Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
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: 1720799
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1355910 original size:20 final size:20
Alignment explanation
Indices: 1355843--1355907 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
1355833 AAACTGAGTT
*
1355843 GCGAAATTGGAAATCGCAAC
1 GCGAATTTGGAAATCGCAAC
1355863 GCGAATTTGGAAATCGCAAC
1 GCGAATTTGGAAATCGCAAC
*
1355883 TCGAATTTGGAAAATCGCAAC
1 GCGAATTTGG-AAATCGCAAC
1355904 GCGA
1 GCGA
1355908 TTTACATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 28 0.68
21 13 0.32
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
GCGAATTTGGAAATCGCAAC
Found at i:1356623 original size:13 final size:13
Alignment explanation
Indices: 1356605--1356635 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1356595 GGTGTTAAAA
1356605 AATCGTAACCAAT
1 AATCGTAACCAAT
*
1356618 AATCGTAACCATT
1 AATCGTAACCAAT
1356631 AATCG
1 AATCG
1356636 ATATAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (13 bp):
AATCGTAACCAAT
Found at i:1356859 original size:2 final size:2
Alignment explanation
Indices: 1356852--1356899 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1356842 ATTATTTCTA
1356852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1356894 AT AT AT
1 AT AT AT
1356900 TATTTTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1359287 original size:20 final size:20
Alignment explanation
Indices: 1359258--1359295 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1359248 ATTATTGTTC
*
1359258 AAACAATATCGGTACTATAT
1 AAACAATATCAGTACTATAT
*
1359278 AAACAGTATCAGTACTAT
1 AAACAATATCAGTACTAT
1359296 TTATACATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (20 bp):
AAACAATATCAGTACTATAT
Found at i:1359557 original size:21 final size:19
Alignment explanation
Indices: 1359533--1359589 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
1359523 ATTTTTAATG
1359533 AAAAAGATATCAATTGTTTA
1 AAAAAGATA-CAATTGTTTA
*
1359553 CAAAAGGATACAAATTG-TTA
1 -AAAAAGATAC-AATTGTTTA
1359573 AAAAA-ATACCAATTGTT
1 AAAAAGATA-CAATTGTT
1359590 GGAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 4 0.13
21 13 0.42
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAAAGATACAATTGTTTA
Found at i:1360952 original size:18 final size:18
Alignment explanation
Indices: 1360929--1360971 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1360919 TTTGACTACT
1360929 TCATCTTCATCAATGGAA
1 TCATCTTCATCAATGGAA
*
1360947 TCATCTTCATCATTGGAA
1 TCATCTTCATCAATGGAA
1360965 TCATCTT
1 TCATCTT
1360972 ATTGCTCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (18 bp):
TCATCTTCATCAATGGAA
Found at i:1362760 original size:18 final size:19
Alignment explanation
Indices: 1362725--1362761 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1362715 TACTGTTCAT
1362725 TACTGTTCAAACAGTATCG
1 TACTGTTCAAACAGTATCG
*
1362744 TACTGTTTAAA-AGTATCG
1 TACTGTTCAAACAGTATCG
1362762 GAATCTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
TACTGTTCAAACAGTATCG
Found at i:1363770 original size:21 final size:18
Alignment explanation
Indices: 1363741--1363797 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 18
1363731 ATGTTTAATG
1363741 AAAAAGATATCAATTGTTT
1 AAAAAGATA-CAATTGTTT
1363760 ACAAAAGGATACAAATTG-TT
1 A-AAAA-GATAC-AATTGTTT
1363780 AAAAAGATACCAATTGTT
1 AAAAAGATA-CAATTGTT
1363798 GGAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.27
19 7 0.21
20 8 0.24
21 9 0.27
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (18 bp):
AAAAAGATACAATTGTTT
Found at i:1366855 original size:21 final size:21
Alignment explanation
Indices: 1366831--1366871 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1366821 AATAGTAATA
1366831 GTATCGATACCCCTATAGCAG
1 GTATCGATACCCCTATAGCAG
1366852 GTATCGATACCCCTATAGCA
1 GTATCGATACCCCTATAGCA
1366872 TTATGGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
GTATCGATACCCCTATAGCAG
Found at i:1369876 original size:64 final size:63
Alignment explanation
Indices: 1369787--1369937 Score: 178
Period size: 64 Copynumber: 2.3 Consensus size: 63
1369777 ATGCACATTC
* * * *
1369787 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* * *
1369851 GATAATGCATCGATGCATCCTTTTAAAATAAAAATATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
1369915 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
1369938 CATTGAAAGA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.05
64 63 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:1370443 original size:17 final size:19
Alignment explanation
Indices: 1370421--1370456 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1370411 GATTTACATG
1370421 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
1370438 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
1370457 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:1370646 original size:30 final size:30
Alignment explanation
Indices: 1370612--1370675 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
1370602 AAGGAACATA
*
1370612 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
1370642 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
1370672 TGGA
1 TGGA
1370676 CAGGTCCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:1373658 original size:2 final size:2
Alignment explanation
Indices: 1373649--1373692 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1373639 TTAAAAAAAT
1373649 TA TA -A TA TA 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 TA TA TA TA TA
1373690 TA T
1 TA T
1373693 TTAATAATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1374500 original size:2 final size:2
Alignment explanation
Indices: 1374489--1374918 Score: 118
Period size: 2 Copynumber: 223.5 Consensus size: 2
1374479 TATTAATACT
* *
1374489 TA TA -A TA TA TA TA TA TA TA T- TA TA -A GA -A TA TA TA GA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1374526 TA TA TA -A GTA TA TA TA TA -A TA TA -A T- TA TA TA TA T- TA GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
1374565 AA TA TA TA TA TA -A TG TA TA -A AA TA TA TA AA CTA TA TA -A CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
1374605 TA -A GTA TA TA -A GTA TA TA TA TA -A TA TA TA -A GTA TA TA GTA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * * *
1374645 TA TA -A GTA TA TA AA CGA TA TA GTA TA -A GTA TA TA TA TG CA TG
1 TA TA TA -TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * * * * *
1374687 TA TG CA CT- TA TG TA TGA TG CA TG TA TA TC T- TA TG TA TA TA TA
1 TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
** * *
1374729 TA TA TA TA TA T- TA TA CG TG TA TA CA 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 TA TA TA TA TA
* * * *
1374770 TG TG TA CT- TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA CA TG
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
1374811 CA T- TA TA CA TA CA TA -A T- TA CA TA TA TGC T- TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
1374850 -A CA TA TA TA TA TA TA TA -A GTA TA CA TA TG CA TA -A GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
*
1374891 TA TA TA -A TA T- TA -A TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1374919 TATTTTTTCT
Statistics
Matches: 312, Mismatches: 65, Indels: 102
0.65 0.14 0.21
Matches are distributed among these distances:
1 34 0.11
2 258 0.83
3 20 0.06
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1374521 original size:17 final size:16
Alignment explanation
Indices: 1374499--1374592 Score: 80
Period size: 17 Copynumber: 5.4 Consensus size: 16
1374489 TATAATATAT
