Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 172 of 362
Found at i:56852623 original size:50 final size:50
Alignment explanation
Indices: 56852552--56852695 Score: 167
Period size: 50 Copynumber: 3.0 Consensus size: 50
56852542 ATGTGATATA
* *
56852552 CGGGCTTTGGGCTTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
1 CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
* * *
56852602 CGGGCTTCGGGCCTAGAAGGCTATAATGCCGGTGAGAT-A-AT----ATT
1 CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
* * *
56852646 -GGGCCTCGGGCCTAGCAGTCTATAATGCTGGTGAAATGATATCGGGCTT
1 CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
56852695 C
1 C
56852696 AAGCCAAGCA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
43 32 0.42
44 3 0.04
45 2 0.03
48 2 0.03
49 3 0.04
50 34 0.45
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (50 bp):
CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
Found at i:56852706 original size:43 final size:43
Alignment explanation
Indices: 56852622--56852706 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
56852612 GCCTAGAAGG
* * ** *
56852622 CTATAATGCCGGTGAGATAATATTGGGCCTCGGGCCTAGCAGT
1 CTATAATGCCGGTGAAATAATATCGGGCCTCAAGCCAAGCAGT
* * *
56852665 CTATAATGCTGGTGAAATGATATCGGGCTTCAAGCCAAGCAG
1 CTATAATGCCGGTGAAATAATATCGGGCCTCAAGCCAAGCAG
56852707 GAGAAATACC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (43 bp):
CTATAATGCCGGTGAAATAATATCGGGCCTCAAGCCAAGCAGT
Found at i:56857093 original size:28 final size:28
Alignment explanation
Indices: 56857061--56857130 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
56857051 AATGAGATTG
56857061 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
56857089 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
56857117 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56857131 GCTTTATCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:56861539 original size:37 final size:37
Alignment explanation
Indices: 56861489--56861567 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56861479 TAATTACGAA
* * * *
56861489 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
56861526 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
56861563 GTCTT
1 GTCTT
56861568 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:56861845 original size:47 final size:47
Alignment explanation
Indices: 56861690--56862071 Score: 629
Period size: 47 Copynumber: 8.0 Consensus size: 47
56861680 TCGGGACTGA
* *
56861690 TCACATTCATCACATCGGCTATTAGGCCCTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
* *
56861739 TCACATTCATCACATCAGCCATTAGGCCCTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
*
56861788 TCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
56861835 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
* *
56861882 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
* *
56861929 TCACATTCATCACATCAGCCATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
* *
56861976 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
56862023 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
56862070 TC
1 TC
56862072 TTGGCTGAAT
Statistics
Matches: 319, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 240 0.75
49 79 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:56865675 original size:40 final size:40
Alignment explanation
Indices: 56865618--56865799 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
56865608 CCAGCATGAT
* *
56865618 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
56865658 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
56865698 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
*
56865739 TGC-CTTC-GGATCTTAG-CCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
56865778 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
56865800 CATCATTCGA
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
39 26 0.22
40 82 0.69
41 11 0.09
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:56866144 original size:29 final size:29
Alignment explanation
Indices: 56866105--56866183 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56866095 CTTAATAATC
*
56866105 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56866135 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56866164 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56866184 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56866226 original size:43 final size:43
Alignment explanation
Indices: 56866165--56866353 Score: 360
Period size: 43 Copynumber: 4.4 Consensus size: 43
56866155 TGCATTTCAA
56866165 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56866208 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56866251 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
56866294 GCCCGCACACTTACTGCCAATCTCACAACTGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56866337 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
56866354 TGAAAACCAA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:56868253 original size:37 final size:37
Alignment explanation
Indices: 56868203--56868281 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56868193 TTATTACGAA
* * * *
56868203 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
56868240 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
56868277 GTCTT
1 GTCTT
56868282 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:56868578 original size:47 final size:47
Alignment explanation
Indices: 56868505--56868743 Score: 433
Period size: 47 Copynumber: 5.1 Consensus size: 47
56868495 CACTTTCACA
* *
56868505 TTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
56868552 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
56868599 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
56868646 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
56868693 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
56868740 TTTC
1 TTTC
56868744 TTGGCTGAAT
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 185 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
Found at i:56868711 original size:141 final size:144
Alignment explanation
Indices: 56868404--56868743 Score: 542
Period size: 141 Copynumber: 2.3 Consensus size: 144
56868394 TCGGGACTGA
*
56868404 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATC
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
* *
56868469 GGCCATTAGGCCTTATCACATATATACACTTTCACATTTCACATTCATCACATCGGCCATTAGGT
64 GGCCATTAGGCCTTATCACACATATA-A---TCACATTTCACATTCATCACATCGGCCATTAGGC
*
56868534 CTTATCACATATATACACTT
125 CTTATCACACATATACACTT
* *
56868554 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
56868619 CCATTAGGCCTTATCACACATAT-A-CAC-TTTCACATTCATCACATCGGCTATTAGGCCTTATC
66 CCATTAGGCCTTATCACACATATAATCACATTTCACATTCATCACATCGGCCATTAGGCCTTATC
56868681 ACACATATACACTT
131 ACACATATACACTT
56868695 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
56868744 TTGGCTGAAT
Statistics
Matches: 181, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
141 93 0.51
142 3 0.02
146 1 0.01
148 51 0.28
150 33 0.18
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (144 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACACATATAATCACATTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACACATATACACTT
Found at i:56875882 original size:28 final size:27
Alignment explanation
Indices: 56875850--56875925 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
56875840 AATGAGATTG
56875850 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGAGTTTAATAT-TA-A
*
56875878 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTT-AATATTAA
*
56875906 GCACTAAGTGTGCGACTTTA
1 GCACTAAGTGTGCGAGTTTA
56875926 TCGAGTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 1 0.02
28 38 0.86
29 4 0.09
30 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTAATATTAA
Found at i:56890382 original size:27 final size:27
Alignment explanation
Indices: 56890352--56890540 Score: 263
Period size: 27 Copynumber: 7.0 Consensus size: 27
56890342 CTCATAAAAC
* *
56890352 GTAAAATGACTATTTTTCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
* *
56890379 GTAAAATGATTGTTTTGCCCTTATATG
1 GTAAAATGACTGTTTTGCCCTTATGTG
56890406 GTAAAATGACTGTTTTGCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
* * * *
56890433 GCAAAATGACTATTTTTCCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGTG
*
56890460 GTAAAATGACTGTTTTGCCCTTATATG
1 GTAAAATGACTGTTTTGCCCTTATGTG
56890487 GTAAAATGGA-TGTTTTGCCCTTATGTG
1 GTAAAAT-GACTGTTTTGCCCTTATGTG
* *
56890514 GTAAAATGACTGTGTTGCCCCTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
56890541 ATGTTTATAT
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 138 0.97
28 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTTATGTG
Found at i:56890489 original size:81 final size:81
Alignment explanation
Indices: 56890354--56890524 Score: 299
Period size: 81 Copynumber: 2.1 Consensus size: 81
56890344 CATAAAACGT
* *
56890354 AAAATGACTATTTTTCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATATGGTAAAAT-GACTG
1 AAAATGACTATTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGGA-TG
56890418 TTTTGCCCTTATGTGGC
65 TTTTGCCCTTATGTGGC
56890435 AAAATGACTATTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGGATGT
1 AAAATGACTATTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGGATGT
*
56890500 TTTGCCCTTATGTGGT
66 TTTGCCCTTATGTGGC
56890516 AAAATGACT
1 AAAATGACT
56890525 GTGTTGCCCC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
81 84 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (81 bp):
AAAATGACTATTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGGATGT
TTTGCCCTTATGTGGC
Found at i:56893240 original size:34 final size:34
Alignment explanation
Indices: 56893156--56893265 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
56893146 AGTGACAGTC
* * * *
56893156 CAGTATCAGTTAGGACCTTAGCCCAATACAATAT
1 CAGTAACACTTAGGGCCTTAGCCCAATACAGTAT
* *
56893190 CAGTATCACTTAGGGCCTTAGCCTAATACAGTAT
1 CAGTAACACTTAGGGCCTTAGCCCAATACAGTAT
* * * *
56893224 CATTAACAGTGT-GGGCCTTAGCCCAATTCAGTAG
1 CAGTAACACT-TAGGGCCTTAGCCCAATACAGTAT
*
56893258 CTGTAACA
1 CAGTAACA
56893266 GAATTGCAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
34 62 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (34 bp):
