Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 171 of 373
Found at i:57355987 original size:40 final size:40
Alignment explanation
Indices: 57355932--57356149 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
57355922 CGGATGATAA
* *
57355932 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
57355972 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57356012 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
57356052 CCGGGCTAAGTCCTGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57356092 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
57356132 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57356150 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57357886 original size:3 final size:3
Alignment explanation
Indices: 57357878--57357909 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
57357868 CAGGTACTTA
57357878 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57357910 AGAACTGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:57365549 original size:42 final size:42
Alignment explanation
Indices: 57365468--57365554 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
57365458 TAGTGTCAAC
*** *
57365468 GCCATGTCCCAAACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
* * *
57365510 GCCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGAT
1 GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
57365552 GCC
1 GCC
57365555 GAAGTCATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
Found at i:57365627 original size:48 final size:49
Alignment explanation
Indices: 57365511--57365639 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 49
57365501 CATATCGATG
* ** * *
57365511 CCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGATGCCGAAGT
1 CCATGTCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCCGAAGT
* * * * *
57365560 -CATATCCCTGATATAGTCTTACACAGGATCTCGTATCGATGCC-AATT
1 CCATGTCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCCGAAGT
* *
57365607 CCATGTCCCAGACATGGTCTTCCACGGGATCTC
1 CCATGTCCCAGACATGGTCTTACACAGGATCTC
57365640 ATTAATCATG
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
47 3 0.05
48 60 0.95
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCCGAAGT
Found at i:57369991 original size:16 final size:16
Alignment explanation
Indices: 57369972--57370002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57369962 CTTCTTAACT
57369972 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57369988 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57370003 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57370008 original size:20 final size:20
Alignment explanation
Indices: 57369969--57370008 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57369959 AAACTTCTTA
* *
57369969 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57369989 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57370009 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57370385 original size:108 final size:110
Alignment explanation
Indices: 57370241--57370441 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
57370231 ATCCTTTTGA
* * * * *
57370241 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
57370304 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
* * *
57370349 AACTTATCAATGCCATGTCTTAACATGGCCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
57370414 TGCCATGCCTTGGCATGGTCTTGCATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
57370442 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
Found at i:57370418 original size:55 final size:52
Alignment explanation
Indices: 57370194--57370448 Score: 198
Period size: 55 Copynumber: 4.8 Consensus size: 52
57370184 ACGCGGGTAC
* * * *
57370194 CTTACCATTGCCATGACTTGTCATGATCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTAGAAA
* *
57370243 CTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTA-GAAA
* * * * * *
57370296 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTG-CCT-TAGAAA
* * * *
57370351 CTTATCAATGCCATGTCTTAACATGGCCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTAGAAA
* * *
57370404 CCTTACCAATTGCCATGCCTTGGCATGGTCTTGCATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
57370449 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 39 0.24
52 4 0.02
53 42 0.26
54 14 0.09
55 62 0.38
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTAGAAA
Found at i:57401129 original size:42 final size:42
Alignment explanation
Indices: 57401025--57401129 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
57401015 CTGAGATATC
*
57401025 GTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGATATTTA
1 GTGTAAGACCATGTCTGGGACACAGGCCTCGATTGATATTTA
* * ** *
57401067 CGTATAAGACCATGTTTGGGACATTGGCTTCGTATCTGAT-TTT-
1 -GTGTAAGACCATGTCTGGGACACAGGCCTCG-AT-TGATATTTA
*
57401110 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
57401130 TAGAGGCATC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 17 0.33
43 25 0.49
44 5 0.10
45 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACACAGGCCTCGATTGATATTTA
Found at i:57405833 original size:24 final size:26
Alignment explanation
Indices: 57405782--57405836 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
57405772 CGAGTGATTT
*
57405782 GGAAAAACTAAAGCTAAAGTCGAAAG
1 GGAAAAACTAAAGCAAAAGTCGAAAG
* *
57405808 GGAAAAAC-AAAG-AAAATTCGACAG
1 GGAAAAACTAAAGCAAAAGTCGAAAG
57405832 GGAAA
1 GGAAA
57405837 GGGAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 14 0.54
25 4 0.15
26 8 0.31
ACGTcount: A:0.56, C:0.11, G:0.24, T:0.09
Consensus pattern (26 bp):
GGAAAAACTAAAGCAAAAGTCGAAAG
Found at i:57408428 original size:40 final size:40
Alignment explanation
Indices: 57408343--57408560 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
57408333 AAGCCAAGTA
* * *
57408343 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
57408381 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57408421 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57408461 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57408501 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
57408542 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57408561 TTATCATTCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57416499 original size:40 final size:40
Alignment explanation
Indices: 57416414--57416631 Score: 302
Period size: 40 Copynumber: 5.5 Consensus size: 40
57416404 AAGCCAAGTA
* * *
57416414 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
57416452 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57416492 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57416532 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57416572 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
57416613 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57416632 TTATCATCCA
Statistics
Matches: 165, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 108 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57429203 original size:39 final size:40
Alignment explanation
Indices: 57429160--57429327 Score: 218
Period size: 39 Copynumber: 4.3 Consensus size: 40
57429150 TCCTCGTTCA
* * * *
57429160 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
57429199 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
57429239 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
57429279 AATGCCTTC-GGACTTAACCCGGATTTACAT--CTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTA-ATAACTCGCACG
*
57429317 AAGGCCTTCGG
1 AATGCCTTCGG
57429328 ATCTTAATCC
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
38 15 0.13
39 53 0.45
40 49 0.42
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:57429258 original size:40 final size:39
Alignment explanation
Indices: 57429160--57429380 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
57429150 TCCTCGTTCA
* * * ** *
57429160 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
57429199 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
57429238 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
57429278 GAATGCCTTC-GGACTTAACCCGGATTT-ACATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * * *
57429316 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
57429357 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57429381 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 20 0.13
39 63 0.40
40 65 0.41
41 9 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:57429261 original size:79 final size:78
Alignment explanation
Indices: 57429158--57429380 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
57429148 GCTCCTCGTT
* * * * *
57429158 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
57429223 TTTAACAACTCGCA
66 TTT-ACAACTCGCA
* *
57429237 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACTTAACCCGG
*
57429301 ATTTACATCTCGCA
65 ATTTACAACTCGCA
* * * * * * * *
57429315 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACTTAACCCG
57429379 GA
64 GA
57429381 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
77 3 0.02
78 43 0.35
79 67 0.55
80 9 0.07
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
TTTACAACTCGCA
Found at i:57453372 original size:28 final size:28
Alignment explanation
Indices: 57453278--57453603 Score: 341
Period size: 28 Copynumber: 11.6 Consensus size: 28
57453268 CTTCTAATGG
* * * **
57453278 TTGCCACAAGGGCTTTCATGTTCAGAAAT
1 TTGCCACAAAGGCTTTCCT-TTTAGAGGT
