TTAATTATAAAAAT-TATA-AAATA
60588300 GCCATCTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 39 0.81
29 4 0.08
30 5 0.10
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (28 bp):
TTAATTATAAAAATTATAAAATAATGAC
Found at i:60588310 original size:30 final size:28
Alignment explanation
Indices: 60588220--60588312 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 28
60588210 TTTTATTATT
60588220 TAATTATAAAAATTATAAAATAATGAC-T-
1 TAATTATAAAAATTATAAAAT-A-GACATC
*
60588248 TAATTATAAGAATTATAAAATAGTGAC-T-
1 TAATTATAAAAATTATAAAATA--GACATC
*
60588276 TAATTATAAAAATATATATAAATAGCCATC
1 TAATTATAAAAAT-TATA-AAATAGACATC
60588306 TAATTAT
1 TAATTAT
60588313 TTAATTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 1 0.02
28 39 0.68
29 5 0.09
30 12 0.21
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (28 bp):
TAATTATAAAAATTATAAAATAGACATC
Found at i:60588696 original size:3 final size:3
Alignment explanation
Indices: 60588690--60588717 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60588680 TTCTATTTTC
60588690 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
60588718 AAGAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60588981 original size:42 final size:42
Alignment explanation
Indices: 60588907--60589167 Score: 301
Period size: 42 Copynumber: 6.2 Consensus size: 42
60588897 AATCTATTTC
* * * *
60588907 CGGCACTTACAAAAAAAAGCCGCTAAAGATCATGTTCTTTAG
1 CGGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
* *
60588949 CGGCGCTTAGGAAAAAACGCCGCAAAAAATCATGTTCTTTAG
1 CGGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
* *
60588991 CGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAA
1 CGGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
*
60589033 CGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAG
1 CGGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
* * * * * * *
60589075 CGGCGCTTTGGAAGAAAACACCTCTAAAAGTAATGTTCTATAG
1 CGGCGC-TTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
** *
60589118 CGGCGCTT-GTTCAAAAACGCCGCTAAAAGT-AGTGTTCTTTAG
1 CGGCGCTTAG-AAAAAAACGCCGCTAAAAATCA-TGTTCTTTAG
*
60589160 CGTCGCTT
1 CGGCGCTT
60589168 GTTTCACAAA
Statistics
Matches: 190, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
41 2 0.01
42 154 0.81
43 34 0.18
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
CGGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTTCTTTAG
Found at i:60590433 original size:14 final size:14
Alignment explanation
Indices: 60590414--60590448 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
60590404 CTACAGAATA
*
60590414 AAACTAGTGAACTC
1 AAACTACTGAACTC
60590428 AAACTACTGAACTC
1 AAACTACTGAACTC
60590442 AAACTAC
1 AAACTAC
60590449 GCTAACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (14 bp):
AAACTACTGAACTC
Found at i:60590729 original size:25 final size:24
Alignment explanation
Indices: 60590673--60590729 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
60590663 TATTGAATAT
*
60590673 TATTTTA-TTTAATAAAATATAAT
1 TATTTTATTTTAATAAAATATAAA
* * *
60590696 TACTATATTTTATATAAAATTTAAA
1 TATTTTATTTTA-ATAAAATATAAA
60590721 TATTTTATT
1 TATTTTATT
60590730 GTTTGTTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTATTTTAATAAAATATAAA
Found at i:60593754 original size:25 final size:24
Alignment explanation
Indices: 60593700--60593754 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
60593690 GTAATATTAT
*
60593700 TTTTA-TTTAATAAAATATAATTA
1 TTTTATTTTAATAAAATATAAATA
* * *
60593723 ATATATTTTATATAAAATTTAAATA
1 TTTTATTTTA-ATAAAATATAAATA
60593748 TTTTATT
1 TTTTATT
60593755 GAAATATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 3 0.12
24 4 0.17
25 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATTTTAATAAAATATAAATA
Found at i:60595835 original size:24 final size:23
Alignment explanation
Indices: 60595808--60595857 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
60595798 ACATATCGAA
60595808 GGTCTGCTACTCTAGCACGTCTTT
1 GGTCTGCTACTCTAGCACGT-TTT
* *
60595832 GGTCTGCTGCTCTAGCATGTTTT
1 GGTCTGCTACTCTAGCACGTTTT
60595855 GGT
1 GGT
60595858 TTTTTTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.10, C:0.24, G:0.26, T:0.40
