Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 187 of 410
Found at i:57125716 original size:79 final size:78
Alignment explanation
Indices: 57125511--57125727 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
57125501 TCGAATGATG
* *
57125511 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
* *
57125574 TGTGCGAATTACTAATC
62 TATGCGAATTACTAATA
*
57125591 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
57125654 ATGCGAGTTACT-ATAA
63 ATGCGAATTACTAAT-A
* ** *
57125670 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
57125728 TACGTGATTT
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.56
80 48 0.41
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTATG
CGAATTACTAATA
Found at i:57127295 original size:18 final size:17
Alignment explanation
Indices: 57127262--57127295 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57127252 TTCTAGGCTA
*
57127262 TGTGGGCCATGTGGGCG
1 TGTGGGCCACGTGGGCG
57127279 TGTGGGCCCACGTGGGC
1 TGTGGG-CCACGTGGGC
57127296 CGCGATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.24, G:0.50, T:0.21
Consensus pattern (17 bp):
TGTGGGCCACGTGGGCG
Found at i:57127478 original size:27 final size:27
Alignment explanation
Indices: 57127427--57127484 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
57127417 TGACTATTTT
**
57127427 GCCCTTATATGGTAAGATGGTTGTTTC
1 GCCCTTATATGGTAAGATGCCTGTTTC
*
57127454 GCCCTTATATGGTAAGATGCCTGTTTT
1 GCCCTTATATGGTAAGATGCCTGTTTC
57127481 GCCC
1 GCCC
57127485 CTATGTGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (27 bp):
GCCCTTATATGGTAAGATGCCTGTTTC
Found at i:57130219 original size:22 final size:22
Alignment explanation
Indices: 57130191--57130235 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57130181 GACAAATTAC
* *
57130191 ATGGTGTATTGTTATGGGGCTA
1 ATGGTGTATTCTTATGGGACTA
57130213 ATGGTGTATTCTTATGGGACTA
1 ATGGTGTATTCTTATGGGACTA
57130235 A
1 A
57130236 CTTGTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (22 bp):
ATGGTGTATTCTTATGGGACTA
Found at i:57131415 original size:23 final size:23
Alignment explanation
Indices: 57131383--57131441 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
57131373 TGTCCCGAAG
*
57131383 CACACTGGCGTGTGCTATGTCTT
1 CACACAGGCGTGTGCTATGTCTT
*
57131406 CACACAGGCGTGTGCTATTTCTT
1 CACACAGGCGTGTGCTATGTCTT
*
57131429 CACA-GGGCGTGTG
1 CACACAGGCGTGTG
57131442 AGATACTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 8 0.24
23 25 0.76
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (23 bp):
CACACAGGCGTGTGCTATGTCTT
Found at i:57136533 original size:9 final size:9
Alignment explanation
Indices: 57136519--57136543 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57136509 GACTAAAATG
57136519 TGAAATAAA
1 TGAAATAAA
57136528 TGAAATAAA
1 TGAAATAAA
57136537 TGAAATA
1 TGAAATA
57136544 TGTGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:57137076 original size:35 final size:35
Alignment explanation
Indices: 57137011--57137192 Score: 148
Period size: 35 Copynumber: 5.1 Consensus size: 35
57137001 TACTTACTTG
* * * *
57137011 TATGGCCTAATACACATGGTTCATTATATCATCACA
1 TATGGCCAAATATACA-AGTTCAATATATCATCACA
* *
57137047 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * *
57137082 TATGACCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * * *
57137117 TGTAGTCGAATATTCAAGTTTAATATAACATTACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * *
57137152 TGTGGCCAAATATATATAAGTTCAATACATCATCACA
1 TATGGCC-AA-ATATACAAGTTCAATATATCATCACA
57137189 TATG
1 TATG
57137193 TACATACATA
Statistics
Matches: 114, Mismatches: 30, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
35 76 0.67
36 15 0.13
37 23 0.20
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:57140415 original size:20 final size:20
Alignment explanation
Indices: 57140372--57140413 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
57140362 TAAAGAAAGT
57140372 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
57140392 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
57140411 AAA
1 AAA
57140414 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:57147122 original size:17 final size:18
Alignment explanation
Indices: 57147079--57147129 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
57147069 TTTAACAATT
*
57147079 AATAATTATTTTATGATCA
1 AATAA-TATTTTATAATCA
57147098 AGATAATATTTTATAAT-A
1 A-ATAATATTTTATAATCA
*
57147116 AATAATATCTTATA
1 AATAATATTTTATA
57147130 TAGATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 11 0.38
20 4 0.14
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (18 bp):
AATAATATTTTATAATCA
Found at i:57150680 original size:40 final size:40
Alignment explanation
Indices: 57150625--57150766 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
57150615 TATTCGAATG
*
57150625 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57150665 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57150705 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
57150745 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57150767 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.15
40 76 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57159202 original size:40 final size:40
Alignment explanation
Indices: 57159147--57159288 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
57159137 TATTCGAATG
57159147 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
57159187 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57159227 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
57159267 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57159289 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.15
40 75 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57164389 original size:34 final size:34
Alignment explanation
Indices: 57164346--57164473 Score: 166
Period size: 34 Copynumber: 3.8 Consensus size: 34
57164336 TTTAACTTAG
* *
57164346 TGTTGTGCAAATGATGAGTTATTCTATGATTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
* *
57164380 TGTTGTGCAAATGATAAGTTGTTCTATGGCTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
* * * *
57164414 TTTTGTGAAAATGATAAGTTGTTTTATGGTTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
* *
57164448 TGTTGTGCAAACGATGAGTTATTCTA
1 TGTTGTGCAAATGATAAGTTATTCTA
57164474 CAACTGAATG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (34 bp):
TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
Found at i:57170987 original size:8 final size:9
Alignment explanation
Indices: 57170960--57170990 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
57170950 GTCATTTTGG
57170960 TGATAGTTTT
1 TGAT-GTTTT
57170970 TGATGTTTT
1 TGATGTTTT
57170979 TGATGTTTT
1 TGATGTTTT
57170988 TGA
1 TGA
57170991 GATCCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (9 bp):
TGATGTTTT
Found at i:57175680 original size:17 final size:17
Alignment explanation
Indices: 57175654--57175692 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57175644 GAAGGTGATA
57175654 GACTTACGACAGAGATG
1 GACTTACGACAGAGATG
* *
57175671 GACTTTCGACAGTGATG
1 GACTTACGACAGAGATG
57175688 GACTT
1 GACTT
57175693 GTGATGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (17 bp):
GACTTACGACAGAGATG
Found at i:57179620 original size:29 final size:29
Alignment explanation
Indices: 57179588--57179648 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
57179578 ATACCCTCCG
* *
57179588 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
57179617 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
57179646 AGC
1 AGC
57179649 AAGCACACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:57179654 original size:29 final size:29
Alignment explanation
Indices: 57179601--57179664 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
57179591 TCGCACACCC
* * **
57179601 AGTGCCGTATTTTTCCAGCTTGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
57179630 AGTGCCATATATTTCCAGCAAGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
57179659 AGTGCC
1 AGTGCC
57179665 GATCTCGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCAAGCACACTT
Found at i:57187113 original size:24 final size:25
Alignment explanation
Indices: 57187061--57187113 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
57187051 TTCTACAATT
** *
57187061 TTTTTGAAATAATCTCTTTAGGGAG
1 TTTTTGAAATAATCTCTTTAGAAAA
*
57187086 TTTTT-AAATACTCTCTTTAGAAAA
1 TTTTTGAAATAATCTCTTTAGAAAA
57187110 TTTT
1 TTTT
57187114 CTCTTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTTTGAAATAATCTCTTTAGAAAA
Found at i:57188722 original size:89 final size:88
Alignment explanation
Indices: 57188571--57188739 Score: 311
Period size: 89 Copynumber: 1.9 Consensus size: 88
57188561 TACACTACAG
* *
57188571 GTTGAGTCACACGCTCGTGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
1 GTTGAGACACACGCTCATGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
57188636 CAACCCGTGTCATATGACCCACAC
66 CAACCCGTGTC-TATGACCCACAC
57188660 GTTGAGACACACGCTCATGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
1 GTTGAGACACACGCTCATGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
57188725 CAACCCGTGTCTATG
66 CAACCCGTGTCTATG
57188740 CCTGTGTAAC
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
88 4 0.05
89 74 0.95
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (88 bp):
GTTGAGACACACGCTCATGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
CAACCCGTGTCTATGACCCACAC
Found at i:57190895 original size:137 final size:138
Alignment explanation
Indices: 57190646--57190912 Score: 329
Period size: 137 Copynumber: 1.9 Consensus size: 138
57190636 AATGGGCCTC
* * ** *
57190646 CTCACACAAGCAGACGGTTAGAATGTAAGCTACACAATGCTGCTTACACAAGCTGATAAGTATCC
1 CTCACACAAACAGACGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
* * * * * * *
57190711 ACAACTAATATCAGACCTTAGCCATCGGTAGGACATTTAGGACCAGCACCCGGAACATCGTAACC
66 ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
57190776 TGGGTCTG