* **
57453307 TT-CCACAAAGGCTTTTCTTCCAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * * *
57453334 TCGCCATAAAGGCTTTCCCTTTAGAAGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
57453362 TTGCC-CAAAAGGCTTTCTTTTTGGAGGT
1 TTGCCAC-AAAGGCTTTCCTTTTAGAGGT
*
57453390 TTGCCACAAAGGCTTTCCTTTTAGAGTT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * *
57453418 TTGCCATAAAGGATTTCCTTTTAGAGAT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * * *
57453446 TTACCACAATGGCTTTCCTTTCAAAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
57453474 TTTCCACAAAGGCTTTCTTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
57453502 TTGCCACAAAGGCTTTCCTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * *
57453530 TTTCCATAAAGGTTTTCCTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
57453558 TAGTCACAAAAGGCTTTCCTTTTAGAGGT
1 TTGCCAC-AAAGGCTTTCCTTTTAGAGGT
*
57453587 TTGCCTCAAAGGCTTTC
1 TTGCCACAAAGGCTTTC
57453604 AATTTTTTGG
Statistics
Matches: 243, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
27 7 0.03
28 209 0.86
29 27 0.11
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (28 bp):
TTGCCACAAAGGCTTTCCTTTTAGAGGT
Found at i:57454324 original size:30 final size:31
Alignment explanation
Indices: 57454300--57454358 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
57454290 GTAAATACTC
* **
57454300 AAAATTTGAGGGGTTAA-AGTGTAAATATGA
1 AAAATTTGAAGGGCCAATAGTGTAAATATGA
57454330 AAAATTTGAAGGGCCAATAGTGTAAATAT
1 AAAATTTGAAGGGCCAATAGTGTAAATAT
57454359 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGGCCAATAGTGTAAATATGA
Found at i:57456366 original size:27 final size:26
Alignment explanation
Indices: 57456310--57456366 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
57456300 CAACCTTAAC
* *
57456310 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
57456336 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
57456363 CCTA
1 CCTA
57456367 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:57456641 original size:13 final size:13
Alignment explanation
Indices: 57456613--57456655 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
57456603 ACTTATTGCC
*
57456613 TATTTTTTTATAT
1 TATTATTTTATAT
57456626 TATATATTTT-TAT
1 TAT-TATTTTATAT
57456639 TATTATTTTAT-T
1 TATTATTTTATAT
57456651 TATTA
1 TATTA
57456656 ACCCGTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 10 0.37
14 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:57456652 original size:15 final size:14
Alignment explanation
Indices: 57456613--57456655 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
57456603 ACTTATTGCC
57456613 TATTTTTTTA-TAT
1 TATTTTTTTATTAT
57456626 TATATATTTTTATTAT
1 TAT-T-TTTTTATTAT
57456642 TATTTTATTTATTA
1 TATTTT-TTTATTA
57456656 ACCCGTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 14 0.54
16 6 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTTTTATTAT
Found at i:57461006 original size:30 final size:30
Alignment explanation
Indices: 57460972--57461032 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57460962 TCCTTAACTC
57460972 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57461002 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57461032 A
1 A
57461033 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57463070 original size:40 final size:40
Alignment explanation
Indices: 57462953--57463090 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
57462943 CTCGAGAATA
* ** *
57462953 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
57462993 CAAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
57463033 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
*
57463073 T-AAGTCTGATAGGATTTG
1 TAAAGT-GGATAGGATTTG
57463091 ACCTGAAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.05
40 77 0.95
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:57463662 original size:20 final size:20
Alignment explanation
Indices: 57463637--57463696 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
57463627 CTACTAGATG
57463637 TTGACTTAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
57463657 TTGACTTAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
*
57463677 TTGACATAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
57463697 CTGTCCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGACTTAATCTGGTTAAGT
Found at i:57463710 original size:21 final size:20
Alignment explanation
Indices: 57463644--57463710 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
57463634 ATGTTGACTT
* **
57463644 AATCTGGTTAAGTTTGACTT
1 AATCTGGTTAAGTCTGACAA
* *
57463664 AATCTGGTTAAGTTTGACAT
1 AATCTGGTTAAGTCTGACAA
*
57463684 AATCTGGTTAAGTCTGTCCAA
1 AATCTGGTTAAGTCTG-ACAA
57463705 AATCTG
1 AATCTG
57463711 TTGATACTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 34 0.81
21 8 0.19
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
AATCTGGTTAAGTCTGACAA
Found at i:57467392 original size:53 final size:52
Alignment explanation
Indices: 57467274--57467452 Score: 237
Period size: 51 Copynumber: 3.5 Consensus size: 52
57467264 ACTAGTGACT
*
57467274 CAAGTGTGGTACTATGTGAAGGCCAC-TT-TG-AGAATAGATAAC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA-AGATAGCTTTGGTCA
57467323 CAAGTGTGGTACTATGTGAAGGCCTACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCC-ACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
57467376 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
*
57467427 CAAGGGTGGTACTATGTGCAA-GCCAC
1 CAAGTGTGGTACTATGTG-AAGGCCAC
57467453 CGGGTATCCG
Statistics
Matches: 119, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
49 24 0.20
50 4 0.03
51 35 0.29
52 21 0.18
53 35 0.29
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:57473168 original size:23 final size:23
Alignment explanation
Indices: 57473142--57473189 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
57473132 TTGGGTAACA
*
57473142 TAGGAAATTTATGTTTTTAGTTT
1 TAGGAAATTTATGCTTTTAGTTT
*
57473165 TAGGAAATTTATGCTTTTATTTT
1 TAGGAAATTTATGCTTTTAGTTT
57473188 TA
1 TA
57473190 TTTTTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (23 bp):
TAGGAAATTTATGCTTTTAGTTT
Found at i:57474451 original size:40 final size:40
Alignment explanation
Indices: 57474349--57474575 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
57474339 TAATTGAGGA
* *
57474349 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
57474389 TTAT-TCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * *
57474428 TTATATTCGGGTTAAGTCCCGAAGGCATTCGTGTTTGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
57474468 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * * * *
57474508 TTATATTCAGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
57474547 TTATATCCGGGCTAAGTCCCGAAAGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
57474576 TGTGTTTGGA
Statistics
Matches: 160, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
39 62 0.39
40 98 0.61
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:57474563 original size:119 final size:119
Alignment explanation
Indices: 57474349--57474583 Score: 312
Period size: 119 Copynumber: 2.0 Consensus size: 119
57474339 TAATTGAGGA
* * * **
57474349 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTGTTATTCCGGGTTAAGTCTCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTCCAGGCCAAGTCTCGAAGGC
* * * * *
57474414 ATTCGTGCTGGTTGTTATATTCGGGTTAAGTCCCGAAGGCATTCGTGTTTGTTG
66 ACTCGTACTGGTTGTTATATCCGGGCTAAGTCCCGAAAGCATTCGTGTTTGTTG
* * *
57474468 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTGTTATATTCAGGCCAAGT-TCCGAAG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTGTTAT-TCCAGGCCAAGTCT-CGAAG
*
57474532 GCACTCGTACTGG-TGTTATATCCGGGCTAAGTCCCGAAAGCATTTGTGTTTG
64 GCACTCGTACTGGTTGTTATATCCGGGCTAAGTCCCGAAAGCATTCGTGTTTG
57474584 GAAATGTGCG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
119 76 0.76
120 24 0.24
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (119 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTCCAGGCCAAGTCTCGAAGGC
ACTCGTACTGGTTGTTATATCCGGGCTAAGTCCCGAAAGCATTCGTGTTTGTTG
Found at i:57482183 original size:40 final size:40
Alignment explanation
Indices: 57482128--57482315 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
57482118 TAATTGAGGA
* *
57482128 TTATATCCGGGTTAAGTCCCTAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
* *
57482168 TTATATTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
*
57482208 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
** * * *
57482248 TTATATCCGGGCCAAGTTCCGAAGGCACTT-GTACTGG-TG
1 TTATATCCGGGTTAAGTCCCAAAGGCA-TTCGTGCTGGTTG
* **
57482287 TTATATCCGGGCTAAGTCCTGAAGGCATT
1 TTATATCCGGGTTAAGTCCCAAAGGCATT
57482316 TGTGTTTGGA
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 26 0.19
40 104 0.78
41 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
Found at i:57482270 original size:80 final size:79
Alignment explanation
Indices: 57482128--57482315 Score: 261
Period size: 80 Copynumber: 2.4 Consensus size: 79
57482118 TAATTGAGGA
* * * * **
57482128 TTATATCCGGGTTAAGTCCCTAAGGCTTTCGTGCTGGTTGTTATATTCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATATCCGGGCCAAGTCCCGAAGG
*
57482193 CA-TTCGTGCTGGTTG
66 CACTT-GTACTGG-TG
*
57482208 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATATCCGGGCCAAGTTCCGAAGG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATATCCGGGCCAAGTCCCGAAGG
57482273 CACTTGTACTGGTG
66 CACTTGTACTGGTG
