Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 54 of 313
Found at i:17925990 original size:37 final size:37
Alignment explanation
Indices: 17925928--17926030 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
17925918 CGAATAGTCC
* *
17925928 CCACACGTAGTTATCGGTTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
17925965 CTACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
17926002 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
17926031 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:17926229 original size:48 final size:48
Alignment explanation
Indices: 17926171--17926338 Score: 300
Period size: 48 Copynumber: 3.5 Consensus size: 48
17926161 ATAAACACAC
* * *
17926171 ATCTCCTACATATTACACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17926219 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17926267 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17926315 ATCTCATACATATTTCACACTAGC
1 ATCTCATACATATTTCACACTAGC
17926339 TTATAAGCAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:17926516 original size:48 final size:48
Alignment explanation
Indices: 17926445--17926557 Score: 217
Period size: 48 Copynumber: 2.4 Consensus size: 48
17926435 ACTGGAGCTA
17926445 ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCAT
1 ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCAT
17926493 ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCAT
1 ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCAT
*
17926541 ACATATTTCACACTAGC
1 ACATATTTCACAGTAGC
17926558 TTATAAGCAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.33
Consensus pattern (48 bp):
ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCAT
Found at i:17926605 original size:219 final size:219
Alignment explanation
Indices: 17926226--17926664 Score: 842
Period size: 219 Copynumber: 2.0 Consensus size: 219
17926216 CATATCTCAT
*
17926226 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGC
1 ACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGC
17926291 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCTTATAAGCAACTCAAAT
66 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCTTATAAGCAACTCAAAT
17926356 AGTTTCATCAATGTTTACAACAAATTCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCA
131 AGTTTCATCAATGTTTACAACAAATTCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCA
17926421 CTAAATTATTTATAACTGGAGCTA
196 CTAAATTATTTATAACTGGAGCTA
* *
17926445 ACATATTTCACAGTAGCCATTCGGCTTTACGACATATACATATCTCATACATATTTCACAGTAGC
1 ACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGC
*
17926510 CATTCGGCTTTACGACATATACATATCTCATACATATTTCACACTAGCTTATAAGCAACTCAAAT
66 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCTTATAAGCAACTCAAAT
17926575 AGTTTCATCAATGTTTACAACAAATTCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCA
131 AGTTTCATCAATGTTTACAACAAATTCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCA
17926640 CTAAATTATTTATAACTGGAGCTA
196 CTAAATTATTTATAACTGGAGCTA
17926664 A
1 A
17926665 AAAACTCAAA
Statistics
Matches: 216, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 216 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.33
Consensus pattern (219 bp):
ACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCTTATAAGCAACTCAAAT
AGTTTCATCAATGTTTACAACAAATTCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCA
CTAAATTATTTATAACTGGAGCTA
Found at i:17937536 original size:17 final size:17
Alignment explanation
Indices: 17937516--17937548 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17937506 ACCTTATTAC
17937516 ATAAAATTTTACCCCAA
1 ATAAAATTTTACCCCAA
17937533 ATAAAATTTTACCCCA
1 ATAAAATTTTACCCCA
17937549 TCTCCGATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAATTTTACCCCAA
Found at i:17940868 original size:23 final size:22
Alignment explanation
Indices: 17940842--17940890 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
17940832 CATACAGAGA
*
17940842 TCCAATCCAACCATCCTCTACAC
1 TCCAATCCAACCAGCC-CTACAC
* **
17940865 TCCACTCCGCCCAGCCCTACAC
1 TCCAATCCAACCAGCCCTACAC
17940887 TCCA
1 TCCA
17940891 TGTATGGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.24, C:0.53, G:0.04, T:0.18
Consensus pattern (22 bp):
TCCAATCCAACCAGCCCTACAC
Found at i:17946636 original size:43 final size:43
Alignment explanation
Indices: 17946571--17946700 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
17946561 AGCTAGTACA
* * *
17946571 ATGCC-ATATCCCAGATATGGTCTTACATGTTATAACATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATATCG
* * * * * * *
17946613 ATGCCACTGTCCTAGATAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATATCG
* *
17946656 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATATCG
17946699 AT
1 AT
17946701 AACCTAATGT
Statistics
Matches: 68, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
42 5 0.07
43 63 0.93
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATATCG
Found at i:17948739 original size:13 final size:13
Alignment explanation
Indices: 17948721--17948745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17948711 TAATGGTATA
17948721 TTGAATCCATGAC
1 TTGAATCCATGAC
17948734 TTGAATCCATGA
1 TTGAATCCATGA
17948746 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:17949328 original size:27 final size:27
Alignment explanation
Indices: 17949293--17949471 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
17949283 TTAAATTGTA
17949293 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
17949320 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
17949347 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** * *
17949374 CGGCATTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
17949402 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
17949429 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
17949456 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
17949472 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 105 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:17949468 original size:82 final size:81
Alignment explanation
Indices: 17949291--17949471 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
17949281 GATTAAATTG
* *
17949291 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17949356 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * * ** *
17949372 TGCGGCATTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
17949436 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
17949454 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
17949472 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
81 16 0.20
82 63 0.79
83 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17950825 original size:169 final size:169
Alignment explanation
Indices: 17950546--17950883 Score: 658
Period size: 169 Copynumber: 2.0 Consensus size: 169
17950536 AAGGTCAGTG
*
17950546 TAGTCGACCCCTGCAATATGGGAGACTTTGACTAATAAACTGTAGTAATTGGCCCAACCAAAAAT
1 TAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACTGTAGTAATTGGCCCAACCAAAAAT
17950611 TCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTT
66 TCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTT
17950676 TTGAGTTACGAAACTCAAGATATGATTTTTAAAACGACT
131 TTGAGTTACGAAACTCAAGATATGATTTTTAAAACGACT
*
17950715 TAGTCGATCCCTGCAACATGGGAGACTTTGACTAATAAACTGTAGTAATTGGCCCAACCAAAAAT
1 TAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACTGTAGTAATTGGCCCAACCAAAAAT
17950780 TCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTT
66 TCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTT
17950845 TTGAGTTACGAAACTCAAGATATGATTTTTAAAACGACT
131 TTGAGTTACGAAACTCAAGATATGATTTTTAAAACGACT
17950884 AGTACACAGA
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 167 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (169 bp):
TAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAACTGTAGTAATTGGCCCAACCAAAAAT
TCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTT
TTGAGTTACGAAACTCAAGATATGATTTTTAAAACGACT
Found at i:17954221 original size:40 final size:40
Alignment explanation
Indices: 17954173--17954378 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
17954163 GGACTAAGAT
*
17954173 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
17954213 CCGAAGGCATTTGTGCTAGTGATTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
17954253 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
17954293 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
17954333 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
17954372 CCGAAGG
1 CCGAAGG
17954379 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.09
40 140 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:17958351 original size:28 final size:28
Alignment explanation
Indices: 17958311--17958413 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
17958301 ATTGCATGAG
* * *
17958311 TATGAATGTGATTGGGCCTGACGAGCCA
1 TATGAATGAGATTGGGCCTGATGGGCCA
* * *
17958339 TATGAAAGTGATTGGGCCTGATGGGTCA
1 TATGAATGAGATTGGGCCTGATGGGCCA
*
17958367 TATGAATGAGATTGGGCCCGATGGGCCA
1 TATGAATGAGATTGGGCCTGATGGGCCA
17958395 TATGAATGAGATTGGGCCT
1 TATGAATGAGATTGGGCCT
17958414 AAAGGGGCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
TATGAATGAGATTGGGCCTGATGGGCCA
Found at i:17961770 original size:23 final size:20
Alignment explanation
Indices: 17961743--17961799 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 20
17961733 GAGTTCATAA
17961743 AAATAAAAATAAAATAGATAAG
1 AAATAAAAATAAAATAG--AAG
*
17961765 AGAATAAAAATTAAA-AGAAG
1 A-AATAAAAATAAAATAGAAG
17961785 AAATAAAAA-AAAATA
1 AAATAAAAATAAAATA