131 TGGGTCTG
* * * *
57190784 CTCACACAAACTGATGGTCAGAATGT-AGCTACACAATGCCACTCACACAAGTTGATGAGTATCC
1 CTCACACAAACAGACGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
* * * * * *
57190848 GCAACAAATGCCGGAACTCAACCATCGGTAGGACATTCAGGATCAGCACCTGAAACATGGTAACC
66 ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
57190913 CTAATAACAT
Statistics
Matches: 107, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
137 85 0.79
138 22 0.21
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (138 bp):
CTCACACAAACAGACGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
TGGGTCTG
Found at i:57197512 original size:43 final size:42
Alignment explanation
Indices: 57197433--57197513 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
57197423 TGAGTTTACG
* *
57197433 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCT
1 TGTAAGACCATAGCCGGGATATGGCATCGATATGAGATTTCT
* * *
57197475 TGTAAGACCATAGCCGGGCTATTGGCATCGGTTTGAGAT
1 TGTAAGACCATAGCCGGGATA-TGGCATCGATATGAGAT
57197514 CCCATGTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 18 0.55
43 15 0.45
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATAGCCGGGATATGGCATCGATATGAGATTTCT
Found at i:57201503 original size:46 final size:46
Alignment explanation
Indices: 57201452--57201580 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
57201442 ATGGTTGAGC
57201452 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATG-GAACTAG
* * *
57201499 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTA-G
57201544 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
57201581 GGGCAGGTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTAG
Found at i:57205576 original size:23 final size:23
Alignment explanation
Indices: 57205544--57205594 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
57205534 TTGTATGAGT
* * **
57205544 CTTACTATTTTAGCTCGTTAGAG
1 CTTACCATTTTAGCCCAATAGAG
57205567 CTTACCATTTTAGCCCAATAGAG
1 CTTACCATTTTAGCCCAATAGAG
57205590 CTTAC
1 CTTAC
57205595 TGTCCATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (23 bp):
CTTACCATTTTAGCCCAATAGAG
Found at i:57210747 original size:38 final size:38
Alignment explanation
Indices: 57210705--57210798 Score: 188
Period size: 38 Copynumber: 2.5 Consensus size: 38
57210695 CCTTAGCATA
57210705 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
57210743 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
57210781 GATGTGTATGTTCGGCCA
1 GATGTGTATGTTCGGCCA
57210799 TAGGTAAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (38 bp):
GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
Found at i:57211528 original size:76 final size:80
Alignment explanation
Indices: 57211396--57211576 Score: 230
Period size: 76 Copynumber: 2.3 Consensus size: 80
57211386 TCGAATGATG
*
57211396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTT
*
57211460 GTGCGAGTTACTA-A
66 ATGCGAGTTACTATA
* * * **
57211474 TCCGGGC-AAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGAT-CCGAAGGCATT
57211535 TATGCGAGTTACTATA
65 TATGCGAGTTACTATA
* *
57211551 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57211577 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
75 1 0.01
76 48 0.54
77 17 0.19
78 9 0.10
79 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATA
Found at i:57211590 original size:40 final size:40
Alignment explanation
Indices: 57211397--57211583 Score: 183
Period size: 39 Copynumber: 4.8 Consensus size: 40
57211387 CGAATGATGT
* * * *
57211397 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATAA
* * *
57211437 CC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AT
1 CCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTATAA
*
57211475 CCGGGC-AAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
* *
57211512 TCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTATAA
* *
57211552 CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
57211584 AGCTATATCC
Statistics
Matches: 126, Mismatches: 12, Indels: 18
0.81 0.08 0.12
Matches are distributed among these distances:
37 30 0.24
38 10 0.08
39 47 0.37
40 38 0.30
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
Found at i:57218951 original size:37 final size:38
Alignment explanation
Indices: 57218910--57219002 Score: 179
Period size: 38 Copynumber: 2.5 Consensus size: 38
57218900 CCTTAGCATA
57218910 GATGTGTATGTTCGGCCA-ATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
57218947 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
57218985 GATGTGTATGTTCGGCCA
1 GATGTGTATGTTCGGCCA
57219003 TAGGTAAGCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 18 0.33
38 37 0.67
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (38 bp):
GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
Found at i:57219689 original size:39 final size:40
Alignment explanation
Indices: 57219601--57219802 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
57219591 TCGAATGATG
* *
57219601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
57219641 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
57219679 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
57219718 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
57219758 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
57219798 TCCGG
1 TCCGG
57219803 TTAAATTCGA
Statistics
Matches: 141, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
38 29 0.21
39 40 0.28
40 72 0.51
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:57219735 original size:78 final size:80
Alignment explanation
Indices: 57219601--57219783 Score: 241
Period size: 78 Copynumber: 2.3 Consensus size: 80
57219591 TCGAATGATG
*
57219601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTT
*
57219665 GTGCGAGTTACTA-A
66 ATGCGAGTTACTATA
* * **
57219679 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCC-GACTAAGAT-CCGAAGGCAT
57219741 TTATGCGAGTTACTATA
64 TTATGCGAGTTACTATA
* *
57219758 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57219784 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
77 21 0.23
78 47 0.51
79 10 0.11
80 14 0.15
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATA
Found at i:57219814 original size:78 final size:77
Alignment explanation
Indices: 57219602--57219815 Score: 238
Period size: 78 Copynumber: 2.7 Consensus size: 77
57219592 CGAATGATGT
* **
57219602 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGGTTAA-ATCCGAAGGCATTT
* *
57219665 GTGCGAGTTACTAAT
63 ATGCGAGTTACTAAA
* *
57219680 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAAT-CCGAAGGCATTT
57219743 ATGCGAGTTACTATAA
63 ATGCGAGTTACTA-AA
* ** *
57219759 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATCCGAAGG
57219816 TACGTGATTT
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
77 19 0.17
78 52 0.45
79 19 0.17
80 25 0.22
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATCCGAAGGCATTTATG
CGAGTTACTAAA
Found at i:57224685 original size:24 final size:24
Alignment explanation
Indices: 57224619--57224714 Score: 106
Period size: 24 Copynumber: 4.0 Consensus size: 24
57224609 CCGGACTCAC
57224619 CTCAGCTCATATGAGCTTACTGATAT
1 CTCAGCTCATATGAGCTTACTG-T-T
* **
57224645 ATCAGCTCATAAAAGCTTACTGTT
1 CTCAGCTCATATGAGCTTACTGTT
*
57224669 CTCAGCTCGTATGAGCTTACTGTT
1 CTCAGCTCATATGAGCTTACTGTT
*
57224693 -TCAGCTCGT-TAGAGCTTACTGT
1 CTCAGCTCATAT-GAGCTTACTGT
57224715 CCATCAACTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 20 0.32
24 21 0.34
25 1 0.02
26 19 0.31
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (24 bp):
CTCAGCTCATATGAGCTTACTGTT
Found at i:57231782 original size:28 final size:28
Alignment explanation
Indices: 57231751--57231867 Score: 191
Period size: 28 Copynumber: 4.2 Consensus size: 28
57231741 TGAACAGGTT
57231751 GTGTGCCTCACACGGCCTAGACACA-CCC
1 GTGTGCCTCACACGGCCTAGACA-AGCCC
*
57231779 GTGTGCCTCACATGGCCTAGACAAGCCC
1 GTGTGCCTCACACGGCCTAGACAAGCCC
57231807 GTGTGCCTCACACGGCCTAGACAAGCCC
1 GTGTGCCTCACACGGCCTAGACAAGCCC
* *
57231835 GTGTGCCTTACACGGCCTAGACACGCCC
1 GTGTGCCTCACACGGCCTAGACAAGCCC
57231863 GTGTG
1 GTGTG
57231868 TCAAAGCCGT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
27 1 0.01
28 83 0.99
ACGTcount: A:0.20, C:0.38, G:0.26, T:0.17
Consensus pattern (28 bp):
GTGTGCCTCACACGGCCTAGACAAGCCC
Found at i:57238785 original size:47 final size:47
Alignment explanation
Indices: 57238731--57239061 Score: 250
Period size: 47 Copynumber: 7.0 Consensus size: 47
57238721 TTAGGATTTT
*
57238731 ATGTGATGAATGTGA-ATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGATATGTATATATG-GATAAGGCCGAATGGCCA
* *
57238778 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGATATGTATATATG-GATAAGGCCGAATGGCCA
* *
57238825 ATGTGATGAATGTGAG-CATGCATATGTAT-GATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGATATG--TATATATGGATAAGGCCGAATGGCCA
* * * * *
57238872 ATGTGGTGAATATGAGATATGTATATGTGG-TAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAGATATGTATATATGGATAAGGCCGAATGGCCA
* * * * *
57238918 ATGTGA-AATATGTATGAGATATGTGTATGTGG-TAAAGCCGAATGGCTA
1 ATGTGATGA-ATG--TGAGATATGTATATATGGATAAGGCCGAATGGCCA
* * * * *
57238966 ATGTGA-GATATGTATGAGATATGCATATGTGG-TAAAGCTGAATGGTCA
1 ATGTGATGA-ATG--TGAGATATGTATATATGGATAAGGCCGAATGGCCA
* * * *
57239014 ATGTGAAATATATATATGAGATATGTATATGTGG-TAAAGCCGAATGGC
1 ATGTG--AT-GA-ATGTGAGATATGTATATATGGATAAGGCCGAATGGC
57239062 TCGTGTGAAA
Statistics
Matches: 244, Mismatches: 28, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.00
46 26 0.11
47 95 0.39
48 83 0.34
49 5 0.02
50 30 0.12
52 4 0.02
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAGATATGTATATATGGATAAGGCCGAATGGCCA
Found at i:57238831 original size:22 final size:22
Alignment explanation
Indices: 57238760--57238831 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
57238750 GTATATATGA
57238760 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
57238782 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