1374499 ATATATATATTATAAGA
1 ATATATATATTATAA-A
* *
1374516 ATATATAGAATATATAA
1 ATATATATATTATA-AA
* *
1374533 GTATATATATAATATAA
1 ATATATATATTATA-AA
*
1374550 TTATATATATTAGTAAA
1 ATATATATATTA-TAAA
1374567 TATATATATAATGTATAAA
1 -ATATATAT-AT-TATAAA
1374586 ATATATA
1 ATATATA
1374593 AACTATATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
17 38 0.60
18 17 0.27
19 6 0.10
20 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
ATATATATATTATAAA
Found at i:1374647 original size:56 final size:54
Alignment explanation
Indices: 1374538--1374681 Score: 139
Period size: 56 Copynumber: 2.5 Consensus size: 54
1374528 TATAAGTATA
* * *
1374538 TATATAATATAATTATATATATTAGTAAATATATATATAATGTATAAAATATATAAAC
1 TATATAACATAA-TATATA-AGTA-TATATATATATATAATGTATAAAATATAT-AAC
* * *
1374596 TATATAACATAAGTATATAAGTATATATATAATATATAA-GTATATAGTATATAAG
1 TATATAACATAA-TATATAAGTATATATAT-ATATATAATGTATAAAATATATAAC
1374651 TATATAAACGAT-ATAGTATAAGTATATATAT
1 TATAT-AAC-ATAATA-TATAAGTATATATAT
1374682 GCATGTATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
55 9 0.12
56 36 0.48
57 13 0.17
58 17 0.23
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (54 bp):
TATATAACATAATATATAAGTATATATATATATATAATGTATAAAATATATAAC
Found at i:1374664 original size:17 final size:16
Alignment explanation
Indices: 1374604--1374670 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 16
1374594 ACTATATAAC
1374604 ATAAGTATAT-AAG-T
1 ATAAGTATATAAAGAT
*
1374618 AT-A-TATAT-AATAT
1 ATAAGTATATAAAGAT
1374631 ATAAGTATAT--AGTAT
1 ATAAGTATATAAAG-AT
1374646 ATAAGTATATAAACGAT
1 ATAAGTATATAAA-GAT
1374663 AT-AGTATA
1 ATAAGTATA
1374671 AGTATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
14 4 0.09
15 17 0.39
16 6 0.14
17 5 0.11
18 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.37
Consensus pattern (16 bp):
ATAAGTATATAAAGAT
Found at i:1375652 original size:16 final size:16
Alignment explanation
Indices: 1375628--1375658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1375618 TATAACTTAT
*
1375628 AAGTTAAGTAAATATC
1 AAGTAAAGTAAATATC
1375644 AAGTAAAGTAAATAT
1 AAGTAAAGTAAATAT
1375659 TAGATTAGGT
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:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (16 bp):
AAGTAAAGTAAATATC
Found at i:1376061 original size:28 final size:28
Alignment explanation
Indices: 1376030--1376083 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
1376020 CTAGTTTTGA
*
1376030 TTTTTTTTTGATAATTTAACTTTAAAAC
1 TTTTTATTTGATAATTTAACTTTAAAAC
* *
1376058 TTTTTATTTGATTATTTAATTTTAAA
1 TTTTTATTTGATAATTTAACTTTAAA
1376084 GATTGACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTTATTTGATAATTTAACTTTAAAAC
Found at i:1376696 original size:23 final size:23
Alignment explanation
Indices: 1376649--1376698 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1376639 AATAACATAT
**
1376649 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
1376672 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1376695 TAGG
1 TAGG
1376699 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1376758 original size:87 final size:87
Alignment explanation
Indices: 1376612--1376774 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
1376602 TATGTTATAT
* *
1376612 CATTTAATCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
*
1376677 AGCGCTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
*
1376699 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
1376764 AGCACTTATAT
66 AGCACTTATAT
1376775 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:1377126 original size:198 final size:198
Alignment explanation
Indices: 1376776--1377290 Score: 553
Period size: 198 Copynumber: 2.6 Consensus size: 198
1376766 CACTTATATT
* * * * * * * *
1376776 GACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTATAAATTGACCTATTACATTA
1 GACCTATTCTCTAATGAACCCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTA
* * * ** *
1376841 TAAATATCGGTTTCGATGTTTTCGGGATCGATACAATTTT-AAATGTATCGACACTTTATGTGTG
66 TAATTATCGGTTTCGATGATTTCGGGATCGATAC-TTTTTAAAATGTATCGACACTTTATGCATA
* * ** * *
1376905 CAACTCGTTTGTGCTTTATTTTGGAAAAA-AGTATCAACACTTATTTAAAGAGTGTCGATACATA
130 CAACTCGTTTGTCCTTCATTTTGGAAAAATA-TATCAACACAAATTAAAAAAGTGTCGATACATA
1376969 ATGTA
194 ATGTA
* * * * *
1376974 GACCTATT-TACTAATTAA-TCGGTATATTTTAACCGGTTACATTGTAAATTTACATGTTACATA
1 GACCTATTCT-CTAATGAACCCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATT
*
1377037 ATAATTATCGATTTCGATG-TTTCGAGGATCGATACTTTTTACAAATGTATCGACACTTTATGCA
65 ATAATTATCGGTTTCGATGATTTCG-GGATCGATACTTTTTA-AAATGTATCGACACTTTATGCA
* *
1377101 TACACCTCGTTTG-CCATTCATTTTGGAAAAATATATCAACACAAATTAAAAAAGTGTCGATACT
128 TACAACTCGTTTGTCC-TTCATTTTGGAAAAATATATCAACACAAATTAAAAAAGTGTCGATACA
* *
1377165 TTATGTT
192 TAATGTA
* * *
1377172 GACCTATTCTCTCATGAACCCGATATATTTCT-ACCGGTTATATTAG-AAATTTACCTATTACAT
1 GACCTATTCTCTAATGAACCCGGTATATTT-TAACCGGTTACATT-GTAAATTTACCTATTACAT
* ** *
1377235 TATAATTATCGGTCTCTTTGATTT-GGGATCGATACTTGTTATAAATGTATCGACAC
64 TATAATTATCGGTTTCGATGATTTCGGGATCGATACTTTTTA-AAATGTATCGACAC
1377291 AAAATCTAAC
Statistics
Matches: 266, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
196 9 0.03
197 66 0.25
198 133 0.50
199 53 0.20
200 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (198 bp):
GACCTATTCTCTAATGAACCCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTA
TAATTATCGGTTTCGATGATTTCGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCATAC
AACTCGTTTGTCCTTCATTTTGGAAAAATATATCAACACAAATTAAAAAAGTGTCGATACATAAT
GTA
Found at i:1380996 original size:197 final size:198
Alignment explanation
Indices: 1380432--1381742 Score: 1787
Period size: 197 Copynumber: 6.6 Consensus size: 198
1380422 GTAATTTTAA
* * * * * *
1380432 AAAGTATCGACACTAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA-AACCG
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTT-T--TAATAACCG
* * * * * *
1380496 GTAAATTTAAACC-GTTACATTGTAAAGTGACCTATTACATTATAATTACGTGTTTCGATGTTTT
63 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
* * * *
1380560 TAGGATCGACACTTTTTCTAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTAT
128 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTAT
1380625 GGACAT
193 GGACAT
* *
1380631 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGATA
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
* * * * *
1380696 TATTTAGACCGATTACATTGTTATGTTACCTATTATATTATAATTACGGGTTTTGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
1380761 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
1380826 CAT
196 CAT
*
1380829 AAAGTGTCGACACAAATGTATAAAGTATCGATATATTATGTATACCT-TTTTTTAATAACCGGTA
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
*
1380893 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATTATTATGTGTTTCGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
*
1380958 GATCGACACTTGTTATAAATGTATCGACACTATTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
1381023 CAT
196 CAT
* * *
1381026 AAAGTGTAGACACAAATGTATAAAGTATCGATACATTATGTGTACCTTTCTTTTTTAATAACCGG
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACC--TATTTTTTAATAACCGG
* * * *
1381091 TATATTTATATCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCAATATTTTT
64 TATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTT
1381156 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATG
129 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATG
1381221 GACAT
194 GACAT
*
1381226 AAAGTGTCGACATAAATGTATAAAGTATCGATACATTATGTATACCT-TTTTTTAATAACCGGTA
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
*