17961800 CTAGTTACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
AAATAAAAATAAAATAGAAG
Found at i:17963638 original size:29 final size:29
Alignment explanation
Indices: 17963596--17963653 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17963586 TAATATATGA
17963596 ATATTTTATTTTTAGTTCGAAAATAACAC
1 ATATTTTATTTTTAGTTCGAAAATAACAC
17963625 ATATTTTATTTTTAGTTCGAAAATAACAC
1 ATATTTTATTTTTAGTTCGAAAATAACAC
17963654 CAACTCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (29 bp):
ATATTTTATTTTTAGTTCGAAAATAACAC
Found at i:17966598 original size:25 final size:26
Alignment explanation
Indices: 17966569--17966648 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
17966559 CCCCACATAT
17966569 ATACTGATACTGGCAGCTTTG-TGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
17966594 ATACTGCTACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * *
17966620 TTACTGATACTAGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
17966646 ATA
1 ATA
17966649 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 20 0.42
26 28 0.58
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:17974914 original size:43 final size:43
Alignment explanation
Indices: 17974867--17975275 Score: 356
Period size: 43 Copynumber: 9.6 Consensus size: 43
17974857 TCCTTGATGT
* * ** *
17974867 GGTCTTACATGTAATCTCATATCGATGCCATTGTCCCAAAAAG
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
* * * * * * *
17974910 GGTCTTACTCTTAAACACATATCAATGCCAACGTCCCAGACCT
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
*
17974953 GGTCTTACACGTAATCACATATCGATGCCAACGTCCC-AGACG
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
* *
17974995 TCGTCTTACACGTAATCACATATCGATGCCAACGTCCC-AGACG
1 -GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
* * *
17975038 TGGTCTTACACGTAATCACATATCAATCCCAACGTCCC-AAACAT
1 -GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAAC-G
* * * * * *
17975082 GGTCTTACACGTAATTAAATATAGATGCCAACATCCC-AGACAT
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAAC-G
** * *
17975125 GGTCTTATGCGTAATCACATATCGATG-C--C--CCC-AGACAT
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAAC-G
* *
17975163 GGTCTTACACGTAATCACATATCGATGCCAACGT-CCTAGACG
1 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
** * *
17975205 TGGTCTTACACGTAATCACATATCGATGCCAATAT-CCTACACG
1 -GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
*
17975248 TGGTCTTACACGTAATCACATATTGATG
1 -GGTCTTACACGTAATCACATATCGATG
17975276 TCTCATATAC
Statistics
Matches: 312, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
38 34 0.11
39 1 0.00
40 1 0.00
41 1 0.00
42 4 0.01
43 271 0.87
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAAACG
Found at i:17975001 original size:86 final size:86
Alignment explanation
Indices: 17974846--17975270 Score: 493
Period size: 86 Copynumber: 5.0 Consensus size: 86
17974836 ATATTTTGTA
* ** * * * ** * *
17974846 CAATGCCAACTTCCTTGATGTGGTCTTACATGTAATCTCATATCGATGCCATTGTCCCAAAAAGG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATG
* * *
17974911 GTCTTACTCTTAAACACATAT
66 GTCTTACACGTAATCACATAT
* * * *
17974932 CAATGCCAACGTCCCAGACCTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTC
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATG
17974997 GTCTTACACGTAATCACATAT
66 GTCTTACACGTAATCACATAT
* * *
17975018 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCAATCCCAACGTCCCAAACATG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATG
* *
17975083 GTCTTACACGTAATTAAATAT
66 GTCTTACACGTAATCACATAT
* * ** *
17975104 -AGATGCCAACATCCCAGACATGGTCTTATGCGTAATCACATATCGATG-C--C--CCCAGACAT
1 CA-ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACAT
17975163 GGTCTTACACGTAATCACATAT
65 GGTCTTACACGTAATCACATAT
* * ** * * *
17975185 CGATGCCAACGTCCTAGACGTGGTCTTACACGTAATCACATATCGATGCCAATATCCTACACGTG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATG
17975250 GTCTTACACGTAATCACATAT
66 GTCTTACACGTAATCACATAT
17975271 TGATGTCTCA
Statistics
Matches: 286, Mismatches: 46, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
81 69 0.24
82 1 0.00
83 1 0.00
85 1 0.00
86 214 0.75
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (86 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATG
GTCTTACACGTAATCACATAT
Found at i:17975085 original size:129 final size:128
Alignment explanation
Indices: 17974865--17975275 Score: 517
Period size: 129 Copynumber: 3.2 Consensus size: 128
17974855 CTTCCTTGAT
* * * * * * * *
17974865 GTGGTCTTACATGTAATCTCATATCGATGCCATTGTCCCAAAAAG-GGTCTTACTCTTAAACACA
1 GTGGTCTTACACGTAATCACATATCGATGCCA-CGTCCC-AGACGTGGTCTTACACGTAATCACA
* *
17974929 TATCAATGCCAACGTCCCAGACCTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
64 TATCAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAGAC
*
17974994 GTCGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAT
1 GTGGTCTTACACGTAATCACATATCGATGCC-ACGTCCCAGACGTGGTCTTACACGTAATCACAT
* * * * *
17975059 ATCAATCCCAACGTCCCAAACATGGTCTTACACGTAATTAAATATAGATGCCAACATCCCAGAC
65 ATCAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAGAC
* ** *
17975123 ATGGTCTTATGCGTAATCACATATCGATG-C-C--CCCAGACATGGTCTTACACGTAATCACATA
1 GTGGTCTTACACGTAATCACATATCGATGCCACGTCCCAGACGTGGTCTTACACGTAATCACATA
* * * * * *
17975184 TCGATGCCAACGTCCTAGACGTGGTCTTACACGTAATCACATATCGATGCCAATATCCTACAC
66 TCAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAGAC
*
17975247 GTGGTCTTACACGTAATCACATATTGATG
1 GTGGTCTTACACGTAATCACATATCGATG
17975276 TCTCATATAC
Statistics
Matches: 244, Mismatches: 36, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
124 106 0.43
126 1 0.00
128 4 0.02
129 132 0.54
130 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (128 bp):
GTGGTCTTACACGTAATCACATATCGATGCCACGTCCCAGACGTGGTCTTACACGTAATCACATA
TCAATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAGAC
Found at i:17983364 original size:42 final size:43
Alignment explanation
Indices: 17983258--17983369 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
17983248 TAAATACAAT
* * * *
17983258 GCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATTGAT
1 GCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACATCGAA
* * * * * *
17983301 TCCACTGTCCCAGATAG-GGTCTTGCACGAAATCATATA-CGAA
1 GCCAATGTCCCAGA-CGTGGTCTTACACGAAATCAAACATCGAA
17983343 GCCAATGTCCCAGACGTGGTCTTACAC
1 GCCAATGTCCCAGACGTGGTCTTACAC
17983370 ACAAAACATA
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.43
43 28 0.53
44 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACATCGAA
Found at i:17992521 original size:27 final size:27
Alignment explanation
Indices: 17992491--17992668 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17992481 ATATTGAGTC
* * * *
17992491 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17992518 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17992545 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17992573 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17992600 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17992627 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17992654 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17992669 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:17992630 original size:82 final size:81
Alignment explanation
Indices: 17992512--17992667 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17992502 TGCTATATAA
* *
17992512 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17992577 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17992594 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17992658 CACTTAGTGC
65 CACTTAGTGC
17992668 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:17994620 original size:37 final size:37
Alignment explanation
Indices: 17994561--17994662 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
17994551 AGCTCAGACG
* * *
17994561 AAATCTTCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
17994598 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* * *
17994635 TAATCTCCACACGCAGTCATCAGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTT
17994663 TAGAGCTCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:17994859 original size:47 final size:47
Alignment explanation
Indices: 17994781--17995066 Score: 511
Period size: 47 Copynumber: 6.1 Consensus size: 47
17994771 CCCTTCGGGA
* * *
17994781 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
17994828 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17994875 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17994922 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17994969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17995016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17995063 CTTA
1 CTTA
17995067 CTATCATTTC
Statistics
Matches: 231, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 2 0.01
47 229 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17995355 original size:63 final size:63
Alignment explanation
Indices: 17995256--17995385 Score: 217
Period size: 63 Copynumber: 2.1 Consensus size: 63
17995246 GCTACAAAAC
17995256 TCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCGT-ATATATTCCATCCATAAAATT
1 TCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTC-TCATATATTCCATCCATAAAATT
* **
17995319 TCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCTCATATCTTCTGTCCATAAAATT
1 TCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCTCATATATTCCATCCATAAAATT
17995382 TCCA
1 TCCA
17995386 GAATTTTAGG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 1 0.02
63 62 0.98