57238807 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
57238829 GAT
1 GAT
57238832 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:57238994 original size:96 final size:98
Alignment explanation
Indices: 57238882--57239077 Score: 299
Period size: 98 Copynumber: 2.0 Consensus size: 98
57238872 ATGTGGTGAA
* * *
57238882 TATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAGATATGTGT
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAGATATGTAT
*
57238944 ATGTGGTAAAGCCGAATGGCTAATGTGAGATATG
65 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
57238978 TATGAGATATGCATATGTGGTAAAGCTGAATGGTCAATGTGAAATATATATATGAGATATGTATA
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATA
**
57239043 TGTGGTAAAGCCGAATGGCTCGTGTGAAATATG
66 TGTGGTAAAGCCGAATGGCTAATGTGAAATATG
57239076 TA
1 TA
57239078 GGCGATGTGC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 37 0.41
97 3 0.03
98 50 0.56
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (98 bp):
TATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATA
TGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:57239093 original size:50 final size:48
Alignment explanation
Indices: 57238882--57239077 Score: 295
Period size: 48 Copynumber: 4.0 Consensus size: 48
57238872 ATGTGGTGAA
57238882 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
57238930 TATGAGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAGATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * *
57238978 TATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
**
57239028 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTCGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
57239076 TA
1 TA
57239078 GGCGATGTGC
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
47 1 0.01
48 88 0.67
49 3 0.02
50 39 0.30
51 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:57239273 original size:37 final size:37
Alignment explanation
Indices: 57239223--57239402 Score: 306
Period size: 37 Copynumber: 4.9 Consensus size: 37
57239213 GGAAATATAT
*
57239223 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
57239260 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
57239297 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
57239334 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
57239371 TTCGGGTAAGACCCGATAACTTCGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
57239403 CTTCGCCTGA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 138 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:57241592 original size:23 final size:21
Alignment explanation
Indices: 57241553--57241595 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57241543 TGTAAAACAC
*
57241553 AGAGCAATAGACGCTAAAAAT
1 AGAGCAATAGACACTAAAAAT
57241574 AGAGCAATAGCACCACTAAAAA
1 AGAGCAATAG-A-CACTAAAAA
57241596 CCAGAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (21 bp):
AGAGCAATAGACACTAAAAAT
Found at i:57241601 original size:24 final size:22
Alignment explanation
Indices: 57241546--57241603 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
57241536 CAAAAATTGT
*
57241546 AAAACACAGAGCAATAGACGCTA
1 AAAAC-CAGAGCAATAGACACTA
*
57241569 AAAA-TAGAGCAATAGCACCACTA
1 AAAACCAGAGCAATAG-A-CACTA
57241592 AAAACCAGAGCA
1 AAAACCAGAGCA
57241604 TTACGGCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 12 0.41
24 6 0.21
ACGTcount: A:0.53, C:0.22, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAACCAGAGCAATAGACACTA
Found at i:57241702 original size:41 final size:41
Alignment explanation
Indices: 57241589--57241838 Score: 299
Period size: 41 Copynumber: 6.1 Consensus size: 41
57241579 AATAGCACCA
*
57241589 CTAAAAACCAGAGCATTA-CGGCGCTTTCGGTAAAACACCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* * *
57241629 CTAAAAACCAGA-CATTAGCGGTGCTTTCTGTAAAACGCTG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* ** * * *
57241669 CTAAAAACCAGAGAATTAGCTGG-GCTTTATGTAAAGCACCA
1 CTAAAAACCAGAGCATTAGC-GGCGCTTTCGGTAAAACGCCG
* *
57241710 CTAAAAGCCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCA
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* * *
57241751 CTAAAAGCCAAAGCATTAGCGGCGCTTTCGATAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* * * *
57241792 CTAAAAACCGGAGCATTAACGGTGCTTTCAGTAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
57241833 CTAAAA
1 CTAAAA
57241839 GTCATATAAC
Statistics
Matches: 180, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 5 0.03
40 44 0.24
41 129 0.72
42 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
Found at i:57241837 original size:123 final size:121
Alignment explanation
Indices: 57241584--57241839 Score: 329
Period size: 123 Copynumber: 2.1 Consensus size: 121
57241574 AGAGCAATAG
* * *
57241584 CACCACTAAAAACCAGAGCATTACGGCGCTTTCGGTAAAACACCGCTAAAAACCAGACATTAGCG
1 CACCACTAAAAGCCAGAGCATTACGGCGCTTTCGGTAAAACACCACTAAAAACCAAACATTAGCG
* * * *
57241649 GTGCTTTCTGTAAAACGCTGCTAAAAACCAGAGAATTAGCTGGGCTTTATGTAAAG
66 GCGCTTTCTGTAAAACGCCGCTAAAAACCAGAGAATTAACTGGGCTTTATGTAAAA
* *
57241705 CACCACTAAAAGCCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCACTAAAAGCCAAAGCATTAG
1 CACCACTAAAAGCCAGAGCATTA-CGGCGCTTTCGGTAAAACACCACTAAAAACCAAA-CATTAG
* *
57241770 CGGCGCTTTC-GATAAAACGCCGCTAAAAACCGGAGCATTAAC-GGTGCTTTCA-GTAAAA
64 CGGCGCTTTCTG-TAAAACGCCGCTAAAAACCAGAGAATTAACTGG-GCTTT-ATGTAAAA
* *
57241828 CGCCGCTAAAAG
1 CACCACTAAAAG
57241840 TCATATAACC
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
121 22 0.19
122 33 0.28
123 61 0.52
124 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (121 bp):
CACCACTAAAAGCCAGAGCATTACGGCGCTTTCGGTAAAACACCACTAAAAACCAAACATTAGCG
GCGCTTTCTGTAAAACGCCGCTAAAAACCAGAGAATTAACTGGGCTTTATGTAAAA
Found at i:57241940 original size:16 final size:16
Alignment explanation
Indices: 57241893--57241940 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
57241883 ACTAATCTAT
57241893 AACCCTAAAACACT-AA
1 AACCCT-AAACACTAAA
*
57241909 ACCCCTAAAC-CTTAAA
1 AACCCTAAACAC-TAAA
57241925 AACCCTAAACACTAAA
1 AACCCTAAACACTAAA
57241941 CTATAACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 20 0.74
17 1 0.04
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCTAAACACTAAA
Found at i:57241945 original size:52 final size:54
Alignment explanation
Indices: 57241851--57241966 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 54
57241841 CATATAACCC
* * * *
57241851 CTAAAACCCTAAACCTCAAAAAAATCTTAAACACTAATCTATAACC-CTAAAACA
1 CTAAACCCCTAAACCT-AAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
* * *
57241905 CTAAACCCCTAAACCT-TAAAAACCCTAAACACTAAACTATAACCTTTAAAACC
1 CTAAACCCCTAAACCTAAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
57241958 CTAAACCCC
1 CTAAACCCC
57241967 AAAAAACATC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 24 0.44
53 15 0.28
54 15 0.28
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (54 bp):
CTAAACCCCTAAACCTAAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
Found at i:57241956 original size:29 final size:29
Alignment explanation
Indices: 57241893--57241963 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 29
57241883 ACTAATCTAT
57241893 AACCCTAAAACACTAAACCCCTAAACCTTAAA
1 AACCCT-AAACACTAAA--CCTAAACCTTAAA
*
57241925 AACCCTAAACACTAAA-CTATAACCTTTAA
1 AACCCTAAACACTAAACCTA-AACCTTAAA
57241954 AACCCTAAAC
1 AACCCTAAAC
57241964 CCCAAAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 3 0.08
29 18 0.49
31 10 0.27
32 6 0.16
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (29 bp):
AACCCTAAACACTAAACCTAAACCTTAAA
Found at i:57244650 original size:8 final size:8
Alignment explanation
Indices: 57244634--57244665 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57244624 CCAAAAATAC
57244634 CGGCTTTT
1 CGGCTTTT
*
57244642 CGGCATTT
1 CGGCTTTT
57244650 CGGCTTTT
1 CGGCTTTT
57244658 CGGCTTTT
1 CGGCTTTT
57244666 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:57246392 original size:19 final size:18
Alignment explanation
Indices: 57246355--57246398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
57246345 ATACATACAG
57246355 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
57246372 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
57246391 TACTAATT
1 TAATAATT
57246399 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:57252321 original size:43 final size:43
Alignment explanation
Indices: 57252273--57252355 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
57252263 ACATGTATCA
* *
57252273 CATCCATTATGAACTCGGACCACTCAACGAGCTCAGATGCTCG
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTCG
* * *
57252316 CATCCATAATGAATTTAGACCACTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
57252356 CACATATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTCG
Found at i:57256386 original size:29 final size:30
Alignment explanation
Indices: 57256347--57256426 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
57256337 CTTAATAATC
*
57256347 AACCACGCACACTTAGTGCCATGTAC-TTT-A
1 AACC-CGCACACTTAGTGCCAT-CACATTTCA
*
57256377 AACTCGCACACTTAGTGCCA-CACATTTCA
1 AACCCGCACACTTAGTGCCATCACATTTCA
*
57256406 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
57256427 TCTCTCAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.05
28 3 0.07
29 35 0.81
30 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATCACATTTCA
Found at i:57258579 original size:15 final size:15
Alignment explanation
Indices: 57258535--57258580 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
57258525 TCTAGGGCAA
*
57258535 AGAAATCCAAGATAA
1 AGAAATCCAAGATAC
57258550 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
*
57258565 AGAAATCTAAGATAC
1 AGAAATCCAAGATAC
57258580 A
1 A
57258581 ATATCATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:57258912 original size:29 final size:29
Alignment explanation
Indices: 57258879--57259010 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
57258869 GTGACGAGAT
*