1381290 TATGTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
* * ** *
1381355 GATCGACACTTGTTATAAATGTATCGACACTTTTTTCATGCACTTGGTTTGG-AAATACATTCTG
131 GATCGACACTTGTTATAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTATG
1381419 GACA-
194 GACAT
* * * *
1381423 ACATGTATCGACACAAATGAATAAAGTGTCGATACA-TAT-TATAGACCTATTTTCTCATAA-AA
1 A-AAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTAT--ACCTATTTT-T--TAATAA
* * * * * * * * *
1381485 CCAGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGT
60 CCGGTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGT
*
1381550 TTTTGGGATCGACACTTGATATAAATGTATCGACACTTATTT-GTGAACTTGTTTTGGATGGAAA
125 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTT-TTTCGTGAACTTG-TTTGGA---AAA
* *
1381614 TTACATTATGGACAC
185 TT-TATTATGGACAT
* * * * * * *
1381629 AAAGTATCAACACAAATGTATAAAGTGTCGATACTTTATGTATACCTCTTTTCTCATAAACCGGT
1 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAAT-AACCGGT
* *
1381694 ATATTTAGACTGGTTACATTGTTATTTTACCTATTACATTATAATTATG
65 ATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATG
1381743 GGTCTCGACG
Statistics
Matches: 997, Mismatches: 89, Indels: 47
0.88 0.08 0.04
Matches are distributed among these distances:
196 6 0.01
197 311 0.31
198 217 0.22
199 57 0.06
200 201 0.20
201 95 0.10
202 5 0.01
204 50 0.05
205 48 0.05
206 4 0.00
207 3 0.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (198 bp):
AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
CAT
Found at i:1381215 original size:397 final size:397
Alignment explanation
Indices: 1380432--1381742 Score: 1818
Period size: 397 Copynumber: 3.3 Consensus size: 397
1380422 GTAATTTTAA
* * * * *
1380432 AAAGTATCGACACTAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA-AACCG
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTT-T--TAATAACCG
* * * * * *
1380496 GTAAATTTAAACC-GTTACATTGTAAAGTGACCTATTACATTATAATTACGTGTTTCGATGTTTT
63 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
* * *
1380560 TAGGATCGACACTTTTTCTAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTAT
128 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTAT
*
1380625 GGACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACC-TTTTTTTTAATA
193 GGACATAAAGTGTAGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATA
* * * * *
1380689 ACCGATATATTTAGACCGATTACATTGTTATGTTACCTATTATATTATAATTACGGGTTTTGATG
258 ACCGGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATG
1380754 TTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTA
323 TTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTA
1380819 TTATGGACAT
388 TTATGGACAT
* *
1380829 AAAGTGTCGACACAAATGTATAAAGTATCGATATATTATGTATACCT-TTTTTTAATAACCGGTA
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
*
1380893 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATTATTATGTGTTTCGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
* *
1380958 GATCGACACTTGTTATAAATGTATCGACACTATTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTATGGA
*
1381023 CATAAAGTGTAGACACAAATGTATAAAGTATCGATACATTATGTGTACCTTTCTTTTTTAATAAC
196 CATAAAGTGTAGACACAAATGTATAAAGTATCGATACATTATGTATACCTTT-TTTTTTAATAAC
* * * * * *
1381088 CGGTATATTTATATCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCAATATT
260 CGGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTT
1381153 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATT
325 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATT
1381218 ATGGACAT
390 ATGGACAT
* *
1381226 AAAGTGTCGACATAAATGTATAAAGTATCGATACATTATGTATACCT-TTTTTTAATAACCGGTA
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
*
1381290 TATGTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
* ** *
1381355 GATCGACACTTGTTATAAATGTATCGACACTTTTTTCATGCACTTGGTTTGG-AAATACATTCTG
131 GATCGACACTTGTTATAAATGTATCGACAC-TTTTTCATGAACTT-GTTTGGAAAATTTATTATG
* * * **
1381419 GACA-ACA-TGTATCGACACAAATGAATAAAGTGTCGATACA-TAT-TATAGACCTATTTTCTCA
194 GACATAAAGTGTA--GACACAAATGTATAAAGTATCGATACATTATGTAT--ACCT-TTTT-TTT
* * * * * *
1381480 TAA-AACCAGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTT
253 TAATAACCGGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTT
*
1381544 CGATGTTTTTGGGATCGACACTTGATATAAATGTATCGACACTTATTT-GTGAACTTGTTTTGGA
318 CGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT-TTTCGTGAACTTG-TTTGGA
* *
1381608 TGGAAATTACATTATGGACAC
381 ---AAATT-TATTATGGACAT
* * * * * *
1381629 AAAGTATCAACACAAATGTATAAAGTGTCGATACTTTATGTATACCTCTTTTCTCATAAACCGGT
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAAT-AACCGGT
* *
1381694 ATATTTAGACTGGTTACATTGTTATTTTACCTATTACATTATAATTATG
65 ATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATG
1381743 GGTCTCGACG
Statistics
Matches: 822, Mismatches: 72, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
393 3 0.00
394 16 0.02
395 157 0.19
396 12 0.01
397 340 0.41
398 156 0.19
399 21 0.03
402 5 0.01
403 52 0.06
404 7 0.01
405 53 0.06
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (397 bp):
AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTA
TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGG
GATCGACACTTGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTATGGA
CATAAAGTGTAGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATAACC
GGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTT
TTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTA
TGGACAT
Found at i:1383880 original size:2 final size:2
Alignment explanation
Indices: 1383873--1383902 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1383863 GTCTCTGGAG
1383873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1383903 CCTTCCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1384227 original size:15 final size:15
Alignment explanation
Indices: 1384207--1384243 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1384197 TGATTTCCTT
1384207 AGAAGAGGTGGGTTG
1 AGAAGAGGTGGGTTG
1384222 AGAAGAGGTGGGTTG
1 AGAAGAGGTGGGTTG
1384237 AGAAGAG
1 AGAAGAG
1384244 CCCCGATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (15 bp):
AGAAGAGGTGGGTTG
Found at i:1385147 original size:197 final size:197
Alignment explanation
Indices: 1384656--1385680 Score: 1643
Period size: 198 Copynumber: 5.2 Consensus size: 197
1384646 AATTTCATTG
* * ** * ** **
1384656 TTTT-GGATCGATACTTTTTATAAATGTATCGACACTTTTTTGTGCACTTTTTGACCATTTACAT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACAC-ATTTCGTGCACTTGGTAAGGAAAT-CAT
*
1384720 TCTGGACA-AAATGTATTGACACAAATTCAA-AGAGTGTCGATACTTTATGTACACCTGTTTTCT
64 TCTGGACACAAA-GTATCGACACAAATTCAACA-AGTGTCGATACTTTATGTACACCTGTTTTCT
*
1384783 CATAAACCGGTGTATTTAGA-CGGTTAGATTCATAATTTACCTATTACATTATAAATATGGGTCT
127 CATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCT
1384847 CGATGT
192 CGATGT
* *
1384853 TTTTGGGATCTATACTTTTTATAAATGTATCGACACATTATGGTG-ACCTTGGTAAGGAAATCAT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATT-TCGTGCA-CTTGGTAAGGAAATCAT
* * *
1384917 T-TGGACACAAAGTATCGACATAAATTAAACAAGTTTCGATACTTTATGTACACCTGTTTTCTCA
64 TCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCA
* *
1384981 TAAACCGGTATATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTAT-GGTCTCG
129 TAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCG
1385045 ATGT
194 ATGT
*
1385049 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTG-ACCTTGGTAAGGAAATCAT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATT-TCGTGCA-CTTGGTAAGGAAATCAT
*
1385113 TCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACATGTTTTCTCA
64 TCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCA
1385178 TAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCG
129 TAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCG
1385243 ATGT
194 ATGT
* * *
1385247 TTTTGGGATCGATACTTGTTATAAATGTATCAACACATTTCCATGCACTTGGTAAGGAAATCATT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTT-CGTGCACTTGGTAAGGAAATCATT
* * * *
1385312 CTAGACACAAAGTATCGACATAAATTCAACAAGTGTCGATACTTTATGTACACTTATTTTCTCAT
65 CTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCAT
1385377 AAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGA
130 AAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGA
1385442 TGT
195 TGT
* *
1385445 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAAGAAATCATT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTT-CGTGCACTTGGTAAGGAAATCATT
1385510 CTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCAT
65 CTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCAT
1385575 AAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGA
130 AAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGA
1385640 TGT
195 TGT
1385643 TTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
1 TTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
1385681 ATGTTTACCA
Statistics
Matches: 779, Mismatches: 39, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
196 145 0.19
197 166 0.21
198 467 0.60
199 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (197 bp):
TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCGTGCACTTGGTAAGGAAATCATTC
TGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATA
AACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGAT
GT
Found at i:1386035 original size:19 final size:19
Alignment explanation
Indices: 1386011--1386060 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1386001 TTACATTCAC
*
1386011 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
1386030 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
*
1386049 ATACCAAATTAA
1 ATACAAAATTAA
1386061 CCCTACAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:1387229 original size:17 final size:17
Alignment explanation
Indices: 1387207--1387242 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1387197 TGAATCATTA
1387207 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
1387224 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
1387241 GA
1 GA
1387243 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:1387565 original size:18 final size:18
Alignment explanation
Indices: 1387542--1387580 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1387532 TTCTCCTCAT
1387542 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
1387560 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
1387578 TTC
1 TTC
1387581 AAATTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:1390190 original size:20 final size:20
Alignment explanation
Indices: 1390144--1390190 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1390134 ACCGGTAGCG
*
1390144 CTTTACCGGTTTTGTCATTT
1 CTTTACCGATTTTGTCATTT
**
1390164 CGATACCGATTTTGTCATATT
1 CTTTACCGATTTTGTCAT-TT
1390185 -TTTACC
1 CTTTACC
1390191 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCGATTTTGTCATTT
Found at i:1390485 original size:180 final size:181
Alignment explanation
Indices: 1390107--1390760 Score: 699
Period size: 180 Copynumber: 3.6 Consensus size: 181
1390097 TACACGTACT
* * * * * * * *
1390107 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATAC-C
1 TATTAACGTATCGACACTTTCAATATATCCAGTAGCGCTTTACC-GTTTTATCATTTCGAGACAT
* * * *
1390171 GATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAC-ATTTTCATAAAGTATCGACA
65 G-TTTTGTCATATTCTTAACTGTTATATTGCTATGGATCGATACAATTTT-ATAAAGTATCGACA
* * *
1390235 CTTTTTAGGCGCTATAA---CTTCTCTTTTAAATT-ACGAAAGTATCGATACTTA
128 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAAAGTGTCGATACTTA
** **
1390286 TATTAATTTATCGACACTTTCAATATATCCAGTAGCTTTTTACCGTTTTATCATTTCGAGACATG
1 TATTAACGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCGTTTTATCATTTCGAGACATG
* *
1390351 TTTTGTCATATTCTTACCTGTTATATTGCTATGGATCGATACAATTGTATAAA-TATCGACACTT
66 TTTTGTCATATTCTTAACTGTTATATTGCTATGGATCGATACAATTTTATAAAGTATCGACACTT
1390415 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
131 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* * * * **
1390466 TATTAACGTATCGACACTTTCAATATATCCGGTAGCTCTTTACTGGTTTTATCATTTCGTGACCG
1 TATTAACGTATCGACACTTTCAATATATCCAGTAGCGCTTTAC-CGTTTTATCATTTCGAGACAT
* * ***
1390531 GTTTTGTCATA--CTTATACTGTTATATTGTTATGGATTGATATGTTTTTATAAAGTATCGACAC
65 GTTTTGTCATATTCTTA-ACTGTTATATTGCTATGGATCGATACAATTTTATAAAGTATCGACAC
* *
1390594 TTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* * * * *
1390647 T-TTAAATC-TAATCGATACTTTCGATATATCCAGTAGCGGTTTACCGATTTTATGATAAT-GA-
1 TATT-AA-CGT-ATCGACACTTTCAATATATCCAGTAGCGCTTTACCG-TTTTATCAT-TTCGAG
** * *
1390708 A-ATCGGTTTCATCATATT-TTAACTGTTATATTGCTATGGAGCGATACATTTTT
61 ACAT--GTTTTGTCATATTCTTAACTGTTATATTGCTATGGATCGATACAATTTT
1390761 CATTTGTATC
Statistics
Matches: 404, Mismatches: 53, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
177 24 0.06
178 60 0.15
179 45 0.11
180 101 0.25
181 95 0.24
182 75 0.19
183 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (181 bp):
TATTAACGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCGTTTTATCATTTCGAGACATG
TTTTGTCATATTCTTAACTGTTATATTGCTATGGATCGATACAATTTTATAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
Found at i:1391420 original size:65 final size:66
Alignment explanation
Indices: 1391311--1391440 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 66
1391301 TACATATAAC
* *
1391311 TTGATTTACTTTATTTTATACGTTTCAGTGTAATTAACTAATTACATTCATTTAATATTTAATAT
1 TTGATTTACTTTATTGTATACGTTTCAGTATAATTAACTAATTACATTCATTTAATATTTAATAT
1391376 G
66 G
* *
1391377 TTGA-TTACTTTATTGTATACGTTTCATTATAATTAACTAATTACATTCATTTAATATTTTATAT
1 TTGATTTACTTTATTGTATACGTTTCAGTATAATTAACTAATTACATTCATTTAATATTTAATAT
1391441 TATTTACATG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 56 0.93
66 4 0.07
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.52
Consensus pattern (66 bp):
TTGATTTACTTTATTGTATACGTTTCAGTATAATTAACTAATTACATTCATTTAATATTTAATAT
G
Found at i:1391517 original size:49 final size:49
Alignment explanation
Indices: 1391440--1391533 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
1391430 ATATTTTATA
* *
1391440 TTATTTACATGACTTGATTTAGAGAAATATTCGTATCTTCATGATGACC
1 TTATTTACATGACTTAATTTAGAGAAATACTCGTATCTTCATGATGACC
* * **
1391489 TTATTTGCATGATTTAATTTAGTTAAATACTCGTATCTTCATGAT
1 TTATTTACATGACTTAATTTAGAGAAATACTCGTATCTTCATGAT
1391534 CATGACCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (49 bp):
TTATTTACATGACTTAATTTAGAGAAATACTCGTATCTTCATGATGACC
Found at i:1399599 original size:11 final size:11
Alignment explanation
Indices: 1399583--1399612 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
1399573 TTCAAAAGTT
1399583 CATACTTAAAA
1 CATACTTAAAA
1399594 CATACTT-AAA
1 CATACTTAAAA
1399604 CATACTTAA
1 CATACTTAA
1399613 TTCATACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (11 bp):
CATACTTAAAA
Found at i:1400249 original size:3 final size:3
Alignment explanation
Indices: 1400241--1400315 Score: 102
Period size: 3 Copynumber: 25.7 Consensus size: 3
1400231 TCATTTCGTT
**
1400241 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA -TA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1400285 TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1400316 TAATAAATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 6 0.09
3 55 0.86
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1401328 original size:29 final size:30