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (63 bp):
TCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCTCATATATTCCATCCATAAAATT
Found at i:17999632 original size:42 final size:44
Alignment explanation
Indices: 17999567--17999678 Score: 149
Period size: 42 Copynumber: 2.6 Consensus size: 44
17999557 CATTGACTTA
*
17999567 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATT
* *
17999610 TGATTT-CGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATT
* * *
17999653 TGA-TTACATGTAATACCAAGTCTGGG
1 TGATTTACGTGTAAGACCATGTCTGGG
17999679 TCGTTGGCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATT
Found at i:17999687 original size:43 final size:42
Alignment explanation
Indices: 17999571--17999688 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
17999561 GACTTATGAT
* *
17999571 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTTGA
1 TTACGTGTAAGACCATGTCTGGGTCGTTGGCATCATATTTGA
* * *
17999613 TTTCGTGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTGGG-TCGTTGGCATC-ATATTTGA
* * *
17999656 TTACATGTAATACCAAGTCTGGGTCGTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGTCGTTGGCAT
17999689 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGTCGTTGGCATCATATTTGA
Found at i:18001374 original size:25 final size:25
Alignment explanation
Indices: 18001337--18001386 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18001327 CCGTGTGCCT
18001337 CACACGACAAGTCAACATGTCCGTG
1 CACACGACAAGTCAACATGTCCGTG
* * *
18001362 CACACGGCTAGTCGACATGTCCGTG
1 CACACGACAAGTCAACATGTCCGTG
18001387 TCTTAGACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (25 bp):
CACACGACAAGTCAACATGTCCGTG
Found at i:18005380 original size:18 final size:18
Alignment explanation
Indices: 18005357--18005391 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18005347 TGGCGGATGC
18005357 ATAAACCGAAAAC-ACACG
1 ATAAACC-AAAACTACACG
18005375 ATAAACCAAAACTACAC
1 ATAAACCAAAACTACAC
18005392 CAAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.09
Consensus pattern (18 bp):
ATAAACCAAAACTACACG
Found at i:18005397 original size:17 final size:18
Alignment explanation
Indices: 18005356--18005397 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18005346 CTGGCGGATG
18005356 CATAAACCGAAAACACAC
1 CATAAACCGAAAACACAC
*
18005374 GATAAACC-AAAACTACAC
1 CATAAACCGAAAAC-ACAC
18005392 CA-AAAC
1 CATAAAC
18005398 AAGCTCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.57, C:0.31, G:0.05, T:0.07
Consensus pattern (18 bp):
CATAAACCGAAAACACAC
Found at i:18008559 original size:17 final size:17
Alignment explanation
Indices: 18008537--18008570 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18008527 TTTAGGATAA
*
18008537 ATTTTGATTGATTTATC
1 ATTTTGATTGATATATC
18008554 ATTTTGATTGATATATC
1 ATTTTGATTGATATATC
18008571 TTGAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (17 bp):
ATTTTGATTGATATATC
Found at i:18012090 original size:24 final size:24
Alignment explanation
Indices: 18012050--18012123 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
18012040 CTGATGAGCT
*
18012050 GAATTAGTAAGCCCATACGAGCTGA
1 GAATT-GTAAGCTCATACGAGCTGA
18012075 GAATTGTAAGCTCATACGAGCTGA
1 GAATTGTAAGCTCATACGAGCTGA
* * *
18012099 TATATCGATAAGCTCATATGAGCTG
1 GA-ATTG-TAAGCTCATACGAGCTG
18012124 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 19 0.44
25 8 0.19
26 16 0.37
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (24 bp):
GAATTGTAAGCTCATACGAGCTGA
Found at i:18017761 original size:47 final size:47
Alignment explanation
Indices: 18017683--18018095 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
18017673 CCCTTCGGGA
* * * * * *
18017683 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18017730 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18017777 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18017824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18017871 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18017918 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18017965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18018012 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18018061 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
18018096 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18032102 original size:48 final size:48
Alignment explanation
Indices: 18032048--18032421 Score: 236
Period size: 48 Copynumber: 7.8 Consensus size: 48
18032038 ATATCGGTTT
* * *
18032048 CGATGCCATGTCCTAGACATGGTTTTACACGGGATCTCATATCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* * *** * * ** *
18032096 CAATGCCATATCTTGGATATGTTCTTACTTGAGA--ACATATACTGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACATAT-C-GATGC
* * * * * * * * *
18032144 CGATGTCATATCCCATATATTGTCTTACACTGGAACACATATCAAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* **
18032192 CGATGCCATGTCCCAGACATGGTCTTACATTC-GCA-CACATATTAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACA--CGGGATCACATATCGATGC
* * * *
18032240 CGATGCCATGTTCCAGACATGGTCTTACACTGGCA-CACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACAC-GGGATCACATATCGATGC
** * * * *
18032288 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTGGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACAT-ATCGATGC
* * * * *
18032337 CAATGCCATGTCCCAGACATTGTCTTACACAGGATCTCATCTCGGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATC-GATGC
* * * * * *
18032386 TGGTGTCGTGTCCCAGACATGGTTTTACACGAGATC
1 CGATGCCATGTCCCAGACATGGTCTTACACGGGATC
18032422 TCATTAACCA
Statistics
Matches: 253, Mismatches: 62, Indels: 21
0.75 0.18 0.06
Matches are distributed among these distances:
46 6 0.02
47 1 0.00
48 165 0.65
49 74 0.29
50 7 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
Found at i:18032218 original size:96 final size:96
Alignment explanation
Indices: 18032048--18032366 Score: 273
Period size: 96 Copynumber: 3.3 Consensus size: 96
18032038 ATATCGGTTT
* * * * * * * * * * ***
18032048 CGATGCCATGTCCTAGACATGGTTTTACACGGGATCTCATATCGATGCCAATGCCATATCTTGGA
1 CGATGCCATATCCCAGACATGGTCTTACACTGGAACACATATCAAAGCCGATGCCATGTCCCAGA
* * * *
18032113 TATGTTCTTAC-TTGAGAACATATACTGATGC
66 CATGGTCTTACATT-AGAACACATACTAATGC
* * * *
18032144 CGATGTCATATCCCATATATTGTCTTACACTGGAACACATATCAAAGCCGATGCCATGTCCCAGA
1 CGATGCCATATCCCAGACATGGTCTTACACTGGAACACATATCAAAGCCGATGCCATGTCCCAGA
* * *
18032209 CATGGTCTTACATTCGCACACATATTAATGC
66 CATGGTCTTACATTAGAACACATACTAATGC
* * * *
18032240 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGA
1 CGATGCCATATCCCAGACATGGTCTTACACTGGAACACATATCAAAGCCGATGCCATGTCCCAGA
* ** * *
18032305 CATGGTCTTACACTAGCTCTCAT-CTTGGATGC
66 CATGGTCTTACATTAGAACACATAC-T-AATGC
* * *
18032337 CAATGCCATGTCCCAGACATTGTCTTACAC
1 CGATGCCATATCCCAGACATGGTCTTACAC
18032367 AGGATCTCAT
Statistics
Matches: 179, Mismatches: 41, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
96 146 0.82
97 33 0.18
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
CGATGCCATATCCCAGACATGGTCTTACACTGGAACACATATCAAAGCCGATGCCATGTCCCAGA
CATGGTCTTACATTAGAACACATACTAATGC
Found at i:18035262 original size:46 final size:46
Alignment explanation
Indices: 18035203--18035331 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
18035193 TGGTTGAGCA
* * *
18035203 TCCGGACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
18035249 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
18035295 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18035332 GTGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:18040045 original size:17 final size:17
Alignment explanation
Indices: 18040023--18040055 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18040013 TCAATAGATT
*
18040023 GTATCCACTTGCGGATG
1 GTATCCACTAGCGGATG
18040040 GTATCCACTAGCGGAT
1 GTATCCACTAGCGGAT
18040056 ACTTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (17 bp):
GTATCCACTAGCGGATG
Found at i:18050621 original size:46 final size:47
Alignment explanation
Indices: 18050517--18050695 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 47
18050507 CCACATTTTC
* * * *
18050517 AGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGGCATTGAGACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACCTTGAGACG
*
18050565 AGAGCTAGTGTAAGA-CATGTCTGGGACATGCAAT-GACCTTGAGACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGC-ATCGACCTTGAGACG
*
18050611 TA-AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGA-CTATGAGATG
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCT-TGAGACG
* *
18050657 ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC
18050696 ACTTTAACCA
Statistics
Matches: 115, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
45 5 0.04
46 60 0.52
47 29 0.25
48 21 0.18
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.21
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTTGAGACG
Found at i:18062105 original size:38 final size:38
Alignment explanation
Indices: 18062054--18062129 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
18062044 TAGGTGCCTC
18062054 AGTCAGAACTTTCTTAAGCTTCTCAAAACATTCCTGCT
1 AGTCAGAACTTTCTTAAGCTTCTCAAAACATTCCTGCT
* * * *
18062092 AGTCAGAACTTTCTTGAGTTTCTTAAAACTTTCCTGCT
1 AGTCAGAACTTTCTTAAGCTTCTCAAAACATTCCTGCT
18062130 GCTTATCAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (38 bp):
AGTCAGAACTTTCTTAAGCTTCTCAAAACATTCCTGCT
Found at i:18065063 original size:51 final size:51
Alignment explanation
Indices: 18064993--18065840 Score: 1586
Period size: 51 Copynumber: 16.8 Consensus size: 51
18064983 ATGATAGTAA