**
57482287 TTATATCCGGGCTAAGTCCTGAAGGCATT
1 TTATATCCGGGCTAAGTCCCAAAGGCATT
57482316 TGTGTTTGGA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 29 0.30
80 66 0.68
81 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (79 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATATCCGGGCCAAGTCCCGAAGG
CACTTGTACTGGTG
Found at i:57489636 original size:20 final size:19
Alignment explanation
Indices: 57489594--57489637 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
57489584 GTAGCTGAGG
*
57489594 TGGTTGTGTACATATGGCA
1 TGGTTGTGTACAAATGGCA
57489613 TGGTATGTGTACAAATTGGC-
1 TGGT-TGTGTACAAA-TGGCA
57489633 TGGTT
1 TGGTT
57489638 TTTAGTTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.20, C:0.09, G:0.32, T:0.39
Consensus pattern (19 bp):
TGGTTGTGTACAAATGGCA
Found at i:57496633 original size:25 final size:25
Alignment explanation
Indices: 57496599--57496648 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57496589 GTATCCTCTA
57496599 CCAAGGATTGATGACTTGTTCGACC
1 CCAAGGATTGATGACTTGTTCGACC
57496624 CCAAGGATTGATGACTTGTTCGACC
1 CCAAGGATTGATGACTTGTTCGACC
57496649 AGTTGAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
CCAAGGATTGATGACTTGTTCGACC
Found at i:57497845 original size:40 final size:40
Alignment explanation
Indices: 57497790--57497872 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
57497780 GCAATGAAAG
*
57497790 CTCAGTGTGAGGCGAACAGTGAATCAAATTTTTAGATAGA
1 CTCAGTGTGAGGCGAACAGTGAATCAAATTTTCAGATAGA
*
57497830 CTCAGTGTGAGGCGAACAGTGAATCAAATTTTCATATAGA
1 CTCAGTGTGAGGCGAACAGTGAATCAAATTTTCAGATAGA
57497870 CTC
1 CTC
57497873 TGATGGTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (40 bp):
CTCAGTGTGAGGCGAACAGTGAATCAAATTTTCAGATAGA
Found at i:57512773 original size:40 final size:40
Alignment explanation
Indices: 57512696--57512773 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
57512686 AAGTGCCATA
** **
57512696 TATATAGCTGAAGCTATTCCGATTTGCACACTGAGTGCTT
1 TATATAGCTGAAGCTATTCCGAAATGCACACAAAGTGCTT
57512736 TATATAGCTGAAGCTA-TCTCGAAATGCACACAAAGTGC
1 TATATAGCTGAAGCTATTC-CGAAATGCACACAAAGTGC
57512774 CATACTCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (40 bp):
TATATAGCTGAAGCTATTCCGAAATGCACACAAAGTGCTT
Found at i:57517133 original size:39 final size:40
Alignment explanation
Indices: 57517033--57517217 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
57517023 TTGAATGATG
* * *
57517033 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
57517072 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57517113 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57517152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57517191 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57517218 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57517169 original size:79 final size:81
Alignment explanation
Indices: 57517033--57517217 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
57517023 TTGAATGATG
*
57517033 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
57517097 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ***
57517112 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGAT-CCGAAGGCA
*
57517174 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57517192 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57517218 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57517239 original size:79 final size:79
Alignment explanation
Indices: 57517086--57517250 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57517076 GAACTAAGAT
* **
57517086 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57517151 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57517165 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57517228 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57517244 CCGAAGG
1 CCGAAGG
57517251 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57525626 original size:40 final size:43
Alignment explanation
Indices: 57525531--57525630 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 43
57525521 AGTGCCTTTC
57525531 ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
* * *
57525574 ATATCCGAAGCTA-CTCCGA-TTCGCACACTAAGTG-C-TTTAT
1 ATAGCCGAAGCTATCT-CAACTTCGCACACTAAGTGCCATATAT
57525614 ATAGCCGAAGCTATCTC
1 ATAGCCGAAGCTATCTC
57525631 GAAATGCACA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
40 17 0.33
41 3 0.06
42 17 0.33
43 14 0.27
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (43 bp):
ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
Found at i:57528367 original size:37 final size:36
Alignment explanation
Indices: 57528310--57528382 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
57528300 GTCAATCGAC
* * *
57528310 ATATTTATTTATATCTTTTAATGGAAAATATGTAGT
1 ATATTTATTTATACCGTTTAATGGAAAATATATAGT
57528346 ATATTTATGTTATACCGTTTAATGGAAAATATATAGT
1 ATATTTAT-TTATACCGTTTAATGGAAAATATATAGT
57528383 CTTTCTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 8 0.24
37 25 0.76
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (36 bp):
ATATTTATTTATACCGTTTAATGGAAAATATATAGT
Found at i:57529168 original size:49 final size:49
Alignment explanation
Indices: 57529096--57529194 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
57529086 CTAACAATTT
*
57529096 TTGTATTGGTCCTTTCTTTCATATCACCGACGGACACATTTCTATTAAA
1 TTGTATTGGTCCTTTCTTTCATATCACCGACGAACACATTTCTATTAAA
57529145 TTGTATTGGTCCTTTCTTTCATATCACCGACGAACACATTTCTATTAAA
1 TTGTATTGGTCCTTTCTTTCATATCACCGACGAACACATTTCTATTAAA
57529194 T
1 T
57529195 CAAATTGCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (49 bp):
TTGTATTGGTCCTTTCTTTCATATCACCGACGAACACATTTCTATTAAA
Found at i:57531305 original size:32 final size:32
Alignment explanation
Indices: 57531264--57531329 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57531254 CACTCATCCC
57531264 TTGTTTTCGCCTTTGATGTTAGGGAACATCAT
1 TTGTTTTCGCCTTTGATGTTAGGGAACATCAT
57531296 TTGTTTTCGCCTTTGATGTTAGGGAACATCAT
1 TTGTTTTCGCCTTTGATGTTAGGGAACATCAT
57531328 TT
1 TT
57531330 AACATGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.45
Consensus pattern (32 bp):
TTGTTTTCGCCTTTGATGTTAGGGAACATCAT
Found at i:57534633 original size:12 final size:12
Alignment explanation
Indices: 57534618--57534642 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57534608 AATATTTTTA
57534618 TATACATATTAT
1 TATACATATTAT
57534630 TATACATATTAT
1 TATACATATTAT
57534642 T
1 T
57534643 CTCATTGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATACATATTAT
Found at i:57536732 original size:17 final size:19
Alignment explanation
Indices: 57536691--57536736 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
57536681 AAATTTACTA
57536691 AAAATTTTAAATATATATTT
1 AAAATTTT-AATATATATTT
*
57536711 GAAATTTTAATAT-T-TTT
1 AAAATTTTAATATATATTT
57536728 AAAATTTTA
1 AAAATTTTA
57536737 TAAATCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.46
18 1 0.04
19 5 0.21
20 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AAAATTTTAATATATATTT
Found at i:57552326 original size:13 final size:13
Alignment explanation
Indices: 57552308--57552337 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57552298 CTGGCAATCA
57552308 TGTCACACGGCCG
1 TGTCACACGGCCG
*
57552321 TGTCACACGGGCG
1 TGTCACACGGCCG
57552334 TGTC
1 TGTC
57552338 CCTGCTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:57554092 original size:26 final size:26
Alignment explanation
Indices: 57554056--57554113 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
57554046 CTTTAAGATA
57554056 GAAATTGAAAAGTTTTAAATTTGAAC
1 GAAATTGAAAAGTTTTAAATTTGAAC
57554082 GAAATTGAAAAGTTTTAAATTTGAAC
1 GAAATTGAAAAGTTTTAAATTTGAAC
*
57554108 AAAATT
1 GAAATT
57554114 TTATAGCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (26 bp):
GAAATTGAAAAGTTTTAAATTTGAAC
Found at i:57558043 original size:24 final size:24
Alignment explanation
Indices: 57558016--57558186 Score: 103
Period size: 24 Copynumber: 7.0 Consensus size: 24
57558006 TCCAAGCCAA
* *
57558016 ATAACAGAAAGCTCATGTGAGCTT
1 ATAACAGGAAGCTCATATGAGCTT
** * ** *
57558040 ATAATGGGAAGCTTATCCGGGCTT
1 ATAACAGGAAGCTCATATGAGCTT
*
57558064 AATAACAGGAAGCTCATAAGAGCTT
1 -ATAACAGGAAGCTCATATGAGCTT
* *
57558089 -TAATCAGAAAGCTCATATGAGTTT
1 ATAA-CAGGAAGCTCATATGAGCTT
* ** * **
57558113 GTAATGGGAAGCTTATCCGAGCTT
1 ATAACAGGAAGCTCATATGAGCTT
*
57558137 AATAACAGGAAGCTCATAAGAGCTT
1 -ATAACAGGAAGCTCATATGAGCTT
** *
57558162 A-AATCAAAAAGCTCATGTGAGCTT
1 ATAA-CAGGAAGCTCATATGAGCTT
57558186 A
1 A
57558187 ACGGGTAACT
Statistics
Matches: 109, Mismatches: 33, Indels: 10
0.72 0.22 0.07
Matches are distributed among these distances:
23 5 0.05
24 65 0.60
25 39 0.36
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (24 bp):
ATAACAGGAAGCTCATATGAGCTT
Found at i:57558119 original size:73 final size:73
Alignment explanation
Indices: 57558020--57558186 Score: 280
Period size: 73 Copynumber: 2.3 Consensus size: 73
57558010 AGCCAAATAA
*
57558020 CAGAAAGCTCATGTGAGCTTATAATGGGAAGCTTATCCGGGCTTAATAACAGGAAGCTCATAAGA
1 CAGAAAGCTCATGTGAGCTTATAATGGGAAGCTTATCCGAGCTTAATAACAGGAAGCTCATAAGA
*
57558085 GCTTTAAT
66 GCTTAAAT
* * *
57558093 CAGAAAGCTCATATGAGTTTGTAATGGGAAGCTTATCCGAGCTTAATAACAGGAAGCTCATAAGA
1 CAGAAAGCTCATGTGAGCTTATAATGGGAAGCTTATCCGAGCTTAATAACAGGAAGCTCATAAGA
57558158 GCTTAAAT
66 GCTTAAAT
*
57558166 CAAAAAGCTCATGTGAGCTTA
1 CAGAAAGCTCATGTGAGCTTA
57558187 ACGGGTAACT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (73 bp):