CAGTAACACTTAGGGCCTTAGCCCAATACAGTAT
Found at i:56894007 original size:22 final size:23
Alignment explanation
Indices: 56893964--56894007 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
56893954 GCTTTGATTG
*
56893964 TGATATTTTGTTGTTTTGTGATA
1 TGATATTTTGTTGATTTGTGATA
56893987 TGAT-TTTTGTTAGATTT-TGAT
1 TGATATTTTGTT-GATTTGTGAT
56894008 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.20, T:0.61
Consensus pattern (23 bp):
TGATATTTTGTTGATTTGTGATA
Found at i:56894720 original size:37 final size:38
Alignment explanation
Indices: 56894636--56894738 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
56894626 TGTACAATCT
* * *
56894636 TGTTCTGGCGTGTTATGGGGTGGATGTATTGCTCTTATGAG
1 TGTT-TGGCGTGTTATCGGTTGGAT-TA-TGCTCTTATGAA
**
56894677 CATTTGGCGTGTTATCGGTTGGATTA-GCTCTTATGAA
1 TGTTTGGCGTGTTATCGGTTGGATTATGCTCTTATGAA
* * *
56894714 TGTTTGGTGTATT-TTGGTTGGATTA
1 TGTTTGGCGTGTTATCGGTTGGATTA
56894739 CTTGTGCACT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
36 11 0.21
37 19 0.37
39 2 0.04
40 18 0.35
41 2 0.04
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.45
Consensus pattern (38 bp):
TGTTTGGCGTGTTATCGGTTGGATTATGCTCTTATGAA
Found at i:56894987 original size:34 final size:34
Alignment explanation
Indices: 56894944--56895012 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56894934 GAAACACTTG
*
56894944 AAGTTGAGTTATTATTGATTGAATTGTTGTATTT
1 AAGTCGAGTTATTATTGATTGAATTGTTGTATTT
*
56894978 AAGTCGAGTTATTTTTGATTGAATTGTTGTATTT
1 AAGTCGAGTTATTATTGATTGAATTGTTGTATTT
56895012 A
1 A
56895013 CTTTGGTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.01, G:0.20, T:0.52
Consensus pattern (34 bp):
AAGTCGAGTTATTATTGATTGAATTGTTGTATTT
Found at i:56895845 original size:41 final size:42
Alignment explanation
Indices: 56895750--56895845 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 42
56895740 ACAGCCTGCA
* * * *
56895750 ACACGGTCATGTGTCACAAGTCAAAGAGTTACATGGTCTGGC
1 ACACGGTCGTGTGGCACAACTCAAAGAGTTACATGGGCTGGC
* * * *
56895792 ACACGATTGTGTGGCCCAACTCAATGAGTTA-ATGGGCTGAG-
1 ACACGGTCGTGTGGCACAACTCAAAGAGTTACATGGGCTG-GC
56895833 ACACGGTCGTGTG
1 ACACGGTCGTGTG
56895846 TCCCTATTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 18 0.42
42 25 0.58
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (42 bp):
ACACGGTCGTGTGGCACAACTCAAAGAGTTACATGGGCTGGC
Found at i:56897416 original size:16 final size:16
Alignment explanation
Indices: 56897395--56897437 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
56897385 ATGAATCGGC
* *
56897395 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGCCA
*
56897411 AAAAGCTGAAATGCCA
1 AAAAGCCGAAATGCCA
56897427 AAAAGCCGAAA
1 AAAAGCCGAAA
56897438 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:56897700 original size:29 final size:28
Alignment explanation
Indices: 56897648--56897762 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
56897638 GTGAGCATGA
* *
56897648 ATATGAATGTGAATGGGCCTAATGGGCT
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
56897676 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
** * *
56897705 ATATTCAGGTGATTTCGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
56897734 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
56897762 A
1 A
56897763 GATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:56897730 original size:58 final size:57
Alignment explanation
Indices: 56897663--56897771 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
56897653 AATGTGAATG
* * * *
56897663 GGCCTAATGGGCTATATAAATGTGATTTGGGCCTAATGGGCCATATTCAGGTGATTTC
1 GGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATTTC
* *
56897721 GGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
56897772 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (57 bp):
GGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATTTC
Found at i:56898309 original size:18 final size:20
Alignment explanation
Indices: 56898265--56898315 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
56898255 TAATAAGGTT
56898265 TTCATTA-TATTATTATTAC
1 TTCATTATTATTATTATTAC
*
56898284 TTGAATTATTATTATTATT-C
1 TT-CATTATTATTATTATTAC
*
56898304 -TCATTATAATTA
1 TTCATTATTATTA
56898316 CAAGAAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 5 0.19
21 10 0.37
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (20 bp):
TTCATTATTATTATTATTAC
Found at i:56901683 original size:28 final size:29
Alignment explanation
Indices: 56901573--56901687 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
56901563 GTGAGCATGA
* **
56901573 ATATGAATGTGA-CTGGGCCTAACAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
56901601 ATATAAATGTGATTTGGTCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
56901630 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
56901659 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
56901687 A
1 A
56901688 GATACAAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:56903171 original size:15 final size:15
Alignment explanation
Indices: 56903147--56903178 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56903137 TATGCATGAA
*
56903147 AAATATAAAAGACAT
1 AAATACAAAAGACAT
56903162 AAATACAAAAGACAT
1 AAATACAAAAGACAT
56903177 AA
1 AA
56903179 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:56906622 original size:10 final size:10
Alignment explanation
Indices: 56906589--56906670 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
56906579 GAAAGTAGAT
56906589 GAAGAGAAAA
1 GAAGAGAAAA
*
56906599 GAAAAGAAAA
1 GAAGAGAAAA
* **
56906609 GAAAAGAAGG
1 GAAGAGAAAA
56906619 GAA-AGAAGAA
1 GAAGAGAA-AA
56906629 GAAG-GAAGGAA
1 GAAGAGAA--AA
* *
56906640 GTAGATGAAGA
1 GAAGA-GAAAA
56906651 GAAGAGAAAA
1 GAAGAGAAAA
*
56906661 GAAAAGAAAA
1 GAAGAGAAAA
56906671 TAGAAGAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
9 4 0.07
10 39 0.68
11 11 0.19
13 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAGAGAAAA
Found at i:56907781 original size:19 final size:18
Alignment explanation
Indices: 56907744--56907787 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
56907734 ATACATACAG
56907744 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
56907761 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
56907780 TACTAATT
1 TAATAATT
56907788 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:56910501 original size:20 final size:21
Alignment explanation
Indices: 56910476--56910514 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56910466 TTGGCCCGTA
*
56910476 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
56910496 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
56910515 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:56912620 original size:19 final size:18
Alignment explanation
Indices: 56912583--56912626 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
56912573 ATACATACAG
56912583 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
56912600 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
56912619 TACTAATT
1 TAATAATT
56912627 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:56915156 original size:27 final size:26
Alignment explanation
Indices: 56915100--56915156 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
56915090 CAACCTTAAC
* * *
56915100 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
**
56915126 CCTAGGGGTAAATTTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
56915153 CCTA
1 CCTA
56915157 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:56917766 original size:27 final size:27
Alignment explanation
Indices: 56917736--56917913 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56917726 ATATTGAGTC
* * * *
56917736 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56917763 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56917790 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56917818 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56917845 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56917872 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56917899 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56917914 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56917875 original size:82 final size:81
Alignment explanation
Indices: 56917757--56917912 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56917747 TGCTATATAA
* *
56917757 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56917822 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56917839 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56917903 CACTTAGTGC
65 CACTTAGTGC
56917913 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56925952 original size:27 final size:27
Alignment explanation
Indices: 56925922--56926099 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56925912 ATATTGAGTC
* * * *
56925922 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56925949 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56925976 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56926004 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56926031 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56926058 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56926085 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56926100 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56926061 original size:82 final size:81
Alignment explanation
Indices: 56925943--56926098 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56925933 TGCTATATAA
* *
56925943 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56926008 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56926025 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56926089 CACTTAGTGC
65 CACTTAGTGC
56926099 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56932458 original size:28 final size:27
Alignment explanation
Indices: 56932426--56932505 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
56932416 AATGAGATTG
56932426 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTA-A
*
56932454 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTT-AAT-TGTAA
* *
56932482 GCACTAAGTGTGCGACTTTTATTG
1 GCACTAAGTGTGCGAGTTTAATTG
56932506 AGTAAATCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 38 0.84
29 4 0.09