Consensus pattern (23 bp):
GGTCTGCTACTCTAGCACGTTTT
Found at i:60598602 original size:18 final size:18
Alignment explanation
Indices: 60598560--60598602 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
60598550 AAAAGTATCA
60598560 TTAAACCCAAACAATTATT
1 TTAAA-CCAAACAATTATT
*
60598579 TCAAACCAAAC-ATTAATT
1 TTAAACCAAACAATT-ATT
60598597 TTAAAC
1 TTAAAC
60598603 TAGGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.67
19 4 0.19
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAACCAAACAATTATT
Found at i:60599652 original size:56 final size:56
Alignment explanation
Indices: 60599592--60599721 Score: 242
Period size: 56 Copynumber: 2.3 Consensus size: 56
60599582 CACTTATTCA
*
60599592 TGGCACAAGGAACTTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTTC
1 TGGCACAAGGAACTTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCC
60599648 TGGCACAAGGAACTTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCC
1 TGGCACAAGGAACTTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCC
*
60599704 TGGCACAAGCAACTTATG
1 TGGCACAAGGAACTTATG
60599722 GGATTCGTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (56 bp):
TGGCACAAGGAACTTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCC
Found at i:60601440 original size:31 final size:30
Alignment explanation
Indices: 60601365--60601441 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 30
60601355 GTAATTGCAT
* *
60601365 ACAT-AAACTTTAATTTGGTACAATTATAC
1 ACATGAAACTTTAATTTGGTACAAATACAC
* * * *
60601394 ACATGATACTCTAATTGTGGTTCAAATACAT
1 ACATGAAACTTTAATT-TGGTACAAATACAC
*
60601425 ACTTGAAACTTTAATTT
1 ACATGAAACTTTAATTT
60601442 TGATTTAATC
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 4 0.11
30 10 0.27
31 23 0.62
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (30 bp):
ACATGAAACTTTAATTTGGTACAAATACAC
Found at i:60601622 original size:29 final size:30
Alignment explanation
Indices: 60601579--60601637 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
60601569 GAATTGGATC
*
60601579 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
*
60601609 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
60601638 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTGCACA
Found at i:60601656 original size:31 final size:29
Alignment explanation
Indices: 60601589--60601656 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
60601579 AAATCAAAAT
*
60601589 TTCATGTATAAAATTGCACAAAATCAAAG
1 TTCATGTATAAAATTGCACAAAACCAAAG
*
60601618 TTCATGTATACAATTGCACATTAAACCATAA-
1 TTCATGTATAAAATTGCACA--AAACCA-AAG
60601649 TTCATGTA
1 TTCATGTA
60601657 CAGTTTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.56
31 13 0.38
32 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACCAAAG
Found at i:60602255 original size:13 final size:13
Alignment explanation
Indices: 60602234--60602267 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
60602224 ATGTGAAGAA
60602234 TATTATTTAAAAT
1 TATTATTTAAAAT
*
60602247 TATTTTTTAAAATT
1 TATTATTTAAAA-T
60602261 TATTATT
1 TATTATT
60602268 AAATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:60602330 original size:16 final size:16
Alignment explanation
Indices: 60602301--60602331 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60602291 AATTTATTAA
60602301 AATAATTAATTATATT
1 AATAATTAATTATATT
60602317 AATAATTAATTATAT
1 AATAATTAATTATAT
60602332 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATTAATTATATT
Found at i:60602340 original size:20 final size:17
Alignment explanation
Indices: 60602290--60602331 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
60602280 AAATATTAAA
60602290 TAATT-TATTAAAATAAT
1 TAATTATATT-AAATAAT
60602307 TAATTATATT-AATAAT
1 TAATTATATTAAATAAT
60602323 TAATTATAT
1 TAATTATAT
60602332 GACTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.62
17 5 0.21
18 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTATATTAAATAAT
Found at i:60609603 original size:13 final size:13
Alignment explanation
Indices: 60609585--60609611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60609575 ATTATTATAA
60609585 ATGAAAAAATATT
1 ATGAAAAAATATT
60609598 ATGAAAAAATATT
1 ATGAAAAAATATT
60609611 A
1 A
