Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 108 of 210
Found at i:31661142 original size:40 final size:40
Alignment explanation
Indices: 31661059--31661155 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
31661049 CGCTTTATAT
* **
31661059 AAAA-CGCCGCTAATTC-CTATTTTTAGCGGCGCTTCCGG
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
* * *
31661097 AAAATCGCTGCTGATGCTCTACCTTTAGCGGCGCTT-TGG
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
*
31661136 CTAAATCGCCGCTAATGCTC
1 -AAAATCGCCGCTAATGCTC
31661156 GATTTTTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 4 0.09
39 11 0.23
40 32 0.68
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (40 bp):
AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
Found at i:31673033 original size:20 final size:20
Alignment explanation
Indices: 31673008--31673050 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
31672998 AATAGTGACA
31673008 GTTACAGTATCAATAAACAT
1 GTTACAGTATCAATAAACAT
31673028 GTTACAGTATCAATAAACAT
1 GTTACAGTATCAATAAACAT
31673048 GTT
1 GTT
31673051 TTGAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
GTTACAGTATCAATAAACAT
Found at i:31675258 original size:9 final size:10
Alignment explanation
Indices: 31675240--31675268 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
31675230 CATTTCCATT
31675240 TTTCTATTCA
1 TTTCTATTCA
31675250 TTT-TATTCA
1 TTTCTATTCA
31675259 TTTCTATTCA
1 TTTCTATTCA
31675269 AACACGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:31676260 original size:18 final size:19
Alignment explanation
Indices: 31676234--31676273 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
31676224 ACATTCACAT
31676234 ATTTCCTCTCTTC-TCTCC
1 ATTTCCTCTCTTCTTCTCC
*
31676252 ATTTTCTCTCTTCTTCTCC
1 ATTTCCTCTCTTCTTCTCC
31676271 ATT
1 ATT
31676274 CCAAAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTCCTCTCTTCTTCTCC
Found at i:31679649 original size:13 final size:13
Alignment explanation
Indices: 31679633--31679657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31679623 GCTCGTGAAA
31679633 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
31679646 AAAAAAAGAAAA
1 AAAAAAAGAAAA
31679658 AAGAGAAGAG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:31679664 original size:17 final size:16
Alignment explanation
Indices: 31679629--31679661 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31679619 AAATGCTCGT
31679629 GAAAAAAAAAAGAAAA
1 GAAAAAAAAAAGAAAA
*
31679645 GAAAAAAAGAA-AAAA
1 GAAAAAAAAAAGAAAA
31679660 GA
1 GA
31679662 GAAGAGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAA
Found at i:31687642 original size:2 final size:2
Alignment explanation
Indices: 31687635--31687666 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31687625 TGCATGTATT
31687635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31687667 AAAGGAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31694013 original size:13 final size:13
Alignment explanation
Indices: 31693995--31694020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31693985 TAAAACTTGG
31693995 TTAAGTGTTTTTA
1 TTAAGTGTTTTTA
31694008 TTAAGTGTTTTTA
1 TTAAGTGTTTTTA
31694021 CCTTCATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTAAGTGTTTTTA
Found at i:31697612 original size:51 final size:51
Alignment explanation
Indices: 31697552--31697886 Score: 276
Period size: 51 Copynumber: 6.6 Consensus size: 51
31697542 GATGAACACT
* * *
31697552 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACG
* * * * **
31697603 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATG-GTCACG
* * * * * * *
31697654 TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGGTAAACT-ATGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TAATGGTCACG
* * * * *
31697705 TGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATAATGGTCACG
* * * *
31697756 TATGTAGTACTATGTGAAGTCTACTACGTG-AGCCG-TAAA-ACTGAATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATAATG-GTCACG
* * * *
31697806 TGTGTAGTACTATGTGAAGGCTACTACGAGAACCG-TAAA-ACTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACG
31697855 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
31697887 TCGAATGATA
Statistics
Matches: 226, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
49 38 0.17
50 49 0.22
51 135 0.60
52 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACG
Found at i:31697728 original size:102 final size:102
Alignment explanation
Indices: 31697552--31697890 Score: 349
Period size: 102 Copynumber: 3.4 Consensus size: 102
31697542 GATGAACACT
* *
31697552 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
*
31697617 TGAAGGCTACTATGTG-TACC-GAGAAGTTTTGAG-CACG
66 TGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GTCACG
* * *
31697654 TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTACTAA
1 TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTAA
31697718 GTGAAGGCTACTATGGATACCGGAAAGCTTTGGTCACG
65 GTGAAGGCTACTATGGATACCGGAAAGCTTTGGTCACG
* * * * * *
31697756 TATGTAGTACTATGTG-AAGTCTACTACGTG-AGCCG-TAAA-ACTGAATCACGTGTGTAGTACT
1 TGTGTAGTACTGTGTGAAAGT-TACTACGTGTA-TCGATAAATAATG-GTCACATGTGTAGTACT
* * * * *
31697817 ATGTGAAGGCTACTACGAGA-ACCGTAAAAC--TGATCACG
63 AAGTGAAGGCTACTATG-GATACCGGAAAGCTTTGGTCACG
* * *
31697855 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGA
31697891 ATGATAAAAA
Statistics
Matches: 202, Mismatches: 23, Indels: 26
0.80 0.09 0.10
Matches are distributed among these distances:
99 33 0.16
100 5 0.02
101 47 0.23
102 114 0.56
103 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
TGAAGGCTACTATGGATACCGGAAAGCTTTGGTCACG
Found at i:31705209 original size:51 final size:51
Alignment explanation
Indices: 31705148--31705482 Score: 251
Period size: 51 Copynumber: 6.6 Consensus size: 51
31705138 GATGAACACG
* * *
31705148 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
* * * * * * *
31705199 AGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GTCACA
* * * * * *
31705250 TGTGTAGTAGTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGTCACA
* * * * *
31705301 TGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATATTGGTCACA
* * * *
31705352 TATGTAGTACTATGTGAAGTCTACTACATG-AGCCG-TAAA-ACTTGATCA-A
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGTCACA
* * * * *
31705401 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTGATCACG
1 -TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
31705451 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
31705483 TCGAATGATA
Statistics
Matches: 219, Mismatches: 50, Indels: 32
0.73 0.17 0.11
Matches are distributed among these distances:
49 37 0.17
50 46 0.21
51 132 0.60
52 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
Found at i:31705320 original size:102 final size:101
Alignment explanation
Indices: 31705144--31705485 Score: 335
Period size: 102 Copynumber: 3.4 Consensus size: 101
31705134 TATCGATGAA
* * * *
31705144 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACAAGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
31705208 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
31705246 CACGTGTGTAGTAGTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
31705311 TAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCGAG-AAG-TTTGAG
* * * * *
31705347 TCACGTATGTAGTACTATGTG-AAGTCTACTACATG-AGCCGTAAAACT-TGATCA-AGTGTGTA
1 -CACGTGTGTAGTACTATGTGAAAG-CTACTACGTGTATCGGT-AAACTATGGTCACA-TGTGTA
* * * * ** *
31705408 GTACTATGTGAAGGCTACTACGTGAACTGTA-AA-ACTGAT
62 GTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
*
31705447 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCG
31705486 AATGATAAAA
Statistics
Matches: 199, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
99 30 0.15
100 5 0.03
101 44 0.22
102 119 0.60
103 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:31705415 original size:50 final size:49
Alignment explanation
Indices: 31705354--31705477 Score: 194
Period size: 50 Copynumber: 2.5 Consensus size: 49
31705344 TGGTCACGTA
* *
31705354 TGTAGTACTATGTGAAGTCTACTACATGAGCCGTAAAACTTGATCAAGTG
1 TGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAAC-TGATCAAGTG
* * *
31705404 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGTG
1 TGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTGATCAAGTG
31705453 TGTAGTACTATGTGAAGGCTACTAC
1 TGTAGTACTATGTGAAGGCTACTAC
31705478 GTGTATCGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 34 0.49
50 35 0.51
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (49 bp):
TGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTGATCAAGTG
Found at i:31715606 original size:16 final size:16
Alignment explanation
Indices: 31715565--31715606 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
31715555 AAAGCTGATA
31715565 ATAATTAATATATATT
1 ATAATTAATATATATT
*
31715581 ATAATGAATATA-ATT
1 ATAATTAATATATATT
31715596 ATATATTAATA
1 ATA-ATTAATA
31715607 ATTATCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:31715717 original size:29 final size:30
Alignment explanation
Indices: 31715661--31715721 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
31715651 GCTTTTTGAA
* *
31715661 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
31715691 AATATTTACAAAAA-A-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
31715720 AA
1 AA
31715722 AAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 12 0.43
30 14 0.50
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:31721697 original size:43 final size:43
Alignment explanation
Indices: 31721640--31721794 Score: 124
Period size: 43 Copynumber: 3.6 Consensus size: 43
31721630 AATGCCATCA
*
31721640 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTG
* * * *
31721683 TCCCAGACAG-GGTCTTACCCGAAATCATATA-CGATGCCAATG
1 TCCCAGAC-GTGGTCTTACACGTAATCAAATATCGATGCCACTG
** *
31721725 T-TTAGACATGGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-G
1 TCCCAGACGTGGTCTTACACGT-AA--TCAAATATCGATGCC-ACTG
** *
31721768 TCCCAGACGTTTTCTTACATGTAATCA
1 TCCCAGACGTGGTCTTACACGTAATCA
31721795 CATACCAGAA
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
41 17 0.20
42 13 0.15
43 35 0.41
44 21 0.24
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTG
Found at i:31721750 original size:42 final size:44
Alignment explanation
Indices: 31721640--31721775 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 44