18064993 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065044 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065095 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065146 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065197 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065248 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065299 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065350 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065401 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065452 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065503 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065554 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
*
18065605 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
* *
18065656 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATACGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
* * *
18065703 GGCCTAATGGCCGATGTGATGAATGTGAAAGCG----TATATATGAGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065750 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
18065801 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
18065841 GTGACAGGGC
Statistics
Matches: 785, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 89 0.11
51 696 0.89
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
Found at i:18066070 original size:37 final size:37
Alignment explanation
Indices: 18066014--18066092 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
18066004 CCGAGCTTTA
* * * *
18066014 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
*
18066051 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
18066088 AAGAC
1 AAGAC
18066093 TTCGTAATAA
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:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:18074783 original size:19 final size:21
Alignment explanation
Indices: 18074759--18074800 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18074749 AAGGATAACC
*
18074759 AAAATTC-ATAAT-TAAAAAT
1 AAAATTCTAAAATCTAAAAAT
18074778 AAAATTCTAAAATCTAAAAAT
1 AAAATTCTAAAATCTAAAAAT
18074799 AA
1 AA
18074801 TAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTCTAAAATCTAAAAAT
Found at i:18074810 original size:22 final size:21
Alignment explanation
Indices: 18074771--18074812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18074761 AATTCATAAT
**
18074771 TAAAAATAAAATTCTAAAATC
1 TAAAAATAAAATAATAAAATC
18074792 TAAAAATAATAATAATAAAAT
1 TAAAAATAA-AATAATAAAAT
18074813 AAAGAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATAAAATAATAAAATC
Found at i:18084854 original size:42 final size:42
Alignment explanation
Indices: 18084797--18084889 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
18084787 GCCCAGCTAC
* *
18084797 GGTCTTACACAAAATCTCATATTGATGCCATATC-CTATATAT
1 GGTCTTACACAAAATCTCATAATGATGCCATATCTC-AGATAT
* *
18084839 GGTTTTACACGAAATCTCATAATGATGCCATATCTCAGATAT
1 GGTCTTACACAAAATCTCATAATGATGCCATATCTCAGATAT
18084881 GGTCTTACA
1 GGTCTTACA
18084890 TATAGTCTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (42 bp):
GGTCTTACACAAAATCTCATAATGATGCCATATCTCAGATAT
Found at i:18092968 original size:27 final size:27
Alignment explanation
Indices: 18092938--18093115 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
18092928 ATATTGAGCC
* *
18092938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
18092965 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18092992 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18093020 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18093047 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18093074 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
18093101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18093116 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18093050 original size:55 final size:54
Alignment explanation
Indices: 18092938--18093115 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
18092928 ATATTGAGCC
* * * * *
18092938 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
18092992 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
18093047 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
18093101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18093116 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:18102149 original size:27 final size:27
Alignment explanation
Indices: 18102119--18102296 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
18102109 ATATTGAGCC
* *
18102119 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
18102146 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18102173 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18102201 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18102228 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18102255 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
18102282 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18102297 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18102231 original size:55 final size:54
Alignment explanation
Indices: 18102119--18102296 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
18102109 ATATTGAGCC
* * * * *
18102119 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
18102173 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
18102228 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
18102282 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18102297 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:18107359 original size:27 final size:27
Alignment explanation
Indices: 18107321--18107535 Score: 279
Period size: 27 Copynumber: 8.0 Consensus size: 27
18107311 ATATATACTG
* *
18107321 CACAT-AGAGGCAAAACAATCATCTTAC
1 CACATAAG-GGCAAAACAGTCATTTTAC
*
18107348 CACATAAGGGCAAAACATTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
18107375 CATATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
18107402 CATATAAGGGCAAAACAGGCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
18107429 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
18107456 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
18107483 CTCATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
18107510 CTCATAAGGGCAAAAGAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
18107536 TCTATTAGTG
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 165 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:18107464 original size:81 final size:81
Alignment explanation
Indices: 18107329--18107535 Score: 317
Period size: 81 Copynumber: 2.6 Consensus size: 81
18107319 TGCACATAGA
* * * *
18107329 GGCAAAACAATCATCTTACCACATAAGGGCAAAACATTCATTTTACCATATAAGGGAAAAATAGT
1 GGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAAGGGAAAAACAGT
18107394 CATTTTACCAT-ATAAG
66 CATTTTACC-TCATAAG
* *
18107410 GGCAAAACAGGCATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAAGGGCAAAACAGT
1 GGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAAGGGAAAAACAGT
18107475 CATTTTACCTCATAAG
66 CATTTTACCTCATAAG
* * *
18107491 GGAAAAACAGTCATTTTACCTCATAAGGGCAAAAGAATCATTTTA
1 GGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTA
18107536 TCTATTAGTG
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 114 0.99
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (81 bp):
GGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAAGGGAAAAACAGT
CATTTTACCTCATAAG
Found at i:18107809 original size:17 final size:19
Alignment explanation
Indices: 18107758--18107803 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18107748 TGTGGTTAAC
18107758 CCGTGTGGGGCCCACATAT
1 CCGTGTGGGGCCCACATAT
18107777 CCGTGTGGGGCCCACATAT
1 CCGTGTGGGGCCCACATAT
*
18107796 CTGTGTGG
1 CCGTGTGG
18107804 CTCACACTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.28, G:0.35, T:0.24
Consensus pattern (19 bp):
CCGTGTGGGGCCCACATAT
Found at i:18110227 original size:42 final size:42
Alignment explanation
Indices: 18110147--18110271 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 42
18110137 CTTATATGAG
* * *
18110147 ATCTCATTTCGATGCCAATAGCCCAACTATGGTTTTACACAAA
1 ATCTCATATCGATGCC-ATATCCCAAATATGGTTTTACACAAA
*
18110190 ATCTCATATCGATGCCATATCCCAAATATGGTCTTACACAAA
1 ATCTCATATCGATGCCATATCCCAAATATGGTTTTACACAAA
18110232 ATCTCATAAT-GATGCCATATCCCAAATATGGTTTTACACA
1 ATCTCAT-ATCGATGCCATATCCCAAATATGGTTTTACACA
18110272 TAGTCTTGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
42 59 0.78
43 17 0.22
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (42 bp):
ATCTCATATCGATGCCATATCCCAAATATGGTTTTACACAAA
Found at i:18111791 original size:30 final size:30
Alignment explanation
Indices: 18111757--18111817 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
18111747 AGTGTTGGTA
*
18111757 ATGCTAGGTCTAATAAGCCTGAGTGCCAAC
1 ATGCTAGGTCTAATAAGCCTGAGTACCAAC
18111787 ATGCTAGGTCTAATAAGCCTGAGTACCAAC
1 ATGCTAGGTCTAATAAGCCTGAGTACCAAC
18111817 A
1 A
18111818 CTATGGTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (30 bp):
ATGCTAGGTCTAATAAGCCTGAGTACCAAC
Found at i:18120747 original size:37 final size:37
Alignment explanation
Indices: 18120697--18120775 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18120687 TTATTACGAA
* * *
18120697 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18120734 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18120771 GTCTT
1 GTCTT
18120776 TAGAGCTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18120995 original size:47 final size:47
Alignment explanation
Indices: 18120944--18121282 Score: 660
Period size: 47 Copynumber: 7.2 Consensus size: 47