60609612 AACATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGAAAAAATATT
Found at i:60612438 original size:25 final size:24
Alignment explanation
Indices: 60612384--60612438 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
60612374 CCAATATTAT
*
60612384 TTTTA-TTTAATAAAATATAATTA
1 TTTTATTTTAATAAAATATAAATA
* * *
60612407 ATATATTTTATATAAAATTTAAATA
1 TTTTATTTTA-ATAAAATATAAATA
60612432 TTTTATT
1 TTTTATT
60612439 GAAATATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 3 0.12
24 4 0.17
25 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATTTTAATAAAATATAAATA
Found at i:60617812 original size:21 final size:20
Alignment explanation
Indices: 60617774--60617814 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
60617764 TAACAATGAG
60617774 AATACCAATTTTATAATAAT
1 AATACCAATTTTATAATAAT
*
60617794 AATATCAATTTTGATAATAAT
1 AATACCAATTTT-ATAATAAT
60617815 GGTACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (20 bp):
AATACCAATTTTATAATAAT
Found at i:60618178 original size:27 final size:27
Alignment explanation
Indices: 60618135--60618191 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
60618125 AAAAAAATTA
* *
60618135 AAAAAAATGAGATAATA-ATGACAATAT
1 AAAAAAATGACATAATATA-AACAATAT
60618162 AAAAAAATGTACA-AATATAAACAATAT
1 AAAAAAATG-ACATAATATAAACAATAT
60618189 AAA
1 AAA
60618192 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (27 bp):
AAAAAAATGACATAATATAAACAATAT
Found at i:60636919 original size:55 final size:54
Alignment explanation
Indices: 60636805--60636919 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
60636795 CTTTCATATC
* * * *
60636805 ATCTTTATGCATACATTTTTAAATTTTTTATTTGAAAGTAACTTTTTTTTTCAT
1 ATCTTTATGCATACATTTTTAAATTTTTTATTTGAAAGCAACATTTCTTTGCAT
*
60636859 ATCTTTATGCATACATTTTTAATTTTTTTTATTTGAAAGCAACATTTCTTTGC-T
1 ATCTTTATGCATACATTTTTAA-ATTTTTTATTTGAAAGCAACATTTCTTTGCAT
60636913 ATTCTTT
1 A-TCTTT
60636920 TATATCATCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 24 0.44
55 30 0.56
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (54 bp):
ATCTTTATGCATACATTTTTAAATTTTTTATTTGAAAGCAACATTTCTTTGCAT
Found at i:60638402 original size:15 final size:16
Alignment explanation
Indices: 60638382--60638419 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
60638372 AAGCAAAGTC
* *
60638382 AAAAAAGAGAA-GAAG
1 AAAAAAGAAAACGAAA
60638397 AAAAAAGAAAACGAAA
1 AAAAAAGAAAACGAAA
60638413 AAAAAAG
1 AAAAAAG
60638420 GTAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAACGAAA
Found at i:60644017 original size:20 final size:20
Alignment explanation
Indices: 60643992--60644041 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60643982 TGGCTTAAAA
60643992 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60644012 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60644029 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60644042 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60648616 original size:20 final size:20
Alignment explanation
Indices: 60648591--60648640 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60648581 TGGCTTAAAA
60648591 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60648611 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60648628 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60648641 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60665828 original size:18 final size:18
Alignment explanation
Indices: 60665805--60665839 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60665795 AAATTTTGTT
60665805 CATGTTTTCTTCTTCTTG
1 CATGTTTTCTTCTTCTTG
60665823 CATGTTTTCTTCTTCTT
1 CATGTTTTCTTCTTCTT
60665840 CTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.23, G:0.09, T:0.63
Consensus pattern (18 bp):
CATGTTTTCTTCTTCTTG
Found at i:60671173 original size:22 final size:22
Alignment explanation
Indices: 60671115--60671173 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
60671105 GAATGGTATC
60671115 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
60671137 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
60671160 TACATATCAAATCT
1 TACAAATCAAATCT
60671174 ACAATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Done.