31721630 AATGCCATCA
* * *
31721640 TCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCAATG
* * *
31721683 TCCCAGACAGGGTCTTACCCG-AAATCATATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCAATG
** *
31721725 T-TTAGACATGGTCTTACACGTAAATCTCAAAT-T-GATGCCAACG
1 TCCCAGACATGGTCTTACACGTAAA--TCAAATATCGATGCCAATG
31721768 TCCCAGAC
1 TCCCAGAC
31721776 GTTTTCTTAC
Statistics
Matches: 73, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
41 15 0.21
42 14 0.19
43 35 0.48
44 9 0.12
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCAATG
Found at i:31730199 original size:50 final size:50
Alignment explanation
Indices: 31730038--31730329 Score: 424
Period size: 50 Copynumber: 5.8 Consensus size: 50
31730028 GATAATAACA
* ** *
31730038 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
31730089 TGCCCATGCCATGTCCCAGATATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
31730138 TGACAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
31730188 TGTCAATGCCATGTCCCAGACATGGTCTTACATGAGACCGCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
31730238 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
31730288 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
31730330 TTACCCAAGT
Statistics
Matches: 217, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
49 37 0.17
50 152 0.70
51 28 0.13
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:31736586 original size:50 final size:50
Alignment explanation
Indices: 31736478--31736763 Score: 324
Period size: 50 Copynumber: 5.7 Consensus size: 50
31736468 ACATGCGAAA
* * ** * * * * *
31736478 GCCATGTCCCAGATATGGTCTTACATGGGATGTTCTCATATCGGTTCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCATCTCTGTGCCAAC
*** * * *
31736529 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCTGTGACAAT
1 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCTGTGCCAAC
* *
31736579 GCCATGTCCTAGACATGGTCTTACATGAGACTTCTCATCTC-GATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCTG-TGCCAAC
* * * *
31736629 GCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCTGTGCCAAC
31736679 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-TGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCT-GTGCCAAC
* *
31736729 GCCATGTCCCAGACATTGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGAGACCTCT
31736764 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 30, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
49 1 0.00
50 174 0.86
51 27 0.13
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCTGTGCCAAC
Found at i:31736652 original size:100 final size:100
Alignment explanation
Indices: 31736478--31736763 Score: 383
Period size: 100 Copynumber: 2.9 Consensus size: 100
31736468 ACATGCGAAA
* * * * * * *
31736478 GCCATGTCCCAGATATGGTCTTACATGGGATGTTCTCATATCGGTTCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGAGA-CTTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
31736543 ATGGTCTTATGGGGGACCTCTCATCTCTGTGACAAT
65 ATGGTCTTATAGGGGACCTCTCATCTCGGTGACAAC
* * *
31736579 GCCATGTCCTAGACATGGTCTTACATGAGACTTCTCATCTCGATGCCAACGCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
* *
31736644 TGGTCTTATATGGGACCTCTCATCTCGGTGCCAAC
66 TGGTCTTATAGGGGACCTCTCATCTCGGTGACAAC
* *
31736679 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
* * *
31736744 TTGTCTTACATGGGACCTCT
66 TGGTCTTATAGGGGACCTCT
31736764 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
100 136 0.83
101 27 0.17
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
TGGTCTTATAGGGGACCTCTCATCTCGGTGACAAC
Found at i:31736750 original size:150 final size:151
Alignment explanation
Indices: 31736478--31736755 Score: 380
Period size: 150 Copynumber: 1.8 Consensus size: 151
31736468 ACATGCGAAA
* * ** * * *
31736478 GCCATGTCCCAGATATGGTCTTACATGGGATGTTCTCATATCGGTTCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
** * * *
31736543 ATGGTCTTATGGGGGACCTCTCATCTCTGTGACAATGCCATGTCCTAGACATGGTCTTACATGAG
66 ATGGTCTTACAGGAGACCTCTCATCTCTGTGACAACGCCATGTCCCAGACATGGTCTTACATGAG
31736608 ACTTCTCATCTCGATGCCAAC
131 ACTTCTCATCTCGATGCCAAC
* *
31736629 GCCATGTCCCAAACATGGTCTTATATGGGA-CCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 GCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * *
31736693 ATGGTCTTACATGAGACCTCTCATCT-TGGTGCCAACGCCATGTCCCAGACATTGTCTTACATG
66 ATGGTCTTACAGGAGACCTCTCATCTCT-GTGACAACGCCATGTCCCAGACATGGTCTTACATG
31736756 GGACCTCTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
149 1 0.01
150 81 0.74
151 27 0.25
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (151 bp):
GCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
ATGGTCTTACAGGAGACCTCTCATCTCTGTGACAACGCCATGTCCCAGACATGGTCTTACATGAG
ACTTCTCATCTCGATGCCAAC
Found at i:31742909 original size:41 final size:41
Alignment explanation
Indices: 31742864--31743065 Score: 191
Period size: 41 Copynumber: 5.1 Consensus size: 41
31742854 TATTTGATTA
* * *
31742864 CCTGTTTGTACTTCGGTACCCCTGAATTGTAGATGCGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
* * *
31742905 CCTGTTTGTACTTTGGTACCTCTAAATTGCACATAC-T---
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
31742942 --TGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
** * * * *
31742981 CCTACTTGTACTTCGGTACCCCTAAATTTCATATATGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
* ** * * * *
31743022 CCTATTTGTACTTTAGTACGCCTGAATTACATATATGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
31743063 CCT
1 CCT
31743066 ATTTACACTT
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
35 31 0.23
36 1 0.01
40 1 0.01
41 101 0.75
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (41 bp):
CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
Found at i:31742958 original size:35 final size:35
Alignment explanation
Indices: 31742907--31743008 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 35
31742897 TGCGTGCCCC
* *
31742907 TGTTTGTACTTTGGTACCTCTAAATTGCACATACT
1 TGTTTGTACTTCGGTACCCCTAAATTGCACATACT
* *
31742942 TGTTTGTACTTCGGTACCCCTGAATTGCACATACG
1 TGTTTGTACTTCGGTACCCCTAAATTGCACATACT
31742977 TGCCCCTACTTGTACTTCGGTACCCCTAAATT
1 TG----T--TTGTACTTCGGTACCCCTAAATT
31743009 TCATATATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
35 33 0.59
39 1 0.02
41 22 0.39
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (35 bp):
TGTTTGTACTTCGGTACCCCTAAATTGCACATACT
Found at i:31742960 original size:76 final size:76
Alignment explanation
Indices: 31742866--31743008 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
31742856 TTTGATTACC
* * * ** * *
31742866 TGTTTGTACTTCGGTACCCCTGAATTGTAGATGCGTGCCCCTGTTTGTACTTTGGTACCTCTAAA
1 TGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTACTTGTACTTCGGTACCCCTAAA
31742931 TTGCACATACT
66 TTGCACATACT
31742942 TGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTACTTGTACTTCGGTACCCCTAAA
1 TGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTACTTGTACTTCGGTACCCCTAAA
31743007 TT
66 TT
31743009 TCATATATGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (76 bp):
TGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTACTTGTACTTCGGTACCCCTAAA
TTGCACATACT
Found at i:31743004 original size:20 final size:20
Alignment explanation
Indices: 31742945--31743005 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
31742935 ACATACTTGT
31742945 TTGTACTTCGGTACCCCTGAA
1 TTGTACTTCGGTACCCCT-AA
* * * *
31742966 TTGCACATAC-GTGCCCCTAC
1 TTGTAC-TTCGGTACCCCTAA
31742986 TTGTACTTCGGTACCCCTAA
1 TTGTACTTCGGTACCCCTAA
31743006 ATTTCATATA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 12 0.40
22 2 0.07
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (20 bp):
TTGTACTTCGGTACCCCTAA
Found at i:31753340 original size:41 final size:41
Alignment explanation
Indices: 31753275--31753486 Score: 228
Period size: 41 Copynumber: 5.2 Consensus size: 41
31753265 TATGTGATTA
* *
31753275 CCTGTTTATACTTTGGTACCCCTAAATTGCACATACATGCC
1 CCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATGCC
* **
31753316 CCTATTTGTACTTCGGTACCCCTAAATTGCACATATGTGCC
1 CCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATGCC
* * * *
31753357 CCTGTTTGTACTTCGATACCTCTGAACTGCACATACATGCC
1 CCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATGCC
* * *
31753398 CCTGTTTGTACTT-GAGTACCCCTGAATTGCATATACGTGCC
1 CCTGTTTGTACTTCG-GTACCCCTAAATTGCACATACATGCC
* * * * * * *
31753439 CTTTTTTGTACTTCGGTACCCTTGAATTTCAAATACGTGCC
1 CCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATGCC
*
31753480 CTTGTTT
1 CCTGTTT
31753487 ACACTCTAGT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
40 1 0.01
41 144 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (41 bp):
CCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATGCC
Found at i:31760307 original size:19 final size:20
Alignment explanation
Indices: 31760285--31760326 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
31760275 TCAATCATCC
31760285 CTCATCCCATCA-TCTCTC-A
1 CTCAT-CCATCATTCTCTCGA
*
31760304 CTCATTCATCATTCTCTCGA
1 CTCATCCATCATTCTCTCGA
31760324 CTC
1 CTC
31760327 TTTTAGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.19, C:0.43, G:0.02, T:0.36
Consensus pattern (20 bp):
CTCATCCATCATTCTCTCGA
Found at i:31765147 original size:27 final size:27
Alignment explanation
Indices: 31765115--31765166 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
31765105 ACCAATGAAT
*
31765115 AGGGGAATTAGCACTTAGCAACCCCTC
1 AGGGGAATCAGCACTTAGCAACCCCTC
31765142 AGGGGAATCAGCACTTAGCAACCCC
1 AGGGGAATCAGCACTTAGCAACCCC
31765167 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (27 bp):
AGGGGAATCAGCACTTAGCAACCCCTC
Found at i:31765230 original size:33 final size:34
Alignment explanation
Indices: 31765188--31765342 Score: 94
Period size: 33 Copynumber: 4.6 Consensus size: 34
31765178 AAAATACGGT
31765188 GGAATCAGCACTTAGCAACCACCAATGAATCGG-
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGC
* **
31765221 GGAATCAGCAC--A-CAACAACCCCT---T-GGC
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGC
* * *
31765248 GGAATCAGCACTTAGCAACCCCCTTCACATTTTAGATGCGGT
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGA-AT-CGGC
31765290 GGAATCAGCACTTAGCAACCACCAATGAATCGG-
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGC
* **
31765323 GGAATTAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
31765343 CCTTTATATG
Statistics