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:56939979 original size:28 final size:26
Alignment explanation
Indices: 56939913--56939985 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 26
56939903 AATGAGATTG
*
56939913 GCACTAAGTGTGCGAGTTTAATTGTA
1 GCACTAAGTGTGCGAGTTTAATTGAA
56939939 -CACTAAGTGTGCGAGTTTGACTATT-AA
1 GCACTAAGTGTGCGAGTTT-A--ATTGAA
*
56939966 GCACTAAGTGTGCGACTTTA
1 GCACTAAGTGTGCGAGTTTA
56939986 TCGAGTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 18 0.44
26 1 0.02
27 2 0.05
28 20 0.49
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTTAATTGAA
Found at i:56944933 original size:26 final size:25
Alignment explanation
Indices: 56944903--56944951 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
56944893 TTATTATTAT
56944903 ACATA-CATTACACCAGTTAAACAAAC
1 ACATAGCATT-CACCA-TTAAACAAAC
*
56944929 ACATAGTATTCACCATTAAACAA
1 ACATAGCATTCACCATTAAACAA
56944952 TCTGCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 10 0.48
27 3 0.14
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.22
Consensus pattern (25 bp):
ACATAGCATTCACCATTAAACAAAC
Found at i:56948271 original size:27 final size:27
Alignment explanation
Indices: 56948241--56948294 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56948231 ATGACCAAAA
56948241 TACCCCTAAAGGGTAAATTGACT-ATTT
1 TACCCCTAAAGGGTAAA-TGACTGATTT
**
56948268 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAAAGGGTAAATGACTGATTT
56948295 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAATGACTGATTT
Found at i:56953681 original size:24 final size:24
Alignment explanation
Indices: 56953631--56953684 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
56953621 AATCTAATTT
*
56953631 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
56953655 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
56953679 GCACAC
1 GCACAC
56953685 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:56955930 original size:16 final size:16
Alignment explanation
Indices: 56955911--56955946 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56955901 GGCAAAAGCA
56955911 GAAATGCCGAAAAGTC
1 GAAATGCCGAAAAGTC
* *
56955927 GAAATGCTGAAAAGTT
1 GAAATGCCGAAAAGTC
56955943 GAAA
1 GAAA
56955947 GTTTAGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (16 bp):
GAAATGCCGAAAAGTC
Found at i:56957990 original size:40 final size:40
Alignment explanation
Indices: 56957911--56958074 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 40
56957901 CGGATGATAA
* *
56957911 CCGGACTAAGA-TCCGAAGGCATTCGTGCGAGTT-TCTATAT
1 CCGGGCTAAGACT-CGAAGGCATTTGTGCGAGTTGT-TATAT
* * * * *
56957951 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-TTATAT
*
56957991 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGTTATAT
56958031 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGTTATAT
56958071 CCGG
1 CCGG
56958075 ATAAATCTCG
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 102 0.96
41 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:56965962 original size:40 final size:40
Alignment explanation
Indices: 56965883--56966058 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
56965873 CAAATGATAA
* * * *
56965883 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
56965923 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* **
56965963 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTACCT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56966003 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56966043 -C-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
56966059 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 13 0.11
39 3 0.03
40 96 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:56969302 original size:12 final size:13
Alignment explanation
Indices: 56969268--56969307 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
56969258 TTTTTTTAAG
56969268 TAGTTTATTGATA
1 TAGTTTATTGATA
56969281 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
56969295 TAGTTTATTGATA
1 TAGTTTATTGATA
56969308 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:56975425 original size:27 final size:27
Alignment explanation
Indices: 56975394--56975598 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
56975384 ATATTGAGTC
* * *
56975394 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
56975421 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56975448 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56975476 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56975503 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56975530 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56975557 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56975584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56975599 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56983649 original size:27 final size:27
Alignment explanation
Indices: 56983618--56983822 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
56983608 ATATTGAGTC
* * *
56983618 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
56983645 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56983672 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56983700 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56983727 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56983754 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56983781 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56983808 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56983823 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56990561 original size:28 final size:28
Alignment explanation
Indices: 56990521--56990631 Score: 152
Period size: 28 Copynumber: 3.9 Consensus size: 28
56990511 CATGACTGTA
56990521 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
56990549 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
56990578 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * *
56990606 AATGAGATTGGGCCTAGTAGGCCATA
1 AATGTGATTGGGCCTAATGGGCCATA
56990632 AGCATGTATG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
28 61 0.81
29 14 0.19
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:56990629 original size:56 final size:57
Alignment explanation
Indices: 56990519--56990629 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 57
56990509 AGCATGACTG
* *
56990519 TAAATGTGATTTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAATGAGATTTGGGCCTAATAGGCCACA
*
56990576 TAAATGTGA-TTGGGCCTAATGGGCCATATGAATGAGA-TTGGGCCTAGTAGGCCA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAATGAGATTTGGGCCTAATAGGCCA
56990630 TAAGCATGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
56 26 0.52
57 24 0.48
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAATGAGATTTGGGCCTAATAGGCCACA
Found at i:56995229 original size:27 final size:27
Alignment explanation
Indices: 56995183--56995345 Score: 141
Period size: 27 Copynumber: 6.1 Consensus size: 27
56995173 TGCCCCTGTA
* *
56995183 GACCGTAATACCCCTATAGGGTAAAAT
1 GACCATAATACCCCTGTAGGGTAAAAT
* *
56995210 GACTATGATACCCCTGTAGGGTAAAAT
1 GACCATAATACCCCTGTAGGGTAAAAT
* **
56995237 GACCGTAACCCCCCTGTAGGGTAAAAT
1 GACCATAATACCCCTGTAGGGTAAAAT
* * * * *
56995264 GATCGTAATGCCCCGGTAGGATAAAAT
1 GACCATAATACCCCTGTAGGGTAAAAT
* * * *
56995291 AACCGTAAT-GCCCTGTAGGGGAAAAT
1 GACCATAATACCCCTGTAGGGTAAAAT
* *
56995317 GACCGTAATACCTCTGTACGGG-AAAAT
1 GACCATAATACCCCTGTA-GGGTAAAAT
56995344 GA
1 GA
56995346 TGATTATGCC
Statistics
Matches: 111, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.19
27 87 0.78
28 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
GACCATAATACCCCTGTAGGGTAAAAT
Found at i:56995324 original size:53 final size:53
Alignment explanation
Indices: 56995184--56995328 Score: 164
Period size: 54 Copynumber: 2.7 Consensus size: 53
56995174 GCCCCTGTAG
* ** * * * *
56995184 ACCGTAATACCCCTATAGGGTAAAATGACTATGATACCCCTGTAGGGTAAAATG
1 ACCGTAAT-CCCCTGTAGGGTAAAATGACCGTAATACCCCGGTAGGATAAAATA
* * *
56995238 ACCGTAACCCCCCTGTAGGGTAAAATGATCGTAATGCCCCGGTAGGATAAAATA
1 ACCGTAA-TCCCCTGTAGGGTAAAATGACCGTAATACCCCGGTAGGATAAAATA
* *
56995292 ACCGTAATGCCCTGTAGGGGAAAATGACCGTAATACC
1 ACCGTAATCCCCTGTAGGGTAAAATGACCGTAATACC
56995329 TCTGTACGGG
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 25 0.33
54 50 0.67
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (53 bp):
ACCGTAATCCCCTGTAGGGTAAAATGACCGTAATACCCCGGTAGGATAAAATA
Found at i:57003377 original size:33 final size:34
Alignment explanation
Indices: 57003328--57003422 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
57003318 ACTTTATTGA
* * *
57003328 TACTGTAATGGACTTAGGCCC-CACTGATACTAT
1 TACTGAAATGGGCTTAGGCCCAAACTGATACTAT
* *
57003361 TACTGAAGTGGGCTTAGGCCCAAACTGCTACTAT
1 TACTGAAATGGGCTTAGGCCCAAACTGATACTAT
* * *
57003395 TATTGAAATGGGCTAAGGCCCTAACTGA
1 TACTGAAATGGGCTTAGGCCCAAACTGA
57003423 GACTGCAATG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 18 0.35
34 33 0.65
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (34 bp):
TACTGAAATGGGCTTAGGCCCAAACTGATACTAT
Found at i:57008004 original size:19 final size:19
Alignment explanation
Indices: 57007980--57008018 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
57007970 ATGGTTGAAA
57007980 GGGTGGTGTGAGTAATCAG
1 GGGTGGTGTGAGTAATCAG
57007999 GGGTGGTGTGAGTAATCAG
1 GGGTGGTGTGAGTAATCAG
57008018 G
1 G
57008019 TTGATGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.49, T:0.26
Consensus pattern (19 bp):
GGGTGGTGTGAGTAATCAG
Found at i:57024968 original size:32 final size:31
Alignment explanation
Indices: 57024932--57025016 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 31
57024922 TCAGTAGTGG
* *
57024932 TATTATCATTGGCACAAAGCCATCAGTAACTA
1 TATTAT-ATTGGCACAAAGCCATCAGCAACAA
* *
57024964 TATTATGTTGAGCACATAGCCATCAGCAACAA
1 TATTATATTG-GCACAAAGCCATCAGCAACAA
* * *
57024996 TAATATAATCGGCACACAGCC
1 TATTAT-ATTGGCACAAAGCC
57025017 TTGGGTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 3 0.07
32 38 0.88
33 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (31 bp):
TATTATATTGGCACAAAGCCATCAGCAACAA
Found at i:57025552 original size:27 final size:27
Alignment explanation
Indices: 57025522--57025622 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
57025512 ACAGTCATTT