CAGAAAGCTCATGTGAGCTTATAATGGGAAGCTTATCCGAGCTTAATAACAGGAAGCTCATAAGA
GCTTAAAT
Found at i:57558688 original size:31 final size:31
Alignment explanation
Indices: 57558653--57558716 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
57558643 AATGTTCGTG
57558653 TTTATAGGGTACTAAGCCGATACTTTTTGTT
1 TTTATAGGGTACTAAGCCGATACTTTTTGTT
*
57558684 TTTATAGGGTATTAAGCCGATACTTTTTGTT
1 TTTATAGGGTACTAAGCCGATACTTTTTGTT
57558715 TT
1 TT
57558717 CCTCGATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (31 bp):
TTTATAGGGTACTAAGCCGATACTTTTTGTT
Found at i:57559479 original size:17 final size:17
Alignment explanation
Indices: 57559449--57559482 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
57559439 GACCTCAATT
57559449 TTTGAATTTCATAGCTA
1 TTTGAATTTCATAGCTA
57559466 TTTGATATTT-ATAGCTA
1 TTTGA-ATTTCATAGCTA
57559483 CTAAAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (17 bp):
TTTGAATTTCATAGCTA
Found at i:57559646 original size:37 final size:37
Alignment explanation
Indices: 57559603--57559676 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
57559593 AGATCATGAA
57559603 ATAATATTAAAATAATCGTTCTTAAGGACTCGAATTT
1 ATAATATTAAAATAATCGTTCTTAAGGACTCGAATTT
*
57559640 ATAATATTAAAATAATCTTTCTTAAGGACTCGAATTT
1 ATAATATTAAAATAATCGTTCTTAAGGACTCGAATTT
57559677 GTAGTCCCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (37 bp):
ATAATATTAAAATAATCGTTCTTAAGGACTCGAATTT
Found at i:57562881 original size:49 final size:49
Alignment explanation
Indices: 57562706--57562899 Score: 212
Period size: 49 Copynumber: 3.9 Consensus size: 49
57562696 TCTATTGTGA
* *
57562706 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTT
* * * * * ** *
57562757 GATCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACT-GT-T
* *
57562807 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
*
57562856 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
57562900 TAACTTCGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 41 0.34
50 41 0.34
51 34 0.28
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
Found at i:57570118 original size:27 final size:27
Alignment explanation
Indices: 57570080--57570147 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
57570070 CGAAGGCATC
* *
57570080 TCATATGCGGCACCAATTG-TGGGACTG
1 TCATAGGCGGCACCAATAGTTGGG-CTG
57570107 TCATAGGCGGCACCAATAGTTGGGCTG
1 TCATAGGCGGCACCAATAGTTGGGCTG
* *
57570134 CCAGAGGCGGCACC
1 TCATAGGCGGCACC
57570148 TTGCACCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.22, C:0.26, G:0.32, T:0.19
Consensus pattern (27 bp):
TCATAGGCGGCACCAATAGTTGGGCTG
Found at i:57570338 original size:5 final size:6
Alignment explanation
Indices: 57570323--57570347 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57570313 TGAAGGAAGA
57570323 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
57570348 GAAGGAGAAT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:57571083 original size:25 final size:25
Alignment explanation
Indices: 57571053--57571128 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 25
57571043 ATTATGTACT
57571053 AAAATAATATAAAAAATAAAATAC-G
1 AAAATAATATAAAAAATAAAAT-CTG
57571078 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA---TAAAAAATAAAATCTG
* *
57571108 AAAATAAAATAAATAATAAAA
1 AAAATAATATAAAAAATAAAA
57571129 ACAAAGGGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
25 17 0.40
27 3 0.07
28 2 0.05
29 1 0.02
30 20 0.47
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATCTG
Found at i:57571279 original size:155 final size:153
Alignment explanation
Indices: 57570904--57571429 Score: 800
Period size: 155 Copynumber: 3.5 Consensus size: 153
57570894 AGGTTTTTTC
*
57570904 CTAAAATAATATAAAAATAAAATACGAAAATAGTTTATTTTAAAAAATAAAATAC-GAAAAT---
1 CTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CTGAAAATAAA
* * *
57570965 A-AAA-AATAAAAATAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAATACT-AA
65 ATAAATAATAAAAACAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
57571027 ATAATACATTTGAAACATTATGTA
130 ATAATACATTTGAAACATTATGTA
57571051 CTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAA
1 CTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAA
*
57571116 ATAAATAATAAAAACAAAGGGCCAAATTCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
65 ATAAATAATAAAAACAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
*
57571181 ATAATACATTTGAACCATTATGTA
130 ATAATACATTTGAAACATTATGTA
* *
57571205 CTAAAATAATATAAAAAAATAAATTACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATAA
1 CTAAAATAATAT--AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAA
* *
57571270 AATAAATAATAAAAACAAAGGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAAACACTAA
64 AATAAATAATAAAAACAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
** *
57571335 AATAATACATTAAAAATATTATGTA
129 AATAATACATTTGAAACATTATGTA
* * *
57571360 CTAAAATAATATAAGAATAATATA-AAAAATAGTATATTTTAAAAAATAAAAT-TCGAAAATAAA
1 CTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCT-GAAAATAAA
57571423 ATAAATA
65 ATAAATA
57571430 CCAAAATATA
Statistics
Matches: 349, Mismatches: 20, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
147 13 0.04
148 46 0.13
151 2 0.01
152 45 0.13
153 61 0.17
154 37 0.11
155 145 0.42
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.28
Consensus pattern (153 bp):
CTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAAA
TAAATAATAAAAACAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAA
TAATACATTTGAAACATTATGTA
Found at i:57571517 original size:3 final size:3
Alignment explanation
Indices: 57571511--57571538 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57571501 ATCATTTTAA
57571511 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
57571539 TTTGTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57574818 original size:46 final size:46
Alignment explanation
Indices: 57574768--57574943 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
57574758 TGGTTGAGCA
57574768 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
57574814 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
57574859 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57574907 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57574944 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57574924 original size:93 final size:93
Alignment explanation
Indices: 57574765--57574936 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57574755 GGATGGTTGA
* *
57574765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57574830 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
57574858 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57574923 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57574937 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57589371 original size:14 final size:14
Alignment explanation
Indices: 57589354--57589387 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57589344 TAGTATTCAT
*
57589354 AATATTTTATTAAA
1 AATATTTTAATAAA
57589368 AATATTTTAATAAA
1 AATATTTTAATAAA
*
57589382 CATATT
1 AATATT
57589388 ATTGTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATTTTAATAAA
Found at i:57589597 original size:12 final size:12
Alignment explanation
Indices: 57589564--57589597 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
57589554 GTTTATTTCA
*
57589564 TTAAAAATAATT
1 TTAAAAATGATT
57589576 TTAAACAATGATT
1 TTAAA-AATGATT
57589589 TTAAAAATG
1 TTAAAAATG
57589598 GTCAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (12 bp):
TTAAAAATGATT
Found at i:57590293 original size:13 final size:13
Alignment explanation
Indices: 57590269--57590305 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
57590259 TAACCCTATA
57590269 TATAATTATGTTAT
1 TATAA-TATGTTAT
57590283 TATAATATGTTAT
1 TATAATATGTTAT
57590296 TATAATATGT
1 TATAATATGT
57590306 ACTAATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TATAATATGTTAT
Found at i:57597396 original size:40 final size:40
Alignment explanation
Indices: 57597155--57597382 Score: 377
Period size: 40 Copynumber: 5.7 Consensus size: 40
57597145 ATTCGGATTG
57597155 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57597194 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57597234 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57597274 ATAACCGGGCCAAGTCCCGAAGGAAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57597314 ATAACCGGGCTAAGTCCCGAAGGCAATTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57597354 ATAATCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
57597383 AGTGAGAAGC
Statistics
Matches: 178, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.07
40 165 0.93
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57603819 original size:12 final size:13
Alignment explanation
Indices: 57603791--57603823 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
57603781 TGATTTCATG
57603791 AAAATTTCATTCA
1 AAAATTTCATTCA
57603804 AAAATTTCATTCA
1 AAAATTTCATTCA
57603817 AAAATTT
1 AAAATTT
57603824 TGATGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTTCATTCA
Found at i:57605013 original size:43 final size:42
Alignment explanation
Indices: 57604882--57605031 Score: 178
Period size: 42 Copynumber: 3.5 Consensus size: 42
57604872 TAAGATTACG
*
57604882 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTTA
* * *
57604924 TGTAAGATCATATCTGGGATATGACATCAATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTTA
* * *
57604966 TGTAAGACCATAGT-TGGGCTATTGGCATCGATATGGGA-TTATA