Matches: 93, Mismatches: 13, Indels: 32
0.67 0.09 0.23
Matches are distributed among these distances:
26 2 0.02
27 12 0.13
29 1 0.01
30 11 0.12
31 3 0.03
33 29 0.31
34 3 0.03
35 2 0.02
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 3 0.03
42 20 0.22
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.17
Consensus pattern (34 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGGC
Found at i:31765346 original size:102 final size:101
Alignment explanation
Indices: 31764979--31765346 Score: 556
Period size: 102 Copynumber: 3.6 Consensus size: 101
31764969 TAACCGTTAT
* * ** *
31764979 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCATGGAATCAACACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT-GGG
*
31765044 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
65 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATG
* * ** *
31765081 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCAGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT-TGGG
* *
31765146 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
65 GAATCAGCACTTAGCAACCCCC-TTCACATTTAAGATG
*
31765184 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAACAACCCCTTGGCG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGG-G
*
31765249 GAATCAGCACTTAGCAACCCCCTTCACATTTTAGATG
65 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATG
*
31765286 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACACAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
31765347 TATATGCAAT
Statistics
Matches: 239, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
102 149 0.62
103 90 0.38
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (101 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
AATCAGCACTTAGCAACCCCCTTCACATTTAAGATG
Found at i:31766748 original size:11 final size:11
Alignment explanation
Indices: 31766732--31766757 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31766722 ATTTTCATAC
31766732 TTGAAACTATT
1 TTGAAACTATT
31766743 TTGAAACTATT
1 TTGAAACTATT
31766754 TTGA
1 TTGA
31766758 TACTTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (11 bp):
TTGAAACTATT
Found at i:31769651 original size:16 final size:17
Alignment explanation
Indices: 31769632--31769666 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31769622 AGTGAAGGAA
31769632 AAAGATGTGTGG-AATG
1 AAAGATGTGTGGAAATG
*
31769648 AAAGGTGTGTGGAAATG
1 AAAGATGTGTGGAAATG
31769665 AA
1 AA
31769667 TAGGTGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (17 bp):
AAAGATGTGTGGAAATG
Found at i:31769658 original size:18 final size:18
Alignment explanation
Indices: 31769637--31769672 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
31769627 AGGAAAAAGA
31769637 TGTGTGG-AATGAA-AGG
1 TGTGTGGAAATGAATAGG
31769653 TGTGTGGAAATGAATAGG
1 TGTGTGGAAATGAATAGG
31769671 TG
1 TG
31769673 AAGGGGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.28
Consensus pattern (18 bp):
TGTGTGGAAATGAATAGG
Found at i:31781509 original size:17 final size:18
Alignment explanation
Indices: 31781487--31781520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31781477 AGATGTGTGG
*
31781487 AATGAA-AGGTGTATGGA
1 AATGAATAGGTGAATGGA
31781504 AATGAATAGGTGAATGG
1 AATGAATAGGTGAATGG
31781521 GGTATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (18 bp):
AATGAATAGGTGAATGGA
Found at i:31795997 original size:16 final size:16
Alignment explanation
Indices: 31795972--31796005 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31795962 TTTAATTGTT
31795972 TTTATGTCTTTAGGAA
1 TTTATGTCTTTAGGAA
* *
31795988 TTTATTTCTTTAGTAA
1 TTTATGTCTTTAGGAA
31796004 TT
1 TT
31796006 AGGATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTATGTCTTTAGGAA
Found at i:31799938 original size:77 final size:76
Alignment explanation
Indices: 31799818--31799998 Score: 258
Period size: 77 Copynumber: 2.4 Consensus size: 76
31799808 CAACCCCTCG
** *
31799818 GGGGAATCAGCA-ATAGCAACCCCCTTTTTATTTCAAAGATATGGTGGAT-ATCGCACTTAGCAC
1 GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATATGGTGGATCA-CGCACATAGCAC
*
31799881 CACCAATGAATC
65 CACCAATAAATC
*
31799893 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCAC
1 GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATATGGTGGATCACGCACATAGCAC
*
31799958 CACCCATAAATC
65 CACCAATAAATC
* *
31799970 GGGGAATCAGCACACAGCAACCCCTTTTA
1 GGGGAATCAGCACATAGCAACCCCCTTTA
31799999 TATACAACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
75 12 0.13
76 15 0.16
77 66 0.70
78 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (76 bp):
GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATATGGTGGATCACGCACATAGCACC
ACCAATAAATC
Found at i:31800362 original size:29 final size:30
Alignment explanation
Indices: 31800330--31800386 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31800320 CCACCCACCT
31800330 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
31800359 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
31800387 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:31807517 original size:104 final size:103
Alignment explanation
Indices: 31807256--31807521 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 103
31807246 TAGCCGTTAT
*
31807256 TGGTGGATCCCGCACTTAGCACCA-CCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCACGCACTTAGCACCACCCA-TGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
**
31807320 GAATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
* *
31807359 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCTCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
31807423 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATA
* * **
31807463 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCT
31807522 TTTATATACA
Statistics
Matches: 148, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
Found at i:31823012 original size:12 final size:13
Alignment explanation
Indices: 31822995--31823023 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31822985 CTCATACATG
31822995 AATAAATAAA-GC
1 AATAAATAAATGC
31823007 AATAAATAAATGC
1 AATAAATAAATGC
31823020 AATA
1 AATA
31823024 GTTATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:31829035 original size:16 final size:17
Alignment explanation
Indices: 31829003--31829035 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31828993 TTTCAAGCAT
31829003 CCCTCATCTCATCATCC
1 CCCTCATCTCATCATCC
31829020 CCCTCATCTC-TCATCC
1 CCCTCATCTCATCATCC
31829036 TCTCTCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.55, G:0.00, T:0.30
Consensus pattern (17 bp):
CCCTCATCTCATCATCC
Found at i:31836772 original size:8 final size:8
Alignment explanation
Indices: 31836759--31836783 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31836749 TTTTAAATAA
31836759 TATTTTAT
1 TATTTTAT
31836767 TATTTTAT
1 TATTTTAT
31836775 TATTTTAT
1 TATTTTAT
31836783 T
1 T
31836784 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:31839445 original size:101 final size:101
Alignment explanation
Indices: 31839330--31839531 Score: 293
Period size: 101 Copynumber: 2.0 Consensus size: 101
31839320 AAAGTGATGG
*
31839330 TCACGAGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTGTAG
1 TCACGAGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACATGTGTAG
*
31839392 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
64 TACTATGTGCAGGCTACTATGCGAACCGG-TAGCTTTGA
* *
31839431 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGAGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
* * *
31839496 CTATGTGGAGGCTACTATGTGAACCGGTATCTTTGA
66 CTATGTGCAGGCTACTATGCGAACCGGTAGCTTTGA
31839532 ATATAAAGGG
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
101 46 0.51
102 41 0.45
103 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (101 bp):
TCACGAGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGAACCGGTAGCTTTGA
Found at i:31839460 original size:51 final size:50
Alignment explanation
Indices: 31839336--31839522 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
31839326 ATGGTCACGA
* * * * *
31839336 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTTGATCACAT
* * *
31839386 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTTGATCACAT
* * * *
31839437 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-TTGATCACAT
* * *
31839488 GTGTAGTACTATGTGGAGGCTACTATGTGAACCGG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
31839523 TATCTTTGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 35 0.31
51 79 0.69
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGATCACAT
Found at i:31839516 original size:26 final size:26
Alignment explanation
Indices: 31839436--31839516 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
31839426 TTTGATCACG
*
31839436 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGGAGGCTACTA
* *
31839462 CGTGTA-T-CGAATAGT-GATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGGA-GGCT-ACTA
31839487 TGTGTAGTACTATGTGGAGGCTACTA
1 TGTGTAGTACTATGTGGAGGCTACTA
31839513 TGTG
1 TGTG
31839517 AACCGGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGGAGGCTACTA
Found at i:31839574 original size:26 final size:26
Alignment explanation
Indices: 31839540--31839589 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
31839530 GAATATAAAG
31839540 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
31839566 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
31839590 GATTCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:31839605 original size:33 final size:33
Alignment explanation
Indices: 31839568--31839708 Score: 131
Period size: 33 Copynumber: 4.0 Consensus size: 33
31839558 TTCCCCAAGG
*
31839568 GGTTGCTAAGTGCTGATTCCCCGATTCATTGTT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGAT
* *
31839601 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGAG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GAT
*
31839643 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGAT
*
31839676 GGTTTCTAAGTGCTGATTCCACCG-TATCATTGA
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTGA
31839709 ATGTGAAAAG
Statistics
Matches: 89, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
33 41 0.46
34 12 0.13
35 1 0.01
36 1 0.01
37 4 0.04
38 4 0.04
39 1 0.01
40 1 0.01
41 3 0.03
42 21 0.24
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGAT
Found at i:31839660 original size:42 final size:40
Alignment explanation
Indices: 31839601--31839738 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 40
31839591 ATTCATTGTT
31839601 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGAG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTT-AATGTGAAGAG
* *
31839643 GGTTGCTAAGTGCTGATTCC-CCG-A-TTCAT-TG--G-T
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAATGTGAAGAG
* *
31839676 GGTTTCTAAGTGCTGATTCCACCGTATCATTGAATGTGAAAAG
1 GGTTGCTAAGTGCTGATTCCACCGTAT--TT-AATGTGAAGAG
*
31839719 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
31839739 CCGAATCACT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
33 19 0.24
34 4 0.05
35 1 0.01
36 2 0.03
37 2 0.03
38 4 0.05
39 2 0.03
40 3 0.04
41 3 0.04
42 20 0.26
43 18 0.23
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAATGTGAAGAG
Found at i:31839690 original size:75 final size:76
Alignment explanation
Indices: 31839567--31839765 Score: 310
Period size: 75 Copynumber: 2.6 Consensus size: 76
31839557 ATTCCCCAAG
* *
31839567 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGTTGGTTGCTAAGTGCTGATTCCACCGTAT-TTT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCATT
*
31839631 AAATGTGAAGA
66 AAATGTGAAAA
*
31839642 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATCATT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCATT
*
31839707 GAATGTGAAAA
66 AAATGTGAAAA
* * * *
31839718 GGGTTGCTAAGTGTTGATTCCCCGAATCACTAGTGGTTGCTAAGTGCT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCT
31839766 AAACCCACCG
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 59 0.52
76 54 0.48
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (76 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCATT
AAATGTGAAAA
Found at i:31843417 original size:2 final size:2
Alignment explanation
Indices: 31843412--31843436 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31843402 TATATATATA
31843412 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
31843437 TTTATTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:31851856 original size:28 final size:28
Alignment explanation
Indices: 31851411--31851853 Score: 634
Period size: 28 Copynumber: 15.8 Consensus size: 28
31851401 GTAATAGTAC
*
31851411 AATGTGGGCCTTAGCCCAATACAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
31851439 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
31851467 ATTGTTGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
*
31851495 AATGTGGTCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
31851523 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * * *
31851551 AATGTGGGCCTTAGCCTAATGCAATAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
31851579 AACGTGGGCCTTAGCCCAATGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
31851607 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
31851635 ATTGTGGGCCTTAGCCAAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
31851663 AATGTAGGCCTTTGCCCAATACAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
*
31851691 AATGTGGGCCTTAGCCTAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
31851719 AATGTGGGCCTTAGCCCAGTGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * * *
31851747 AACGTGGACCTTAGCCCAATGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
31851775 AACGTGGCCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
31851803 AATGTGGGCCTTAGCCTAATACAATAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
31851831 AATGTGGGCCTTAGCCCAATACA
1 AATGTGGGCCTTAGCCCAATACA
31851854 ATATTCATAC
Statistics
Matches: 372, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 372 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAGTAAT
Found at i:31852003 original size:26 final size:26
Alignment explanation
Indices: 31851964--31852064 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 26
31851954 AACACACCAA
* *
31851964 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
* *
31851990 TATCATAG-AGAAGCTGCCAGTAACAG
1 TATCACAGCA-AAGCTGCCAGTAATAG
*
31852016 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
* * *
31852042 TATCGCAACAAAGCTGTCAGTAA
1 TATCACAGCAAAGCTGCCAGTAA
31852065 CAATATACTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.02
26 62 0.97
27 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:31852056 original size:52 final size:52
Alignment explanation
Indices: 31851964--31852066 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
31851954 AACACACCAA
* *
31851964 TATCGCAGCAAAGCTGCTAGTAATAGTATCATAGAGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAATAGTATCATACAGAAGCTGCCAGTAACAG
*
31852016 TATCGCAGCAAAGCTGCCAGTAATAGTATCGCA-ACA-AAGCTGTCAGTAACA
1 TATCGCAGCAAAGCTGCCAGTAATAGTAT--CATACAGAAGCTGCCAGTAACA
31852067 ATATACTTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 42 0.91
53 2 0.04
54 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (52 bp):
TATCGCAGCAAAGCTGCCAGTAATAGTATCATACAGAAGCTGCCAGTAACAG
Found at i:31852239 original size:27 final size:28
Alignment explanation
Indices: 31852216--31852577 Score: 209
Period size: 27 Copynumber: 13.5 Consensus size: 28
31852206 AAGGGTATAA
31852216 CAGTCATTTTACCCTATAGAGGTA-ATT
1 CAGTCATTTTACCCTATAGAGGTATATT
31852243 CAGTCATTTTACCCTAT-GAGGGTA-ATT
1 CAGTCATTTTACCCTATAGA-GGTATATT
** *
31852270 TGGTCATTTTACCCTATAGGGGTAT-TT
1 CAGTCATTTTACCCTATAGAGGTATATT
*
31852297 CAATCATTTTACCCTATCAG-GGTAT-TT
1 CAGTCATTTTACCCTAT-AGAGGTATATT
** *
31852324 TGGTCATTTTACCATAT-GAGGGTA-ATT
1 CAGTCATTTTACCCTATAGA-GGTATATT
* * *
31852351 CAATCATTTTATCCTAT-GGGGTA-ATT
1 CAGTCATTTTACCCTATAGAGGTATATT
31852377 C-GATCATTTTACCCTAT-GAGGGTA-ATT
1 CAG-TCATTTTACCCTATAGA-GGTATATT
* * *
31852404 C-GATCATTTTAGCCTATGGGGGTA-ATT
1 CAG-TCATTTTACCCTATAGAGGTATATT
*
31852431 CAGTCATTTTACCCTAT-GGGGTA-ATT
1 CAGTCATTTTACCCTATAGAGGTATATT
* *
31852457 C-GATCATTTTACCCTATGGGGGTAT-TT
1 CAG-TCATTTTACCCTATAGAGGTATATT
* * * *
31852484 CGGTCATTCTATCCTGT-GAGGGTAT-TT
1 CAGTCATTTTACCCTATAGA-GGTATATT
* * *
31852511 C-GATCATTCTACCCTGT-G-GGGATATTT
1 CAG-TCATTTTACCCTATAGAGGTATA-TT
* *
31852538 CAGTCATTCTACCCTATA-AGACTAT-TT
1 CAGTCATTTTACCCTATAGAG-GTATATT
*
31852565 CAGCCATTTTACC
1 CAGTCATTTTACC
31852578 TATTTTGAGG
Statistics
Matches: 279, Mismatches: 33, Indels: 46
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.02
26 50 0.18
27 213 0.76
28 8 0.03
29 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (28 bp):
CAGTCATTTTACCCTATAGAGGTATATT
Found at i:31852427 original size:80 final size:79
Alignment explanation
Indices: 31852219--31852554 Score: 363
Period size: 80 Copynumber: 4.2 Consensus size: 79
31852209 GGTATAACAG
***
31852219 TCATTTTACCCTAT-AGAGGTAATTC-AGTCATTTTACCCTATGAGGGTAATTTGGTCATTTTAC
1 TCATTTTACCCTATGAG-GGTAATTCGA-TCATTTTA-CCTATGAGGGTAATTCAATCATTTTAC
* *
31852282 CCTATAGGGGTATTTCAA
63 CCTAT-GGGGTAATTCGA
* * * * *
31852300 TCATTTTACCCTATCAGGGTATTTTGGTCATTTTACCATATGAGGGTAATTCAATCATTTTATCC
1 TCATTTTACCCTATGAGGGTAATTCGATCATTTTACC-TATGAGGGTAATTCAATCATTTTACCC
31852365 TATGGGGTAATTCGA
65 TATGGGGTAATTCGA
* *
31852380 TCATTTTACCCTATGAGGGTAATTCGATCATTTTAGCCTATGGGGGTAATTCAGTCATTTTACCC
1 TCATTTTACCCTATGAGGGTAATTCGATCATTTTA-CCTATGAGGGTAATTCAATCATTTTACCC
31852445 TATGGGGTAATTCGA
65 TATGGGGTAATTCGA
* * * * * * * *
31852460 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTATCCTGTGAGGGTATTTCGATCATTCTACCC
1 TCATTTTACCCTATGAGGGTAATTCGATCATTTTA-CCTATGAGGGTAATTCAATCATTTTACCC
* *
31852525 TGTGGGGATATTTC-A
65 TATGGGG-TAATTCGA
*
31852540 GTCATTCTACCCTAT
1 -TCATTTTACCCTAT
31852555 AAGACTATTT
Statistics
Matches: 219, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 143 0.65
81 74 0.34
82 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (79 bp):
TCATTTTACCCTATGAGGGTAATTCGATCATTTTACCTATGAGGGTAATTCAATCATTTTACCCT
ATGGGGTAATTCGA
Found at i:31852524 original size:54 final size:54
Alignment explanation
Indices: 31852218--31852554 Score: 389
Period size: 54 Copynumber: 6.3 Consensus size: 54
31852208 GGGTATAACA
*
31852218 GTCATTTTACCCTAT-AGAGGTAATTC-AGTCATTTTACCCTATGAGGGTAATTT-G
1 GTCATTTTACCCTATGAG-GGTAATTCGA-TCATTTTACCCTATGGGGGT-ATTTCG
* * ** *
31852272 GTCATTTTACCCTAT-AGGGGTATTTCAATCATTTTACCCTATCAGGGTATTTTG
1 GTCATTTTACCCTATGA-GGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
* * * *
31852326 GTCATTTTACCATATGAGGGTAATTCAATCATTTTATCCTAT-GGGGTAATTCG
1 GTCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
* * * *
31852379 ATCATTTTACCCTATGAGGGTAATTCGATCATTTTAGCCTATGGGGGTAATTCA
1 GTCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
31852433 GTCATTTTACCCTATG-GGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * * * * *
31852486 GTCATTCTATCCTGTGAGGGTATTTCGATCATTCTACCCTGTGGGGATATTTCA
1 GTCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
*
31852540 GTCATTCTACCCTAT
1 GTCATTTTACCCTAT
31852555 AAGACTATTT
Statistics
Matches: 250, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
53 97 0.39
54 150 0.60
55 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.39
Consensus pattern (54 bp):
GTCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:31854402 original size:23 final size:23
Alignment explanation
Indices: 31854374--31854418 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
31854364 TTCATATAAA
*
31854374 CATTTAATACCAAATATTCATCC
1 CATTTAATACCAAATATACATCC
*
31854397 CATTTAATACCAATTATACATC
1 CATTTAATACCAAATATACATC
31854419 AACACTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (23 bp):
CATTTAATACCAAATATACATCC
Found at i:31862088 original size:5 final size:5
Alignment explanation
Indices: 31862078--31862107 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
31862068 ATACTCTGTG
31862078 ATTTT ATTTT ATTTT ATTTT ATTTAT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTT-T ATTT
31862108 GTTAAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:31863513 original size:21 final size:21
Alignment explanation
Indices: 31863489--31863557 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
31863479 CGAAAAAACG
31863489 GAAGTTGAT-GCTGCAGAAGAA
1 GAAGTTG-TCGCTGCAGAAGAA
*
31863510 GAAGTTGTCGCTGCAGAATAA
1 GAAGTTGTCGCTGCAGAAGAA
* **
31863531 GAAGTTGTCACTAAAGAAGAA
1 GAAGTTGTCGCTGCAGAAGAA
31863552 GAAGTT
1 GAAGTT
31863558 ACTGAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (21 bp):
GAAGTTGTCGCTGCAGAAGAA