57258879 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
57258908 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
57258937 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
57258966 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
57258995 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
57259011 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:57266725 original size:29 final size:29
Alignment explanation
Indices: 57266692--57266823 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
57266682 GTGACGAGAT
*
57266692 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
57266721 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
57266750 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
57266779 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
57266808 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
57266824 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:57273473 original size:40 final size:40
Alignment explanation
Indices: 57273399--57273622 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
57273389 AACCCAAGTA
* * *
57273399 CCTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
57273438 CCTTCGGGTCTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
57273478 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
57273518 CCTTTGGGACTTAGCCTGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
57273558 CCTTCGGGACTTAG-CCGGATATAGTAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT--C-ACTAGCACAAATG
57273600 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57273623 CATCCGAATA
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 20 0.12
40 109 0.66
41 2 0.01
42 26 0.16
43 8 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:57276291 original size:46 final size:46
Alignment explanation
Indices: 57276235--57276409 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
57276225 TGGTTGAGCA
*
57276235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
57276281 TCCGAACTCGTTGAGTTGAGT-CGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
57276327 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
57276373 -CCCAAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57276410 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.04
42 6 0.06
44 2 0.02
45 8 0.08
46 71 0.68
47 3 0.03
48 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57276389 original size:92 final size:93
Alignment explanation
Indices: 57276232--57276400 Score: 261
Period size: 92 Copynumber: 1.8 Consensus size: 93
57276222 GGATGGTTGA
* * * *
57276232 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCATTGAGT
57276297 TGAGTC-GAGTTTGTGAGATGTAACTAG
66 TGAGTCTGAGTTTGTGAGATGTAACTAG
* *
57276324 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAA-CTCATTGAG
57276388 TTGAGTCTGAGTT
65 TTGAGTCTGAGTT
57276401 CGCTTATGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
91 4 0.06
92 60 0.87
93 5 0.07
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCATTGAGT
TGAGTCTGAGTTTGTGAGATGTAACTAG
Found at i:57278225 original size:5 final size:6
Alignment explanation
Indices: 57278210--57278254 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
57278200 TCCTCCTATC
* * *
57278210 TTTTTA TTTTTA TTTTTG TTTTTA TTTTTG TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
57278255 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:57278231 original size:12 final size:12
Alignment explanation
Indices: 57278210--57278249 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
57278200 TCCTCCTATC
*
57278210 TTTTTATTTTTA
1 TTTTTGTTTTTA
57278222 TTTTTGTTTTTA
1 TTTTTGTTTTTA
57278234 TTTTTGTTTTTA
1 TTTTTGTTTTTA
57278246 TTTT
1 TTTT
57278250 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTA
Found at i:57279911 original size:40 final size:40
Alignment explanation
Indices: 57279804--57279970 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
57279794 CGGAATATAA
* * *
57279804 CCGGATATAATCACGT-GCACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAATAAC-TAGCACAATTGCCTTCGGGTCTTAGC
* *
57279844 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTAGCAC-AATTGCCTTCGGGTCTTAGC
*** *
57279884 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
** * * * *
57279923 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
57279963 CCGGATAT
1 CCGGATAT
57279971 CATTCAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 33 0.31
40 70 0.67
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:57288438 original size:40 final size:40
Alignment explanation
Indices: 57288383--57288516 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
57288373 TATATCCGGA
57288383 TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTTCGGG
1 TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTTCGGG
*
57288423 TTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTTTCGGG
1 TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTTCGGG
** **
57288463 TTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATTCGGG
1 TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTTCGGG
* *
57288503 CTAAATCCCGAAGG
1 TTAAGTCCCGAAGG
57288517 TAATTGGGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (40 bp):
TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTTCGGG
Found at i:57291307 original size:13 final size:13
Alignment explanation
Indices: 57291289--57291317 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
57291279 TTTAGTTTAA
57291289 TTAGTTAATTAGT
1 TTAGTTAATTAGT
57291302 TTAGTTAATTAGT
1 TTAGTTAATTAGT
57291315 TTA
1 TTA
57291318 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:57291972 original size:59 final size:56
Alignment explanation
Indices: 57291901--57292072 Score: 177
Period size: 59 Copynumber: 2.9 Consensus size: 56
57291891 ATCAATTTAA
* * * *
57291901 TATTAAATTAATATAATATTTATCAAGA-CAAATATTAGATTAAGTTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAAATATTAGATTAAATTT-A-A-T-AATCT
*
57291960 TATTAAAATAATAGAATATTTATATATAAGATAAAATATTAGATTAAATTTAATAATCT
1 TATTAAAATAATAGAATA-TT-TAT-CAAGATAAAATATTAGATTAAATTTAATAATCT
*
57292019 TATTAAAATAATAGAATATTTATCTATAAGATAAAATATTTA-ATTTAATTTAAT
1 TATTAAAATAATAGAATATTTATC---AAGATAAAATA-TTAGATTAAATTTAAT
57292073 TTTAAAATAA
Statistics
Matches: 98, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 61 0.62
60 6 0.06
61 4 0.04
62 5 0.05
63 17 0.17
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (56 bp):
TATTAAAATAATAGAATATTTATCAAGATAAAATATTAGATTAAATTTAATAATCT
Found at i:57291996 original size:28 final size:28
Alignment explanation
Indices: 57291963--57292056 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
57291953 TAAATCTTAT
57291963 TAAAATAATAGAATATTTATATATAAGA
1 TAAAATAATAGAATATTTATATATAAGA
* * * * *
57291991 TAAAATATTAGATTAAATTTAATAATCTTA-T
1 TAAAATAATAGA--ATATTT-AT-ATATAAGA
*
57292022 TAAAATAATAGAATATTTATCTATAAGA
1 TAAAATAATAGAATATTTATATATAAGA
57292050 TAAAATA
1 TAAAATA
57292057 TTTAATTTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
27 3 0.06
28 20 0.40
29 5 0.10
30 5 0.10
31 13 0.26
32 4 0.08
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (28 bp):
TAAAATAATAGAATATTTATATATAAGA
Found at i:57291997 original size:20 final size:20
Alignment explanation
Indices: 57291974--57292060 Score: 56
Period size: 20 Copynumber: 4.4 Consensus size: 20
57291964 AAAATAATAG
57291974 AATATTTATATATAAGATAA
1 AATATTTATATATAAGATAA
* **
57291994 AATA-TTAGAT-TAA-ATTT
1 AATATTTATATATAAGATAA
* * *
57292011 AATAATCTTAT-TAAAATAATAG
1 AAT-AT-TTATATATAA-GATAA
*
57292033 AATATTTATCTATAAGATAA
1 AATATTTATATATAAGATAA
57292053 AATATTTA
1 AATATTTA
57292061 ATTTAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
17 5 0.10
18 4 0.08
19 6 0.12
20 24 0.48
21 6 0.12
22 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
AATATTTATATATAAGATAA
Found at i:57292014 original size:63 final size:63
Alignment explanation
Indices: 57291930--57292078 Score: 218
Period size: 59 Copynumber: 2.4 Consensus size: 63
57291920 TTATCAAGAC
*
57291930 AAATATTAGATTAAGTTTAATATTAAATCTTATTAAAATAATAGAATATTTATATATAAGATA
1 AAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATATAAGATA
*
57291993 AAATATTAGATTAAATTT-A-A-T-AATCTTATTAAAATAATAGAATATTTATCTATAAGATA
1 AAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATATAAGATA
* *
57292052 AAATATTTA-ATTTAATTTAATTTTAAA
1 AAATA-TTAGATTAAATTTAATATTAAA
57292079 ATAATCACTT
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
59 50 0.65
60 5 0.06
61 1 0.01
62 2 0.03
63 19 0.25
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (63 bp):
AAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATATAAGATA
Found at i:57292078 original size:25 final size:28
Alignment explanation
Indices: 57292050--57292108 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 28
57292040 ATCTATAAGA
* *
57292050 TAAAATATTTAATTTAA-TTT-AATT-T
1 TAAAATAATCAATTTAATTTTAAATTAT
*
57292075 TAAAATAATCACTTTAATTTTAAATTAT
1 TAAAATAATCAATTTAATTTTAAATTAT
57292103 TAAAAT
1 TAAAAT
57292109 GATATTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 3 0.11
27 4 0.14
28 7 0.25
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TAAAATAATCAATTTAATTTTAAATTAT
Found at i:57310252 original size:12 final size:12
Alignment explanation
Indices: 57310237--57310268 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
57310227 TATCAGAACT
*
57310237 AGAATCAAAATG
1 AGAATCAAAATC
57310249 AGAATCAAAATC
1 AGAATCAAAATC
57310261 AGAATCAA
1 AGAATCAA
57310269 GTGACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (12 bp):
AGAATCAAAATC
Found at i:57310284 original size:31 final size:32
Alignment explanation
Indices: 57310243--57310305 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
57310233 AACTAGAATC
57310243 AAAATGAGAATCAAAATCAGAATCAAGTGACA
1 AAAATGAGAATCAAAATCAGAATCAAGTGACA
* * * *
57310275 AAAAT-AGAATCAGAATTAGAATTAGGTGACA
1 AAAATGAGAATCAAAATCAGAATCAAGTGACA