1 TGTAAGACCATA-TCTGGGATA-TGACATCGATATGAGACTT-TA
* *
57605009 TGTAAGACCATTTTTGGGATATG
1 TGTAAGACCATATCTGGGATATG
57605032 GCATTGGTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTTA
Found at i:57606034 original size:13 final size:13
Alignment explanation
Indices: 57606001--57606034 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57605991 CTAAGGCACG
* *
57606001 GGCGTGTACCCTG
1 GGCGTGTGCCCTA
57606014 GGCGTGTGCCCTA
1 GGCGTGTGCCCTA
57606027 GGCGTGTG
1 GGCGTGTG
57606035 TAGTATGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.44, T:0.24
Consensus pattern (13 bp):
GGCGTGTGCCCTA
Found at i:57607729 original size:25 final size:25
Alignment explanation
Indices: 57607695--57607743 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
57607685 ATGGATGAGT
57607695 CACAAAAAAATCTACATACTTTTCC
1 CACAAAAAAATCTACATACTTTTCC
57607720 CACAAAAAAATCTACATACTTTTC
1 CACAAAAAAATCTACATACTTTTC
57607744 TTTAATGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (25 bp):
CACAAAAAAATCTACATACTTTTCC
Found at i:57608828 original size:13 final size:13
Alignment explanation
Indices: 57608812--57608837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57608802 GAAATGATTT
57608812 TTTGAAAATTTCG
1 TTTGAAAATTTCG
57608825 TTTGAAAATTTCG
1 TTTGAAAATTTCG
57608838 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:57614224 original size:30 final size:29
Alignment explanation
Indices: 57614163--57614226 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
57614153 TTATGATATG
57614163 TTATCTTGGATTTCTGTACCTTGGATATCT
1 TTATCTTGGATTTCTGTA-CTTGGATATCT
* *
57614193 TTATCTTGGATTCCTCTGT-CTTGTATTTCT
1 TTATCTTGGATT--TCTGTACTTGGATATCT
57614223 TTAT
1 TTAT
57614227 TCTAGTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 25 0.83
32 5 0.17
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (29 bp):
TTATCTTGGATTTCTGTACTTGGATATCT
Found at i:57620470 original size:46 final size:48
Alignment explanation
Indices: 57620407--57620515 Score: 132
Period size: 46 Copynumber: 2.3 Consensus size: 48
57620397 GCCACAATAT
* * *
57620407 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATATACACATCTCATACACATCTCACATTAACCATTCGGCTTTACC
* * *
57620455 ATATAT-C-CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCAC
1 ATATATACACATCTCATACACATCTCACATTAACCATTCGGCTTT-AC-C
57620503 ATATATACACATC
1 ATATATACACATC
57620516 CACGTTCATC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
46 31 0.61
47 2 0.04
48 13 0.25
49 1 0.02
50 4 0.08
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATATACACATCTCATACACATCTCACATTAACCATTCGGCTTTACC
Found at i:57620549 original size:22 final size:22
Alignment explanation
Indices: 57620523--57620598 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
57620513 ATCCACGTTC
57620523 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
57620545 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
57620570 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
57620592 ATCACAT
1 ATCACAT
57620599 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:57620551 original size:47 final size:47
Alignment explanation
Indices: 57620520--57620760 Score: 410
Period size: 47 Copynumber: 5.1 Consensus size: 47
57620510 CACATCCACG
* *
57620520 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
57620567 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
57620614 TTCTTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
57620661 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
57620708 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
57620755 TTCATC
1 TTCATC
57620761 GCCTTATCAC
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 181 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:57620587 original size:94 final size:94
Alignment explanation
Indices: 57620486--57620907 Score: 512
Period size: 94 Copynumber: 4.6 Consensus size: 94
57620476 TTCGCATTAA
* ** ** * * *
57620486 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGGCCATTCTGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
57620551 TGTATGCATGTTCACATTTATCACATTGG
66 TATATGCATGTTCACATTCATCACATTGG
* * *
57620580 CCATTCGGCCTTATCACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
*
57620645 CATATGCATGTTCACATTCATCACATTGG
66 TATATGCATGTTCACATTCATCACATTGG
57620674 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
57620739 TATATGCATG------TTCAT---ATT--
66 TATATGCATGTTCACATTCATCACATTGG
* * * *
57620757 -CA-TC-GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* * *
57620819 CAAATGCATGTTCACATTCATCACATTTG
66 TATATGCATGTTCACATTCATCACATTGG
* * * * *
57620848 CCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTA
57620908 GCTCATGTAT
Statistics
Matches: 286, Mismatches: 28, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
80 62 0.22
81 2 0.01
82 2 0.01
85 3 0.01
86 5 0.02
88 5 0.02
89 3 0.01
92 2 0.01
93 2 0.01
94 200 0.70
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (94 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
TATATGCATGTTCACATTCATCACATTGG
Found at i:57620691 original size:22 final size:22
Alignment explanation
Indices: 57620664--57620739 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
57620654 GTTCACATTC
57620664 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
57620686 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
57620710 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57620733 ATCACAT
1 ATCACAT
57620740 ATATGCATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57620766 original size:33 final size:33
Alignment explanation
Indices: 57620728--57620793 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
57620718 TGGCCATTCG
* * *
57620728 GCCTTATCACATATATGCATGTTCATATTCATC
1 GCCTTATCACACATATACATGTTCACATTCATC
57620761 GCCTTATCACACATATACATGTTCACATTCATC
1 GCCTTATCACACATATACATGTTCACATTCATC
57620794 ACATTTGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (33 bp):
GCCTTATCACACATATACATGTTCACATTCATC
Found at i:57620771 original size:127 final size:128
Alignment explanation
Indices: 57620520--57620887 Score: 477
Period size: 127 Copynumber: 2.8 Consensus size: 128
57620510 CACATCCACG
* * *
57620520 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
57620585 CGGCCTTATCACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTATCACACATAT
66 CGGCCTTATCACATATATGCATGTTC--A----T---ATT---CA-TCGGCCTTATCACACATAT
*
57620650 GCATGTTCACA
118 ACATGTTCACA
*
57620661 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
57620726 CGGCCTTATCACATATATGCATGTTCATATTCATC-GCCTTATCACACATATACATGTTCACA
66 CGGCCTTATCACATATATGCATGTTCATATTCATCGGCCTTATCACACATATACATGTTCACA
* * * * * *
57620788 TTCATCACATTTGCCATTTGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* * * *
57620853 CGGCCTTAGCACACAAATGCATGTTCACATTCATC
66 CGGCCTTATCACATATATGCATGTTCATATTCATC
57620888 ACATTTGCCA
Statistics
Matches: 211, Mismatches: 16, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
127 115 0.55
128 2 0.01
129 2 0.01
132 3 0.01
135 1 0.00
139 1 0.00
141 87 0.41
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (128 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATATATGCATGTTCATATTCATCGGCCTTATCACACATATACATGTTCACA
Found at i:57620777 original size:80 final size:80
Alignment explanation
Indices: 57620681--57620840 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 80
57620671 TGGCCATTCG
* * * *
57620681 GCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
*
57620746 ATGTTCATATTCATC
66 ATGTTCACATTCATC
* *
57620761 GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACACAAATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
57620826 ATGTTCACATTCATC
66 ATGTTCACATTCATC
57620841 ACATTTGCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (80 bp):
GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
ATGTTCACATTCATC
Found at i:57620819 original size:47 final size:47
Alignment explanation
Indices: 57620761--57620909 Score: 253
Period size: 47 Copynumber: 3.2 Consensus size: 47
57620751 CATATTCATC
* * *
57620761 GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTG
1 GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCG
*
57620808 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCG
1 GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCG
*
57620855 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCG
1 GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCG
57620902 GCCTTAGC
1 GCCTTAGC
57620910 TCATGTATAC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCG
Found at i:57620843 original size:23 final size:23
Alignment explanation
Indices: 57620817--57620890 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
57620807 GGCCTTAGCA
57620817 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** * *
57620840 CACATTTGCCA--TTCGGCCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
57620864 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
57620887 CACA
1 CACA
57620891 TTTGCCATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:57620878 original size:174 final size:174
Alignment explanation
Indices: 57620587--57620907 Score: 516
Period size: 174 Copynumber: 1.8 Consensus size: 174
57620577 TGGCCATTCG
* * * * * *
57620587 GCCTTATCACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTATCACACATATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
* * *