* *
57025522 TACCCTACAAAGGTATTTCGGTAATCC
1 TACCCTACAAGGGTATTTCGATAATCC
* * *
57025549 TACCTTACAGGGGTATTTTGATAATCC
1 TACCCTACAAGGGTATTTCGATAATCC
* * *
57025576 TATCTTACAGGGGTATTTCGATAATCC
1 TACCCTACAAGGGTATTTCGATAATCC
*
57025603 TACCCCAC-AGGGTTATTTCG
1 TACCCTACAAGGG-TATTTCG
57025623 GTAGTTTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 3 0.05
27 59 0.95
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATCC
Found at i:57025668 original size:54 final size:53
Alignment explanation
Indices: 57025610--57025834 Score: 206
Period size: 54 Copynumber: 4.2 Consensus size: 53
57025600 TCCTACCCCA
* * * *
57025610 CAGGGTTATTTCGGTAGTTTCACAAATCAAGGGTATTTCGATAATTTCACAAAT
1 CAGGGGTATTTCGATAATTTTACAAATC-AGGGTATTTCGATAATTTCACAAAT
* * *
57025664 CAGGGGTATTTCAATAATTTTAC-AATCGGGGATATTTC-AGTAATTTTACAAAT
1 CAGGGGTATTTCGATAATTTTACAAATCAGGG-TATTTCGA-TAATTTCACAAAT
* * * *
57025717 C-GAGGGTATTTTGATAATTTTACAAATTAGGGTATTTCAATAATTTTTACAAA-
1 CAG-GGGTATTTCGATAATTTTACAAATCAGGGTATTTCGATAA-TTTCACAAAT
* * * * * *
57025770 CTGGAGGTATTTCGGTAATTTTACAAGTCGGGGTAATTCGATAATTTCACAACT
1 CAGG-GGTATTTCGATAATTTTACAAATCAGGGTATTTCGATAATTTCACAAAT
*
57025824 TAGGGGTATTT
1 CAGGGGTATTT
57025835 TACAACAGAG
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
52 5 0.04
53 66 0.47
54 69 0.49
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (53 bp):
CAGGGGTATTTCGATAATTTTACAAATCAGGGTATTTCGATAATTTCACAAAT
Found at i:57025690 original size:26 final size:26
Alignment explanation
Indices: 57025583--57025834 Score: 174
Period size: 27 Copynumber: 9.4 Consensus size: 26
57025573 TCCTATCTTA
** *
57025583 CAGGGGTATTTCGATAATCCTACCCCA-
1 CAGGGGTATTTCGATAATTTTA--CAAT
* * * *
57025610 CAGGGTTATTTCGGTAGTTTCACAAAT
1 CAGGGGTATTTCGATAATTTTAC-AAT
* *
57025637 CAAGGGTATTTCGATAATTTCACAAAT
1 CAGGGGTATTTCGATAATTTTAC-AAT
*
57025664 CAGGGGTATTTCAATAATTTTACAAT
1 CAGGGGTATTTCGATAATTTTACAAT
57025690 C-GGGGATATTTC-AGTAATTTTACAAAT
1 CAGGGG-TATTTCGA-TAATTTTAC-AAT
*
57025717 C-GAGGGTATTTTGATAATTTTACAAAT
1 CAG-GGGTATTTCGATAATTTTAC-AAT
* * *
57025744 TA-GGGTATTTCAATAATTTTTACAAA
1 CAGGGGTATTTCGATAA-TTTTACAAT
* *
57025770 CTGGAGGTATTTCGGTAATTTTACAAGT
1 CAGG-GGTATTTCGATAATTTTACAA-T
* *
57025798 C-GGGGTAATTCGATAATTTCACAACT
1 CAGGGGTATTTCGATAATTTTACAA-T
*
57025824 TAGGGGTATTT
1 CAGGGGTATTT
57025835 TACAACAGAG
Statistics
Matches: 182, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
25 6 0.03
26 53 0.29
27 107 0.59
28 16 0.09
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (26 bp):
CAGGGGTATTTCGATAATTTTACAAT
Found at i:57025708 original size:53 final size:52
Alignment explanation
Indices: 57025640--57025834 Score: 198
Period size: 53 Copynumber: 3.7 Consensus size: 52
57025630 CACAAATCAA
*
57025640 GGGTATTTCGATAATTTCACAAATCAGGGGTATTTCAATAATTTTACAATCG
1 GGGTATTTCGATAATTTCACAAATCAGGGGTATTTCGATAATTTTACAATCG
* * **
57025692 GGGATATTTC-AGTAATTTTACAAATC-GAGGGTATTTTGATAATTTTACAAATTA
1 GGG-TATTTCGA-TAATTTCACAAATCAG-GGGTATTTCGATAATTTTAC-AATCG
* * * *
57025746 GGGTATTTCAATAATTTTTACAAA-CTGGAGGTATTTCGGTAATTTTACAAGTCG
1 GGGTATTTCGATAA-TTTCACAAATCAGG-GGTATTTCGATAATTTTACAA-TCG
* * *
57025800 GGGTAATTCGATAATTTCACAACTTAGGGGTATTT
1 GGGTATTTCGATAATTTCACAAATCAGGGGTATTT
57025835 TACAACAGAG
Statistics
Matches: 118, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
52 5 0.04
53 64 0.54
54 49 0.42
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (52 bp):
GGGTATTTCGATAATTTCACAAATCAGGGGTATTTCGATAATTTTACAATCG
Found at i:57025733 original size:80 final size:82
Alignment explanation
Indices: 57025616--57025834 Score: 295
Period size: 80 Copynumber: 2.7 Consensus size: 82
57025606 CCCACAGGGT
* * * *
57025616 TATTTCGGTAGTTTCACAAATCAAGGGTATTTCGATAATTTCACAAATCAGGGGTATTTCAATAA
1 TATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTCAATAA
*
57025681 -TTTTACAATC-GG-GG
66 TTTTTACAAACTGGAGG
* * *
57025695 ATATTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATTA-GGGTATTTCAATA
1 -TATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTCAATA
57025759 ATTTTTACAAACTGGAGG
65 ATTTTTACAAACTGGAGG
* * *
57025777 TATTTCGGTAATTTTACAAGTCG-GGGTAATTCGATAATTTCACAACTTAGGGGTATTT
1 TATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATTAGGGGTATTT
57025835 TACAACAGAG
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 14 0.12
80 74 0.61
81 31 0.26
82 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (82 bp):
TATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTCAATAA
TTTTTACAAACTGGAGG
Found at i:57027859 original size:22 final size:23
Alignment explanation
Indices: 57027825--57027886 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
57027815 GCAAATACGT
*
57027825 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATGTAGG
* *
57027847 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGTAGG
*
57027869 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
57027887 CAGAATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGTAGG
Found at i:57028091 original size:41 final size:41
Alignment explanation
Indices: 57028034--57028153 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
57028024 AAGCCACCGG
* *
57028034 TGGATCCACGGTCATCAAGTAACCATGGGATCCTTAATCGA
1 TGGATCCACGGTCATCAAGTAACCATGCGATCCTCAATCGA
* *
57028075 TGGATCCACAGTCATCAAGTAACCATGCGATCCTCAATCGG
1 TGGATCCACGGTCATCAAGTAACCATGCGATCCTCAATCGA
* * * *
57028116 TGGATCCACGGTTATCAGGCAACCATGCAATCCTCAAT
1 TGGATCCACGGTCATCAAGTAACCATGCGATCCTCAAT
57028154 TTCTTCATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
TGGATCCACGGTCATCAAGTAACCATGCGATCCTCAATCGA
Found at i:57029780 original size:28 final size:28
Alignment explanation
Indices: 57029717--57029811 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
57029707 ATATTAAGTC
*
57029717 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57029744 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
57029772 CGCACACTTAGTGGTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57029801 CGCACACTTAG
1 CGCACACTTAG
57029812 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.37
28 22 0.37
29 16 0.27
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57031092 original size:136 final size:136
Alignment explanation
Indices: 57030929--57031200 Score: 535
Period size: 136 Copynumber: 2.0 Consensus size: 136
57030919 CAATAAGAGC
57030929 TTGACTACTACTAGATTCTCATAAAAATCAATAGAAATAACATGAACTCCTACCTTATTTAACCT
1 TTGACTACTACTAGATTCTCATAAAAATCAATAGAAATAACATGAACTCCTACCTTATTTAACCT
*
57030994 CCAAGATAGCCGAATGCCCTAGACAAATTCCTTCCTCTTTCCCCTTTTGTTTCGGCTTTGCAAGA
66 CCAAGATAGCCGAATGACCTAGACAAATTCCTTCCTCTTTCCCCTTTTGTTTCGGCTTTGCAAGA
57031059 AGGTAA
131 AGGTAA
57031065 TTGACTACTACTAGATTCTCATAAAAATCAATAGAAATAACATGAACTCCTACCTTATTTAACCT
1 TTGACTACTACTAGATTCTCATAAAAATCAATAGAAATAACATGAACTCCTACCTTATTTAACCT
57031130 CCAAGATAGCCGAATGACCTAGACAAATTCCTTCCTCTTTCCCCTTTTGTTTCGGCTTTGCAAGA
66 CCAAGATAGCCGAATGACCTAGACAAATTCCTTCCTCTTTCCCCTTTTGTTTCGGCTTTGCAAGA
57031195 AGGTAA
131 AGGTAA
57031201 GGAAGATGAA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (136 bp):
TTGACTACTACTAGATTCTCATAAAAATCAATAGAAATAACATGAACTCCTACCTTATTTAACCT
CCAAGATAGCCGAATGACCTAGACAAATTCCTTCCTCTTTCCCCTTTTGTTTCGGCTTTGCAAGA
AGGTAA
Found at i:57031952 original size:27 final size:27
Alignment explanation
Indices: 57031920--57032245 Score: 228
Period size: 27 Copynumber: 12.0 Consensus size: 27
57031910 TTGGTAAATC
*
57031920 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * * *
57031947 TGCAAACCGATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCGATAA-TTT
*
57031975 TA-AAAGTCAAGGGTATTTTTG-TAATTT
1 TACAAA-TCAAGGGTA-TTTCGATAATTT
*
57032002 TATAAATCAAGGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
* * * *
57032029 TTCAAATCAATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
57032056 TACAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* **
57032083 TAAAAATTGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* **
57032110 TACAAGTTGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * * *
57032137 TACAGGTTAAGGATATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * * * *
57032164 CATAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
57032191 TACAAA-CCAGAGGTATTTTGATAATTT
1 TACAAATCAAG-GGTATTTCGATAATTT
* * * *
57032218 TACAAACCATGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
57032245 T
1 T
57032246 GCTAATCGAG
Statistics
Matches: 243, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.02
27 217 0.89
28 18 0.07
29 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:57032057 original size:54 final size:53
Alignment explanation
Indices: 57031900--57032288 Score: 248
Period size: 54 Copynumber: 7.2 Consensus size: 53
57031890 TTTCACCCTA
* * * * * * *
57031900 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAA-GGTATTTTGATAATTTTACAAAT
* * * *
57031954 CGATGGTATTTCT-ATAATTTTTA-AAAGTCAAGGGTATTTTTG-TAATTTTATAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TCAA-GGTA-TTTTGATAATTTTACAAAT
* *
57032009 CAAGGGTATTTCT-GTAATTTTTCAAATCAATGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAATCAA-GGTATTTTGATAATTTTACAAAT
* * * * * * *
57032063 TAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAA-TCAAGGTATTTTGATAATTTTACAAAT
** * * ** * ** * *
57032117 TGAGGGTATTTCGATAATTTTACAGGTTAAGGATATTTCAATAATTTCATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGG-TATTTTGATAATTTTACAAAT
* * * *
57032171 TAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCA-AGGTATTTTGATAATTTTACAAAT
* * * * ** *
57032225 CATGGGTATTTTGGTAATTTTGCTAATCGAGCGTATTTT-AGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAG-GTATTTTGA-TAATTTTACAAAT
57032279 CAAGGGTATT
1 CAAGGGTATT
57032289 AAGTAATTCT
Statistics
Matches: 262, Mismatches: 61, Indels: 24
0.76 0.18 0.07
Matches are distributed among these distances:
53 13 0.05
54 201 0.77
55 44 0.17
56 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (53 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGTATTTTGATAATTTTACAAAT
Found at i:57032108 original size:81 final size:80
Alignment explanation
Indices: 57031929--57032245 Score: 282
Period size: 81 Copynumber: 3.9 Consensus size: 80
57031919 CTACAAACCA
* *
57031929 AGGGTATTTCGATAATTTTGCAAACCGATGGTATTTCT-ATAATTTTTA-AAAGTCAAGGGTATT