Alignment explanation
Indices: 1401286--1401345 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
1401276 TTTCTAAATA
1401286 TCTTAATTTAGTC-TATAAGTTTT-ATTATT
1 TCTTAATTTAGTCTTATAA-TTTTAATTATT
1401315 TCTTAATTTAGTCTTATAATTTTAATTATT
1 TCTTAATTTAGTCTTATAATTTTAATTATT
1401345 T
1 T
1401346 TGGTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (30 bp):
TCTTAATTTAGTCTTATAATTTTAATTATT
Found at i:1401948 original size:13 final size:13
Alignment explanation
Indices: 1401930--1401957 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1401920 TTCAATATAT
1401930 TTAATTATTATTA
1 TTAATTATTATTA
1401943 TTAATTATTATTA
1 TTAATTATTATTA
1401956 TT
1 TT
1401958 TAGTCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTATTATTA
Found at i:1402658 original size:30 final size:28
Alignment explanation
Indices: 1402610--1402671 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 28
1402600 TAATTCTTTC
1402610 TTTTCAAATTTATTATATATACT-TATTA
1 TTTTCAAATTTATTATATATA-TATATTA
*
1402638 TTTTCATAATATTTTTATATATATATATTA
1 TTTTCA-AAT-TTATTATATATATATATTA
1402668 TTTT
1 TTTT
1402672 TTATTAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.20
29 4 0.13
30 20 0.67
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTCAAATTTATTATATATATATATTA
Found at i:1405820 original size:19 final size:18
Alignment explanation
Indices: 1405796--1405831 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1405786 GAAGGAATTC
*
1405796 GAGAATTTATTGATAAATG
1 GAGAATTAATTGA-AAATG
1405815 GAGAATTAATTGAAAAT
1 GAGAATTAATTGAAAAT
1405832 ATGATCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (18 bp):
GAGAATTAATTGAAAATG
Found at i:1410585 original size:73 final size:75
Alignment explanation
Indices: 1410455--1410629 Score: 205
Period size: 73 Copynumber: 2.4 Consensus size: 75
1410445 AACAAAAAGA
* * * *
1410455 AAATGATCGGGCATGCTGAAAGCCCATTTCAATCAGAATTAAGAATATTGACTCATTTTGAACAT
1 AAATGATAGGGCATGCTGAAAACCCATTTCAATCAGAATCAAGAATATTGACTCATTTGGAACAT
*
1410520 TTGTATCAGC
66 ATGTATCAGC
* * *
1410530 AAATGAT-GGGCATGCTGAAAACCC-TCTT-AATTAGAATCAAGAATGTTG-GTGCATTTGGAAC
1 AAATGATAGGGCATGCTGAAAACCCAT-TTCAATCAGAATCAAGAATATTGACT-CATTTGGAAC
1410591 ATATGTATCAGC
64 ATATGTATCAGC
* * *
1410603 AAATGTTAGGGCATGTTGAAGACCCAT
1 AAATGATAGGGCATGCTGAAAACCCAT
1410630 ATCATCTTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
72 1 0.01
73 44 0.51
74 33 0.38
75 8 0.09
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (75 bp):
AAATGATAGGGCATGCTGAAAACCCATTTCAATCAGAATCAAGAATATTGACTCATTTGGAACAT
ATGTATCAGC
Found at i:1411587 original size:54 final size:53
Alignment explanation
Indices: 1411503--1411661 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 53
1411493 ATCAGAAATT
* * *
1411503 TGTGCAGAAACCACAGAAAATGATGAATGTGTTGTCAAATGCTTTATGAACATC
1 TGTGCAGAAACCACAG-AAAGGATGAATGTGTTGTCAAATGTTTTACGAACATC
* * * *
1411557 TG-GACAGAAGCCACAAGAAAGGATGTATGTGTTATCAAATATTTTACGAACATC
1 TGTG-CAGAAACCAC-AGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATC
* *
1411611 TGTGCAGAAACCACGAGAAAGGATGAATGTATTGTCACATGTTTTACGAAC
1 TGTGCAGAAACCAC-AGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
1411662 CAATGATTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 84 0.95
55 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (53 bp):
TGTGCAGAAACCACAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATC
Found at i:1412057 original size:22 final size:22
Alignment explanation
Indices: 1412032--1412090 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
1412022 TCTACATTCG
*
1412032 TCAAATATGATAGATTTTCTCT
1 TCAAAGATGATAGATTTTCTCT
* *
1412054 TCAAAGATGATAGATTTTTTTT
1 TCAAAGATGATAGATTTTCTCT
1412076 TCAAAGAT-A-AGATTT
1 TCAAAGATGATAGATTT
1412091 ATTGGATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 27 0.79
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
TCAAAGATGATAGATTTTCTCT
Found at i:1412802 original size:45 final size:45
Alignment explanation
Indices: 1412738--1412906 Score: 320
Period size: 45 Copynumber: 3.8 Consensus size: 45
1412728 CTATTTCCCA
*
1412738 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
1412783 CATCTGTAAACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1412828 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1412873 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1412907 CATTTCCATC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 121 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1413038 original size:3 final size:3
Alignment explanation
Indices: 1413032--1413097 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
1413022 TTATTTCGTT
** *
1413032 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
1413078 -TA CATA TTA TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TT
1413098 TAATAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.87
4 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1414140 original size:29 final size:30
Alignment explanation
Indices: 1414107--1414166 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
1414097 TTTCTAAATA
1414107 TCTTAATTTAGTC-TATAAGTTTT-ATTATT
1 TCTTAATTTAGTCTTATAA-TTTTAATTATT
1414136 TCTTAATTTAGTCTTATAATTTTAATTATT
1 TCTTAATTTAGTCTTATAATTTTAATTATT
1414166 T
1 T
1414167 TGGTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (30 bp):
TCTTAATTTAGTCTTATAATTTTAATTATT
Found at i:1414974 original size:143 final size:138
Alignment explanation
Indices: 1414818--1415122 Score: 348
Period size: 140 Copynumber: 2.2 Consensus size: 138
1414808 ATATTTTTAT
* * *
1414818 TAAATAAAAATCCTATTAATAAATTTAATTTT-ATAT-AAATTATTTTTAGGGAAAATAATCATA
1 TAAATAAATATCCTATTTATAAA-TT-ATTTTAAT-TCAAATTATTTTTAGAG-AAAT-AT--T-
* *
1414881 TT-TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTCTCTAAAAGCACCTAGAAGTCCTT
58 TTATTAATATTTATTTATTTTTTAATATTAAGAAATGAGCTCTCTAAAAGCACCTAGAAGTCATT
1414945 TTCTAATA-TTCTTAAA
123 TTCTAATATTTC-TAAA
* * *
1414961 TAAATAAATATCCTATTTTTATAAATTATTTTAATTCTAATTATTTTTATAGAAATGTTTTATTA
1 TAAATAAATATCCTA--TTTATAAATTATTTTAATTCAAATTATTTTTAGAGAAATATTTTATTA
* * * * *
1415026 ATATTTATTTATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACTTAGAAGTCATTTTTTGA
64 ATATTTATTTATTTTTTAATATTAAGAAATGAGCTCTCTAAAAGCACCTAGAAGTCATTTTCTAA
*
1415091 TATTTCTAAG
129 TATTTCTAAA
*
1415101 TAAATAAATATCTTATTTATAA
1 TAAATAAATATCCTATTTATAA
1415123 TATATATATA
Statistics
Matches: 141, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
138 7 0.05
139 2 0.01
140 81 0.57
141 3 0.02
142 1 0.01
143 24 0.17
144 16 0.11
145 7 0.05
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (138 bp):
TAAATAAATATCCTATTTATAAATTATTTTAATTCAAATTATTTTTAGAGAAATATTTTATTAAT
ATTTATTTATTTTTTAATATTAAGAAATGAGCTCTCTAAAAGCACCTAGAAGTCATTTTCTAATA
TTTCTAAA
Found at i:1415129 original size:2 final size:2
Alignment explanation
Indices: 1415118--1415147 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1415108 ATATCTTATT
1415118 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1415148 TCTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1417340 original size:27 final size:26
Alignment explanation
Indices: 1417272--1417341 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 26
1417262 TTTAAAAAAA
* *
1417272 TATTAAATAAATATTAAATTCTAATTT
1 TATTAAA-AAATAATAAATTCTAATTG
1417299 TATT-AAAAATGAATAAATAT-TAATTG
1 TATTAAAAAAT-AATAAAT-TCTAATTG
1417325 TAGTTAAAAAATAATAA
1 TA-TTAAAAAATAATAA
1417342 TTAATGACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 4 0.11
26 15 0.41
27 12 0.32
28 6 0.16
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (26 bp):