57620652 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
66 ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACA
57620717 TTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCATC
131 TTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCATC
* *
57620761 GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACACAAATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
* *
57620826 ATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACA
66 ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACA
*
57620891 TTTGCCATTCGGCCTTA
131 TTGGCCATTCGGCCTTA
57620908 GCTCATGTAT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 133 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (174 bp):
GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACA
TTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCATC
Found at i:57620927 original size:94 final size:94
Alignment explanation
Indices: 57620761--57620938 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
57620751 CATATTCATC
* * * *
57620761 GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACACAAATGC
1 GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATAC
** *
57620826 ATGTTCACATTCATCACATTTGCCATTCG
66 ACATTCACATCCATCACATTTGCCATTCG
* * ***
57620855 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCTCATGTATAC
1 GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATAC
57620920 ACATTCACATCCATCACAT
66 ACATTCACATCCATCACAT
57620939 AAAATCCTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (94 bp):
GCCTTAGCACACAAATACATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATAC
ACATTCACATCCATCACATTTGCCATTCG
Found at i:57620929 original size:221 final size:221
Alignment explanation
Indices: 57620540--57620938 Score: 609
Period size: 221 Copynumber: 1.8 Consensus size: 221
57620530 TGGCCATTCT
** * * * * *
57620540 GCCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
* * * *
57620605 ATGTTCATATTCTTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACA
66 ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACA
* ** *
57620670 TTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
131 TTGGCCATTCGGCCTTAGCACATATATACACATTCACATCCATCACATTGGCCATTCGGCCTTAT
57620735 CACATATATGCATGTTCATATTCATC
196 CACATATATGCATGTTCATATTCATC
* *
57620761 GCCTTATCACACATATACATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACACAAATGC
1 GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
*
57620826 ATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACA
66 ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACA
* * *
57620891 TTTGCCATTCGGCCTTAGCTCATGTATACACATTCACATCCATCACAT
131 TTGGCCATTCGGCCTTAGCACATATATACACATTCACATCCATCACAT
57620939 AAAATCCTAA
Statistics
Matches: 157, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
221 157 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (221 bp):
GCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGC
ATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACA
TTGGCCATTCGGCCTTAGCACATATATACACATTCACATCCATCACATTGGCCATTCGGCCTTAT
CACATATATGCATGTTCATATTCATC
Found at i:57624441 original size:28 final size:28
Alignment explanation
Indices: 57624410--57624511 Score: 136
Period size: 28 Copynumber: 3.6 Consensus size: 28
57624400 TGGATGTCTC
57624410 GCACACTAAGTGCCATACTCAATATCTT
1 GCACACTAAGTGCCATACTCAATATCTT
* *
57624438 GCACACTACGTGCCATTCTCAATAT-TT
1 GCACACTAAGTGCCATACTCAATATCTT
*
57624465 -CACAAACTAAGTGCCATACTCAATATCTC
1 GCAC--ACTAAGTGCCATACTCAATATCTT
*
57624494 ACACACTAAGTGCCATAC
1 GCACACTAAGTGCCATAC
57624512 ATAGCCGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 56 0.86
29 1 0.02
30 3 0.05
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.26
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAATATCTT
Found at i:57624583 original size:40 final size:40
Alignment explanation
Indices: 57624492--57624595 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
57624482 ACTCAATATC
** * *
57624492 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAGA
1 TCACACACTAAGTGCCATATTTAGCCGAAGCTATATCAAA
* *
57624532 TCACACGCTAAGTGCCAAATTTAGCCGAAGCTATATCAAA
1 TCACACACTAAGTGCCATATTTAGCCGAAGCTATATCAAA
***
57624572 TTGTACACTAAGTGCCATATTTAG
1 TCACACACTAAGTGCCATATTTAG
57624596 ACGATATGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATTTAGCCGAAGCTATATCAAA
Found at i:57639080 original size:68 final size:69
Alignment explanation
Indices: 57639008--57639155 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
57638998 AATCATGTGT
* * * * *
57639008 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTTGCATGGGT-GATCCTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACC
57639070 ATGTAG
64 ATGTAG
* ** *
57639076 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACCAT
57639139 GTAG
66 GTAG
57639143 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
57639156 GAGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 19 0.29
65 8 0.12
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACCAT
GTAG
Found at i:57639113 original size:64 final size:67
Alignment explanation
Indices: 57639032--57639154 Score: 171
Period size: 67 Copynumber: 1.9 Consensus size: 67
57639022 AGACATTATG
* * * * *
57639032 ATGTAGCTAGGTTGCATGGGT-GATCCTA-TG-TGTACACCATGTAGACAAGAGAGCTATGGGAT
1 ATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGAT
57639094 AT
66 AT
*
57639096 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACCATGTAGACAAGAGAGCTA
57639155 CGAGATAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 19 0.38
65 5 0.10
66 2 0.04
67 24 0.48
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (67 bp):
ATGTAGCTAGGTCGCATGCGTGGATCCAAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGAT
AT
Found at i:57642349 original size:40 final size:40
Alignment explanation
Indices: 57642304--57642535 Score: 184
Period size: 40 Copynumber: 5.8 Consensus size: 40
57642294 ATAACCACAA
*
57642304 GCACAATTGCCTTCGGGTCTTAACCCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCC-GGATATAGCAACTC
* *
57642344 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
57642384 GTACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * *
57642424 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * *
57642464 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * *
57642504 GCATAAATGCCTTCGGGACTTAGCCCAGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
57642536 CATTCAAATG
Statistics
Matches: 179, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 172 0.96
41 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:57642432 original size:80 final size:79
Alignment explanation
Indices: 57642348--57642535 Score: 295
Period size: 80 Copynumber: 2.4 Consensus size: 79
57642338 CAACTCGCAC
* * * *
57642348 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGTACAAATGCCTTCGGGTCTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
57642413 TAAAATCACTAGCAT
65 TAAAATCACTAGCAT
* *
57642428 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
57642493 TAAAATCACTAGCAT
65 TAAAATCACTAGCAT
*
57642508 AAATGCCTTCGGGACTTAGCCCAGATAT
1 AAATGCCTTCGGGACTTAGCCCGGATAT
57642536 CATTCAAATG
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 94 0.95
81 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (79 bp):
AAATGCCTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
AAAATCACTAGCAT
Found at i:57647976 original size:14 final size:16
Alignment explanation
Indices: 57647940--57647977 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57647930 TTCCGAACAC
57647940 TATAAAACAGGGACAA
1 TATAAAACAGGGACAA
*
57647956 TATAAAATAGGGA-AA
1 TATAAAACAGGGACAA
57647971 -ATAAAAC
1 TATAAAAC
57647978 GGAGTAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.30
15 2 0.10
16 12 0.60
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (16 bp):
TATAAAACAGGGACAA
Found at i:57653695 original size:28 final size:27
Alignment explanation
Indices: 57653640--57653751 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
57653630 AGCATGGCTG
* * * *
57653640 CCAGAATAGATAA-TGTGACCGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57653666 CCAGAAACAGATAATTGTGGCAGAGCCA
1 CCAG-AACAGATAATTGTGGCAGAGCCA
57653694 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
57653721 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57653748 CCAG
1 CCAG
57653752 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57656770 original size:30 final size:30
Alignment explanation
Indices: 57656712--57656771 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
57656702 TTCCCGAGCC
* * *
57656712 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATGAAATTATGCAAAAGTT
* *
57656742 TAGGGGAAAAAATGAAATTTTGCCAAAGTT
1 TAGGGGAAAAAATGAAATTATGCAAAAGTT
57656772 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGAAAAAATGAAATTATGCAAAAGTT
Found at i:57661263 original size:64 final size:64
Alignment explanation
Indices: 57661162--57661286 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
57661152 TCTCATTACG
57661162 GAAGCATCTACTTACTTCTCATCCAATGACCTTGTCTTAAATGTGTTACCCTCATACTATGACA
1 GAAGCATCTACTTACTTCTCATCCAATGACCTTGTCTTAAATGTGTTACCCTCATACTATGACA
* *
57661226 GAAGCATCTACTTAGTTCTCATCCAATGACCTTGTCTTAAATGTGTTACCCTTATACTATG
1 GAAGCATCTACTTACTTCTCATCCAATGACCTTGTCTTAAATGTGTTACCCTCATACTATG
57661287 TCCTTGATCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (64 bp):
GAAGCATCTACTTACTTCTCATCCAATGACCTTGTCTTAAATGTGTTACCCTCATACTATGACA