Found at i:31866180 original size:22 final size:23
Alignment explanation
Indices: 31866108--31866185 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
31866098 TAAACCACAC
* *
31866108 CAGTAAGCACCAAAGTGCTTTAA-
1 CAGTAGGCACCAAAGTG-TTGAAT
* *
31866131 CAGTAGTCACCATAATTGTTG-AT
1 CAGTAGGCACCA-AAGTGTTGAAT
31866154 CAGTAGGCACCAAAGTG-TGAAT
1 CAGTAGGCACCAAAGTGTTGAAT
31866176 CAGTAGGCAC
1 CAGTAGGCAC
31866186 TGTAGTGCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.04
22 17 0.37
23 23 0.50
24 4 0.09
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (23 bp):
CAGTAGGCACCAAAGTGTTGAAT
Found at i:31866192 original size:22 final size:22
Alignment explanation
Indices: 31866152--31866234 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
31866142 ATAATTGTTG
* * *
31866152 ATCAGTAGGCACCAAAGTGTGA
1 ATCAGTAGGCACTATAGTGCGA
* *
31866174 ATCAGTAGGCACTGTAGTGCAA
1 ATCAGTAGGCACTATAGTGCGA
* * *
31866196 ATAAGTATGCACTATATTGCGA
1 ATCAGTAGGCACTATAGTGCGA
31866218 ATCAGTAGGCACTATAG
1 ATCAGTAGGCACTATAG
31866235 CGCAAATCCC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
ATCAGTAGGCACTATAGTGCGA
Found at i:31866718 original size:20 final size:21
Alignment explanation
Indices: 31866674--31866719 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
31866664 CAATTTTTCT
*
31866674 GCATTACTGGTAGCTTGTCTA
1 GCATTACCGGTAGCTTGTCTA
31866695 -CATTACCGGTAGCTTGTC-A
1 GCATTACCGGTAGCTTGTCTA
31866714 GCATTA
1 GCATTA
31866720 ATGGATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (21 bp):
GCATTACCGGTAGCTTGTCTA
Found at i:31879924 original size:12 final size:13
Alignment explanation
Indices: 31879906--31879955 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 13
31879896 TAGCTCTCTC
*
31879906 TTTTTTTTCACAAT
1 TTTTTTTTCA-AAA
31879920 TTTTTTTTCAAAA
1 TTTTTTTTCAAAA
31879933 TTTTTTTTTTCAAAA
1 --TTTTTTTTCAAAA
31879948 TTTTTTTT
1 TTTTTTTT
31879956 TCACAACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
13 10 0.30
14 10 0.30
15 13 0.39
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTTTCAAAA
Found at i:31879925 original size:14 final size:14
Alignment explanation
Indices: 31879906--31879958 Score: 88
Period size: 14 Copynumber: 3.7 Consensus size: 14
31879896 TAGCTCTCTC
*
31879906 TTTTTTTTCACAAT
1 TTTTTTTTCAAAAT
31879920 TTTTTTTTCAAAATT
1 TTTTTTTTCAAAA-T
31879935 TTTTTTTTCAAAAT
1 TTTTTTTTCAAAAT
31879949 TTTTTTTTCA
1 TTTTTTTTCA
31879959 CAACTTGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
14 23 0.62
15 14 0.38
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTTTCAAAAT
Found at i:31880016 original size:12 final size:12
Alignment explanation
Indices: 31879999--31880043 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
31879989 TGGAAACTAG
31879999 TTTTTTTTCGAA
1 TTTTTTTTCGAA
31880011 TTTTTTTT-GAAA
1 TTTTTTTTCG-AA
*
31880023 TTTTTTTTTCGAG
1 -TTTTTTTTCGAA
31880036 TTTTTTTT
1 TTTTTTTT
31880044 TCGAGAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 18 0.62
13 9 0.31
14 1 0.03
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:31880017 original size:13 final size:13
Alignment explanation
Indices: 31879999--31880047 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
31879989 TGGAAACTAG
31879999 TTTTTTTTCGAA-
1 TTTTTTTTCGAAT
31880011 TTTTTTTT-GAAAT
1 TTTTTTTTCG-AAT
*
31880024 TTTTTTTTCGAGT
1 TTTTTTTTCGAAT
31880037 TTTTTTTTCGA
1 TTTTTTTTCGA
31880048 GAAACTACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 1 0.03
12 10 0.30
13 21 0.64
14 1 0.03
ACGTcount: A:0.14, C:0.06, G:0.10, T:0.69
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:31890833 original size:87 final size:87
Alignment explanation
Indices: 31890663--31890826 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 87
31890653 TGATTAAACT
* * * * * *
31890663 TAATCACTTTAATATTAAATTAATATAGTATTTATCAAGATAAATATTATATTAAATTTCATATT
1 TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
31890728 AAATCTTATTAAAATATTAAGA
66 AAATCTTATTAAAATATTAAGA
* *
31890750 TAATCACTTTAATATGAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
31890814 AAA-C-TATTAAAAT
66 AAATCTTATTAAAAT
31890827 TATATTACTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 9 0.13
85 1 0.01
86 32 0.46
87 27 0.39
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (87 bp):
TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
AAATCTTATTAAAATATTAAGA
Found at i:31891952 original size:50 final size:49
Alignment explanation
Indices: 31891899--31892247 Score: 145
Period size: 50 Copynumber: 7.0 Consensus size: 49
31891889 CCTATCTCTT
* *
31891899 TGGCATTACATTGCAATAGATTGAAGCCACAATGGCGAATCTTACTTCCT
1 TGGCATT-CATTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * * * * * * **
31891949 TGGCGATGT-AGTGGAACAGATTGAAGCTACGATGACGGATCTTGTTTCCC
1 TGGC-AT-TCATTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * *
31891999 CGACATTGCAGTT-AAATAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 TGGCATT-CA-TTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * * ** ** * * **
31892049 TGGCGGTGT-AGTGGAATAGATTGAAGGTATGACGACGAATCTTGTTTCCC
1 TGGC-AT-TCATTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * *
31892099 CGACATTGCAGTT-AAATAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 TGGCATT-CA-TTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * * * * * * **
31892149 TAGTG-GTGT-AGTGGAACAGATTGAAGCTACAACGGCAAATCTTGTTTCCC
1 T-G-GCAT-TCATTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
* * * **
31892199 CGACATTGCAGTT-AAATAGATTGAAGCCACAACGGTAAATCTTACTTCC
1 TGGCATT-CA-TTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCC
31892248 TTGGAAGTGT
Statistics
Matches: 214, Mismatches: 66, Indels: 38
0.67 0.21 0.12
Matches are distributed among these distances:
48 3 0.01
49 7 0.03
50 193 0.90
51 8 0.04
52 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (49 bp):
TGGCATTCATTGAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCC
Found at i:31892029 original size:100 final size:100
Alignment explanation
Indices: 31891913--31892424 Score: 700
Period size: 100 Copynumber: 5.1 Consensus size: 100
31891903 ATTACATTGC
* * *
31891913 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCTTGGCGATGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
31891978 CGATGACGGATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
31892013 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGGTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31892078 TGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
31892113 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31892178 CAACGGCAAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
** * ** * *
31892213 AATAGATTGAAGCCACAACGGTAAATCTTACTTCCTTGGAAGTGTAGTAGAACAAATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
31892278 CGACGGTGAATCTTCTTTCCCCGACATTGAAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** * * * *
31892313 AATAGATTAAAGCTACAATAGCAAATCTTACTTCCCTGGCGGTGCAGAGGAACAGATTGCAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31892378 CGACGGTGAATCTTGTTTCCCCAACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
31892413 AACAGATCGAAG
1 AATAGATTGAAG
31892425 ATGGCGAATC
Statistics
Matches: 364, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 364 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:31892326 original size:50 final size:50
Alignment explanation
Indices: 31891966--31892424 Score: 268
Period size: 50 Copynumber: 9.2 Consensus size: 50
31891956 GTAGTGGAAC
* * * * *
31891966 AGATTGAAGCTACGATGACGGATCTTGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
* * * ** * **
31892016 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCCGACATTGCAGTTAAAT
* ** * *
31892066 AGATTGAAGGTATGACGACGAATCTTGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
* * * * ** *
31892116 AGATTGAAGCCACAACGGCGAATCTTAC-TT-CCCTA-GTGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCCGACAT--TGCAGTTAAAT
* *
31892166 AGATTGAAGCTACAACGGCAAATCTTGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
* ** ** * * *
31892216 AGATTGAAGCCACAACGGTAAATCTTAC-TTCCTTGGA-AGTGTAG-TAGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTTCC-CCGACATTGCAGTTA-AAT
* * * *
31892266 AAATTGAAGCTACGACGGTGAATCTTCTTTCCCCGACATTGAAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
* ** * * * ** *** *
31892316 AGATTAAAGCTACAATAGCAAATCTTAC-TTCCCTGGCGGTGCAGAGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCCGACATTGCAGTTAAAT
* * * * * *
31892366 AGATTGCAGCTACGACGGTGAATCTTGTTTCCCCAACATTGCAGTTAAAC
1 AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
*
31892416 AGATCGAAG
1 AGATTGAAG
31892425 ATGGCGAATC
Statistics
Matches: 295, Mismatches: 98, Indels: 32
0.69 0.23 0.08
Matches are distributed among these distances:
48 1 0.00
49 9 0.03
50 275 0.93
51 9 0.03
52 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTCTTTCCCCGACATTGCAGTTAAAT
Found at i:31894152 original size:27 final size:27
Alignment explanation
Indices: 31894122--31894174 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
31894112 ATATTTTTAA
*
31894122 TATTGTTATATTGT-ATCATTATTATTG
1 TATTATTATATTGTAAT-ATTATTATTG
* *
31894149 TATTATTATTTTTTAATATTATTATT
1 TATTATTATATTGTAATATTATTATT
31894175 ATAACCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (27 bp):
TATTATTATATTGTAATATTATTATTG
Found at i:31899264 original size:8 final size:8
Alignment explanation
Indices: 31899245--31899292 Score: 50
Period size: 7 Copynumber: 6.2 Consensus size: 8
31899235 TAAAAAAATG
31899245 AAATGAAAA
1 AAATG-AAA
31899254 AAATGAAA
1 AAATGAAA
31899262 AAATG--A
1 AAATGAAA
31899268 AAATG-AA
1 AAATGAAA
31899275 AAAT-AAA
1 AAATGAAA
31899282 AAATGGAAA
1 AAAT-GAAA
31899291 AA
1 AA
31899293 GTAAAATTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.17
7 11 0.31
8 8 0.23
9 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:31899284 original size:14 final size:13
Alignment explanation
Indices: 31899236--31899292 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 13
31899226 TTTGAGTCGT
*
31899236 AAAAAAATGAAATG
1 AAAAAAATGAAA-A
31899250 AAAAAAATGAAAA
1 AAAAAAATGAAAA
*
31899263 AATGAAAATGAAAA
1 AA-AAAAATGAAAA
31899277 ATAAAAAATGGAAAA
1 A-AAAAAAT-GAAAA
31899292 A
1 A
31899293 GTAAAATTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.05
14 28 0.76