57310306 GAATCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (32 bp):
AAAATGAGAATCAAAATCAGAATCAAGTGACA
Found at i:57310308 original size:25 final size:25
Alignment explanation
Indices: 57310280--57310670 Score: 338
Period size: 25 Copynumber: 15.7 Consensus size: 25
57310270 TGACAAAAAT
* *
57310280 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
57310305 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
57310330 AGAATCAGAATCAG-A--A--T--C
1 AGAATCAGAATCAGAATCAGGTGAC
* *
57310348 AGAATCAAAATTAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * * *
57310373 AAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTGAC
* *
57310398 AGAATCAGAATAAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
57310423 AGAA-CTAGAATCAGTATCAGGTAAT
1 AGAATC-AGAATCAGAATCAGGTGAC
*
57310448 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
57310473 AGAA-CTAGAATCAGTATCAGGTAAT
1 AGAATC-AGAATCAGAATCAGGTGAC
* *
57310498 AGAATCAGAATCAGGATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
57310523 AGAA-CTAGAATCAGTATCAGGTAATAGAATC
1 AGAATC-AGAATCAGAATCAGG---T-G-A-C
*
57310554 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
57310579 AGAA-CTAGAATCAGTATCAGGTAAC
1 AGAATC-AGAATCAGAATCAGGTGAC
*
57310604 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
57310629 AGAATCGGAATCAGTAAT-AGGTAAC
1 AGAATCAGAATCAG-AATCAGGTGAC
57310654 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
57310671 GTGAATGCAA
Statistics
Matches: 294, Mismatches: 50, Indels: 45
0.76 0.13 0.12
Matches are distributed among these distances:
18 13 0.04
19 1 0.00
20 1 0.00
21 1 0.00
22 1 0.00
23 1 0.00
24 8 0.03
25 237 0.81
26 7 0.02
27 1 0.00
28 2 0.01
29 1 0.00
30 1 0.00
31 18 0.06
32 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:57310323 original size:6 final size:6
Alignment explanation
Indices: 57310304--57310670 Score: 113
Period size: 6 Copynumber: 59.0 Consensus size: 6
57310294 AATTAGGTGA
* *
57310304 CAGAAT CAAAAT CAGTAT CAGGTAA- CAGAAT CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT
* * * * *
57310353 CAAAAT TAGAAT CAG-GT GACAAAAT CAGAAT CAGTAT CAGGTAAT -AGAAT
1 CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT
* * * *
57310403 CAGAAT AAGAAT TAG-GT GACAGAA- CTAGAAT CAGTAT CAGGTAAT -AGAAT
1 CAGAAT CAGAAT CAGAAT --CAGAAT C-AGAAT CAGAAT CA-G-AAT CAGAAT
* * *
57310453 CAGAAT CAGAAT TAG-GT GACAGAA- CTAGAAT CAGTAT CAGGTAAT -AGAAT
1 CAGAAT CAGAAT CAGAAT --CAGAAT C-AGAAT CAGAAT CA-G-AAT CAGAAT
* * * *
57310503 CAGAAT CAGGAT TAG-GT GACAGAA- CTAGAAT CAGTAT CAGGTAAT -AGAAT
1 CAGAAT CAGAAT CAGAAT --CAGAAT C-AGAAT CAGAAT CA-G-AAT CAGAAT
* * *
57310553 CAGAAT CAGAAT CAGAAT TAG-GT GACAGAA- CTAGAAT CAGTAT CAGGTAA-
1 CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT C-AGAAT CAGAAT CA-G-AAT
* * *
57310603 CAGAAT CAGAAT CAGAAT TAG-GT GACAGAAT CGGAAT CAGTAAT -AGGTAA-
1 CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAG-AAT CA-G-AAT
57310653 CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT
57310671 GTGAATGCAA
Statistics
Matches: 267, Mismatches: 46, Indels: 96
0.65 0.11 0.23
Matches are distributed among these distances:
5 28 0.10
6 189 0.71
7 38 0.14
8 12 0.04
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:57310334 original size:50 final size:50
Alignment explanation
Indices: 57310330--57310670 Score: 458
Period size: 50 Copynumber: 6.7 Consensus size: 50
57310320 ATCAGGTAAC
* * * * *
57310330 AGAATCAGAATCA-G-AATCAGAATCAAAATTAGAATCAGGTGACA-AAAT
1 AGAATCAGTATCAGGTAA-CAGAATCAGAATCAGAATTAGGTGACAGAACT
* *
57310378 CAGAATCAGTATCAGGTAATAGAATCAGAATAAGAATTAGGTGACAGAACT
1 -AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAACT
*
57310429 AGAATCAGTATCAGGTAATAGAATCAGAATCAGAATTAGGTGACAGAACT
1 AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAACT
* *
57310479 AGAATCAGTATCAGGTAATAGAATCAGAATCAGGATTAGGTGACAGAACT
1 AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAACT
57310529 AGAATCAGTATCAGGTAATAGAATCAGAATCAGAATCAGAATTAGGTGACAGAACT
1 AGAATCAGTATCAGG---T--AA-CAGAATCAGAATCAGAATTAGGTGACAGAACT
57310585 AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAA-T
1 AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAACT
*
57310634 CGGAATCAGTAAT-AGGTAACAGAATCAGAATCAGAAT
1 -AGAATCAGT-ATCAGGTAACAGAATCAGAATCAGAAT
57310671 GTGAATGCAA
Statistics
Matches: 270, Mismatches: 11, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
49 13 0.05
50 199 0.74
51 9 0.03
53 2 0.01
55 2 0.01
56 45 0.17
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (50 bp):
AGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGACAGAACT
Found at i:57310357 original size:43 final size:43
Alignment explanation
Indices: 57310304--57310392 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
57310294 AATTAGGTGA
* *
57310304 CAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAGAAT
* * *
57310347 CAGAATCAAAATTAGAATCAGGTGACAAAATCAGAATCAGTAT
1 CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAGAAT
57310390 CAG
1 CAG
57310393 GTAATAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (43 bp):
CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAGAAT
Found at i:57310892 original size:27 final size:27
Alignment explanation
Indices: 57310787--57310894 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
57310777 AGCATGGCTG
* * *
57310787 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
* * *
57310813 CCAGATACAGATATTGTGGCAGAGCGA
1 CCAGAAACAGATATTGTGGCAAAGCCA
*
57310840 CCAG-AACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAAAGCCA
* *
57310867 CCAGAAATAGATAATGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
57310894 C
1 C
57310895 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.16
27 51 0.74
28 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAAAGCCA
Found at i:57310902 original size:53 final size:53
Alignment explanation
Indices: 57310787--57310894 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
57310777 AGCATGGCTG
* * * * *
57310787 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCGA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
* * *
57310840 CCAGAACAGATATTTGTGGCATAGCCACCAGAAATAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
57310894 C
1 C
57310895 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:57311570 original size:53 final size:54
Alignment explanation
Indices: 57311486--57311615 Score: 183
Period size: 53 Copynumber: 2.4 Consensus size: 54
57311476 CAAAATGGTA
* * * *
57311486 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCAGT
* *
57311539 ATTTCTACCCTACAA-GGTATTTCGGTAATTCTACCCTACATGGATATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCAGT
*
57311592 AATTCTACCCTACAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
57311616 AATAATTTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 51 0.75
54 17 0.25
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCAGT
Found at i:57311622 original size:27 final size:27
Alignment explanation
Indices: 57311482--57311615 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
57311472 GGGGCAAAAT
* * *
57311482 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57311509 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57311536 GGTATTTCTACCCTACAA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57311562 GGTAATTCTACCCTACATGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57311589 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
57311616 AATAATTTTG
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.26
27 68 0.74
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57311636 original size:27 final size:27
Alignment explanation
Indices: 57311606--57311710 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
57311596 CTACCCTACA
57311606 AGGGTATTTCAATAATTTTGTAAATCG
1 AGGGTATTTCAATAATTTTGTAAATCG
*** * *
57311633 AGGGTAAAACGACAATTTTGTAAATCG
1 AGGGTATTTCAATAATTTTGTAAATCG
** ** *
57311660 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAATAATTTTGTAAATCG
* *
57311687 AGGGTATTTCAGTAATTTGGTAAA
1 AGGGTATTTCAATAATTTTGTAAA
57311711 CTATAGTATT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 3 0.05
27 55 0.95
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCAATAATTTTGTAAATCG
Found at i:57314055 original size:30 final size:30
Alignment explanation
Indices: 57314019--57314119 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
57314009 GACAAGATTG
* * *
57314019 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
57314049 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
57314077 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
57314106 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57314120 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:57314131 original size:29 final size:28
Alignment explanation
Indices: 57314048--57314123 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
57314038 AAAATTGTAC
* *
57314048 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
57314076 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
57314105 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
57314124 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:57323111 original size:26 final size:24
Alignment explanation
Indices: 57323079--57323165 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
57323069 CTTATTATGT
57323079 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
57323103 TCGCACACATAGTGCTACAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
57323127 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
57323151 TCGCACACATAGTGC
1 TCGCACACATAGTGC
57323166 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:57324998 original size:40 final size:40
Alignment explanation
Indices: 57324873--57325024 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
57324863 TCGAATGATG
* *
57324873 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * * *
57324913 TCCGGACTAAGAT-CGGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
57324953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
57324994 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
57325025 TCGCTATATC
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:57326931 original size:43 final size:43
Alignment explanation
Indices: 57326883--57326966 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
57326873 CACATGTATC
* * * *
57326883 GCATCCATTATGAACTCGGACCACTCACCGAGCTCGGATGCTA
1 GCATCCATAAGGAACTCAGACCACTCAACGAGCTCGGATGCTA
57326926 GCATCCATAAGGAACTCAGACCACTCAACGAGCTCGGATGC
1 GCATCCATAAGGAACTCAGACCACTCAACGAGCTCGGATGC
57326967 CACATATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (43 bp):
GCATCCATAAGGAACTCAGACCACTCAACGAGCTCGGATGCTA
Found at i:57329067 original size:42 final size:43
Alignment explanation
Indices: 57328967--57329118 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
57328957 CAGTGCCAAC
* * **
57328967 GTCCCAGACATGGTCTTAAACGTAATTCAATATCGTTGCCTCT
1 GTCCCAGACATGGTCTTAAACGAAATTCAATATCGATGCCGAT
* *
57329010 GTCCCAGACAGGGTCTTATACGAAATT-AGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTAAACGAAATTCA-ATATCGATGCCGAT
* * * * *
57329052 TTCCCAGACATGGTCTTACACATAAATCTCAA-ATCGAAT-TCTAT
1 GTCCCAGACATGGTCTTAAAC-GAAAT-TCAATATCG-ATGCCGAT
* *
57329096 GTCCCAGACACGGTCTTACACGA
1 GTCCCAGACATGGTCTTAAACGA
57329119 TATTTCAGAT
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 26 0.30
43 33 0.38
44 26 0.30
45 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTAAACGAAATTCAATATCGATGCCGAT
Found at i:57349697 original size:43 final size:43
Alignment explanation
Indices: 57349649--57349820 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
57349639 GTTATCGAGA
*
57349649 TGTGATTACATGTAGGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
** * * *
57349692 TGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
*** *
57349736 T-TGATTTTGTGTAAGACCCTGTCTGGGACAGTGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-T-TGGCATTGTAT
* * *
57349779 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
57349821 CGAGCTTATC
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 8 0.08
43 63 0.60
44 5 0.05
45 29 0.28
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:57355306 original size:16 final size:16
Alignment explanation
Indices: 57355287--57355338 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
57355277 TAAAACTAAA
57355287 AAATAAATAATCTTTT
1 AAATAAATAATCTTTT
* *
57355303 AAAT-ATTAAT-ATTT
1 AAATAAATAATCTTTT
*
57355317 ACTATAAATAATCTTTT
1 A-AATAAATAATCTTTT
57355334 AAATA
1 AAATA
57355339 TTAATATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 4 0.15
15 7 0.26
16 12 0.44
17 4 0.15
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAAATAATCTTTT
Found at i:57355327 original size:31 final size:31
Alignment explanation
Indices: 57355289--57355350 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
57355279 AAACTAAAAA
57355289 ATAAATAATCTTTTAAATATTAATATTTACT
1 ATAAATAATCTTTTAAATATTAATATTTACT
57355320 ATAAATAATCTTTTAAATATTAATATTTACT
1 ATAAATAATCTTTTAAATATTAATATTTACT
57355351 TTTATCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAATAATCTTTTAAATATTAATATTTACT
Found at i:57365351 original size:40 final size:40
Alignment explanation
Indices: 57365266--57365416 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
57365256 AATTGAATGA
* * * **
57365266 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
57365306 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
57365347 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
57365386 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57365417 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:57365430 original size:40 final size:40
Alignment explanation
Indices: 57365303--57365432 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
57365293 ATGCTGGAAA
* * *
57365303 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
57365343 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
57365383 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
57365423 TTATATCCGG
1 TTATATCCGG
57365433 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:57377221 original size:38 final size:39
Alignment explanation
Indices: 57377108--57377250 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
57377098 CCGCACAAAG
*
57377108 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
57377148 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
57377187 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
57377225 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
57377251 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:57377229 original size:77 final size:79
Alignment explanation
Indices: 57377068--57377249 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
57377058 TCGTTCAAAC
* * **
57377068 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
57377133 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
57377148 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
57377211 CAATTTGCACAATT
66 CAATTTGCACAATT
57377225 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
57377250 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:57384065 original size:84 final size:84
Alignment explanation
Indices: 57383924--57384091 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
57383914 ATTTTATGAA
57383924 AGAATATGAGTATTAGATATGTAATAAACAACTTTTGTGATGAAGTTTTCATGGAAACCCTAATT
1 AGAATATGAGTATTAGATATGTAATAAACAACTTTTGTGATGAAGTTTTCATGGAAACCCTAATT
57383989 GAGGACCATTTTACATAAC
66 GAGGACCATTTTACATAAC
57384008 AGAATATGAGTATTAGATATGTAATAAACAACTTTTGTGATGAAGTTTTCATGGAAACCCTAATT
1 AGAATATGAGTATTAGATATGTAATAAACAACTTTTGTGATGAAGTTTTCATGGAAACCCTAATT
57384073 GAGGACCATTTTACATAAC
66 GAGGACCATTTTACATAAC
57384092 TCATAAAATT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (84 bp):
AGAATATGAGTATTAGATATGTAATAAACAACTTTTGTGATGAAGTTTTCATGGAAACCCTAATT
GAGGACCATTTTACATAAC
Found at i:57384718 original size:46 final size:46
Alignment explanation
Indices: 57384598--57384911 Score: 293
Period size: 46 Copynumber: 6.7 Consensus size: 46
57384588 TATGAGCCAA
* *
57384598 TGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGA-GAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG--TT-ACGA-GATGTGCTAG
*
57384646 TGTAAGA-CATGTCTGGGACAT-GCATCGGTTACGAGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTTACGAGATGTGCTAG
*
57384690 TGTAAGACCATGTCTGGGACATGGCATCGGTTACGAGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTTACGAGATGTGCTAG
* * *
57384736 TGTAAGGCCATGTCTGGGACATGGCATCGG-CACAGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTTAC-GAGATGT----GCTAG
* * *
57384786 TGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATGAAGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-TTACGA-GATG-T-GCT-AG
* * * *
57384835 TGTAAGACCATGTCTGGGACATGGCATCGACTT-CAGATATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCG-GTTAC-GAGATGTGCTAG
*
57384882 TGTAAGACCATGTCTCGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
57384912 CATTCTACCC
Statistics
Matches: 228, Mismatches: 21, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
43 3 0.01
44 16 0.07
45 16 0.07
46 65 0.29
47 44 0.19
48 8 0.04
49 36 0.16
50 36 0.16
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTTACGAGATGTGCTAG
Found at i:57384763 original size:92 final size:94
Alignment explanation
Indices: 57384598--57384912 Score: 324
Period size: 96 Copynumber: 3.3 Consensus size: 94
57384588 TATGAGCCAA
* * * *
57384598 TGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGAGAGCTAGTGTAA-GACATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-TT-ACGACGAGTGTTAGTGTAAGGCCATGTCTG
* *
57384661 GGACAT-GCATCGGTTAC-GAGATGTGTTAG
64 GGACATGGCATCGGTTACAGATATGTGCTAG
57384690 TGTAAGACCATGTCTGGGACATGGCATCGG-TTACGA-GATGTGTTAGTGTAAGGCCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTACGACGA-GTGTTAGTGTAAGGCCATGTCTGG
*
57384753 GACATGGCATCGG-CACAGATATGTGAGAGCTAG
65 GACATGGCATCGGTTACAGATATGT----GCTAG
* * * * *
57384786 TGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATGAAGATAGTCAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTACGACG-AG-T-GTTAGTGTAAGGCCATGTCT
* * *
57384850 GGGACATGGCATCGACTT-CAGATATGAGCCAG
63 GGGACATGGCATCG-GTTACAGATATGTGCTAG
*
57384882 TGTAAGACCATGTCTCGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
57384913 ATTCTACCCC
Statistics
Matches: 190, Mismatches: 17, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
89 3 0.02
90 14 0.07
91 17 0.09
92 42 0.22
96 69 0.36
97 3 0.02
98 2 0.01
99 32 0.17
100 8 0.04
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTTACGACGAGTGTTAGTGTAAGGCCATGTCTGGG
ACATGGCATCGGTTACAGATATGTGCTAG
Found at i:57390636 original size:24 final size:23
Alignment explanation
Indices: 57390601--57390645 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
57390591 GACACACCTT
57390601 AGCTCTTACGAGCATCCTGTTATA
1 AGCTCTTACGAG-ATCCTGTTATA
*
57390625 AGCTCTCT-CGAGTTCCTGTTA
1 AGCTCT-TACGAGATCCTGTTA
57390646 CATGGTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 10 0.53
25 1 0.05
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (23 bp):
AGCTCTTACGAGATCCTGTTATA
Found at i:57392045 original size:42 final size:42
Alignment explanation
Indices: 57391999--57392080 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
57391989 AGAGGCAAGA
**
57391999 GCGTGTGTCTCA-TTCGTGTGTGACACATGGCCTAGCACACGG
1 GCGTGTGTCTCAGTT-GTGTGTGACACACAGCCTAGCACACGG
*
57392041 GCGTGTGTCTCAGTTGTGTGTGAGACACAGCCTAGCACAC
1 GCGTGTGTCTCAGTTGTGTGTGACACACAGCCTAGCACAC
57392081 AGGTGTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (42 bp):
GCGTGTGTCTCAGTTGTGTGTGACACACAGCCTAGCACACGG
Found at i:57400295 original size:16 final size:15
Alignment explanation
Indices: 57400271--57400300 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57400261 AACTATTTTA