Found at i:57665041 original size:16 final size:16
Alignment explanation
Indices: 57665020--57665052 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57665010 TGCATGAGTT
57665020 TGCTAAAACATTACAA
1 TGCTAAAACATTACAA
57665036 TGCTAAAACATTACAA
1 TGCTAAAACATTACAA
57665052 T
1 T
57665053 TACTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (16 bp):
TGCTAAAACATTACAA
Found at i:57665936 original size:35 final size:35
Alignment explanation
Indices: 57665890--57665959 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
57665880 GCAAAGTCTG
57665890 GCAATTGTTTGGCAATTGTATGTCATGTCAAGTTA
1 GCAATTGTTTGGCAATTGTATGTCATGTCAAGTTA
*
57665925 GCAATTGTTTGGCAATTTTATGTCATGTCAAGTTA
1 GCAATTGTTTGGCAATTGTATGTCATGTCAAGTTA
57665960 AATGACAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (35 bp):
GCAATTGTTTGGCAATTGTATGTCATGTCAAGTTA
Found at i:57673417 original size:28 final size:28
Alignment explanation
Indices: 57673383--57673445 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
57673373 CTAACTGTAT
*
57673383 GAAATATTAAGAATGGCACTTAGTGTGC
1 GAAATATTAAGAATGACACTTAGTGTGC
* *
57673411 GAGATATTGAGAATGACACTTAGTGTGC
1 GAAATATTAAGAATGACACTTAGTGTGC
57673439 GAAATAT
1 GAAATAT
57673446 CGAATGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (28 bp):
GAAATATTAAGAATGACACTTAGTGTGC
Found at i:57682215 original size:40 final size:39
Alignment explanation
Indices: 57682159--57682389 Score: 302
Period size: 40 Copynumber: 5.8 Consensus size: 39
57682149 CGGATGATAA
* * *
57682159 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
57682199 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
57682239 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
57682279 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
57682319 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
57682359 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57682390 AGCTATATCC
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.05
40 166 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:57682372 original size:120 final size:119
Alignment explanation
Indices: 57682159--57682389 Score: 349
Period size: 120 Copynumber: 1.9 Consensus size: 119
57682149 CGGATGATAA
* * *
57682159 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* *
57682224 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACAT
*
57682279 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* *
57682342 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTGAGCGAGT
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
57682390 AGCTATATCC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
119 10 0.10
120 90 0.89
121 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:57699939 original size:18 final size:18
Alignment explanation
Indices: 57699916--57699956 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
57699906 AGCCCATTGT
57699916 AGTAACAATAAAT-AGTGC
1 AGTAACAAT-AATCAGTGC
*
57699934 AGTAACAGTAATCAGTGC
1 AGTAACAATAATCAGTGC
57699952 AGTAA
1 AGTAA
57699957 AAGTATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (18 bp):
AGTAACAATAATCAGTGC
Found at i:57700317 original size:27 final size:27
Alignment explanation
Indices: 57700272--57700430 Score: 248
Period size: 27 Copynumber: 5.9 Consensus size: 27
57700262 ATATATACAT
*
57700272 CATATAA-GGCAAAACAGTCATCTTAC
1 CATATAAGGGCAAAACAGTCATTTTAC
*
57700298 CATATAAGGGCAAAATAGTCATTTTAC
1 CATATAAGGGCAAAACAGTCATTTTAC
*
57700325 CATATAAGGGCAAAACAATCATTTTAC
1 CATATAAGGGCAAAACAGTCATTTTAC
*
57700352 CACATAAGGGCAAAACAGTCATTTTAC
1 CATATAAGGGCAAAACAGTCATTTTAC
57700379 CATATAAGGGCAAAACAGTCATTTTAC
1 CATATAAGGGCAAAACAGTCATTTTAC
* * *
57700406 CACATAAGGGAAAAATAGTCATTTT
1 CATATAAGGGCAAAACAGTCATTTT
57700431 TCAATCTGGG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
26 7 0.06
27 115 0.94
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
CATATAAGGGCAAAACAGTCATTTTAC
Found at i:57704696 original size:14 final size:14
Alignment explanation
Indices: 57704677--57704714 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
57704667 TGCACAACTC
57704677 CTCTCTTTTTTTTT
1 CTCTCTTTTTTTTT
*
57704691 CTCTCTTCTTTTTT
1 CTCTCTTTTTTTTT
57704705 CTCCTCTTTT
1 CT-CTCTTTT
57704715 AAGTGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTCTCTTTTTTTTT
Found at i:57709242 original size:28 final size:28
Alignment explanation
Indices: 57709202--57709265 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
57709192 TGGGAAGTAG
* * *
57709202 TTGGGCCTGATGGGCCATATGGATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
57709230 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
57709258 TTGGGCCT
1 TTGGGCCT
57709266 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:57710848 original size:68 final size:68
Alignment explanation
Indices: 57710771--57710944 Score: 162
Period size: 68 Copynumber: 2.6 Consensus size: 68
57710761 TCACGTGAAT
* ** * * *
57710771 AAGAAAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CCAT
1 AAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACCAT
57710833 GTAGAC
63 GTAGAC
* * *
57710839 AAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCAT
1 AAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACCAT
57710904 GTAGAC
63 GTAGAC
*
57710910 AAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 AAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
57710945 GGTGGTACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
66 13 0.15
67 6 0.07
68 30 0.34
69 7 0.08
70 6 0.07
71 27 0.30
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (68 bp):
AAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATGTA
GAC
Found at i:57713247 original size:37 final size:37
Alignment explanation
Indices: 57713190--57713329 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
57713180 CGAATAGTCC
* * *
57713190 CCACACGTAGTTATCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57713227 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57713264 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
57713301 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57713330 AGATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:57713528 original size:48 final size:48
Alignment explanation
Indices: 57713470--57713654 Score: 343
Period size: 48 Copynumber: 3.9 Consensus size: 48
57713460 ATATACACAC
*
57713470 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
57713518 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
57713566 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
57713614 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
57713655 CACATATATA
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:57719384 original size:27 final size:27
Alignment explanation
Indices: 57719354--57719429 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
57719344 GTAATAAAGG
*
57719354 AAAATTACCAAAATACCCCTAAATTGT
1 AAAATTACCGAAATACCCCTAAATTGT
* * *
57719381 AAAATTATCGAAATA-CCCTCGACTTGT
1 AAAATTACCGAAATACCCCT-AAATTGT
57719408 AAAATTACCGAAATACCCCTAA
1 AAAATTACCGAAATACCCCTAA
57719430 GGGCGAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTAAATTGT
Found at i:57725001 original size:36 final size:38
Alignment explanation
Indices: 57724946--57725049 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 38
57724936 CATCGATGGC
*
57724946 ATTGAT-A-AAAGG-ATCCATGTAAGACCATGTTGG-A-
1 ATTGATAAGAAAGGAAT-CATGTAAGACCATGTAGGCAT
*
57724980 A-TGCATAAGAAAGGAATCATGTAAGA-CA-GAAGGCAT
1 ATTG-ATAAGAAAGGAATCATGTAAGACCATGTAGGCAT
57725016 ATTGATAAGATAAGGAATCATGTAAGACCATGTA
1 ATTGATAAGA-AAGGAATCATGTAAGACCATGTA
57725050 ACATGGCATT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
33 2 0.04
34 6 0.11
35 4 0.07
36 21 0.37
37 20 0.35
38 2 0.04
39 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (38 bp):
ATTGATAAGAAAGGAATCATGTAAGACCATGTAGGCAT
Found at i:57725134 original size:52 final size:54
Alignment explanation
Indices: 57725072--57725267 Score: 215
Period size: 52 Copynumber: 3.7 Consensus size: 54
57725062 AAGAAAGGTA
* *
57725072 CATGTAAGACCAT-CCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGAGATC
* * *
57725124 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAA-AGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAGAGAT-C
* * * *
57725179 CATGTAAGACCATGCCAAGGCATGGCA-TGGTGAGTTC-ATAAGGCAAG-GATA
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGAGATC
* * * *
57725230 CACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
57725268 AAAAAGGAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
51 24 0.19
52 33 0.27
53 23 0.19
54 19 0.15
55 25 0.20
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGAGATC
Found at i:57725254 original size:51 final size:52
Alignment explanation
Indices: 57725066--57725267 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 52
57725056 CATTTTAAGA
*
57725066 AAGGTACATGTAAGACCAT-CCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGTACATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
** * *
57725117 AAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGTA-CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
57725171 AAAGGTCCCATGTAAGACCATGCCAAGGCATGGCA-TGGTGAGTTC-ATAAGGC
1 -AAGGT-ACATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
57725223 AAGGATACACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGG-TACATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