1 AGGGTATTTCGATAATTTTACAAACCAATGGTATTT-TGATAA-TTTTACAAA-TCAAGGGTATT
* *
57031992 TTTGTAATTTTATAAATCA
63 TTGGTAATTTTATAAAT-T
* * * * *
57032011 AGGGTATTTCTG-TAATTTTTCAAATCAATGGTATTTTGGTAATTTTACAAATTAGGGGTATTTT
1 AGGGTATTTC-GATAATTTTACAAACCAATGGTATTTTGATAATTTTACAAATCAAGGGTATTTT
*
57032075 GGTAATTTTAAAAATT
65 GGTAATTTTATAAATT
**** * * ** * * *
57032091 GAGGGTATTTCGATAATTTTACAAGTTGAGGGTATTTCGATAATTTTACAGGTTAAGGATATTTC
1 -AGGGTATTTCGATAATTTTACAAACCAATGGTATTTTGATAATTTTACAAATCAAGGGTATTTT
** *
57032156 AATAATTTCATAAATT
65 GGTAATTTTATAAATT
* * * *
57032172 AGGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTGATAATTTTACAAACCATGGGTATTT
1 A-GGGTATTTCGATAATTTTACAAACCA-ATGGTATTTTGATAATTTTACAAATCAAGGGTATTT
57032236 TGGTAATTTT
64 TGGTAATTTT
57032246 GCTAATCGAG
Statistics
Matches: 186, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
80 2 0.01
81 145 0.78
82 38 0.20
83 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAACCAATGGTATTTTGATAATTTTACAAATCAAGGGTATTTTG
GTAATTTTATAAATT
Found at i:57032287 original size:27 final size:27
Alignment explanation
Indices: 57031900--57032296 Score: 173
Period size: 27 Copynumber: 14.7 Consensus size: 27
57031890 TTTCACCCTA
* * * *
57031900 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
57031927 CAAGGGTA-TTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAC
* * *
57031954 CGATGGTATTTCTA-TAATTTTTA-AAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* * *
57031982 CAAGGGTATTTTTGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
57032009 CAAGGGTATTTCT-GTAATTTTTCAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
57032036 CAATGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * * *
57032063 TAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * **
57032090 TGAGGGTA-TTTCGATAATTTTACAAGT
1 CAAGGGTATTTTAG-TAATTTTACAAAC
** * ***
57032117 TGAGGGTA-TTTCGATAATTTTACAGGT
1 CAAGGGTATTTTAG-TAATTTTACAAAC
* * * * * * *
57032144 TAAGGATATTTCAATAATTTCATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
57032171 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
57032198 C-AGAGGTATTTT-GATAATTTTACAAAC
1 CAAG-GGTATTTTAG-TAATTTTACAAAC
* * * * *
57032225 CATGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * **
57032252 CGAGCGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
57032279 CAAGGGTA-TTAAGTAATT
1 CAAGGGTATTTTAGTAATT
57032297 CTACCCTACA
Statistics
Matches: 295, Mismatches: 60, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
26 20 0.07
27 248 0.84
28 26 0.09
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:57032322 original size:27 final size:27
Alignment explanation
Indices: 57032290--57032387 Score: 135
Period size: 27 Copynumber: 3.6 Consensus size: 27
57032280 AAGGGTATTA
*
57032290 AGTAATTCTACCCTACAGGGGCATTTC
1 AGTAATTCTATCCTACAGGGGCATTTC
57032317 AGTAATTCTATCCT-CTAGGGGCATTTC
1 AGTAATTCTATCCTAC-AGGGGCATTTC
* *
57032344 AGTAATTCTATCCTATAGGGGTATTTC
1 AGTAATTCTATCCTACAGGGGCATTTC
* *
57032371 AGTAATACTAGCCTACA
1 AGTAATTCTATCCTACA
57032388 AATATGAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.98
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
AGTAATTCTATCCTACAGGGGCATTTC
Found at i:57033837 original size:17 final size:19
Alignment explanation
Indices: 57033805--57033839 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
57033795 ACACTTGGGC
57033805 ACTAAATTTAGTAAAAAGG
1 ACTAAATTTAGTAAAAAGG
57033824 ACTAAA-TT-GTAAAAAG
1 ACTAAATTTAGTAAAAAG
57033840 TACAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
ACTAAATTTAGTAAAAAGG
Found at i:57039820 original size:42 final size:43
Alignment explanation
Indices: 57039711--57039823 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
57039701 AGTTCGTACA
* ***
57039711 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCG
*
57039754 ATGCC-ACTGTCCTAGACAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAATATCG
*
57039796 ATGCCAACGTCCCAGACGTAGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
57039824 TGAAAGCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCG
Found at i:57045045 original size:28 final size:28
Alignment explanation
Indices: 57045004--57045100 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 28
57044994 AACACGTTAG
** *
57045004 AAAGGAATTTCTTCGTTGCAATATATGA
1 AAAGGAATGCCTTCGTAGCAATATATGA
* * * *
57045032 AAAGGAATGGCTTCGTGGAAATATGTGA
1 AAAGGAATGCCTTCGTAGCAATATATGA
* * *
57045060 AAAGGAATACCTTTGTACCAATATATGA
1 AAAGGAATGCCTTCGTAGCAATATATGA
*
57045088 AAAGAAATGCCTT
1 AAAGGAATGCCTT
57045101 TGTGGTAGAC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (28 bp):
AAAGGAATGCCTTCGTAGCAATATATGA
Found at i:57045157 original size:27 final size:28
Alignment explanation
Indices: 57045127--57045206 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
57045117 GGGGATGTCG
*
57045127 TTGTGGCAAACTTTGAAAGGAATG-GTT
1 TTGTGGCAAACTTTGAAAGGAATGCATT
* *
57045154 TTGTTGGAAAACTCT-AGAAGGAATGCATT
1 TTG-TGGCAAACTTTGA-AAGGAATGCATT
* *
57045183 TT-TGGCAAAGTTTGAAGGGAATGC
1 TTGTGGCAAACTTTGAAAGGAATGC
57045207 CTTTATGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
27 20 0.48
28 18 0.43
29 4 0.10
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (28 bp):
TTGTGGCAAACTTTGAAAGGAATGCATT
Found at i:57048067 original size:18 final size:19
Alignment explanation
Indices: 57048044--57048098 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
57048034 CTTGGCCCAT
57048044 TGCAGTAACAGTAAAT-AG
1 TGCAGTAACAGTAAATCAG
57048062 TGCAGTAACAGT-AATCAG
1 TGCAGTAACAGTAAATCAG
**
57048080 TAAAGTAACAGTAAA-CAG
1 TGCAGTAACAGTAAATCAG
57048098 T
1 T
57048099 ATGCAAATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 3 0.09
18 28 0.85
19 2 0.06
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (19 bp):
TGCAGTAACAGTAAATCAG
Found at i:57049673 original size:40 final size:40
Alignment explanation
Indices: 57049599--57049810 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
57049589 TCTTCAGGAT
** * *
57049599 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
57049637 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
57049677 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTT
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
57049717 TTGGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * * *
57049757 TTAGTCCGAATATAGT-ATCTTAGCACAAAAGCCTTCAGGAC
1 TTAGCCCGGATATAGTCA-C-TAGCACAAATGCCTTCGGGTC
57049798 TTAGCCCGGATAT
1 TTAGCCCGGATAT
57049811 CATTCAAATA
Statistics
Matches: 142, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 95 0.67
41 27 0.19
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:57051893 original size:27 final size:27
Alignment explanation
Indices: 57051710--57051933 Score: 209
Period size: 27 Copynumber: 8.3 Consensus size: 27
57051700 ACATACATCA
* * *
57051710 CATAGGGGCAAAATAGTCATTTTACCT
1 CATAAGGGAAAAATCGTCATTTTACCT
* ** * *
57051737 TATAAATGCAAAATCGCCATTTTACCT
1 CATAAGGGAAAAATCGTCATTTTACCT
* *
57051764 CATAAGGGCAAAATCGTCATTTTATCT
1 CATAAGGGAAAAATCGTCATTTTACCT
* * *
57051791 CATAAGGGAAAAATCATCATTTTATCA
1 CATAAGGGAAAAATCGTCATTTTACCT
* * *
57051818 CATAAGGGAAAAATAGTCATTTTGCCA
1 CATAAGGGAAAAATCGTCATTTTACCT
*
57051845 CATAAGGGTAAAATCGTCATTTTACCT
1 CATAAGGGAAAAATCGTCATTTTACCT
* * *
57051872 CATAAGGGAAAAATCG-CTATTTGATCA
1 CATAAGGGAAAAATCGTC-ATTTTACCT
* * *
57051899 CATAAGGGAAAAA-CAATCAATTTATCT
1 CATAAGGGAAAAATC-GTCATTTTACCT
57051926 CATAAGGG
1 CATAAGGG
57051934 TTTAGGTACG
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 161 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
CATAAGGGAAAAATCGTCATTTTACCT
Found at i:57051930 original size:81 final size:81
Alignment explanation
Indices: 57051757--57051934 Score: 250
Period size: 81 Copynumber: 2.2 Consensus size: 81
57051747 AAATCGCCAT
* * *
57051757 TTTACCTCATAAGGGCAAAATCGTCATTTTATCTCATAAGGGAAAAATCATCATTTTATCACATA
1 TTTACCTCATAAGGGTAAAATCGTCATTTTACCTCATAAGGGAAAAATCATCATTTGATCACATA
* * *
57051822 AGGGAAAAATAGTCAT
66 AGGGAAAAACAATCAA
* * *
57051838 TTTGCCACATAAGGGTAAAATCGTCATTTTACCTCATAAGGGAAAAATC-GCTATTTGATCACAT
1 TTTACCTCATAAGGGTAAAATCGTCATTTTACCTCATAAGGGAAAAATCATC-ATTTGATCACAT
57051902 AAGGGAAAAACAATCAA
65 AAGGGAAAAACAATCAA
*
57051919 TTTATCTCATAAGGGT
1 TTTACCTCATAAGGGT
57051935 TTAGGTACGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (81 bp):
TTTACCTCATAAGGGTAAAATCGTCATTTTACCTCATAAGGGAAAAATCATCATTTGATCACATA
AGGGAAAAACAATCAA
Found at i:57055526 original size:93 final size:93
Alignment explanation
Indices: 57055413--57055584 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57055403 CGCCCATAAG
* *
57055413 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57055478 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57055506 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57055571 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57055585 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57055581 original size:46 final size:46
Alignment explanation
Indices: 57055406--57055581 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57055396 TGTAACCCGC
* * *
57055406 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57055452 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57055502 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57055545 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57055582 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57057035 original size:57 final size:58
Alignment explanation
Indices: 57056912--57057053 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 58
57056902 CGTTATGTAA
*
57056912 AGGATTTAGCCT-GAATGGGTAATCCTAATATAAACCCTCTCGAGCATACGTTACAATT
1 AGGATTTAGCCTGGAAT-GGTAATCCTAATATAAACCCTCTCGAGCATACATTACAATT
* * * * *
57056970 AGGGTTTAGCTTGGACTGGTAATCCTAAT-TAAGCTCT-TCTGAGCATACATTAC-ATAT
1 AGGATTTAGCCTGGAATGGTAATCCTAATATAAACCCTCTC-GAGCATACATTACAAT-T
*
57057027 AGGATTTAGCCTGGATTGGTAATCCTA
1 AGGATTTAGCCTGGAATGGTAATCCTA
57057054 TAATACGATA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.06
57 43 0.60
58 22 0.31
59 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (58 bp):
AGGATTTAGCCTGGAATGGTAATCCTAATATAAACCCTCTCGAGCATACATTACAATT
Found at i:57064291 original size:6 final size:6
Alignment explanation
Indices: 57064273--57064369 Score: 56