57400271 TTACAAATTTCACTC
1 TTACAAATTTCACTC
57400286 TTACATAATTTCACT
1 TTACA-AATTTCACT
57400301 TGCTACATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:57400576 original size:49 final size:49
Alignment explanation
Indices: 57400512--57400738 Score: 181
Period size: 49 Copynumber: 4.6 Consensus size: 49
57400502 CTGGTACGTA
* *
57400512 TAGTAGCCTGTACTTAGTACTACACATGCGA-CGAACAATCTGGTACAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAATCTGATACAC
* * * *
57400560 GTAGTAGCTTGCACTTAGTACTACACATGTGACCTAACCATCTGATACAC
1 -TAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAATCTGATACAC
* * * ** * *
57400610 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAAGTAGGCA-
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAATCT-GA-TA--CAC
* * * * * * *
57400661 TAGTAACCTGCACTTAGAACTACACATGCGACCTAACTATCTGGTATATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAATCTGATACA-C
* *
57400711 TAGTACCCTGCACTTAGTACTAAACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
57400739 TTCTCACAAT
Statistics
Matches: 141, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
48 3 0.02
49 61 0.43
50 43 0.30
51 30 0.21
52 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAATCTGATACAC
Found at i:57406620 original size:31 final size:31
Alignment explanation
Indices: 57406547--57406620 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 31
57406537 ACATCAAATG
* *
57406547 ATTAATTTCATATACATGTATCATCAAATTCC
1 ATTAA-TTCATATACATGTAACAACAAATTCC
*
57406579 ATT--TTCCATATAACATGTAACAAC-ATTTCC
1 ATTAATT-CATAT-ACATGTAACAACAAATTCC
57406609 ATTAATTCATAT
1 ATTAATTCATAT
57406621 GTATGCCTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
29 2 0.06
30 13 0.37
31 15 0.43
32 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (31 bp):
ATTAATTCATATACATGTAACAACAAATTCC
Found at i:57406848 original size:25 final size:25
Alignment explanation
Indices: 57406793--57406860 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
57406783 TGTGAATTGA
* * * * *
57406793 TATGCTCACTCGAGTTGTAGATCGG
1 TATGCTCTCACGAGCTGTAAATCAG
*
57406818 TCTGCTCTCACGAGCTGTAAATCAG
1 TATGCTCTCACGAGCTGTAAATCAG
57406843 TATGCT-TACACGAGCTGT
1 TATGCTCT-CACGAGCTGT
57406861 GGGTAGAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
TATGCTCTCACGAGCTGTAAATCAG
Found at i:57411183 original size:46 final size:46
Alignment explanation
Indices: 57411008--57411183 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
57410998 TGTAACCCGC
* * * *
57411008 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
57411054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
57411104 CTCACAA---AA-TCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
57411147 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57411184 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 6 0.05
43 5 0.05
44 1 0.01
45 2 0.02
46 58 0.53
47 24 0.22
48 2 0.02
49 1 0.01
50 5 0.05
51 6 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:57412175 original size:14 final size:12
Alignment explanation
Indices: 57412168--57412224 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
57412158 AGAACGAGGC
57412168 AAAAAGAAAGAG
1 AAAAAGAAAGAG
*
57412180 AAAAAGAAATCA-
1 AAAAAGAAA-GAG
*
57412192 AAAAAGGAA-A-
1 AAAAAGAAAGAG
57412202 AAAAAGAAAGAG
1 AAAAAGAAAGAG
57412214 AGAAAA-AAAGA
1 A-AAAAGAAAGA
57412225 ATTAAGAGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 23 0.61
13 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:57418429 original size:42 final size:42
Alignment explanation
Indices: 57418367--57418494 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 42
57418357 TGACATTAGG
*
57418367 GTTATGAG-TTT-ATGTTTAAGACCATATTTGGGATATGGCATT
1 GTTATGAGATTTCATG--TAAGACCATATCTGGGATATGGCATT
* *
57418409 GTTATGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATAT
1 GTTATGAGATTTCATGTAAGACCATATCTGGGATA-TGGCAT-T
* ** *
57418453 -ATATGAGATCCCATGTAAGACCATATCTGAGATATGGCATT
1 GTTATGAGATTTCATGTAAGACCATATCTGGGATATGGCATT
57418494 G
1 G
57418495 GAACGATTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.42
43 37 0.51
44 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (42 bp):
GTTATGAGATTTCATGTAAGACCATATCTGGGATATGGCATT
Found at i:57419038 original size:20 final size:20
Alignment explanation
Indices: 57419013--57419054 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
57419003 AAATGACCAT
57419013 TTGGTATTGGCCAAGATTGG
1 TTGGTATTGGCCAAGATTGG
57419033 TTGGTATTGGCCAAGATTGG
1 TTGGTATTGGCCAAGATTGG
57419053 TT
1 TT
57419055 AAGTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (20 bp):
TTGGTATTGGCCAAGATTGG
Found at i:57419331 original size:30 final size:30
Alignment explanation
Indices: 57419295--57419452 Score: 307
Period size: 30 Copynumber: 5.3 Consensus size: 30
57419285 CACACGAGTA
*
57419295 GACACACGAGCATGTGTCTAGGTCGTGTGT
1 GACACACGAGCATGTGTCTAGGCCGTGTGT
57419325 GACACACGAGCATGTGTCTAGGCCGTGTGT
1 GACACACGAGCATGTGTCTAGGCCGTGTGT
57419355 GACACACGAGCATGTGTCTAGGCCGTGTGT
1 GACACACGAGCATGTGTCTAGGCCGTGTGT
57419385 GACACACGAGCATGTGTCTAGGCCGTGTGT
1 GACACACGAGCATGTGTCTAGGCCGTGTGT
57419415 GACACACGAGCATGTGTCTAGGCCGTGTGT
1 GACACACGAGCATGTGTCTAGGCCGTGTGT
57419445 GACACACG
1 GACACACG
57419453 GCTTGACCTA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 127 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (30 bp):
GACACACGAGCATGTGTCTAGGCCGTGTGT
Found at i:57420899 original size:39 final size:39
Alignment explanation
Indices: 57420839--57421244 Score: 338
Period size: 39 Copynumber: 10.5 Consensus size: 39
57420829 TTATATAATT
* *
57420839 ATACCCTTGATCGCACTTATGTGCCCCTATTGTACTTCG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* ** * * * * * *
57420878 ATACCCTTGATTACACCTATGTGCTCTTGTTGTACTTTG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
*
57420917 ATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTCG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* * * *
57420956 GTACCCCTGATCGCACGTACGTGCCTCTGTTGTACTTC-
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
*
57420994 AGTACCCCTGATTGCACTTACGTGCCCCTGA-TGTACTTCG
1 A-TACCCCTGATCGCACTTACGTGCCCCT-ATTGTACTTCG
* * * *
57421034 ATACCCATGATCGCACCTATGTGCCCCTATTGTACTTTG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* * * *
57421073 GTACCCCTGATTGCAGTTACGT-TCCCTGA-TGTACTTC-
1 ATACCCCTGATCGCACTTACGTGCCCCT-ATTGTACTTCG
* * * * *
57421110 AGTACCCCTGATTGTACCTACGTGCCCTTGTTGTACTTCG
1 A-TACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* * * * * *
57421150 GTACCCCTAATTGCACTTATGTG-CCCTGTTGTACTTTG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* * * * *
57421188 GTACCTCTGATCACACTTACGTACCCCTGTTGTACTTCG
1 ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
* **
57421227 GTACCCCAAATCGCACTT
1 ATACCCCTGATCGCACTT
57421245 TTGTGCCATA
Statistics
Matches: 294, Mismatches: 63, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
38 60 0.20
39 233 0.79
40 1 0.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (39 bp):
ATACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCG
Found at i:57420943 original size:20 final size:20
Alignment explanation
Indices: 57420920--57421061 Score: 80
Period size: 20 Copynumber: 7.2 Consensus size: 20
57420910 TACTTTGATA
*
57420920 CCCCTGATCGCACTTATGTG
1 CCCCTGATCGCACTTACGTG
* * *
57420940 CCCCT-ATTGTACTT-CGGTA
1 CCCCTGATCGCACTTAC-GTG
*
57420959 CCCCTGATCGCACGTACGTG
1 CCCCTGATCGCACTTACGTG
* * * *
57420979 CCTCTG-TTGTACTT-CAGTA
1 CCCCTGATCGCACTTAC-GTG
*
57420998 CCCCTGATTGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
* *
57421018 CCCCTGAT-GTACTT-CGATA
1 CCCCTGATCGCACTTACG-TG
* * *
57421037 CCCATGATCGCACCTATGTG
1 CCCCTGATCGCACTTACGTG
57421057 CCCCT
1 CCCCT
57421062 ATTGTACTTT
Statistics
Matches: 89, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
18 3 0.03
19 39 0.44
20 44 0.49
21 3 0.03
ACGTcount: A:0.16, C:0.35, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:57421046 original size:117 final size:117
Alignment explanation
Indices: 57420840--57421233 Score: 481
Period size: 117 Copynumber: 3.4 Consensus size: 117
57420830 TATATAATTA
* * * * * * * *
57420840 TACCCTTGATCGCACTTATGTGCCCCTATTGTACTTC-GATACCCTTGATTACACCTATGTGCTC
1 TACCCCTGATCGCACGTACGTGCCCCTGTTGTACTTCAG-TACCCCTGATTGCACCTACGTGCCC
* *
57420904 TTGTTGTACTTTGATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTCGG
65 TTGTTGTACTTCGATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTTGG
* * *
57420957 TACCCCTGATCGCACGTACGTGCCTCTGTTGTACTTCAGTACCCCTGATTGCACTTACGTGCCCC
1 TACCCCTGATCGCACGTACGTGCCCCTGTTGTACTTCAGTACCCCTGATTGCACCTACGTGCCCT
* * *
57421022 TGATGTACTTCGATACCCATGATCGCACCTATGTGCCCCTATTGTACTTTGG
66 TGTTGTACTTCGATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTTGG
* * * *
57421074 TACCCCTGATTGCA-GTTACGT-TCCCTGATGTACTTCAGTACCCCTGATTGTACCTACGTGCCC
1 TACCCCTGATCGCACG-TACGTGCCCCTGTTGTACTTCAGTACCCCTGATTGCACCTACGTGCCC
* * * *
57421137 TTGTTGTACTTCGGTACCCCTAATTGCACTTATGTG-CCCTGTTGTACTTTGG
65 TTGTTGTACTTCGATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTTGG
* * * * *
57421189 TACCTCTGATCACACTTACGTACCCCTGTTGTACTTCGGTACCCC
1 TACCCCTGATCGCACGTACGTGCCCCTGTTGTACTTCAGTACCCC
57421234 AAATCGCACT
Statistics
Matches: 236, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
115 31 0.13
116 87 0.37
117 117 0.50
118 1 0.00
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.35
Consensus pattern (117 bp):
TACCCCTGATCGCACGTACGTGCCCCTGTTGTACTTCAGTACCCCTGATTGCACCTACGTGCCCT
TGTTGTACTTCGATACCCCTGATCGCACTTATGTGCCCCTATTGTACTTTGG
Found at i:57421136 original size:77 final size:78
Alignment explanation
Indices: 57420840--57421233 Score: 418
Period size: 78 Copynumber: 5.1 Consensus size: 78
57420830 TATATAATTA
* * * * * ** * *
57420840 TACCCTTGATCGCACTTATGTGCCCCT-ATTGTACTTCGATACCCTTGATTACACCTATGTGCTC
1 TACCCCTGATTGCACTTACGTGCCCCTGA-TGTACTTCGGTACCCCTGATCGCACCTACGTGCCC