18120934 CTCGGCCCTG
18120944 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
18120991 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
18121038 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
18121085 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
18121132 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
18121179 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
18121226 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
18121273 TCACATATAT
1 TCACATATAT
18121283 CTCTTGGCTG
Statistics
Matches: 288, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 288 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:18123476 original size:50 final size:50
Alignment explanation
Indices: 18123417--18123517 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
18123407 TCACGACATA
* * *
18123417 GAATGAAATTCAGCACATGCAATTTGTTTTCAATGTTGTGACAACAACAG
1 GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
*
18123467 GAATGAAATTCAGCACAGGAAATTTGTCTTCGATGTTGTGACAACAACAG
1 GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
18123517 G
1 G
18123518 GTATGTCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (50 bp):
GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
Found at i:18125843 original size:18 final size:18
Alignment explanation
Indices: 18125820--18125854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18125810 AAGATGTACC
18125820 AAACTATTTTCATGCATA
1 AAACTATTTTCATGCATA
*
18125838 AAACTATTTTGATGCAT
1 AAACTATTTTCATGCAT
18125855 CATGTTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (18 bp):
AAACTATTTTCATGCATA
Found at i:18132521 original size:39 final size:41
Alignment explanation
Indices: 18132426--18132609 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
18132416 TTGAATGATG
*
18132426 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
18132465 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
18132505 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
18132544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* **
18132584 ACCGGGCTATCTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18132610 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:18132561 original size:79 final size:80
Alignment explanation
Indices: 18132426--18132609 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 80
18132416 TTGAATGATG
18132426 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
18132489 TGTGCGAGA-TACTA-A
65 TGTGCGA-ATTACTATA
* * **
18132504 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
18132566 TTTGTGCGAATTACTATA
63 TTTGTGCGAATTACTATA
* **
18132584 ACCGGGCTATCTCCCGAAGGCATTTG
1 TCCGGGCTA-AGCCCGAAGGCATTTG
18132610 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAATTACTATA
Found at i:18132631 original size:79 final size:79
Alignment explanation
Indices: 18132478--18132642 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
18132468 GGACTAAGAT
* ** *
18132478 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
18132543 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
**
18132557 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATCTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTA-AGCCCGAAGGCATTTGAACGAGTGA-
* *
18132619 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
18132636 CCGAAGG
1 CCGAAGG
18132643 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:18142292 original size:17 final size:19
Alignment explanation
Indices: 18142270--18142304 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18142260 AATTAAGTAT
18142270 TTCAATT-AATCT-TAATA
1 TTCAATTCAATCTATAATA
18142287 TTCAATTCAATCTATAAT
1 TTCAATTCAATCTATAAT
18142305 TCACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (19 bp):
TTCAATTCAATCTATAATA
Found at i:18142779 original size:72 final size:72
Alignment explanation
Indices: 18142658--18142800 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
18142648 GGGCTAACTA
* *
18142658 ATTAAGCTACAATGACTTCAAAAACATAGAAATCATTAAAAACGGGCTTGAAAATCAATTACATG
1 ATTAAGCTACAACGACTTCAAAAACATAGAAATCATTAAAAACGAGCTTGAAAATCAATTACATG
18142723 CACCACG
66 CACCACG
18142730 ATTAAGCTACAACGACTTCAAAAACATAGAAATCATTAAAAACGAGCTTGAAAATCAATTACATG
1 ATTAAGCTACAACGACTTCAAAAACATAGAAATCATTAAAAACGAGCTTGAAAATCAATTACATG
18142795 CACCAC
66 CACCAC
18142801 CAAAGCTTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (72 bp):
ATTAAGCTACAACGACTTCAAAAACATAGAAATCATTAAAAACGAGCTTGAAAATCAATTACATG
CACCACG
Found at i:18145856 original size:40 final size:40
Alignment explanation
Indices: 18145796--18145979 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
18145786 TATTCGAATG
*
18145796 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
18145836 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
18145876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
18145916 ATATCCAGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
18145956 ATATCTGGTCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
18145980 CTCGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:18145929 original size:80 final size:80
Alignment explanation
Indices: 18145796--18145979 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
18145786 TATTCGAATG
* * *
18145796 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
18145860 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
18145876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCAGG-CTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCC-GGACTAAGTCCCGAAGGC
*
18145940 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* *
18145956 ATATCTGGTCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
18145980 CTCGTGCGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 3 0.03
80 87 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:18154806 original size:49 final size:49
Alignment explanation
Indices: 18154749--18154850 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
18154739 TCGATGCACA
*
18154749 CATAGTTTCTGTGCATACCTGTACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
*
18154798 CATAGTTTCTGTACATACTTGTACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
18154847 CATA
1 CATA
18154851 TCGTCGATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (49 bp):
CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
Found at i:18154976 original size:48 final size:48
Alignment explanation
Indices: 18154902--18154995 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
18154892 TACTCGAGAG
*
18154902 TCTTGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
* **
18154950 TCTTGCACCCGAAGTGCCAATCTCATGGCCTGAAGCCAACTCAATG
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATG
18154996 TAACCCCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
Found at i:18158366 original size:41 final size:40
Alignment explanation
Indices: 18158301--18158380 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
18158291 ATTGTAAATA
18158301 AGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAAC
1 AGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAAC
* * **
18158341 AGGGACACGTATGTGCAATTTAAGGGTACTGAAGTACAAA
1 AGGG-CACGTATATGCAATTCAAGGGTACCAAAGTACAAA
18158381 TATGAGCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (40 bp):
AGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAAC
Found at i:18168511 original size:13 final size:13
Alignment explanation
Indices: 18168493--18168524 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18168483 TTATCTGCCA
*
18168493 CAAATTGATGTGG
1 CAAATTGATATGG
18168506 CAAATTGATATGG
1 CAAATTGATATGG
18168519 CAAATT
1 CAAATT
18168525 AAGCTTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (13 bp):
CAAATTGATATGG
Found at i:18174006 original size:21 final size:21
Alignment explanation
Indices: 18173982--18174036 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
18173972 GAAACAAGGC
*
18173982 ACACGCCCTTGTAAAAGGGTA
1 ACACGCCCATGTAAAAGGGTA
* *
18174003 ACACGCCCGTGTAGAAGGGTA
1 ACACGCCCATGTAAAAGGGTA
*
18174024 ACAAGCCCATGTA
1 ACACGCCCATGTA
18174037 GAATTAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (21 bp):
ACACGCCCATGTAAAAGGGTA
Found at i:18183919 original size:3 final size:3
Alignment explanation
Indices: 18183911--18183944 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18183901 TTTTAATATC
*
18183911 ATA ATA ATA ATA AGA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18183945 TTCTTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18186536 original size:26 final size:26
Alignment explanation
Indices: 18186478--18186549 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
18186468 TCCTATACAG
* *
18186478 ATATGCTTACATGAGCTGCGAAATGA
1 ATATGCTCACATGAGCTGTGAAATGA
18186504 ATATGCTCACATGAGCTGTGAAAT-A
1 ATATGCTCACATGAGCTGTGAAATGA
* * *
18186529 GGTTTGCTCACACGAGCTGTG
1 -ATATGCTCACATGAGCTGTG
18186550 GAGTATCCGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (26 bp):
ATATGCTCACATGAGCTGTGAAATGA
Found at i:18203054 original size:28 final size:28
Alignment explanation
Indices: 18203014--18203069 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18203004 AGACAATAAA
*
18203014 CTCTTTCTCAAACTCTGGCTGAATCAAG
1 CTCTTTCCCAAACTCTGGCTGAATCAAG
18203042 CTCTTTCCCAAACTCTGGCTGAATCAAG
1 CTCTTTCCCAAACTCTGGCTGAATCAAG
18203070 ATAGAGGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (28 bp):
CTCTTTCCCAAACTCTGGCTGAATCAAG
Found at i:18205963 original size:27 final size:26
Alignment explanation
Indices: 18205932--18206109 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