Period size: 6 Copynumber: 15.8 Consensus size: 6
57064263 AAGAAACATT
* * * *
57064273 ATCAGA A-CTAGA ATCAGA ACCAGA ATCAGA ATTAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
57064322 ATCAGA ATCAGT ATTAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
57064370 GTAACAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
5 5 0.07
6 56 0.81
7 5 0.07
8 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:57064317 original size:31 final size:31
Alignment explanation
Indices: 57064282--57064384 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
57064272 TATCAGAACT
* * * *
57064282 AGAATCAGAACCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
57064313 AGAATCAAAATCAGAATCAGTATTAGGTAAT
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
57064344 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
57064375 AAAATCAAAA
1 AGAATCAAAA
57064385 ATTAGAATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAC
Found at i:57064571 original size:27 final size:26
Alignment explanation
Indices: 57064529--57064630 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
57064519 GTTCAGTTAT
* *
57064529 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
57064556 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
57064582 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
57064610 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
57064631 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 52 0.79
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:57064817 original size:22 final size:22
Alignment explanation
Indices: 57064789--57064853 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
57064779 GCAAATACAT
*
57064789 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
57064811 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
57064833 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57064854 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57065299 original size:27 final size:26
Alignment explanation
Indices: 57065239--57065299 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
57065229 GTCACTTGGC
*
57065239 CACAAGGGCAAAATAGTCATTTAACA
1 CACAAGGGCAAAATAGTAATTTAACA
* *
57065265 C-CTTAAGGGCAAAATGGTAACTTTACCA
1 CAC--AAGGGCAAAATAGTAA-TTTAACA
57065293 CACAAGG
1 CACAAGG
57065300 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
25 1 0.04
26 1 0.04
27 18 0.64
28 7 0.25
29 1 0.04
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (26 bp):
CACAAGGGCAAAATAGTAATTTAACA
Found at i:57067073 original size:39 final size:41
Alignment explanation
Indices: 57067007--57067190 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 41
57066997 TACTCGAATG
*
57067007 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
57067048 ATAT-CGGGCTAAGT-CCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
57067087 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
57067127 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
57067167 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57067191 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 29 0.22
40 80 0.62
41 21 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:57075128 original size:40 final size:39
Alignment explanation
Indices: 57075073--57075255 Score: 249
Period size: 40 Copynumber: 4.6 Consensus size: 39
57075063 TACTCGAATG
*
57075073 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGCGACT
*
57075113 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGCGACT
* *
57075153 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
57075193 ATATCCGGGCTAAGTCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
* *
57075232 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
57075256 CTTGTGCGAG
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.27
40 79 0.60
41 17 0.13
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:57077284 original size:39 final size:38
Alignment explanation
Indices: 57077234--57077361 Score: 138
Period size: 41 Copynumber: 3.3 Consensus size: 38
57077224 GCTACTCGTT
57077234 CAAATGCCTTCGGGATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGATAGCCCGGTTATAGTAACTCGCA
*
57077272 CAAAATGCCTTCGGGACCTAACCCGGATT-TAGTAACTCGCA
1 C-AAATGCCTTCGGGA--TAGCCCGG-TTATAGTAACTCGCA
* ** *
57077313 CCAATGCCTTCGGCTTAGCCCGG-AATTAG-AACTCGCA
1 CAAATGCCTTCGGGATAGCCCGGTTA-TAGTAACTCGCA
57077350 CAAA-GCCTTCGG
1 CAAATGCCTTCGG
57077362 ATCTTTCCGG
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
36 8 0.10
37 11 0.14
38 11 0.14
39 14 0.18
40 11 0.14
41 20 0.26
42 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (38 bp):
CAAATGCCTTCGGGATAGCCCGGTTATAGTAACTCGCA
Found at i:57077309 original size:41 final size:39
Alignment explanation
Indices: 57077234--57077411 Score: 151
Period size: 37 Copynumber: 4.6 Consensus size: 39
57077224 GCTACTCGTT
57077234 CAAATGCCTTCGGGA-TAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTAGCCCGGATT-TAGTAACTCGCA
*
57077272 CAAAATGCCTTCGGGACCTAACCCGGATTTAGTAACTCGCA
1 C-AAATGCCTTCGGGA-CTAGCCCGGATTTAGTAACTCGCA
* *
57077313 CCAATGCCTTC-GG-CTTAGCCCGGAATTAG-AACTCGCA
1 CAAATGCCTTCGGGAC-TAGCCCGGATTTAGTAACTCGCA
** * * *
57077350 CAAA-GCCTTC-GGATCT-TTCCGGATAT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTAGCCCGGATTTAGTAAC-TCGCA
57077387 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGAC-TAGCCCGGA
57077412 CATCATTCGA
Statistics
Matches: 115, Mismatches: 13, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
35 1 0.01
36 16 0.14
37 28 0.24
38 18 0.16
39 21 0.18
40 9 0.08
41 20 0.17
42 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTAGCCCGGATTTAGTAACTCGCA
Found at i:57085987 original size:39 final size:39
Alignment explanation
Indices: 57085913--57086092 Score: 220
Period size: 39 Copynumber: 4.5 Consensus size: 39
57085903 GCTACTCGTT
*
57085913 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
57085953 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
57085992 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
57086031 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57086072 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
57086093 GGACATCATT
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
39 70 0.57
40 41 0.34
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57086056 original size:79 final size:79
Alignment explanation
Indices: 57085915--57086092 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 79
57085905 TACTCGTTCA
* * *
57085915 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATA
*
57085980 TAGTAAC-TCGCACC
66 TAGTAACTTAGCA-C
**
57085994 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGA
*
57086057 TATAGTCACTTAGCAC
64 TATAGTAACTTAGCAC
*
57086073 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
57086093 GGACATCATT
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 35 0.40
79 40 0.46
80 11 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:57095061 original size:27 final size:27
Alignment explanation
Indices: 57095024--57095228 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
57095014 TAAATTGTAC
57095024 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
57095051 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57095078 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57095104 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
57095132 GGCACTAAGTGTGCGAGTTTGACTATGC
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57095160 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57095187 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57095214 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57095229 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 132 0.85
28 24 0.15
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57095164 original size:109 final size:108
Alignment explanation
Indices: 57095025--57095228 Score: 311
Period size: 109 Copynumber: 1.9 Consensus size: 108
57095015 AAATTGTACA
* * *
57095025 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
57095090 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
57095133 GCACTAAGTGTGCGAGTTTGACTATGCAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGCAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
57095198 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
57095229 GACTCAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 17 0.20
109 69 0.80
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:57113008 original size:6 final size:6
Alignment explanation
Indices: 57112989--57113071 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
57112979 TCAGAACTAA
* * * *
57112989 AATCAA AATGAG AATTAG AATCAG AATCAG -GTGACAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG
* * *
57113038 AATCAG TATCAGG TAA-CAG TATCAA AATCAG AAT
1 AATCAG AATCA-G -AATCAG AATCAG AATCAG AAT
57113072 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
5 2 0.03
6 49 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AATCAG
Found at i:57113040 original size:31 final size:31
Alignment explanation
Indices: 57112999--57113071 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
57112989 AATCAAAATG
* *
57112999 AGAATTAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
57113030 AGAATCAGAATCAGTATCAGGTAACAGTATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
57113061 AAAATCAGAAT
1 AGAATCAGAAT
57113072 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:57113803 original size:27 final size:27
Alignment explanation
Indices: 57113509--57113914 Score: 492
Period size: 27 Copynumber: 15.0 Consensus size: 27
57113499 AACACACTAG
* * * *
57113509 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
57113536 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113563 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113590 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * * *
57113617 AGGTAAAA-CGATAATTCTATAAATTGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
* * *
57113644 GGGTAAAATAATAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113671 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113698 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113725 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