15 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAAAAATGAAAA
Found at i:31899284 original size:22 final size:20
Alignment explanation
Indices: 31899236--31899284 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
31899226 TTTGAGTCGT
31899236 AAAAAAATGAAATGAAAAAA
1 AAAAAAATGAAATGAAAAAA
*
31899256 ATGAAAAAATGAAAATGAAAAAT
1 A--AAAAAATG-AAATGAAAAAA
31899279 AAAAAA
1 AAAAAA
31899285 TGGAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.20
22 8 0.32
23 11 0.44
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAAAATGAAATGAAAAAA
Found at i:31899298 original size:21 final size:21
Alignment explanation
Indices: 31899237--31899299 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
31899227 TTGAGTCGTA
31899237 AAAAAATGAAATGAA-AAAAATG
1 AAAAAATGAAA--AAGAAAAATG
*
31899259 AAAAAATGAAAATGAAAAAT-
1 AAAAAATGAAAAAGAAAAATG
*
31899279 AAAAAATGGAAAAAGTAAAAT
1 AAAAAAT-GAAAAAGAAAAAT
31899300 TGGAAAGGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 11 0.31
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (21 bp):
AAAAAATGAAAAAGAAAAATG
Found at i:31900875 original size:50 final size:50
Alignment explanation
Indices: 31900813--31901532 Score: 327
Period size: 50 Copynumber: 14.2 Consensus size: 50
31900803 CCTATCTCTT
* *
31900813 TGGCATT-AAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * * **
31900862 TGGCAATGTAGTGGAATAGATTGAAGCTACGACGGTGGATCATGTTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
*** * ** * * * * *
31900912 CAACATTGCAGTTAAATAAATTGAAGCCATAACGGTGAACCTTACTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * * * **
31900962 TAGCGA-TGTAGTGGAACAGATTAAAGCTACGATGG-TAGATCTTGTTTCCC
1 TGGC-ATTGTAGTGGAATAGATTGAAGCTACAACGGCGA-ATCTTACTTCCC
* * * ** * *
31901012 CGACATTGCAGTTAAATAGATTGAACCCACAACGGCGAATCTTACTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * ** *
31901062 TGGCAGTGTAGTGGAACAGATTGAAGCTATGACGGCGAATCTT-GTTCCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTT-CCC
* * ** * * * *
31901112 CGACATTGTAGTTAAATAGATTGAACCCACAATGGTGAATCTTACTTCCCTTACTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCG-A----A--T--CTTACTTCCC
* * * * * * **
31901171 TGGCAGTGTGGTGGAACAAATTGAAGCTACGACGACGAATCTTGTTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
*** * ** * * *
31901221 CAACATTGCAGTTAAATAGATTGAACCCACAACGGCGAATCTTACTTCTC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
** * * * * * * **
31901271 TGGCGGTGTAATGGAACAAATTAAAGCTACGACGGCAAATCTTGTTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * ** * * *
31901321 CGACATTGCAGTTAAATAGATTGGAGCCACAACGGCGAATCATACTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
** * * * *
31901371 TGGCGGTGTAATGGAACAGATTGAAGCTACGACAGCGAATCTT-CTTTCCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTAC-TTCCC
* * * ** ** * *
31901421 CGACATTGAAGTTAAATAGATTGAAGCTACAATAGCAAATCTTACTTCAC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * * *
31901471 TGGCAGTGCAGTGGAACAGATTGAAGCTACGACGGTGAATCTTA-TTTCC
1 TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
*
31901520 TCGACATTGTAGT
1 T-GGCATTGTAGT
31901533 TAAACAAATT
Statistics
Matches: 457, Mismatches: 195, Indels: 37
0.66 0.28 0.05
Matches are distributed among these distances:
49 15 0.03
50 402 0.88
51 4 0.01
52 1 0.00
54 1 0.00
55 1 0.00
57 1 0.00
58 1 0.00
59 29 0.06
60 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (50 bp):
TGGCATTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
Found at i:31900971 original size:100 final size:100
Alignment explanation
Indices: 31900826--31901546 Score: 838
Period size: 100 Copynumber: 7.1 Consensus size: 100
31900816 CATTAAGTGG
* *
31900826 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
* * * *
31900891 CGACGGTGGATCATGTTTCCCCAACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
31900926 AATAAATTGAAGCCATAACGGTGAACCTTACTTCCCTAGCGATGTAGTGGAACAGATTAAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
* *
31900991 CGATGG-TAGATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGA-ATCTTGTTTCCCCGACATTGCAGTTA
*
31901026 AATAGATTGAACCCACAACGGCGAATCTTACTTCCCTGGC-AGTGTAGTGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGTAGTGGAACAGATTGAAGCT
* * *
31901090 ATGACGGCGAATCTTGTTCCCCCGACATTGTAGTTA
65 ACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
31901126 AATAGATTGAACCCACAATGGTGAATCTTACTTCCCTTACTTCCCTGGC-AGTGTGGTGGAACAA
1 AATAGATTGAAGCCACAACGGCG-A----A--T--CTTACTTCCCTGGCGA-TGTAGTGGAACAG
* *
31901190 ATTGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGCAGTTA
56 ATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
31901235 AATAGATTGAACCCACAACGGCGAATCTTACTTCTCTGGCGGTGTAATGGAACAAATTAAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
*
31901300 CGACGGCAAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
31901335 AATAGATTGGAGCCACAACGGCGAATCATACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
* * *
31901400 CGACAGCGAATCTTCTTTCCCCGACATTGAAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* ** * * *
31901435 AATAGATTGAAGCTACAATAGCAAATCTTACTTCACTGGC-AGTGCAGTGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGTAGTGGAACAGATTGAAGCT
* * * *
31901499 ACGACGGTGAATCTTATTTCCTCGACATTGTAGTTA
65 ACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
31901535 AACAAATTGAAG
1 AATAGATTGAAG
31901547 ATGGTGAATC
Statistics
Matches: 536, Mismatches: 71, Indels: 28
0.84 0.11 0.04
Matches are distributed among these distances:
99 1 0.00
100 440 0.82
101 2 0.00
102 1 0.00
104 1 0.00
105 1 0.00
107 1 0.00
108 1 0.00
109 88 0.16
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:31901411 original size:309 final size:309
Alignment explanation
Indices: 31900852--31901468 Score: 910
Period size: 309 Copynumber: 2.0 Consensus size: 309
31900842 AACGGCGAAT
* * ** *
31900852 CTTACTTCCCTGGCAATGTAGTGGAATAGATTGAAGCTACGACGGTGGATCATGTTTCCCCAACA
1 CTTACTTCCCTGGCAATGTAGTGGAACAAATTGAAGCTACGACGACGAATCATGTTTCCCCAACA
* * * * *
31900917 TTGCAGTTAAATAAATTGAAGCCATAACGGTGAACCTTACTTCCCTAGCGATGTAGTGGAACAGA
66 TTGCAGTTAAATAAATTGAACCCACAACGGCGAACCTTACTTCCCTAGCGATGTAATGGAACAAA
* * *
31900982 TTAAAGCTACGATGGTAGATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGG
131 TTAAAGCTACGACGGCAAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGG
* * * * *
31901047 CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTATGACGGCGAATCTTGTTCCCC
196 CGAATCATACTTCCCTGGCAGTGTAATGGAACAGATTGAAGCTACGACAGCGAATCTTCTTCCCC
* * **
31901112 CGACATTGTAGTTAAATAGATTGAACCCACAATGGTGAATCTTACTTCC
261 CGACATTGAAGTTAAATAGATTGAACCCACAATAGCAAATCTTACTTCC
* * *
31901161 CTTACTTCCCTGGCAGTGTGGTGGAACAAATTGAAGCTACGACGACGAATCTTGTTTCCCCAACA
1 CTTACTTCCCTGGCAATGTAGTGGAACAAATTGAAGCTACGACGACGAATCATGTTTCCCCAACA
* * * * *
31901226 TTGCAGTTAAATAGATTGAACCCACAACGGCGAATCTTACTTCTCTGGCGGTGTAATGGAACAAA
66 TTGCAGTTAAATAAATTGAACCCACAACGGCGAACCTTACTTCCCTAGCGATGTAATGGAACAAA
* *
31901291 TTAAAGCTACGACGGCAAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGGAGCCACAACGG
131 TTAAAGCTACGACGGCAAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGG
* *
31901356 CGAATCATACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGACAGCGAATCTTCTTTCCC
196 CGAATCATACTTCCCTGGCAGTGTAATGGAACAGATTGAAGCTACGACAGCGAATCTTCTTCCCC
* *
31901421 CGACATTGAAGTTAAATAGATTGAAGCTACAATAGCAAATCTTACTTC
261 CGACATTGAAGTTAAATAGATTGAACCCACAATAGCAAATCTTACTTC
31901469 ACTGGCAGTG
Statistics
Matches: 272, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
309 272 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (309 bp):
CTTACTTCCCTGGCAATGTAGTGGAACAAATTGAAGCTACGACGACGAATCATGTTTCCCCAACA
TTGCAGTTAAATAAATTGAACCCACAACGGCGAACCTTACTTCCCTAGCGATGTAATGGAACAAA
TTAAAGCTACGACGGCAAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGG
CGAATCATACTTCCCTGGCAGTGTAATGGAACAGATTGAAGCTACGACAGCGAATCTTCTTCCCC
CGACATTGAAGTTAAATAGATTGAACCCACAATAGCAAATCTTACTTCC
Found at i:31901650 original size:44 final size:44
Alignment explanation
Indices: 31901553--31901674 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
31901543 GAAGATGGTG
* * * **
31901553 AATCTTATCTCCCTGAAGATGCAGCGGAGCAGATTGAGGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
* *
31901597 AACCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AT
* * *
31901641 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
31901675 CGCATCCAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 64 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
Found at i:31907572 original size:4 final size:4
Alignment explanation
Indices: 31907563--31907592 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
31907553 GTGAAATTAA
31907563 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
31907593 CGTTCAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:31909917 original size:8 final size:8
Alignment explanation
Indices: 31909904--31909949 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
31909894 TAATCTCTTT
31909904 ATTTTAAA
1 ATTTTAAA
31909912 ATTTTAAA
1 ATTTTAAA
*
31909920 ATTTCAAA
1 ATTTTAAA
*
31909928 ATTTCAAA
1 ATTTTAAA
*
31909936 ATTGTAAA
1 ATTTTAAA
31909944 ATTTTA
1 ATTTTA
31909950 GTACAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (8 bp):
ATTTTAAA
Found at i:31912922 original size:12 final size:12
Alignment explanation
Indices: 31912905--31912931 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31912895 GTATGATCCA
31912905 ATATTTTTTCAT
1 ATATTTTTTCAT
31912917 ATATTTTTTCAT
1 ATATTTTTTCAT
31912929 ATA
1 ATA
31912932 ATCAGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTTTTCAT
Found at i:31923302 original size:22 final size:24
Alignment explanation
Indices: 31923259--31923303 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
31923249 GCATACAGCA
*
31923259 TCTGGATTGAACCAGCATTTTTCT
1 TCTGGATTGAACCAGCACTTTTCT
*
31923283 TCTGGA-TG-ACCAGCCCTTTTC
1 TCTGGATTGAACCAGCACTTTTC
31923304 CAGTGCTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (24 bp):
TCTGGATTGAACCAGCACTTTTCT
Found at i:31945212 original size:26 final size:26
Alignment explanation
Indices: 31945183--31945232 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
31945173 CAGTGGTTAG
*
31945183 TTTGACCAATTGGTTCTATTAACTAA
1 TTTGACCAATTGATTCTATTAACTAA
31945209 TTTGACCAATTGATTCTATTAACT
1 TTTGACCAATTGATTCTATTAACT
31945233 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (26 bp):