18205922 TAAATTGTAC
*
18205932 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
18205959 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
18205985 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
18206013 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
18206041 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
18206068 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
18206095 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18206110 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:18206047 original size:82 final size:81
Alignment explanation
Indices: 18205933--18206088 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
18205923 AAATTGTACA
* *
18205933 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18205997 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
18206014 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18206079 TGCGAGTTGA
65 TGCGAATTGA
18206089 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18206100 original size:82 final size:81
Alignment explanation
Indices: 18205929--18206109 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
18205919 GATTAAATTG
* * *
18205929 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18205994 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
18206010 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18206074 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18206092 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18206110 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18206120 original size:27 final size:27
Alignment explanation
Indices: 18206014--18206120 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
18206004 TGACCATGCG
* * * *
18206014 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
18206042 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
18206069 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
18206096 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
18206121 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:18208474 original size:40 final size:40
Alignment explanation
Indices: 18208384--18208603 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
18208374 ACCCAAGTAT
* ** * *
18208384 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
18208422 CTTCGGGTCTTAGCCCGGATATGGTCACGAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
18208462 CTTTGGGACTTAGCCCGGATGTAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
18208502 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
18208542 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
18208582 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
18208604 CATTCGAATA
Statistics
Matches: 147, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 11 0.07
39 17 0.12
40 115 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:18226380 original size:14 final size:14
Alignment explanation
Indices: 18226361--18226388 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18226351 TTTATGTTGA
18226361 TGACATGTTGATAG
1 TGACATGTTGATAG
18226375 TGACATGTTGATAG
1 TGACATGTTGATAG
18226389 CAACAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TGACATGTTGATAG
Found at i:18228686 original size:76 final size:76
Alignment explanation
Indices: 18228560--18228714 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
18228550 TAGATCTCCT
18228560 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
1 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
18228625 TCATATCCATA
66 TCATATCCATA
* * *
18228636 TAAATATGGTAACTTGATCACACATAAGTTCTTCAAATAAAATCATTGAATGATATTCAACAATA
1 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
18228701 TCATATCCATA
66 TCATATCCATA
18228712 TAA
1 TAA
18228715 TTGTTCCTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (76 bp):
TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
TCATATCCATA
Found at i:18229308 original size:59 final size:59
Alignment explanation
Indices: 18229216--18229333 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
18229206 TGCGAAGCCT
18229216 AACTCGGTAAAAAATATTCATTCTCTTCAACAATTACAAAGTGAACCGACTCAACCGCA
1 AACTCGGTAAAAAATATTCATTCTCTTCAACAATTACAAAGTGAACCGACTCAACCGCA
18229275 AACTCGGTAAAAAATATTCATTCTCTTCAACAATTACAAAGTGAACCGACTCAACCGCA
1 AACTCGGTAAAAAATATTCATTCTCTTCAACAATTACAAAGTGAACCGACTCAACCGCA
18229334 CAACACCATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (59 bp):
AACTCGGTAAAAAATATTCATTCTCTTCAACAATTACAAAGTGAACCGACTCAACCGCA
Found at i:18231888 original size:16 final size:16
Alignment explanation
Indices: 18231867--18231915 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
18231857 TTAACAAAGG
*
18231867 AAAAAAAAAGGCAAAAA
1 AAAAAAAAAAG-AAAAA
18231884 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
18231900 AAAAAGAAAAAGAAAA
1 AAAAA-AAAAAGAAAA
18231916 TGAAAGAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAA
Found at i:18231920 original size:6 final size:6
Alignment explanation
Indices: 18231866--18231920 Score: 55
Period size: 5 Copynumber: 9.7 Consensus size: 6
18231856 TTTAACAAAG
*
18231866 GAAAAA -AAAAG GCAAAAA -AAAAA -AAAAA GAAAAA -AAAAA GAAAAA
1 GAAAAA GAAAAA G-AAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
*
18231911 GAAAAT GAAA
1 GAAAAA GAAA
18231921 GAGAGAAGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 19 0.45
6 19 0.45
7 4 0.10
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:18242771 original size:48 final size:48
Alignment explanation
Indices: 18242719--18242916 Score: 281
Period size: 48 Copynumber: 4.1 Consensus size: 48
18242709 CTTACACAAA
* *
18242719 ATCACATATCGATGCCAATGCCATATCCCAGATATGGTATTAAATGGG
1 ATCACATATCGATGCCAATGCCATATCCCAGACATGGTATTACATGGG
*
18242767 ATCACATATTGATGCCAATGCCATATCCCAGACATGG-ACTTACATGGG
1 ATCACATATCGATGCCAATGCCATATCCCAGACATGGTA-TTACATGGG
* * *
18242815 ATCACATATCGATGCTAATGCCATGTCCCAGACATGGTCTTACATGGG
1 ATCACATATCGATGCCAATGCCATATCCCAGACATGGTATTACATGGG
* * * **
18242863 ATCACATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATAAG
1 ATCACATATCGATGCCAATGCCATATCCCAGACATGGTATTACATGGG
18242911 ATCACA
1 ATCACA
18242917 ATGCCATAGC
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 136 0.99
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (48 bp):
ATCACATATCGATGCCAATGCCATATCCCAGACATGGTATTACATGGG
Found at i:18242819 original size:96 final size:96
Alignment explanation
Indices: 18242688--18242916 Score: 314
Period size: 96 Copynumber: 2.4 Consensus size: 96
18242678 TCTCACATCG
* * * * * *
18242688 ATGCCATGTCCCAAACATAGTCTTACACAAAATCACATATCGATGCCAATGCCATATCCCAGATA
1 ATGCCATATCCCAAACATGGACTTACATAAGATCACATATCGATGCCAATGCCATATCCCAGACA
*
18242753 TGGTATTAAATGGGATCACATATTGATGCCA
66 TGGTATTAAATGGGATCACATATCGATGCCA
* ** * *
18242784 ATGCCATATCCCAGACATGGACTTACATGGGATCACATATCGATGCTAATGCCATGTCCCAGACA
1 ATGCCATATCCCAAACATGGACTTACATAAGATCACATATCGATGCCAATGCCATATCCCAGACA
* *
18242849 TGGTCTTACATGGGATCACATATCGATGCCA
66 TGGTATTAAATGGGATCACATATCGATGCCA
* *
18242880 ATGCCATGTCCCAAACATGGTCTTACATAAGATCACA
1 ATGCCATATCCCAAACATGGACTTACATAAGATCACA
18242917 ATGCCATAGC
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 114 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATATCCCAAACATGGACTTACATAAGATCACATATCGATGCCAATGCCATATCCCAGACA
TGGTATTAAATGGGATCACATATCGATGCCA
Found at i:18242937 original size:37 final size:37
Alignment explanation
Indices: 18242896--18242980 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
18242886 TGTCCCAAAC
*
18242896 ATGGTCTTACATAAGATCACAATGCCATAGCCCAGCT
1 ATGGTCTTACATAACATCACAATGCCATAGCCCAGCT
** * * *
18242933 ATGGTCTTACATGTCATTACGATGCCATAGCCTAGCT
1 ATGGTCTTACATAACATCACAATGCCATAGCCCAGCT
18242970 ATGGTCTTACA
1 ATGGTCTTACA
18242981 CGTACTCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (37 bp):
ATGGTCTTACATAACATCACAATGCCATAGCCCAGCT
Found at i:18256584 original size:46 final size:46
Alignment explanation
Indices: 18256534--18256706 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
18256524 TGGTTGAGCA
18256534 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18256580 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
18256625 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
18256673 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
18256707 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 55 0.52
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18256690 original size:93 final size:93
Alignment explanation
Indices: 18256531--18256701 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18256521 GGATGGTTGA
* * * *
18256531 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
18256596 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
18256624 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
18256688 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
18256702 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18258972 original size:29 final size:29
Alignment explanation
Indices: 18258913--18258972 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
18258903 TTTAATTAGG
** **
18258913 GGTTAAATTGTGAAATGTATAAATTTCAT
1 GGTTAAATTGTGAAATAAATAAAAATCAT
18258942 GGTTAAATTGTGAAATAAATGAAAAAT-AT
1 GGTTAAATTGTGAAATAAAT-AAAAATCAT
18258971 GG
1 GG
18258973 GCTGCTAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (29 bp):
GGTTAAATTGTGAAATAAATAAAAATCAT
Found at i:18260937 original size:20 final size:20
Alignment explanation
Indices: 18260909--18260948 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18260899 GTCCTCTGTA