57113752 GGGTAAAAT-GATAATTCTGTCAATCGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
*
57113779 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
57113806 GGATAAAATAATAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
** *
57113833 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
** * *
57113860 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
57113887 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
57113914 G
1 G
57113915 AGTACTTTCG
Statistics
Matches: 334, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 331 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTGTAAATCGA
Found at i:57113955 original size:27 final size:27
Alignment explanation
Indices: 57113924--57114200 Score: 151
Period size: 27 Copynumber: 10.3 Consensus size: 27
57113914 GAGTACTTTC
*
57113924 GTAATTTTACAAGTCGGGGGTATTTCA
1 GTAATTTTACAAGTCGGGGGTATTTTA
* * * *
57113951 ATAATTTTACAGGTTGAGGGTATTTTA
1 GTAATTTTACAAGTCGGGGGTATTTTA
* * * *
57113978 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAGTCGGGGGTATTTTA
* * *
57114005 GTAATTTTACAA-ACTAGGGGTATTTTG
1 GTAATTTTACAAGTC-GGGGGTATTTTA
* ** **
57114032 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAGTCGGGGGTATTTTA
** * *
57114059 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGGGGGTATTTTA
* ** ***
57114086 GTAATTTTATAAACCAATGGTATTTTA
1 GTAATTTTACAAGTCGGGGGTATTTTA
* ** * *
57114113 CTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGGGGGTATTTTA
** ** ** *
57114140 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAGTCGGGGGTATTTTA
** * *
57114167 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGGGGGTATTTTA
57114194 GTAATTT
1 GTAATTT
57114201 GGTAAACTAA
Statistics
Matches: 210, Mismatches: 38, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.00
27 208 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGGGGGTATTTTA
Found at i:57114010 original size:54 final size:54
Alignment explanation
Indices: 57113924--57114200 Score: 277
Period size: 54 Copynumber: 5.1 Consensus size: 54
57113914 GAGTACTTTC
* * * * ** *
57113924 GTAATTTTACAAGTCGGGGGTATTTCAATAATTTTAC-AGGTTGAGGGTATTTTA
1 GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAG-GGGTATTTTA
* * *
57113978 GTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTA
* * * * *
57114032 GTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTA
* * ** * * *
57114086 GTAATTTTATAAACCAATGGTATTTTACTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTA
** * * * * *
57114140 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTA
57114194 GTAATTT
1 GTAATTT
57114201 GGTAAACTAA
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 197 0.99
55 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTA
Found at i:57114025 original size:81 final size:80
Alignment explanation
Indices: 57113924--57114192 Score: 304
Period size: 81 Copynumber: 3.3 Consensus size: 80
57113914 GAGTACTTTC
** * * **** *
57113924 GTAATTTTACAAGTCGGGGGTATTTCAATAATTTTACAGGTTGAGGGTATTTTAGTAATTTCACA
1 GTAATTTTACAAACCAGGGGTATTTTAATAATTTTACA-AACAAGGGTATTTTAGTAATTTTACA
*
57113989 AATCAGGGGTATTTTG
65 AACCAGGGGTATTTTG
* ** *
57114005 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACA
1 GTAATTTTACAAACCAGGGGTATTTTAATAATTTTACAAA-CAAGGGTATTTTAGTAATTTTACA
57114070 AACCAGGGGTATTTTG
65 AACCAGGGGTATTTTG
* ** * * * **
57114086 GTAATTTTATAAACCAATGGTATTTTACTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTA
1 GTAATTTTACAAACCAGGGGTATTTTAATAATTTTACAAA-CAAGGGTATTTTAGTAATTTTACA
*
57114151 AACCAAGGGTATTTTG
65 AACCAGGGGTATTTTG
57114167 GTAATTTTACAAACCAGGGGTATTTT
1 GTAATTTTACAAACCAGGGGTATTTT
57114193 GGTAATTTGG
Statistics
Matches: 158, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 158 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GTAATTTTACAAACCAGGGGTATTTTAATAATTTTACAAACAAGGGTATTTTAGTAATTTTACAA
ACCAGGGGTATTTTG
Found at i:57114207 original size:27 final size:27
Alignment explanation
Indices: 57113968--57114200 Score: 331
Period size: 27 Copynumber: 8.6 Consensus size: 27
57113958 TACAGGTTGA
* * *
57113968 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
57113995 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
57114022 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
57114049 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
57114076 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
57114103 TGGTATTTTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
57114130 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
57114157 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
57114184 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
57114201 GGTAAACTAA
Statistics
Matches: 179, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 179 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:57114207 original size:54 final size:54
Alignment explanation
Indices: 57113968--57114200 Score: 367
Period size: 54 Copynumber: 4.3 Consensus size: 54
57113958 TACAGGTTGA
* * * * * * *
57113968 GGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
57114022 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
57114076 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
57114130 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
57114184 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
57114201 GGTAAACTAA
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 166 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:57116150 original size:6 final size:6
Alignment explanation
Indices: 57116120--57116213 Score: 61
Period size: 6 Copynumber: 15.3 Consensus size: 6
57116110 AAGAAACATT
* * *
57116120 ATCAGA A-CTAGA ATCA-A AGTGAGA ATTAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA A-TCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
57116169 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
57116214 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
5 7 0.10
6 51 0.74
7 8 0.12
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:57116175 original size:25 final size:23
Alignment explanation
Indices: 57116120--57116184 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
57116110 AAGAAACATT
57116120 ATCAGAA-CTAGAATCAAAGTGAGA
1 ATCAGAATC-AGAATC-AAGTGAGA
*
57116144 ATTAGAATCAGAATCAAGTGACAGA
1 ATCAGAATCAGAATCAAGTG--AGA
57116169 ATCAGAATCAGAATCA
1 ATCAGAATCAGAATCA
57116185 GTATCAGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 12 0.33
25 19 0.53
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (23 bp):
ATCAGAATCAGAATCAAGTGAGA
Found at i:57116182 original size:31 final size:31
Alignment explanation
Indices: 57116141--57116213 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
57116131 AATCAAAGTG
* *
57116141 AGAATTAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAGAATC
* *
57116172 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAGAATC
*
57116203 AAAATCAGAAT
1 AGAATCAGAAT
57116214 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:57116380 original size:27 final size:26
Alignment explanation
Indices: 57116332--57116391 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
57116322 GCGAGGCTGC
*
57116332 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
57116359 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
57116385 CAGATAT
1 CAGATAT
57116392 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57116748 original size:27 final size:27
Alignment explanation
Indices: 57116718--57117149 Score: 528
Period size: 27 Copynumber: 16.0 Consensus size: 27
57116708 AACACCCTAG
* *
57116718 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57116745 GGGTAAAAT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
57116772 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57116799 GGGTAAAATAGTAATTTTGTTAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57116826 AGGTAAAAT-GATAATTCTGTAAATTGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
57116853 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57116880 GGGTAAAACAGAAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57116907 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57116934 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57116961 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
57116988 GGGTAAAACAGTAATTCTGTCAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57117015 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * * *
57117042 GGGTAAACCAATAATTCTATAAATC-A
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57117068 AGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57117095 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57117122 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57117149 G
1 G
57117150 AGTACTTTGG
Statistics
Matches: 355, Mismatches: 45, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.06
27 330 0.93
28 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:57117175 original size:27 final size:27
Alignment explanation
Indices: 57117159--57117251 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
57117149 GAGTACTTTG
57117159 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * *
57117186 ATAATTTTACAGGTTGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * **
57117213 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
57117240 GTAATTTTACAA
1 GTAATTTTACAA
57117252 ACTAGGGGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:57117415 original size:27 final size:27
Alignment explanation
Indices: 57117203--57117408 Score: 279
Period size: 27 Copynumber: 7.6 Consensus size: 27
57117193 TACAGGTTGA
** *
57117203 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
57117230 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
57117257 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
57117284 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
57117311 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * ** *
57117338 TGGTATTTTAGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
57117365 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
57117392 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
57117409 GGTAAACTAA
Statistics
Matches: 160, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 159 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:57117415 original size:81 final size:81