TTTGACCAATTGATTCTATTAACTAA
Found at i:31945762 original size:31 final size:31
Alignment explanation
Indices: 31945714--31945779 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
31945704 AAGAAAGATA
31945714 CATGAGGCAAATGGAATAACTTTTGAGCAAG
1 CATGAGGCAAATGGAATAACTTTTGAGCAAG
* * *
31945745 CATGTGGCAAAAT-GAATAATTTTTTAGCAAG
1 CATGAGGC-AAATGGAATAACTTTTGAGCAAG
31945776 CATG
1 CATG
31945780 GTCAAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
CATGAGGCAAATGGAATAACTTTTGAGCAAG
Found at i:31946404 original size:65 final size:65
Alignment explanation
Indices: 31946323--31946449 Score: 245
Period size: 65 Copynumber: 2.0 Consensus size: 65
31946313 ATTGTGTGTC
*
31946323 CATGTTTCATAGTACATAAATATATATGTTTAGAGACTATCTTATAAGGAAAAAAATATAATATA
1 CATGTTTCATAGTACATAAATATACATGTTTAGAGACTATCTTATAAGGAAAAAAATATAATATA
31946388 CATGTTTCATAGTACATAAATATACATGTTTAGAGACTATCTTATAAGGAAAAAAATATAAT
1 CATGTTTCATAGTACATAAATATACATGTTTAGAGACTATCTTATAAGGAAAAAAATATAAT
31946450 CCCTAATAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (65 bp):
CATGTTTCATAGTACATAAATATACATGTTTAGAGACTATCTTATAAGGAAAAAAATATAATATA
Found at i:31956255 original size:13 final size:13
Alignment explanation
Indices: 31956237--31956266 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31956227 ATTATCCAAT
31956237 GATTGCAAGCAAG
1 GATTGCAAGCAAG
31956250 GATTGCAAGCAAG
1 GATTGCAAGCAAG
31956263 GATT
1 GATT
31956267 TGAAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (13 bp):
GATTGCAAGCAAG
Found at i:31964828 original size:12 final size:11
Alignment explanation
Indices: 31964811--31964852 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
31964801 GATTCTTGGA
31964811 AAAAAAATTTTG
1 AAAAAAA-TTTG
31964823 AAAAAAAATTTG
1 -AAAAAAATTTG
*
31964835 AAAAAAAATTG
1 AAAAAAATTTG
31964846 AAAAAAA
1 AAAAAAA
31964853 AAGACAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 17 0.61
12 4 0.14
13 7 0.25
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
AAAAAAATTTG
Found at i:31964854 original size:13 final size:12
Alignment explanation
Indices: 31964809--31964853 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
31964799 TAGATTCTTG
31964809 GAAAAAAAATTTT
1 GAAAAAAAA-TTT
31964822 GAAAAAAAATTT
1 GAAAAAAAATTT
31964834 GAAAAAAAA-TT
1 GAAAAAAAATTT
31964845 GAAAAAAAA
1 GAAAAAAAA
31964854 AGACAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.34
12 12 0.38
13 9 0.28
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (12 bp):
GAAAAAAAATTT
Found at i:31967094 original size:19 final size:19
Alignment explanation
Indices: 31967066--31967112 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
31967056 GCGAAAATAC
*
31967066 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATCAAA
*
31967086 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATCAAA
31967105 AAAAGAAA
1 AAAAGAAA
31967113 ATGAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:31974897 original size:26 final size:26
Alignment explanation
Indices: 31974849--31974899 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31974839 TCATTTGAAT
** *
31974849 GGTCTATGTAGTATGTTATCAATATG
1 GGTCTATGTAGTATGGAACCAATATG
*
31974875 GGTCTGTGTAGTATGGAACCAATAT
1 GGTCTATGTAGTATGGAACCAATAT
31974900 ATTGTTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (26 bp):
GGTCTATGTAGTATGGAACCAATATG
Found at i:31987781 original size:26 final size:27
Alignment explanation
Indices: 31987723--31987782 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
31987713 CTTGTAAAGG
31987723 ATGTTTGAGACTTACATTTGGATTTTA
1 ATGTTTGAGACTTACATTTGGATTTTA
* *
31987750 AT-TTTGAGATGTTATATTT-G-TTTTA
1 ATGTTTGAGA-CTTACATTTGGATTTTA
31987775 ATGTTTGA
1 ATGTTTGA
31987783 TTTTATGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 7 0.24
26 13 0.45
27 9 0.31
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
ATGTTTGAGACTTACATTTGGATTTTA
Found at i:32001305 original size:20 final size:20
Alignment explanation
Indices: 32001268--32001306 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32001258 TAAAAAGATA
* *
32001268 TATAATTATTCATCTAATAC
1 TATAACTATTCAACTAATAC
*
32001288 TATAACTATTCAAGTAATA
1 TATAACTATTCAACTAATA
32001307 TTGTTTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
TATAACTATTCAACTAATAC
Found at i:32007623 original size:27 final size:27
Alignment explanation
Indices: 32007593--32007654 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
32007583 GATCCAAAGT
** *
32007593 TTTATGTAAGTTATGGTATGATATATA
1 TTTATGTAAGTTATAATATGATACATA
*
32007620 TTTATGGAAGTTATAATATGATACATA
1 TTTATGTAAGTTATAATATGATACATA
32007647 TTTATGTA
1 TTTATGTA
32007655 TCATGTAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (27 bp):
TTTATGTAAGTTATAATATGATACATA
Found at i:32007671 original size:9 final size:9
Alignment explanation
Indices: 32007657--32007707 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
32007647 TTTATGTATC
32007657 ATGTAAGTT
1 ATGTAAGTT
32007666 ATGTAAGTT
1 ATGTAAGTT
* *
32007675 ATGATATGGT
1 ATG-TAAGTT
* *
32007685 ATAT-ATTT
1 ATGTAAGTT
32007693 ATGTAAGTT
1 ATGTAAGTT
32007702 ATGTAA
1 ATGTAA
32007708 ATTGATTATT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
8 4 0.12
9 22 0.69
10 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:32007957 original size:14 final size:14
Alignment explanation
Indices: 32007940--32007989 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
32007930 TAGCTAAATT
32007940 TAAAATTATAAAAA
1 TAAAATTATAAAAA
**
32007954 TAAAAAAATAAAAAA
1 TAAAATTAT-AAAAA
*
32007969 TAAAATGATAAAAA
1 TAAAATTATAAAAA
*
32007983 TATAATT
1 TAAAATT
32007990 TAACAGAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAAATTATAAAAA
Found at i:32007967 original size:15 final size:15
Alignment explanation
Indices: 32007949--32007987 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32007939 TTAAAATTAT
32007949 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
**
32007964 AAAAATAAAATGATA
1 AAAAATAAAAAAATA
32007979 AAAATATAA
1 AAAA-ATAA
32007988 TTTAACAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:32007982 original size:9 final size:8
Alignment explanation
Indices: 32007935--32007987 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
32007925 TATTTTAGCT
*
32007935 AAATTTAA
1 AAATATAA
*
32007943 AATTATAA
1 AAATATAA
32007951 AAATA-AA
1 AAATATAA
32007958 AAA-ATAA
1 AAATATAA
32007965 AAA-AT-A
1 AAATATAA
32007971 AAATGATAA
1 AAAT-ATAA
32007980 AAATATAA
1 AAATATAA
32007988 TTTAACAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.13
7 12 0.32
8 16 0.42
9 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
AAATATAA
Found at i:32010540 original size:18 final size:18
Alignment explanation
Indices: 32010513--32010565 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
32010503 TCGGGAAATC
32010513 AAAG-AAAGGGAATCGGG
1 AAAGAAAAGGGAATCGGG
*
32010530 AAAGAAAAGGGAATTGGG
1 AAAGAAAAGGGAATCGGG
32010548 AAAGAAAAGGGAATCGGG
1 AAAGAAAAGGGAATCGGG
32010566 GGAGAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 4 0.12
18 29 0.88
ACGTcount: A:0.49, C:0.04, G:0.40, T:0.08
Consensus pattern (18 bp):
AAAGAAAAGGGAATCGGG
Found at i:32011318 original size:7 final size:7
Alignment explanation
Indices: 32011300--32011456 Score: 50
Period size: 7 Copynumber: 22.3 Consensus size: 7
32011290 TTTTTTTCAT
32011300 AACCCTTA
1 AACCC-TA
32011308 AACCCTA
1 AACCCTA
*
32011315 AACCATA
1 AACCCTA
*
32011322 AACACTAA
1 AACCCT-A
32011330 AACCCTA
1 AACCCTA
**
32011337 AACTTTA
1 AACCCTA
*
32011344 AACAC--
1 AACCCTA
32011349 AACCCTA
1 AACCCTA
* ** *
32011356 ATCTATT
1 AACCCTA
*
32011363 AACCATA
1 AACCCTA
* *
32011370 TACCATA
1 AACCCTA
*
32011377 AACTCTAA
1 AACCCT-A
*
32011385 AACCATA
1 AACCCTA
32011392 AACCCTA
1 AACCCTA
*
32011399 AACACTA
1 AACCCTA
32011406 AATCCC-A
1 AA-CCCTA
****
32011413 AATAAAA
1 AACCCTA
* *
32011420 AATCATA
1 AACCCTA
32011427 AACCCTA
1 AACCCTA
*
32011434 AACCTTA
1 AACCCTA
*
32011441 ATCCCTA
1 AACCCTA
32011448 AACCCTA
1 AACCCTA
32011455 AA
1 AA
32011457 ATAAAATGAT
Statistics
Matches: 107, Mismatches: 36, Indels: 13
0.69 0.23 0.08
Matches are distributed among these distances:
5 4 0.04
7 85 0.79
8 18 0.17
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:32011335 original size:22 final size:22
Alignment explanation
Indices: 32011307--32011348 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32011297 CATAACCCTT
32011307 AAACCCTAAACCATAAACACTA
1 AAACCCTAAACCATAAACACTA
**
32011329 AAACCCTAAACTTTAAACAC
1 AAACCCTAAACCATAAACAC
32011349 AACCCTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACCCTAAACCATAAACACTA
Found at i:32011388 original size:22 final size:22
Alignment explanation
Indices: 32011363--32011407 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32011353 CTAATCTATT
* *
32011363 AACCATATACCATAAACTCTAA
1 AACCATAAACCATAAACACTAA
*
32011385 AACCATAAACCCTAAACACTAA
1 AACCATAAACCATAAACACTAA
32011407 A
1 A
32011408 TCCCAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCATAAACCATAAACACTAA
Found at i:32011391 original size:15 final size:15
Alignment explanation
Indices: 32011371--32011400 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32011361 TTAACCATAT
*
32011371 ACCATAAACTCTAAA
1 ACCATAAACCCTAAA
32011386 ACCATAAACCCTAAA
1 ACCATAAACCCTAAA
32011401 CACTAAATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCATAAACCCTAAA
Found at i:32011785 original size:149 final size:147
Alignment explanation
Indices: 32011493--32011772 Score: 343
Period size: 148 Copynumber: 1.9 Consensus size: 147
32011483 TCAAAAACGC
* * * *
32011493 CGCTATTGCTTACCTTTTGTGGCATTTTTCTCATAAACACCACTAATGCTTGACATTTTTACAAT
1 CGCTATTGCTTACCTTTTGCGACATTTTTCTCATAAACACCACTAATACTTAACATTTTTACAAT
*** * *
32011558 TTTTATATTGAATTATTATACAGGGAGCAAAACAACATCGTTTTGTTTAAAATAAAATGATTTTT
66 TTTTATATTGAATTATTATACAGGGAGCAAAAC-ACATCGCCATGTTTAAAATAAAAAGATATTT
*
32011623 TGCGGCGTTTAAAACCGT
130 TGCAGCGTTTAAAACCGT
* ** * * **
32011641 CGCTATTGTTTACCTTTTGCGATGTTTTTCTCATAAACGCTACTAATACTTAATTTTTTTTACAA
1 CGCTATTGCTTACCTTTTGCGACATTTTTCTCATAAACACCACTAATACTTAA-CATTTTTACAA
* *
32011706 TTTTTATATTGAATTATTATATAGGGAGCAAAAC-GAT-GCCAT-TTTAAAATAAAAAGA-ATTT
65 TTTTTATATTGAATTATTATACAGGGAGCAAAACACATCGCCATGTTTAAAATAAAAAGATATTT
32011767 TGCAGC
130 TGCAGC
32011773 ATTTCTGATA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