* * *
18260909 GTTTGAAAATTTTTCTAAGT
1 GTTTCAAAAATTTCCTAAGT
18260929 GTTTCAAAAATTTCCTAAGT
1 GTTTCAAAAATTTCCTAAGT
18260949 TCTTGGTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
GTTTCAAAAATTTCCTAAGT
Found at i:18262991 original size:20 final size:20
Alignment explanation
Indices: 18262966--18263005 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18262956 ATTTTAGAAA
18262966 AGCTTGTAAAGCTTATCTTG
1 AGCTTGTAAAGCTTATCTTG
18262986 AGCTTGTAAAGCTTATCTTG
1 AGCTTGTAAAGCTTATCTTG
18263006 CTTATGTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
AGCTTGTAAAGCTTATCTTG
Found at i:18263216 original size:24 final size:24
Alignment explanation
Indices: 18263188--18263249 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
18263178 AATGGCTCCG
18263188 ACAGAGTTGAAAGAATTGAAAGCT
1 ACAGAGTTGAAAGAATTGAAAGCT
18263212 ACAGAGTTGAAAGAATTGAAAGCT
1 ACAGAGTTGAAAGAATTGAAAGCT
18263236 --A-AGTTGAAAGAATT
1 ACAGAGTTGAAAGAATT
18263250 AATAGATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 13 0.34
22 1 0.03
24 24 0.63
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (24 bp):
ACAGAGTTGAAAGAATTGAAAGCT
Found at i:18268360 original size:13 final size:13
Alignment explanation
Indices: 18268342--18268372 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18268332 GCACACAGGC
*
18268342 GTGTGACTTGGTT
1 GTGTGACTTGGCT
18268355 GTGTGACTTGGCT
1 GTGTGACTTGGCT
18268368 GTGTG
1 GTGTG
18268373 GCATAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.10, G:0.42, T:0.42
Consensus pattern (13 bp):
GTGTGACTTGGCT
Found at i:18270693 original size:41 final size:41
Alignment explanation
Indices: 18270623--18270824 Score: 316
Period size: 41 Copynumber: 5.0 Consensus size: 41
18270613 CTCATAGCTA
* *
18270623 AAGCTATCTCAA-ATCGCACACTAAGTGCCATTTATAGCCG
1 AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGCCG
* *
18270663 AAGCTATCTCAAGCTCGCACACTAAGTGCCATATATAGCTG
1 AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGCCG
* *
18270704 AAGCTATCTCGATCTCGCACACTAAGTGCCATATATAGCTG
1 AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGCCG
* *
18270745 AAGCTATCTCGATCTCGCACACTAAGTGCCATATATGGCCG
1 AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGCCG
*
18270786 AAGCTATCTCAATCTCGCACACTAAGTGCCACATATAGC
1 AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGC
18270825 TAATTTGTTG
Statistics
Matches: 151, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 12 0.08
41 139 0.92
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (41 bp):
AAGCTATCTCAATCTCGCACACTAAGTGCCATATATAGCCG
Found at i:18282559 original size:50 final size:46
Alignment explanation
Indices: 18282410--18282567 Score: 217
Period size: 46 Copynumber: 3.3 Consensus size: 46
18282400 GACTGAAATG
*
18282410 AGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAGATATATGGCTTTGGAGACAGGAATA
*
18282456 AGCCATGTAAGTCCATATTAGATATATGGCTTTGGAGACAGGAATG
1 AGCCATGTAAGTCCATATTAGATATATGGCTTTGGAGACAGGAATA
* * *
18282502 AGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACATGAATA
1 AGCCATGTAAGTCCATATTAG----ATATATGGCTTTGGAGACAGGAATA
**
18282552 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
18282568 GTCGAAGACA
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 64 0.65
50 35 0.35
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATTAGATATATGGCTTTGGAGACAGGAATA
Found at i:18290736 original size:18 final size:18
Alignment explanation
Indices: 18290697--18290735 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
18290687 TAACAGAGGC
18290697 AAAA-ATGTAATTGTGCT
1 AAAATATGTAATTGTGCT
18290714 AAAATATGTAAATTGTGCT
1 AAAATATGT-AATTGTGCT
18290733 AAA
1 AAA
18290736 TTATATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (18 bp):
AAAATATGTAATTGTGCT
Found at i:18294476 original size:25 final size:25
Alignment explanation
Indices: 18294448--18294510 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
18294438 ATACATATCA
18294448 ATATGACCATAATCCTATACGTGCC
1 ATATGACCATAATCCTATACGTGCC
18294473 ATATGACCATAATCCTATACGTGCC
1 ATATGACCATAATCCTATACGTGCC
18294498 ATATGACCA-AATC
1 ATATGACCATAATC
18294511 ATAAGCTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.11
25 34 0.89
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (25 bp):
ATATGACCATAATCCTATACGTGCC
Found at i:18294964 original size:41 final size:41
Alignment explanation
Indices: 18294866--18295012 Score: 165
Period size: 41 Copynumber: 3.6 Consensus size: 41
18294856 ACTAGATATT
* * ** *
18294866 TTGCACACAAAGTGCCGGT-CATAGCTTAAGCTATCTCAAATC
1 TTGCACACTAAGTGCC-ATACATAGCCAAAGCTATCTC-GATC
*
18294908 --GCACACTAAGTGCCATACATAGCCGAAGCTATCTCGATC
1 TTGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGATC
*
18294947 TTGCACACTAAGTGCCATATATAGCCAAAGCTATCTCGATC
1 TTGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGATC
* * *
18294988 TCGCACAGTAAGTGCCACACATAGC
1 TTGCACACTAAGTGCCATACATAGC
18295013 TAATTTGTCA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 4 0.04
40 29 0.32
41 58 0.64
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (41 bp):
TTGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGATC
Found at i:18296486 original size:24 final size:25
Alignment explanation
Indices: 18296445--18296564 Score: 79
Period size: 24 Copynumber: 4.8 Consensus size: 25
18296435 AGCCATATGA
*
18296445 CGGGAAGCTAC-GGAGAGCCATTAAT
1 CGGGAAGCT-CTGAAGAGCCATTAAT
* * *
18296470 -GGGAAGCTCAT-ATGAGCAAAT-AT
1 CGGGAAGCTC-TGAAGAGCCATTAAT
18296493 CGGGAAGCTCTGAAGAGCCATTAA-
1 CGGGAAGCTCTGAAGAGCCATTAAT
* * ** * *
18296517 CTGAAAGCTCACAAAGAGCCTTTACT
1 CGGGAAGCTC-TGAAGAGCCATTAAT
18296543 CGGGAAGCTCATGAAGAGCCAT
1 CGGGAAGCTC-TGAAGAGCCAT
18296565 ACTTTCGGAC
Statistics
Matches: 70, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
23 4 0.06
24 38 0.54
25 11 0.16
26 17 0.24
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCTGAAGAGCCATTAAT
Found at i:18296525 original size:48 final size:50
Alignment explanation
Indices: 18296445--18296564 Score: 122
Period size: 48 Copynumber: 2.4 Consensus size: 50
18296435 AGCCATATGA
* * * *
18296445 CGGGAAGCTAC-GGAGAGCCATTAATGGGAAGCTCA-TATGAGCAAATA-T
1 CGGGAAGCT-CTGAAGAGCCATTAATGGAAAGCTCACAAAGAGCAAATACT
***
18296493 CGGGAAGCTCTGAAGAGCCATTAACT-GAAAGCTCACAAAGAGCCTTTACT
1 CGGGAAGCTCTGAAGAGCCATTAA-TGGAAAGCTCACAAAGAGCAAATACT
18296543 CGGGAAGCTCATGAAGAGCCAT
1 CGGGAAGCTC-TGAAGAGCCAT
18296565 ACTTTCGGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
47 1 0.02
48 29 0.48
49 8 0.13
50 11 0.18
51 11 0.18
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (50 bp):
CGGGAAGCTCTGAAGAGCCATTAATGGAAAGCTCACAAAGAGCAAATACT
Found at i:18298491 original size:30 final size:29
Alignment explanation
Indices: 18298457--18298567 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
18298447 TTTGCTAAAG
* * *
18298457 GATGGTTGAAACCATCCATTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTC-ATAATC
* *
18298487 GATGGTCGAAACCATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATAATC
* *
18298516 GATGGTCGAAGCCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATAATC
**
18298545 GATGGTCGTCACCATCCCTTTTC
1 GATGGTCGAAACCATCCCTTTTC
18298568 TTTAATTGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 50 0.70
30 21 0.30
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATAATC
Found at i:18298561 original size:58 final size:59
Alignment explanation
Indices: 18298457--18298567 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 59
18298447 TTTGCTAAAG
* *
18298457 GATGGTTGAAACCATCCATTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCATTTTCTATAATCGATGGTCGAAACCATCCCTTTTCATATTT
* * * **
18298516 GATGGTCGAAGCCATCCCTTTTC-ATATTCGATGGTCGTCACCATCCCTTTTC
1 GATGGTCGAAACCATCCATTTTCTATAATCGATGGTCGAAACCATCCCTTTTC
18298568 TTTAATTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 25 0.56
59 20 0.44
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (59 bp):
GATGGTCGAAACCATCCATTTTCTATAATCGATGGTCGAAACCATCCCTTTTCATATTT
Found at i:18301991 original size:46 final size:46
Alignment explanation
Indices: 18301919--18302010 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
18301909 CATACTTCCT
*
18301919 GCTGCTTTTATTGTGATATATTAGGAGGTAGAGAGAAAGGTGCCTA
1 GCTGATTTTATTGTGATATATTAGGAGGTAGAGAGAAAGGTGCCTA
*
18301965 GCTGATTTTATTGTGTTATATTAGGAGGTAGAGAGAAAGGTGCCTA
1 GCTGATTTTATTGTGATATATTAGGAGGTAGAGAGAAAGGTGCCTA
18302011 TTTTTTGGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (46 bp):
GCTGATTTTATTGTGATATATTAGGAGGTAGAGAGAAAGGTGCCTA
Found at i:18312759 original size:46 final size:46
Alignment explanation
Indices: 18312692--18312912 Score: 397
Period size: 46 Copynumber: 4.8 Consensus size: 46
18312682 TGTAACCCAC
* * * * *
18312692 CCATAAGCGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18312738 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18312784 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18312830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18312876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18312913 TGCTCAACCA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 170 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18320308 original size:46 final size:46
Alignment explanation
Indices: 18320258--18320429 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
18320248 GGTTGAGCAT
18320258 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
18320304 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* * *
18320349 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