Alignment explanation
Indices: 57117155--57117408 Score: 294
Period size: 81 Copynumber: 3.1 Consensus size: 81
57117145 TCGAGAGTAC
* ** * ** *** * **
57117155 TTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTTGAGGGTATTTCAGTAATTT
1 TTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTT
* *
57117220 CACAAATCAGGGGTAT
66 TACAAACCAGGGGTAT
* * * *
57117236 TTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTT
*
57117301 TACAAACTAGGGGTAT
66 TACAAACCAGGGGTAT
* **
57117317 TTTGGTAATTTTATAAACCAATGGTATTTT-AGTAATTTTGTAAACTAAGGGTATTTTGGTAATT
1 TTTGGTAATTTTATAAACCAAGGGTATTTTGA-TAATTTTACAAACTAAGGGTATTTTGGTAATT
57117381 TTACAAACCAGGGGTAT
65 TTACAAACCAGGGGTAT
57117398 TTTGGTAATTT
1 TTTGGTAATTT
57117409 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
80 1 0.01
81 146 0.99
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
TTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTT
TACAAACCAGGGGTAT
Found at i:57117840 original size:211 final size:211
Alignment explanation
Indices: 57117468--57117890 Score: 819
Period size: 211 Copynumber: 2.0 Consensus size: 211
57117458 GCCCTTTTTC
*
57117468 AGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCATAGATATGAGATT
1 AGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAGATATGAGATT
57117533 GACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTGGGCCCGTAGGCCCA
66 GACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTGGGCCCGTAGGCCCA
* *
57117598 TTGGGCCCACATAGCCCTTTTCGGTCCATCGCGGCCCGAAGTAGCCATCCTACAGCTAGAGTAGT
131 TTGGGCCCACATAGCCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCATCCTACAGCTAGAGTAGT
57117663 GAGAAATACACACCTG
196 GAGAAATACACACCTG
57117679 AGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAGATATGAGATT
1 AGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAGATATGAGATT
57117744 GACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTGGGCCCGTAGGCCCA
66 GACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTGGGCCCGTAGGCCCA
57117809 TTGGGCCCACATAGCCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCATCCTACAGCTAGAGTAGT
131 TTGGGCCCACATAGCCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCATCCTACAGCTAGAGTAGT
57117874 GAGAAATACACACCTG
196 GAGAAATACACACCTG
57117890 A
1 A
57117891 TTGGAGACTG
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 209 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (211 bp):
AGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAGATATGAGATT
GACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTGGGCCCGTAGGCCCA
TTGGGCCCACATAGCCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCATCCTACAGCTAGAGTAGT
GAGAAATACACACCTG
Found at i:57118580 original size:12 final size:12
Alignment explanation
Indices: 57118563--57118589 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57118553 ATAACCTAAG
57118563 AAATACAAAACC
1 AAATACAAAACC
57118575 AAATACAAAACC
1 AAATACAAAACC
57118587 AAA
1 AAA
57118590 ACTCTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.22, G:0.00, T:0.07
Consensus pattern (12 bp):
AAATACAAAACC
Found at i:57119957 original size:25 final size:26
Alignment explanation
Indices: 57119928--57119977 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
57119918 TAGGTAGATA
*
57119928 ATTATTGTT-ATTAAATTTTAATAAG
1 ATTATTGTTAAATAAATTTTAATAAG
*
57119953 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
57119978 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAG
Found at i:57120018 original size:61 final size:59
Alignment explanation
Indices: 57119953--57120095 Score: 166
Period size: 58 Copynumber: 2.4 Consensus size: 59
57119943 TTTTAATAAG
* * *
57119953 ATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATATTTTAATAAAAAT---AATAAATAATTTAATAACATTCTTAACATA
* * * *
57120014 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
57120072 ATTATTATTAAGA-ATATTTTAATA
1 ATTATTATTAA-ATATATTTTAATA
57120096 TAAAGTTATT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
57 18 0.26
58 26 0.37
59 1 0.01
60 5 0.07
61 20 0.29
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:57120093 original size:58 final size:58
Alignment explanation
Indices: 57119942--57120095 Score: 170
Period size: 61 Copynumber: 2.6 Consensus size: 58
57119932 TTGTTATTAA
* * *
57119942 ATTTTAATA-AGATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATATTTTAAT-AAAAT--AAATAAATAATTTAATAAC
* * * *
57120003 ATTTTAACATAATTATTATTAAATACAATTTAATAAAAT-AATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATATTTTAATAAAATAAATAAATAATTTAATAAC
57120060 ATTCTTAATATAATTATTATTAAGA-ATATTTTAATA
1 ATT-TTAATATAATTATTATTAA-ATATATTTTAATA
57120096 TAAAGTTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
57 18 0.22
58 27 0.34
59 1 0.01
60 5 0.06
61 28 0.35
62 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATATTTTAATAAAATAAATAAATAATTTAATAAC
Found at i:57120113 original size:28 final size:26
Alignment explanation
Indices: 57120003--57120118 Score: 90
Period size: 28 Copynumber: 4.2 Consensus size: 26
57119993 ATTTAATCAT
*
57120003 ATTTTAACATAATTATTATTAA-ATACA
1 ATTTTAATATAATTATTATTAAGA-A-A
* * * *
57120030 ATTTAATAAAATAATATATAATTTAATAAC
1 ATTT--TAATATAAT-TATTA-TTAAGAAA
*
57120060 ATTCTTAATATAATTATTATTAAGAAT
1 ATT-TTAATATAATTATTATTAAGAAA
57120087 ATTTTAATATAAAGTTATTATTAAGAAA
1 ATTTTAATAT-AA-TTATTATTAAGAAA
57120115 ATTT
1 ATTT
57120119 CAATGCCTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
26 7 0.10
27 15 0.21
28 21 0.29
29 16 0.22
30 7 0.10
31 6 0.08
32 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
ATTTTAATATAATTATTATTAAGAAA
Found at i:57133379 original size:17 final size:17
Alignment explanation
Indices: 57133358--57133401 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
57133348 TGAATTGTAT
57133358 ATTGAATTGAAAGTGAA
1 ATTGAATTGAAAGTGAA
*
57133375 TTTG-ATATGAAAGTGAA
1 ATTGAAT-TGAAAGTGAA
57133392 ATTGAATTGA
1 ATTGAATTGA
57133402 GAACTGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (17 bp):
ATTGAATTGAAAGTGAA
Found at i:57133382 original size:23 final size:24
Alignment explanation
Indices: 57133348--57133399 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
57133338 TATATTGAGT
*
57133348 TGAA-TTGTATATTG-AATTGAAAG
1 TGAATTTGTATA-TGAAAGTGAAAG
*
57133371 TGAATTTG-ATATGAAAGTGAAAT
1 TGAATTTGTATATGAAAGTGAAAG
57133394 TGAATT
1 TGAATT
57133400 GAGAACTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.08
23 20 0.80
24 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
TGAATTTGTATATGAAAGTGAAAG
Found at i:57133581 original size:23 final size:23
Alignment explanation
Indices: 57133550--57133658 Score: 123
Period size: 23 Copynumber: 4.7 Consensus size: 23
57133540 CACTTAATGC
57133550 CATTCTGGTGTGTTTGGGTAGAT
1 CATTCTGGTGTGTTTGGGTAGAT
*
57133573 TATTCTGGTGTGTTTGGG-AGGAT
1 CATTCTGGTGTGTTTGGGTA-GAT
* * * *
57133596 TATTTTGGTGTGTTTGGATGGAT
1 CATTCTGGTGTGTTTGGGTAGAT
*
57133619 CATTCTGGTGTGTTT-GGTGGAAT
1 CATTCTGGTGTGTTTGGGTAG-AT
*
57133642 CATTTTGGTGTGTTTGG
1 CATTCTGGTGTGTTTGG
57133659 TTGGAATTCG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
22 5 0.07
23 68 0.92
24 1 0.01
ACGTcount: A:0.12, C:0.06, G:0.36, T:0.47
Consensus pattern (23 bp):
CATTCTGGTGTGTTTGGGTAGAT
Found at i:57133624 original size:46 final size:46
Alignment explanation
Indices: 57133550--57133663 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 46
57133540 CACTTAATGC
* * * * *
57133550 CATTCTGGTGTGTTTGGGTAGATTATTCTGGTGTGTTTGG-GAGGAT
1 CATTTTGGTGTGTTTGGATGGATCATTCTGGTGTGTTTGGTG-GAAT
*
57133596 TATTTTGGTGTGTTTGGATGGATCATTCTGGTGTGTTTGGTGGAAT
1 CATTTTGGTGTGTTTGGATGGATCATTCTGGTGTGTTTGGTGGAAT
*
57133642 CATTTTGGTGTGTTTGGTTGGA
1 CATTTTGGTGTGTTTGGATGGA
57133664 ATTCGTGTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 58 0.98
47 1 0.02
ACGTcount: A:0.12, C:0.05, G:0.36, T:0.46
Consensus pattern (46 bp):
CATTTTGGTGTGTTTGGATGGATCATTCTGGTGTGTTTGGTGGAAT
Found at i:57136360 original size:40 final size:40
Alignment explanation
Indices: 57136137--57136393 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
57136127 GAATGATAAT
*
57136137 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* * *
57136178 CGGGCTAAGTCCCGAAGTCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
57136218 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
57136258 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
57136298 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
57136338 CGGGCTATGTCCCGAAGGCA-TTGAGCGA-CTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
57136377 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
57136394 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 15 0.08
39 14 0.07
40 141 0.72
41 22 0.11
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:57138176 original size:37 final size:37
Alignment explanation
Indices: 57138134--57138208 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
57138124 GGCTGAAAGA
*
57138134 AACATTGAATTAGTACCTGTTGTGTGCAAGTACCCAG
1 AACATTGAATCAGTACCTGTTGTGTGCAAGTACCCAG
57138171 AACATTGAATCAGTACCTGTTGTGTGCAAGTACCCAG
1 AACATTGAATCAGTACCTGTTGTGTGCAAGTACCCAG
57138208 A
1 A
57138209 TGTGTTTCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (37 bp):
AACATTGAATCAGTACCTGTTGTGTGCAAGTACCCAG
Found at i:57140439 original size:28 final size:28
Alignment explanation
Indices: 57140407--57140499 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
57140397 ATTTACTAGA
*
57140407 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
57140435 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* * *
57140463 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
57140491 ATACCCCTA
1 ATACCCCTA
57140500 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:57140646 original size:28 final size:28
Alignment explanation
Indices: 57140605--57140695 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
57140595 AGGAAGCGTC
*
57140605 CTGGTGGCTA-TGCCACAAGTTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
57140633 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
57140661 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
57140690 CTGGTG
1 CTGGTG
57140696 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Done.