* * *
57420904 TTGTTGTACTTTGA
65 CTGTTGTACTTCGG
* * * *
57420918 TACCCCTGATCGCACTTATGTGCCCCT-ATTGTACTTCGGTACCCCTGATCGCACGTACGTGCCT
1 TACCCCTGATTGCACTTACGTGCCCCTGA-TGTACTTCGGTACCCCTGATCGCACCTACGTGCCC
*
57420982 CTGTTGTACTTCAG
65 CTGTTGTACTTCGG
* * *
57420996 TACCCCTGATTGCACTTACGTGCCCCTGATGTACTTCGATACCCATGATCGCACCTATGTGCCCC
1 TACCCCTGATTGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGCACCTACGTGCCCC
* *
57421061 TATTGTACTTTGG
66 TGTTGTACTTCGG
* * * * * *
57421074 TACCCCTGATTGCAGTTACGT-TCCCTGATGTACTTCAGTACCCCTGATTGTACCTACGTGCCCT
1 TACCCCTGATTGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGCACCTACGTGCCCC
57421138 TGTTGTACTTCGG
66 TGTTGTACTTCGG
* * * * * * * *
57421151 TACCCCTAATTGCACTTATGTG-CCCTGTTGTACTTTGGTACCTCTGATCACACTTACGTACCCC
1 TACCCCTGATTGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGCACCTACGTGCCCC
57421215 TGTTGTACTTCGG
66 TGTTGTACTTCGG
57421228 TACCCC
1 TACCCC
57421234 AAATCGCACT
Statistics
Matches: 267, Mismatches: 47, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
77 115 0.43
78 151 0.57
79 1 0.00
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.35
Consensus pattern (78 bp):
TACCCCTGATTGCACTTACGTGCCCCTGATGTACTTCGGTACCCCTGATCGCACCTACGTGCCCC
TGTTGTACTTCGG
Found at i:57427361 original size:27 final size:27
Alignment explanation
Indices: 57427316--57427379 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
57427306 GGGCATAATC
* * ** *
57427316 GTCATTCTACCATATAGGGTTATTACG
1 GTCATTTTACCATAGAGGGCCATTACA
*
57427343 GTCATTTTACCCTAGAGGGCCATTACA
1 GTCATTTTACCATAGAGGGCCATTACA
57427370 GTCATTTTAC
1 GTCATTTTAC
57427380 ACTATAATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATAGAGGGCCATTACA
Found at i:57430984 original size:29 final size:29
Alignment explanation
Indices: 57430942--57431061 Score: 179
Period size: 29 Copynumber: 4.2 Consensus size: 29
57430932 GAAAGCATGT
57430942 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
57430971 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
57431000 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
57431029 ATATGAAAGAGA-TTGGGCATAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
57431057 ATATG
1 ATATG
57431062 CATATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 19 0.23
29 64 0.77
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:57438416 original size:80 final size:80
Alignment explanation
Indices: 57438251--57438437 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
57438241 AATTGAATGA
* * * * *
57438251 TATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
57438316 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
*
57438332 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
57438395 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
57438411 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
57438438 GTGCAAATCG
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.90
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:57438454 original size:80 final size:79
Alignment explanation
Indices: 57438290--57438456 Score: 178
Period size: 80 Copynumber: 2.1 Consensus size: 79
57438280 GCTGGAAATT
* * *
57438290 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GCTACATCCGGGCTAAGACCCGAGGACA
* * *
57438355 TTTATGCTAGTAATT
65 TTTATGCAAATAATG
*
57438370 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT-CATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGC-TAC-ATCCGGGCTAAGACCCG-AGG
* **
57438433 -CATTTGTGCAAATCGTG
62 ACATTTATGCAAATAATG
57438450 ATATCCG
1 ATATCCG
57438457 AGTTAAGTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 5 0.07
80 64 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTACATCCGGGCTAAGACCCGAGGACAT
TTATGCAAATAATG
Found at i:57438456 original size:40 final size:39
Alignment explanation
Indices: 57438289--57438443 Score: 152
Period size: 40 Copynumber: 3.9 Consensus size: 39
57438279 TGCTGGAAAT
* * *
57438289 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CA
* * * * *
57438329 TACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAA
1 TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCA
* *
57438368 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
*
57438408 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
57438444 ATCGTGATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
Found at i:57446531 original size:80 final size:80
Alignment explanation
Indices: 57446366--57446552 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 80
57446356 AATTGAATGA
* * * * *
57446366 TATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
57446431 TTGTGCTAGTGGCTAC
66 TTGTGCTAGT-GCTAC
*
57446447 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
57446510 TTCGTG-TGAGT-CATTC
66 TT-GTGCT-AGTGC-TAC
*
57446526 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
57446553 GTGCAAATCG
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 6 0.06
80 83 0.89
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGCTAC
Found at i:57446570 original size:40 final size:39
Alignment explanation
Indices: 57446404--57446572 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 39
57446394 TGCTGGAAAT
* * *
57446404 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CA
* * * * *
57446444 TACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAA
1 TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCA
* **
57446483 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGTGAGTCA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
* * *
57446523 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
57446563 TGATATCCGG
1 T-ATATCCGG
57446573 TTAAGTCCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.04
40 97 0.93
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
Found at i:57449108 original size:6 final size:6
Alignment explanation
Indices: 57449097--57449121 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57449087 TGCAGGGTTG
57449097 GATGGA GATGGA GATGGA GATGGA G
1 GATGGA GATGGA GATGGA GATGGA G
57449122 TGTAGAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GATGGA
Found at i:57452117 original size:26 final size:26
Alignment explanation
Indices: 57452070--57452120 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57452060 GCGAGGCTGC
*
57452070 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGGCACCAGAA
*
57452096 CAGATATATGTGGCG-AGGCACCAGA
1 CAGATAT-TGTGACGAAGGCACCAGA
57452121 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACGAAGGCACCAGAA
Found at i:57452409 original size:19 final size:19
Alignment explanation
Indices: 57452385--57452455 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
57452375 TGGGCCTGTT
57452385 GGCCCATTAGCCCGTTTTC
1 GGCCCATTAGCCCGTTTTC
*
57452404 GGCCCATTGGCCCGTTTTC
1 GGCCCATTAGCCCGTTTTC
*
57452423 GGCCCATTAGCCCGTTTTT
1 GGCCCATTAGCCCGTTTTC
57452442 GGCCCATTAAGCCC
1 GGCCCATT-AGCCC
57452456 AAAATACCGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 43 0.90
20 5 0.10
ACGTcount: A:0.11, C:0.37, G:0.23, T:0.30
Consensus pattern (19 bp):
GGCCCATTAGCCCGTTTTC
Found at i:57452728 original size:85 final size:84
Alignment explanation
Indices: 57452586--57452755 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 84
57452576 TAAATCCACG
57452586 TCAACTAACGCAATCATCACACAAGTTGTCATTTACGCACGAGGGAAAAATAGTCATTTAACACC
1 TCAACTAACGCAATCATCACACAAGTTGTCATTTACGCACGAGGGAAAAATAGTCATTTAACACC
57452651 CTAGGGGCAAAATGTAATT
66 CTAGGGGCAAAATGTAATT
57452670 TCAACTAACGCAATCATCACACAAGTTAGTCATTTACGCACGAGGGAAAAATAGTCATTTAACAC
1 TCAACTAACGCAATCATCACACAAGTT-GTCATTTACGCACGAGGGAAAAATAGTCATTTAACAC
57452735 CCTAGGGGCAAAATGTAATT
65 CCTAGGGGCAAAATGTAATT
57452755 T
1 T
57452756 TACACCCTAG
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 27 0.32
85 58 0.68
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (84 bp):
TCAACTAACGCAATCATCACACAAGTTGTCATTTACGCACGAGGGAAAAATAGTCATTTAACACC
CTAGGGGCAAAATGTAATT
Found at i:57452755 original size:26 final size:27
Alignment explanation
Indices: 57452717--57452782 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 27
57452707 GCACGAGGGA
*
57452717 AAAATAGTCATTTAACACCCTAGGGGC
1 AAAATAGTAATTTAACACCCTAGGGGC
*
57452744 AAAAT-GTAATTTTACACCCTAGGGGC
1 AAAATAGTAATTTAACACCCTAGGGGC
*
57452770 AAAATGGTAATTT
1 AAAATAGTAATTT
57452783 TACCCCACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 24 0.67
27 12 0.33
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
AAAATAGTAATTTAACACCCTAGGGGC
Found at i:57452757 original size:27 final size:28
Alignment explanation
Indices: 57452727--57452784 Score: 102
Period size: 26 Copynumber: 2.1 Consensus size: 28
57452717 AAAATAGTCA
57452727 TTTAACACCCTAGGGGCAAAAT-GTAAT
1 TTTAACACCCTAGGGGCAAAATGGTAAT
57452754 TTT-ACACCCTAGGGGCAAAATGGTAAT
1 TTTAACACCCTAGGGGCAAAATGGTAAT
57452781 TTTA
1 TTTA
57452785 CCCCACAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (28 bp):
TTTAACACCCTAGGGGCAAAATGGTAAT
Found at i:57452843 original size:25 final size:25
Alignment explanation
Indices: 57452783--57452854 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
57452773 ATGGTAATTT
* * *
57452783 TACCCCACAAGGGTATCTCAGTAATTC
1 TACCCTACAGGGGTATTTC-GT-ATTC
57452810 TACCCTACAGGGGTATTTCGTATTC
1 TACCCTACAGGGGTATTTCGTATTC
57452835 T-CCCTTACAGGGGTATTTCG
1 TACCC-TACAGGGGTATTTCG
57452855 GTAATTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 3 0.07
25 20 0.49
26 2 0.05
27 16 0.39
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
TACCCTACAGGGGTATTTCGTATTC
Found at i:57459497 original size:30 final size:30
Alignment explanation
Indices: 57459463--57459520 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57459453 CCGAGCCTAG
57459463 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * * *
57459493 GGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
57459521 GAATTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Done.