TATTAAAAAATAATAAATTCTAATTG
Found at i:1426642 original size:152 final size:147
Alignment explanation
Indices: 1426300--1426643 Score: 360
Period size: 152 Copynumber: 2.3 Consensus size: 147
1426290 TTTCTCCTCC
* * * *
1426300 ATTTTAAGTCCAGTTTTT-ACTAAATTTAAACCACATGCTACTAAACTATATTAGAATACACGTG
1 ATTTTAAGTCCATTTTTTGTC-AAATTTGAACCACATGCTCCTAAACTATATTAGAATACACGTG
1426364 TACTTTCAATTCCTCTTTTTGATAATAATTTTTTATTTTTCAATTTAATCCTTCAATTTTTCATA
65 TACTTTCAATTCCTCTTTTTGATAATAA--TTTTATTTTTCAATTTAATCCTTCAATTTTTCATA
*
1426429 ATCTTCTTATTTCTTCATTT
128 ATCTTATTATTTCTTCATTT
* *
1426449 ATTTTAAGTCTCTTTTTCTCTGTCAAATTTGAGCCACATGCTCCTAAA-TCATAGTT-GAATACA
1 ATTTTAAGTC-CATTTT-T-TGTCAAATTTGAACCACATGCTCCTAAACT-ATA-TTAGAATACA
* * * * *
1426512 TGTGTACTTTCAATTCTTCTTTTTGATAA-CA-TTT-TTTTTCAATTTAGTCTTTCAATTTTTCA
61 CGTGTACTTTCAATTCCTCTTTTTGATAATAATTTTATTTTTCAATTTAATCCTTCAATTTTTCA
* *
1426574 TAATTTCTTTATTCATTTAATTTGTGATTT
126 TAA--TC-TTATT-A-TT--TCT-TCATTT
1426604 ATTTTAAGTCCATTTTTTGTCAAATTTGAACCTA-ATGCTC
1 ATTTTAAGTCCATTTTTTGTCAAATTTGAACC-ACATGCTC
1426644 AGATACAACA
Statistics
Matches: 164, Mismatches: 16, Indels: 27
0.79 0.08 0.13
Matches are distributed among these distances:
147 29 0.18
148 3 0.02
149 12 0.07
150 8 0.05
151 4 0.02
152 81 0.49
153 5 0.03
154 7 0.04
155 15 0.09
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (147 bp):
ATTTTAAGTCCATTTTTTGTCAAATTTGAACCACATGCTCCTAAACTATATTAGAATACACGTGT
ACTTTCAATTCCTCTTTTTGATAATAATTTTATTTTTCAATTTAATCCTTCAATTTTTCATAATC
TTATTATTTCTTCATTT
Found at i:1426928 original size:2 final size:2
Alignment explanation
Indices: 1426921--1426955 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1426911 ATATGAAAGA
1426921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1426956 GACACCTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1428504 original size:120 final size:120
Alignment explanation
Indices: 1428291--1428532 Score: 475
Period size: 120 Copynumber: 2.0 Consensus size: 120
1428281 AAACGTTAGA
1428291 GGGTTAATAGAAGAAAGACAATAAATGAGACATGAAACGGATATAACAGAGAACATTCAAGGCGA
1 GGGTTAATAGAAGAAAGACAATAAATGAGACATGAAACGGATATAACAGAGAACATTCAAGGCGA
1428356 CCAATCAAATAATGTGAAGGAAGGTAAAATGGTGGAAAATTCCATAATATGGAAG
66 CCAATCAAATAATGTGAAGGAAGGTAAAATGGTGGAAAATTCCATAATATGGAAG
*
1428411 GGGTTAATAGAAGAAAGACAATAAATGAGACATGAAACGGATATAACAGAGAACATTCAAGGCGG
1 GGGTTAATAGAAGAAAGACAATAAATGAGACATGAAACGGATATAACAGAGAACATTCAAGGCGA
1428476 CCAATCAAATAATGTGAAGGAAGGTAAAATGGTGGAAAATTCCATAATATGGAAG
66 CCAATCAAATAATGTGAAGGAAGGTAAAATGGTGGAAAATTCCATAATATGGAAG
1428531 GG
1 GG
1428533 ATAAAGTTTG
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.18
Consensus pattern (120 bp):
GGGTTAATAGAAGAAAGACAATAAATGAGACATGAAACGGATATAACAGAGAACATTCAAGGCGA
CCAATCAAATAATGTGAAGGAAGGTAAAATGGTGGAAAATTCCATAATATGGAAG
Found at i:1428886 original size:3 final size:3
Alignment explanation
Indices: 1428878--1428919 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
1428868 TTATTTGATA
1428878 ATT ATT ATT -TT CAATT ATT AATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT --ATT ATT -ATT ATT ATT ATT ATT ATT ATT A
1428920 CTATCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 3 0.09
5 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1434610 original size:19 final size:17
Alignment explanation
Indices: 1434586--1434627 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
1434576 ATATGGGCAT
1434586 CGATACCCAGGCATGGTAC
1 CGATACCCA--CATGGTAC
1434605 CGATA-CCACATGGTAC
1 CGATACCCACATGGTAC
1434621 CGATACC
1 CGATACC
1434628 ACAACTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.59
17 1 0.05
18 3 0.14
19 5 0.23
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (17 bp):
CGATACCCACATGGTAC
Found at i:1434618 original size:16 final size:16
Alignment explanation
Indices: 1434597--1434630 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1434587 GATACCCAGG
1434597 CATGGTACCGATACCA
1 CATGGTACCGATACCA
1434613 CATGGTACCGATACCA
1 CATGGTACCGATACCA
1434629 CA
1 CA
1434631 ACTAGGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (16 bp):
CATGGTACCGATACCA
Found at i:1435242 original size:18 final size:18
Alignment explanation
Indices: 1435219--1435271 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
1435209 GAGGGTTTTA
*
1435219 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
*
1435237 AGTGGTTCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1435255 AATGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1435272 AATTTTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1442713 original size:18 final size:18
Alignment explanation
Indices: 1442690--1442778 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
1442680 GAGGGTTTTA
*
1442690 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1442708 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1442726 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1442744 AGTGGTTCTTCAGGACAA
1 AGTGGTCCTTCGGGACAT
*
1442762 AGTGGTCCATCGGGACA
1 AGTGGTCCTTCGGGACA
1442779 AATCTTAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1446623 original size:2 final size:2
Alignment explanation
Indices: 1446616--1446650 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1446606 ACATATAAAC
1446616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1446651 TAAAATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1446710 original size:2 final size:2
Alignment explanation
Indices: 1446703--1446742 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1446693 ATAGTATACG
1446703 TA TA TA TA -A TA -A 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 TA TA TA TA TA
1446743 AATTAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1448450 original size:43 final size:43
Alignment explanation
Indices: 1448389--1448544 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
1448379 ATCAGCGGTC
*
1448389 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * *
1448432 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGT-T-GATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T
*
1448482 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1448526 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
1448545 ATTGGGAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
43 41 0.46
44 4 0.04
45 4 0.04
46 5 0.06
48 5 0.06
49 4 0.04
50 4 0.04
51 22 0.25
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:1448495 original size:51 final size:51
Alignment explanation
Indices: 1448432--1448595 Score: 168
Period size: 51 Copynumber: 3.4 Consensus size: 51
1448422 AGTCCAATAT
*
1448432 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTGATTGACAACCAGCGGTC
1 CCTTCGTCGTGAAGTTGAAATTGGGAAATTGTTGATTGACAACCAGCGGTC
* * * * *
1448483 CCTTCGTCGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T-
1 CCTTCGTCGTGAAGTTGAAATTGGGAAATTGT-T-GATTGACAACCAGCGGTC
*
1448526 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTGATTGACAACCAGCGGTC
1 CCTTCGTCGTGAAGTTGAAATTGGGAAATTGTTGATTGACAACCAGCGGTC
*
1448577 CCTTCGTCATGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
1448596 CTTGCATTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
43 22 0.25
44 4 0.05
45 4 0.05
46 5 0.06
48 5 0.06
49 4 0.05
50 4 0.05
51 39 0.45
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
CCTTCGTCGTGAAGTTGAAATTGGGAAATTGTTGATTGACAACCAGCGGTC
Found at i:1448524 original size:94 final size:96
Alignment explanation
Indices: 1448363--1449048 Score: 858
Period size: 105 Copynumber: 7.0 Consensus size: 96
1448353 TGGAACTGGA
* * * **