144 8 0.07
145 14 0.12
146 2 0.02
147 2 0.02
148 44 0.39
149 42 0.38
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (147 bp):
CGCTATTGCTTACCTTTTGCGACATTTTTCTCATAAACACCACTAATACTTAACATTTTTACAAT
TTTTATATTGAATTATTATACAGGGAGCAAAACACATCGCCATGTTTAAAATAAAAAGATATTTT
GCAGCGTTTAAAACCGT
Found at i:32014153 original size:41 final size:41
Alignment explanation
Indices: 32014108--32014214 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
32014098 AATTCGGCCA
* * *
32014108 AACATGTAGTAGCAGCATTAAATTCATCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCATCCAGACACATTTAT
32014149 AACATGTAGTGGCAGCATTAAATTCATCCAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCATCCAGACACATTTAT
32014190 AACATGTAGTGGCAGCATTAAATTC
1 AACATGTAGTGGCAGCATTAAATTC
32014215 GACATATTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCATCCAGACACATTTAT
Found at i:32020139 original size:23 final size:23
Alignment explanation
Indices: 32020111--32020156 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
32020101 CGGTTTGGCA
32020111 CATAGCCCACGACACGGCTGTGT
1 CATAGCCCACGACACGGCTGTGT
32020134 CATAGCCCACGACACGGCTGTGT
1 CATAGCCCACGACACGGCTGTGT
32020157 AGCCCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (23 bp):
CATAGCCCACGACACGGCTGTGT
Found at i:32023939 original size:24 final size:24
Alignment explanation
Indices: 32023907--32023953 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
32023897 ATTATACCCT
32023907 CCATCGAATTCCTACCTTAATTGC
1 CCATCGAATTCCTACCTTAATTGC
32023931 CCATCGAATTCCTACCTTAATTG
1 CCATCGAATTCCTACCTTAATTG
32023954 GTCCCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (24 bp):
CCATCGAATTCCTACCTTAATTGC
Found at i:32027098 original size:10 final size:10
Alignment explanation
Indices: 32027083--32027108 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32027073 TAAAAACATA
32027083 AAAATCGAAC
1 AAAATCGAAC
32027093 AAAATCGAAC
1 AAAATCGAAC
32027103 AAAATC
1 AAAATC
32027109 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:32027243 original size:23 final size:23
Alignment explanation
Indices: 32027216--32027261 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
32027206 TAATTTGTTA
32027216 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
32027239 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
32027262 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:32032764 original size:16 final size:16
Alignment explanation
Indices: 32032743--32032773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32032733 AGTAAGCTAT
*
32032743 TAAAGCTTAGCAAATC
1 TAAAGCTTAACAAATC
32032759 TAAAGCTTAACAAAT
1 TAAAGCTTAACAAAT
32032774 TATATAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
TAAAGCTTAACAAATC
Found at i:32035063 original size:10 final size:10
Alignment explanation
Indices: 32035048--32035073 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32035038 TAAAAACATA
32035048 AAAATCGAAC
1 AAAATCGAAC
32035058 AAAATCGAAC
1 AAAATCGAAC
32035068 AAAATC
1 AAAATC
32035074 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:32035208 original size:23 final size:23
Alignment explanation
Indices: 32035181--32035226 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
32035171 TAATTTGTTA
32035181 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
32035204 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
32035227 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:32035239 original size:2 final size:2
Alignment explanation
Indices: 32035232--32035265 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
32035222 ACCTTTACTA
*
32035232 AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32035266 ATAAGGTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:32035769 original size:22 final size:22
Alignment explanation
Indices: 32035739--32035781 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
32035729 ACACCAAAAC
*
32035739 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
32035761 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
32035782 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:32035908 original size:43 final size:43
Alignment explanation
Indices: 32035845--32036154 Score: 333
Period size: 43 Copynumber: 7.3 Consensus size: 43
32035835 TGTTGTCAAT
* ** * * *
32035845 GCCGCTATAGATTATAACCTTTAGCGACGCTTTTCCCAAAAAT
1 GCCGCTATAGATAAGGACCTTTAGCGGCGCTTTTCCCACAAAC
*
32035888 GCCGCTATAGATAAGGACCTTTAGTGGCGCATTTT-CCACAAAC
1 GCCGCTATAGATAAGGACCTTTAGCGGCGC-TTTTCCCACAAAC
* * * *
32035931 GCCGCTATAGATCA-GACCTTTAGCGGCACTTTT-ACATAAAC
1 GCCGCTATAGATAAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32035972 GCTGCTGTAGATCAA-GACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGAT-AAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
32036015 ACCGATATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGATAAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32036058 GCCGCTATAGCTCAAGG-CCTTTAGCGGCGCTTATCCCACAAAC
1 GCCGCTATAGAT-AAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * ** *
32036101 GCCACCATAGCTCGGGACCTTTAGCGGTGCTTTTCCCACAAAC
1 GCCGCTATAGATAAGGACCTTTAGCGGCGCTTTTCCCACAAAC
32036144 GCCGCTATAGA
1 GCCGCTATAGA
32036155 ACAAACTTTT
Statistics
Matches: 223, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
41 20 0.09
42 35 0.16
43 162 0.73
44 6 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
GCCGCTATAGATAAGGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:32037933 original size:46 final size:46
Alignment explanation
Indices: 32037881--32038111 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
32037871 TGGCAAAGTG
32037881 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
*
32037927 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATATTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
* *
32037973 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCACACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
** *
32038019 TGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
* *
32038065 TGAAAAGTAGGTATGGTATTTCAAG-GAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTC-GGTGAAGAAAACCATACTGAGTTA
32038111 T
1 T
32038112 AACAATGTGA
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 173 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
Found at i:32045664 original size:46 final size:46
Alignment explanation
Indices: 32045592--32045822 Score: 347
Period size: 46 Copynumber: 5.0 Consensus size: 46
32045582 TGGCAAAGTG
*
32045592 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACTATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
*
32045638 TGAAAAGTAGGTATGGTGTTTTGGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
* *
32045684 TGAAAAGTAGGTACGGTGTTTCGGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
** * *
32045730 TGAAAAGTAGGTATGGTGTTTCAATGAAGAAAGCCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
* * *
32045776 TGAAAAGTAGGTATGGTATTTCAAG-GAAGAAAACCATATTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTC-GGTGAAGAAAACCATACTGAGTTA
32045822 T
1 T
32045823 AGCAATGTGA
Statistics
Matches: 170, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 169 0.99
47 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
Found at i:32048606 original size:20 final size:20
Alignment explanation
Indices: 32048581--32048620 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32048571 TTAGAATTTA
32048581 AAATAATAAATTAATAACAC
1 AAATAATAAATTAATAACAC
32048601 AAATAATAAATTAATAACAC
1 AAATAATAAATTAATAACAC
32048621 GTACTTGCAA
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:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATAATAAATTAATAACAC
Found at i:32049217 original size:39 final size:39
Alignment explanation
Indices: 32049168--32049245 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
32049158 AGCACTGGCA
* *
32049168 ATCATTGAATTTATACCAAAGGCCTATCCATCATAACAT
1 ATCATAGAATTTATACCAAAGGCCCATCCATCATAACAT
* *
32049207 ATCATAGAATTTATACCATAGGCCCATGCATCATAACAT
1 ATCATAGAATTTATACCAAAGGCCCATCCATCATAACAT
32049246 GTTTGCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.29
Consensus pattern (39 bp):
ATCATAGAATTTATACCAAAGGCCCATCCATCATAACAT
Found at i:32050690 original size:28 final size:31
Alignment explanation
Indices: 32050636--32050693 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
32050626 TAAACTAATA
*
32050636 TTTAAATATATCAAATACTTTAGATTAATTTT
1 TTTAAATATATAAAATAC-TTAGATTAATTTT
32050668 TTTAAATATA-AAAATA-TTA-ATTAATT
1 TTTAAATATATAAAATACTTAGATTAATT
32050694 GTATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 3 0.12
31 5 0.20
32 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TTTAAATATATAAAATACTTAGATTAATTTT
Found at i:32050864 original size:204 final size:205
Alignment explanation
Indices: 32050514--32050920 Score: 746
Period size: 204 Copynumber: 2.0 Consensus size: 205
32050504 AAATCATTTT
*
32050514 TTTTTGTATTTTAATTTTATTTCTTATAATTTGGTCCTCTCCAAAATAAATAATTATACCTAAAT
1 TTTTTGTATTTTAATTTTATTTCTTATAATTTGATCCTCTCCAAAATAAATAATTATACCTAAAT
32050579 ATCCATATGAATCTATTACTTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAATA
66 ATCCATATGAATCTATTACTTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAATA
* *
32050644 TATCAAATACTTTAGATTAA-TTTTTTTAAATATAAAAATATTAATTAATTGTATAAAATTTTAT
131 TATCAAATACTTTAGATTAATTTTTTTTAAATATAAAAACATTAATTAATTGTATAAAATTTAAT
32050708 CATTTAACTA
196 CATTTAACTA
32050718 TTTTTGTATTTTAATTTTATTTCTTATAATTTGATCCTCTCCAAAAATAAATAATTATACCTAAA
1 TTTTTGTATTTTAATTTTATTTCTTATAATTTGATCCTCTCC-AAAATAAATAATTATACCTAAA
32050783 TATCCATATGAATCTATTA-TTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
65 TATCCATATGAATCTATTACTTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
**
32050847 ATATCAAATGGTTTAGATTAATTTTTTTTAAATATAAAAACATTAATTAATTGTATAAAATTTAA
130 ATATCAAATACTTTAGATTAATTTTTTTTAAATATAAAAACATTAATTAATTGTATAAAATTTAA
32050912 TCATTTAAC
195 TCATTTAAC
32050921 CAATCTTAAG
Statistics
Matches: 196, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
204 105 0.54
205 91 0.46
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (205 bp):
TTTTTGTATTTTAATTTTATTTCTTATAATTTGATCCTCTCCAAAATAAATAATTATACCTAAAT
ATCCATATGAATCTATTACTTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAATA
TATCAAATACTTTAGATTAATTTTTTTTAAATATAAAAACATTAATTAATTGTATAAAATTTAAT
CATTTAACTA
Done.