18320397 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18320430 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 58 0.55
47 27 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:18320413 original size:93 final size:93
Alignment explanation
Indices: 18320254--18320424 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
18320244 GGATGGTTGA
*
18320254 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18320319 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18320347 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18320412 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18320425 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18320691 original size:19 final size:20
Alignment explanation
Indices: 18320654--18320691 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18320644 ATAAGGTGGT
18320654 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18320674 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18320692 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18322412 original size:47 final size:47
Alignment explanation
Indices: 18322358--18322451 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
18322348 AGGGTAACCT
18322358 GGGAATTCTTTCAAGAAGAGTTTCGAAAGAAATATATTAGTGAAAGA
1 GGGAATTCTTTCAAGAAGAGTTTCGAAAGAAATATATTAGTGAAAGA
*
18322405 GGGAATTCTTTCAAGAAGAGTTTCGGAAGAAATATATTAGTGAAAGA
1 GGGAATTCTTTCAAGAAGAGTTTCGAAAGAAATATATTAGTGAAAGA
18322452 TTTATTGATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (47 bp):
GGGAATTCTTTCAAGAAGAGTTTCGAAAGAAATATATTAGTGAAAGA
Found at i:18326906 original size:19 final size:20
Alignment explanation
Indices: 18326869--18326906 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18326859 ATAAGGTGGT
18326869 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18326889 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18326907 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18330866 original size:24 final size:24
Alignment explanation
Indices: 18330834--18330880 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
18330824 CTGTCAGGAG
**
18330834 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
18330858 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
18330881 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:18332339 original size:27 final size:26
Alignment explanation
Indices: 18332299--18332410 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
18332289 AGGAAGCGTC
*
18332299 CTGGTGGCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTGCCACAAT-ATCTGAT
* *
18332326 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
18332353 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-AATATCTG-AT
* * * * *
18332381 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGAT
18332407 CTGG
1 CTGG
18332411 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 50 0.69
28 17 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:18332405 original size:54 final size:54
Alignment explanation
Indices: 18332299--18332410 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
18332289 AGGAAGCGTC
* *
18332299 CTGGTGGCTATGCCACAATCATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
18332353 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATCATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
18332407 CTGG
1 CTGG
18332411 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:18338742 original size:24 final size:24
Alignment explanation
Indices: 18338672--18338731 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
18338662 CTGTCAAGAG
18338672 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
18338696 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
18338720 AGGATTTAGGAG
1 AGGATTTAGGAG
18338732 CAGATATGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:18340203 original size:27 final size:27
Alignment explanation
Indices: 18340161--18340272 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
18340151 AGAAAGCGTC
* * *
18340161 CTGGTGGCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTACCACAATTATCTGAT
*
18340188 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTACCACA-ATTATCTGAT
* * *
18340215 TTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTACCACAATTATCTG-AT
* * *
18340243 CTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTCTACCACAATTATCTGAT
18340269 CTGG
1 CTGG
18340273 AAGCCATGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 8 0.12
27 46 0.67
28 15 0.22
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTACCACAATTATCTGAT
Found at i:18340267 original size:54 final size:54
Alignment explanation
Indices: 18340162--18340268 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
18340152 GAAAGCGTCC
* *
18340162 TGGTGGCTATGCCACAATCATCTGATCTGGTGGCTCTACCACATATTTCTGTTT
1 TGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTACCACATATATCTGTTT
* * * *
18340216 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATCATCTG-ATCTGGTGACTCTACCACATATATCTGTT
18340269 CTGGAAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTACCACATATATCTGTTT
Found at i:18357285 original size:13 final size:13
Alignment explanation
Indices: 18357262--18357306 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
18357252 CTAAGCCACC
*
18357262 TCACACAGGCGTG
1 TCACACGGGCGTG
*
18357275 TCACATGGGCGTG
1 TCACACGGGCGTG
* *
18357288 TCACCCGGGCTTG
1 TCACACGGGCGTG
18357301 TCACAC
1 TCACAC
18357307 AGGCCATTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:18359050 original size:28 final size:29
Alignment explanation
Indices: 18358938--18359062 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
18358928 GAAAGCATGT
* *
18358938 ATATGAATGTGATTTGGGCTTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
18358967 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
18358996 ATACAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
18359025 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
18359053 ATATGCATGT
1 ATATGAATGT
18359063 ATGTAGACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 23 0.27
29 63 0.73
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:18364703 original size:60 final size:60
Alignment explanation
Indices: 18364610--18364730 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
18364600 CTCCCCTCTC
* *
18364610 TTTCCCCTTTCCCCTTTTTTCACCCTTGCAAGAATCACACGACCTCAATACCCACGCCCG
1 TTTCCCCTTTCCCCTCTTCTCACCCTTGCAAGAATCACACGACCTCAATACCCACGCCCG
* *
18364670 TTTCCCTTTTCCCCTCTTCTCACCCTTGCAAGAATCACACGGCCTCAATACCCACGCCCG
1 TTTCCCCTTTCCCCTCTTCTCACCCTTGCAAGAATCACACGACCTCAATACCCACGCCCG
18364730 T
1 T
18364731 GGCTAACCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.19, C:0.44, G:0.09, T:0.28
Consensus pattern (60 bp):
TTTCCCCTTTCCCCTCTTCTCACCCTTGCAAGAATCACACGACCTCAATACCCACGCCCG
Found at i:18372398 original size:22 final size:22
Alignment explanation
Indices: 18372370--18372411 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
18372360 ATTCAACATG
18372370 GCATACCATTACATGGATACTT
1 GCATACCATTACATGGATACTT
18372392 GCATACCATTACATGGATAC
1 GCATACCATTACATGGATAC
18372412 ATGTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
GCATACCATTACATGGATACTT
Found at i:18374553 original size:96 final size:96
Alignment explanation
Indices: 18374389--18374668 Score: 357
Period size: 96 Copynumber: 2.9 Consensus size: 96
18374379 ATACTAGGGT
* * * *
18374389 TATGTTAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGAT-TGGAGAGCTAGTGTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGACATTGATAT-GAGAGCTAGTGTA
18374453 AGACCATGTCTGGGACATGGCATCAGCCTCGA
65 AGACCATGTCTGGGACATGGCATCAGCCTCGA
* *
18374485 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAGAGTTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGACATTGATATGAGAGCTAGTGTAA
*
18374550 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTGGGACATGGCATCAGCCTCGA
* * * * * * * * *
18374581 CATGTGGGCTAGTGTAAGGCCATGTTT-GAATAGGGCATCGGCATCGATTTATGAGGGCCAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGACATTGA--TATGAGAGCTAGTGT
* *
18374645 AAAACCATGTTTGGGACATGGCAT
64 AAGACCATGTCTGGGACATGGCAT
18374669 TGGCATCTTA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
95 15 0.09
96 111 0.69
97 35 0.22
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGACATTGATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCAGCCTCGA
Found at i:18374573 original size:48 final size:48
Alignment explanation
Indices: 18374399--18374668 Score: 231
Period size: 48 Copynumber: 5.6 Consensus size: 48
18374389 TATGTTAGCC
* *
18374399 AGTGTAAGACCATGTTTGGAACATGGCATCAACATTGAT-TGGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATAT-GAGAGCT
* * * *
18374447 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGATATGTGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGA-CATTGATATGAGAGCT
* * * *
18374495 AGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAGAGTT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAGCT
* * * * * * *
18374543 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGGGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAGCT
* * * * * * * *
18374591 AGTGTAAGGCCATGT-TTGAATAGGGCATCGGCATCGATTTATGAGGGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGA--TATGAGAGCT
* * *
18374640 AGTGTAAAACCATGTTTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGAACATGGCAT
18374669 TGGCATCTTA
Statistics
Matches: 177, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
47 18 0.10
48 128 0.72
49 22 0.12
50 9 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAGCT
Done.