1448363 AAAT-TGTTTATTGACAATCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
1 AAATATGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
1448427 AATATCCTTCGTTGTGAAGTTGAAATTGG-G
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCG
*
1448457 AAAT-TGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 AAATATGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
1448521 AATATCCTTCGTTGTGAAGTTGAAATTGG-G
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCG
* *
1448551 AAAT-TGTTGATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTGGAGTTC
1 AAATATGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
*
1448615 AATATCCTTCGTTGTGAAGTTAAAATTGGCTCTG
66 AATATCCTTCGTTGTGAAGTTGAAATTGG--C-G
1448649 AAATTGAGAAATGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
1 AAA-T-----ATG-TTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
*
1448713 GGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTG
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--C-G
1448754 AAATTGAGAAATGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
1 AAA-T-----ATG-TTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
*
1448818 GGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--C-G
1448859 AAATTGAGAAATGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
1 AAA-T-----ATG-TTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
*
1448923 GGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGC-
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCG
* ** *
1448960 ---TCTG-AAATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 AAATATGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
*
1449021 AATATCCTTCGTTGAGAAGTTGAAATTG
66 AATATCCTTCGTTGTGAAGTTGAAATTG
1449049 ACTCTGGGTA
Statistics
Matches: 557, Mismatches: 22, Indels: 29
0.92 0.04 0.05
Matches are distributed among these distances:
91 79 0.14
92 2 0.00
94 179 0.32
97 1 0.00
98 4 0.01
99 1 0.00
103 1 0.00
105 287 0.52
106 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (96 bp):
AAATATGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCG
Found at i:1448953 original size:43 final size:42
Alignment explanation
Indices: 1448892--1449044 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
1448882 ACCAGCGGTC
1448892 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATGT
1 CCTTCGTCGTGAAGTTGAACTTGC-TTGTCTGGAGTCCAATGT
* * ** * ** **
1448935 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTT-GCT-TG-TCTGGA-GTCCA-ATGT
*
1448982 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGC-TTGTCTGGAGTCCAATGT
* *
1449026 CCTTCGTTGAGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
1449045 ATTGACTCTG
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
43 38 0.46
44 5 0.06
45 6 0.07
46 6 0.07
47 6 0.07
48 21 0.26
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (42 bp):
CCTTCGTCGTGAAGTTGAACTTGCTTGTCTGGAGTCCAATGT
Found at i:1449031 original size:91 final size:91
Alignment explanation
Indices: 1448876--1449054 Score: 322
Period size: 91 Copynumber: 2.0 Consensus size: 91
1448866 GAAATGTTTG
*
1448876 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATGTCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCG
* *
1448941 TTGTGAAGTTGAAATTGGCTCTGAAA
66 TTGAGAAGTTGAAATTGACTCTGAAA
*
1448967 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCG
1449032 TTGAGAAGTTGAAATTGACTCTG
66 TTGAGAAGTTGAAATTGACTCTG
1449055 GGTAAAACCT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 84 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (91 bp):
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCG
TTGAGAAGTTGAAATTGACTCTGAAA
Found at i:1449832 original size:18 final size:17
Alignment explanation
Indices: 1449811--1449844 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1449801 TATTTTCTCT
*
1449811 TCTTTTGTTCTTTTTTCC
1 TCTTTTCTT-TTTTTTCC
1449829 TCTTTTCTTTTTTTTC
1 TCTTTTCTTTTTTTTC
1449845 TCAATTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (17 bp):
TCTTTTCTTTTTTTTCC
Found at i:1449907 original size:11 final size:11
Alignment explanation
Indices: 1449882--1449936 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
1449872 ACCCTAAACG
* *
1449882 TTCTTTTCTTC
1 TTCTTTTTTTT
1449893 TTCTTTTTTTT
1 TTCTTTTTTTT
* *
1449904 TTCTTCTTTGT
1 TTCTTTTTTTT
*
1449915 TT-TTTCTTTT
1 TTCTTTTTTTT
1449925 TTCTTTTTTTT
1 TTCTTTTTTTT
1449936 T
1 T
1449937 CAACTTAGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 7 0.20
11 28 0.80
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.84
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:1449907 original size:14 final size:14
Alignment explanation
Indices: 1449885--1449933 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
1449875 CTAAACGTTC
*
1449885 TTTTCTTCTTCTTT
1 TTTTTTTCTTCTTT
1449899 TTTTTTTCTTCTTT
1 TTTTTTTCTTCTTT
*
1449913 GTTTTTTCTT-TTT
1 TTTTTTTCTTCTTT
1449926 TCTTTTTT
1 T-TTTTTT
1449934 TTTCAACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 3 0.10
14 28 0.90
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTCTTT
Found at i:1449910 original size:25 final size:26
Alignment explanation
Indices: 1449882--1449931 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1449872 ACCCTAAACG
1449882 TTCTTT-TCTTCTTCTTTTTT-TTTTC
1 TTCTTTGT-TTCTTCTTTTTTCTTTTC
*
1449907 TTCTTTGTTTTTTCTTTTTTCTTTT
1 TTCTTTGTTTCTTCTTTTTTCTTTT
1449932 TTTTTCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (26 bp):
TTCTTTGTTTCTTCTTTTTTCTTTTC
Found at i:1449937 original size:17 final size:17
Alignment explanation
Indices: 1449882--1449937 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
1449872 ACCCTAAACG
1449882 TTCTTTTCTTCTTCTTTTT
1 TTCTTTT-TTCTT-TTTTT
*
1449901 TT-TTTCTTCTTTGTTTT
1 TTCTTTTTTCTTT-TTTT
1449918 TTCTTTTTTCTTTTTTT
1 TTCTTTTTTCTTTTTTT
1449935 TTC
1 TTC
1449938 AACTTAGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 18 0.55
18 12 0.36
19 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (17 bp):
TTCTTTTTTCTTTTTTT
Found at i:1459375 original size:20 final size:20
Alignment explanation
Indices: 1459337--1459380 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1459327 ACAGTTAGTA
*
1459337 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
1459357 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
1459377 AAAT
1 AAAT
1459381 GGCAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:1460545 original size:2 final size:2
Alignment explanation
Indices: 1460538--1460590 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1460528 CTATTAAAAG
1460538 TA TA TA TA TA 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 TA TA TA TA TA
1460580 TA TA TA TA TA T
1 TA TA TA TA TA T
1460591 TAAAATATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1460669 original size:32 final size:30
Alignment explanation
Indices: 1460627--1460737 Score: 75
Period size: 32 Copynumber: 3.5 Consensus size: 30
1460617 TCAAATAAAG
*
1460627 AAAACAAAATAGTATACGTATATAATAATAAT
1 AAAAAAAAATA-TATA-GTATATAATAATAAT
* *
1460659 AAAATAAAATATATA-TATATAAATTAGTAA-
1 AAAAAAAAATATATAGTATAT-AA-TAATAAT
* *
1460689 AAAGAAGATAATAGTAATAGT-TATATTAATAAT
1 AAA-AA-AAAATA-T-ATAGTATATAATAATAAT
1460722 AAAAAAATAATATATA
1 AAAAAAA-AATATATA
1460738 CCTATATGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
29 5 0.08
30 8 0.13
31 12 0.19
32 26 0.41
33 5 0.08
34 6 0.10
35 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (30 bp):
AAAAAAAAATATATAGTATATAATAATAAT
Found at i:1466879 original size:158 final size:157
Alignment explanation
Indices: 1466647--1466997 Score: 499