57725268 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
51 32 0.25
52 30 0.23
53 21 0.16
54 17 0.13
55 28 0.22
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGTACATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:57730541 original size:27 final size:27
Alignment explanation
Indices: 57730511--57730940 Score: 504
Period size: 27 Copynumber: 16.2 Consensus size: 27
57730501 AAAGTACTCC
57730511 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57730538 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
57730565 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57730592 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57730619 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57730646 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57730673 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57730700 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
57730727 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57730754 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57730781 CGATTTAC-----T---GTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57730800 CGATTTACAGAATTACCGTTTTACCCCT
1 CGATTTACAGAATTACCGTTTTA-CCCT
** *
57730828 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57730855 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
57730882 C-AGTTTACAAAATTATCATTTTGCCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57730909 CGATGTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57730936 TGATT
1 CGATT
57730941 GTGAAATTAC
Statistics
Matches: 345, Mismatches: 43, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.05
22 1 0.00
24 1 0.00
26 3 0.01
27 295 0.86
28 27 0.08
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57730788 original size:19 final size:19
Alignment explanation
Indices: 57730766--57730807 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
57730756 ATTTATAGAA
57730766 TTACTGTTTTACCCTCGAT
1 TTACTGTTTTACCCTCGAT
57730785 TTACTGTTTTACCCTCGAT
1 TTACTGTTTTACCCTCGAT
57730804 TTAC
1 TTAC
57730808 AGAATTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.48
Consensus pattern (19 bp):
TTACTGTTTTACCCTCGAT
Found at i:57730795 original size:73 final size:74
Alignment explanation
Indices: 57730712--57730862 Score: 241
Period size: 73 Copynumber: 2.1 Consensus size: 74
57730702 GTTTACAGAA
* *
57730712 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA-CCCTCAATTTATAGAATTACTGTTTT
1 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCCTCAATTTATAAAATTACCGTTTT
57730776 ACCCTCGAT
66 ACCCTCGAT
* * *
57730785 TTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCCTCGATTTGTAAAATTACCGTTTT
1 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCCTCAATTTATAAAATTACCGTTTT
*
57730850 ACCCTTGAT
66 ACCCTCGAT
57730859 TTAC
1 TTAC
57730863 AGAATTACTG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 37 0.52
74 34 0.48
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (74 bp):
TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCCTCAATTTATAAAATTACCGTTTT
ACCCTCGAT
Found at i:57730815 original size:19 final size:19
Alignment explanation
Indices: 57730774--57730816 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57730764 AATTACTGTT
* **
57730774 TTACCCTCGATTTACTGTT
1 TTACCCTCGATTTACAGAA
57730793 TTACCCTCGATTTACAGAA
1 TTACCCTCGATTTACAGAA
57730812 TTACC
1 TTACC
57730817 GTTTTACCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (19 bp):
TTACCCTCGATTTACAGAA
Found at i:57730889 original size:101 final size:100
Alignment explanation
Indices: 57730685--57730882 Score: 281
Period size: 101 Copynumber: 2.0 Consensus size: 100
57730675 ATTTACAGAA
* *
57730685 TTACTATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
1 TTACTATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTA
* *
57730750 CCCTCAATTTATAGAATTACTGTTTTACCCTCGAT
66 CCCTCAATTTACAGAATTACTGGTTTACCCTCGAT
* * **
57730785 TTACTGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCCTCGATTTGTAAAATTACCGTTT
1 TTACTATTTTACCCTCAG-TTTACAGAATTACCATTTTA-CCCTCGATTTACAAAATTACCGTTT
**
57730849 TACCCTTGATTTACAGAATTACTGGTTTACCCTC
64 TACCCTCAATTTACAGAATTACTGGTTTACCCTC
57730883 AGTTTACAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.01
100 33 0.38
101 52 0.60
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (100 bp):
TTACTATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTA
CCCTCAATTTACAGAATTACTGGTTTACCCTCGAT
Found at i:57730975 original size:27 final size:27
Alignment explanation
Indices: 57730945--57731112 Score: 178
Period size: 27 Copynumber: 6.2 Consensus size: 27
57730935 TTGATTGTGA
57730945 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57730972 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
57730999 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57731026 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57731053 AAATA-TCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * ** * *
57731080 AATTACCGAGATACCGTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57731107 AATTAC
1 AATTAC
57731113 CATTTTGCCC
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57731105 original size:54 final size:54
Alignment explanation
Indices: 57730953--57731114 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
57730943 GAAATTACTG
* * * *
57730953 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
* *
57731007 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
* * *
57731061 AAATACCCCTGTAGGGTAGAATTACCGAGATACCGTTGTGGGGTA-AAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
57731115 TTTTGCCCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.03
54 93 0.97
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
Found at i:57731105 original size:81 final size:81
Alignment explanation
Indices: 57730944--57731111 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
57730934 CTTGATTGTG
* * *
57730944 AAATTA-CTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCAA
1 AAATTATC-GAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGATAGAATTACCAA
57731008 AATACCCCTGTAGGGTA
65 AATACCCCTGTAGGGTA
* * * * *
57731025 GAATTATCGAAATACCCTTGTAGGGTAGAAATA-TCAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAATTATCGAAATACCCCTGTAGGGTAGAAATACT-AAAATACCCCTATAGGATAGAATTACCAA
* ** *
57731089 GATACCGTTGTGGGGTA
65 AATACCCCTGTAGGGTA
57731106 AAATTA
1 AAATTA
57731112 CCATTTTGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 70 0.97
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATTATCGAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGATAGAATTACCAAA
ATACCCCTGTAGGGTA
Found at i:57731354 original size:27 final size:26
Alignment explanation
Indices: 57731316--57731421 Score: 140
Period size: 27 Copynumber: 4.0 Consensus size: 26
57731306 GGAAGCGTTC
*
57731316 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGACTATGCCAC-AATATCTGTTT
57731343 TGGTGACTATGCCACAAATATCTGTTT
1 TGGTGACTATGCCAC-AATATCTGTTT
* *
57731370 TGGTGGCTCTGCCACAATATCTGTATT
1 TGGTGACTATGCCACAATATCTGT-TT
* *
57731397 TGGTGACTCTGTCACAATATCTGTT
1 TGGTGACTATGCCACAATATCTGTT
57731422 GACCGATCGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 10 0.14
27 63 0.86
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGACTATGCCACAATATCTGTTT
Found at i:57731418 original size:53 final size:54
Alignment explanation
Indices: 57731316--57731421 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
57731306 GGAAGCGTTC
57731316 TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
* * *
57731370 TGGTGGCTCTGCCAC-AATATCTGTATTTGGTGACTCTGTCAC-AATATCTGTT
1 TGGTGGCTATGCCACAAATATCTGT-TTTGGTGACTATGCCACAAATATCTGTT
57731422 GACCGATCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 19 0.40
54 29 0.60
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
Found at i:57731677 original size:6 final size:6
Alignment explanation
Indices: 57731666--57731708 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
57731656 CGCTGCGTAT
57731666 TGATTC TGATTC TGATTC TG-TTAC TGATTC TGATTC TGATTC T
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC T
57731709 CATTTTGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 2 0.06
6 31 0.89
7 2 0.06
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
TGATTC
Found at i:57736532 original size:44 final size:46
Alignment explanation
Indices: 57736410--57736533 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 46
57736400 GGTTGAGCAT
* *
57736410 CCGAA-TCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
57736454 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
57736500 CCGAGCTCG-TGAG-TGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57736534 GCCGTTACAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 25 0.34
45 32 0.44
46 16 0.22
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:57741197 original size:58 final size:58
Alignment explanation
Indices: 57741107--57741222 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
57741097 CAGGGAATAA
57741107 GGCACAAAGTGCCACACTGTAATATAACCGAAGATATCACTGTAACGTAGCCGAAGCT
1 GGCACAAAGTGCCACACTGTAATATAACCGAAGATATCACTGTAACGTAGCCGAAGCT
*
57741165 GGCACAAAGTGCCACACTGTAATATAACCGAAGCTATCACTGTAACGTAGCCGAAGCT
1 GGCACAAAGTGCCACACTGTAATATAACCGAAGATATCACTGTAACGTAGCCGAAGCT
57741223 ACCACTGTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (58 bp):
GGCACAAAGTGCCACACTGTAATATAACCGAAGATATCACTGTAACGTAGCCGAAGCT
Done.