Period size: 160 Copynumber: 2.2 Consensus size: 157
1466637 TTCATACTCC
* ** *
1466647 ATTTTAAGTCTATTTTTACTAAATTTGAACCACATGATCCTAAATTATATTAAATACATGTGTAC
1 ATTTTAAGTCTATTTTTACCAAATTTGAACCACATGATCCTAAACCATAGTAAATACATGTGTAC
* * *
1466712 TTTCAATTCCTCTTTTTGATGACA-A-TTTTTTATTTTTCAATTTAATCGTTCAGTTTTTCATAA
66 TTTCAATTCCTCTTTTTGATAACATATTTTTTTATTTTTCAATTTAATCATTCAATTTTTCATAA
*
1466775 TCTCCTTATTTCTTCAATTCGTCATTT
131 TCTCCTTATTCCTTCAATTCGTCATTT
* **
1466802 ATTTTAAGTTTGATTTGTTACCAAATTTGAGTCACATGATCCTAAACCATAGTAGAATACATGTG
1 ATTTTAAGTCT-ATTT-TTACCAAATTTGAACCACATGATCCTAAACCATAGTA-AATACATGTG
* *
1466867 TACTTTCAATTCCTCTTTTTGATAACATATTTTTTTATTTTTTAATTTAGTCATTCAATTTTTCA
63 TACTTTCAATTCCTCTTTTTGATAACATATTTTTTTATTTTTCAATTTAATCATTCAATTTTTCA
* *
1466932 TAATCTCCTTATTCCTTCAATTTGTGATTT
128 TAATCTCCTTATTCCTTCAATTCGTCATTT
* **
1466962 ATTTTAAGTCCATTTTTGTCAAATTTGAACCACATG
1 ATTTTAAGTCTATTTTTACCAAATTTGAACCACATG
1466998 CTCATATATC
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
155 10 0.06
156 4 0.02
157 31 0.18
158 53 0.31
159 5 0.03
160 67 0.39
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (157 bp):
ATTTTAAGTCTATTTTTACCAAATTTGAACCACATGATCCTAAACCATAGTAAATACATGTGTAC
TTTCAATTCCTCTTTTTGATAACATATTTTTTTATTTTTCAATTTAATCATTCAATTTTTCATAA
TCTCCTTATTCCTTCAATTCGTCATTT
Found at i:1467033 original size:158 final size:155
Alignment explanation
Indices: 1466647--1467019 Score: 478
Period size: 158 Copynumber: 2.4 Consensus size: 155
1466637 TTCATACTCC
* * *
1466647 ATTTTAAGTCTATTTTTACTAAATTTGAACCACATGATCCTAAATTATATTA-AATACATGTGTA
1 ATTTTAAGTCCATTTTTAC-AAATTTGAACCACATGATCCTAAATCATAATAGAATACATGTGTA
* * *
1466711 CTTTCAATTCCTCTTTTTGATGACAATTTTTTATTTTTCAATTTAATCGTTCAGTTTTTCATAAT
65 CTTTCAATTCCTCTTTTTGATAACAATTTTTTATTTTTCAATTTAATCATTCAATTTTTCATAAT
*
1466776 CTCCTTATTTCTTCAATTCGTCATTT
130 CTCCTTATTCCTTCAATTCGTCATTT
** ** * *
1466802 ATTTTAAGTTTGATTTGTTACCAAATTTGAGTCACATGATCCTAAACCATAGTAGAATACATGTG
1 ATTTTAAG-TCCATTT-TTA-CAAATTTGAACCACATGATCCTAAATCATAATAGAATACATGTG
* *
1466867 TACTTTCAATTCCTCTTTTTGATAACATATTTTTTTATTTTTTAATTTAGTCATTCAATTTTTCA
63 TACTTTCAATTCCTCTTTTTGATAACA-A-TTTTTTATTTTTCAATTTAATCATTCAATTTTTCA
* *
1466932 TAATCTCCTTATTCCTTCAATTTGTGATTT
126 TAATCTCCTTATTCCTTCAATTCGTCATTT
* * * * *
1466962 ATTTTAAGTCCATTTTTGTCAAATTTGAACCACATGCTCATATATCACAATAGAATAC
1 ATTTTAAGTCCATTTTT-ACAAATTTGAACCACATGATCCTAAATCATAATAGAATAC
1467020 CTATGTAACT
Statistics
Matches: 185, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
155 8 0.04
156 5 0.03
157 30 0.16
158 70 0.38
159 6 0.03
160 66 0.36
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (155 bp):
ATTTTAAGTCCATTTTTACAAATTTGAACCACATGATCCTAAATCATAATAGAATACATGTGTAC
TTTCAATTCCTCTTTTTGATAACAATTTTTTATTTTTCAATTTAATCATTCAATTTTTCATAATC
TCCTTATTCCTTCAATTCGTCATTT
Found at i:1475623 original size:28 final size:28
Alignment explanation
Indices: 1475591--1475645 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1475581 CCGTCATTGC
*
1475591 TTTCAAGCACTGACTC-ACCAACATAATA
1 TTTCAAGAACTGACTCGA-CAACATAATA
1475619 TTTCAAGAACTGACTCGACAACATAAT
1 TTTCAAGAACTGACTCGACAACATAAT
1475646 GTAAACGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (28 bp):
TTTCAAGAACTGACTCGACAACATAATA
Found at i:1477392 original size:11 final size:11
Alignment explanation
Indices: 1477366--1477416 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
1477356 TAACCCGTCT
*
1477366 TCGAGCTTCAA
1 TCGAGCTTGAA
*
1477377 ACGAGCTTGAA
1 TCGAGCTTGAA
1477388 TCGAG-TTCGAA
1 TCGAGCTT-GAA
* *
1477399 TTGAGTTTGAA
1 TCGAGCTTGAA
1477410 TCGAGCT
1 TCGAGCT
1477417 CGAGTCTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 2 0.06
11 28 0.88
12 2 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:1478897 original size:15 final size:16
Alignment explanation
Indices: 1478857--1478897 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1478847 TTATGACATC
* *
1478857 CTAGTTATTATTGTTT
1 CTAGTTTTTATTGTTA
1478873 CTAGTTTTTATTGTTA
1 CTAGTTTTTATTGTTA
1478889 CTA-TTTTTA
1 CTAGTTTTTA
1478898 GCTGTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (16 bp):
CTAGTTTTTATTGTTA
Found at i:1482977 original size:19 final size:19
Alignment explanation
Indices: 1482909--1482977 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
1482899 TCAAATATCT
1482909 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
*
1482928 ATATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
1482947 TACATAAATAATATTATTAA
1 T-TATTAATAATATTATTAA
1482967 TTATTAATAAT
1 TTATTAATAAT
1482978 TTAATAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 8 0.21
19 15 0.39
20 8 0.21
22 7 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:1483122 original size:22 final size:22
Alignment explanation
Indices: 1483094--1483137 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1483084 TTGAGTTTTT
1483094 TATTATAATATTAAAAATATTA
1 TATTATAATATTAAAAATATTA
* *
1483116 TATTATATTATTAGAAATATTA
1 TATTATAATATTAAAAATATTA
1483138 ATAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTATAATATTAAAAATATTA
Found at i:1485710 original size:106 final size:106
Alignment explanation
Indices: 1485525--1485950 Score: 654
Period size: 106 Copynumber: 4.0 Consensus size: 106
1485515 TGTATTGTTC
* * * * * * *
1485525 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTATGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1485590 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
1485631 CGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1485696 ACCAGTCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* **
1485737 TGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1485802 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
1485843 TGATTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
1485908 ACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1485949 CG
1 CG
1485951 GGTGGCGCGA
Statistics
Matches: 293, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 293 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:1486666 original size:37 final size:37
Alignment explanation
Indices: 1486584--1486668 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
1486574 GTTTCATGAG
* * * * **
1486584 AAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
1486621 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
*
1486657 GAAATTGTCTCA
1 -AAACTGTCTCA
1486669 TGGGGAGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
Found at i:1487407 original size:18 final size:18
Alignment explanation
Indices: 1487380--1487415 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1487370 TGTTGAATCC
*
1487380 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
1487398 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
1487416 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:1488489 original size:22 final size:19
Alignment explanation
Indices: 1488464--1488515 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
1488454 TTTTTGTCCC
*
1488464 TTTTCTTTTTGATTTTTGCTT
1 TTTTCTTTTTG-TTCTTG-TT
1488485 ATTTTCTTTTTTGTTCTTGTT
1 -TTTTC-TTTTTGTTCTTGTT
1488506 TTTTCTTTTT
1 TTTTCTTTTT
1488516 TGTTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 2 0.07
22 10 0.36
23 6 0.21
ACGTcount: A:0.04, C:0.10, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTCTTTTTGTTCTTGTT
Found at i:1488495 original size:16 final size:16
Alignment explanation
Indices: 1488476--1488533 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1488466 TTCTTTTTGA
1488476 TTTTTGCTTATTTTCT
1 TTTTTGCTTATTTTCT
*
1488492 TTTTTGTTCTTGTTTTTTCT
1 TTTTTG--C-T-TATTTTCT
* *
1488512 TTTTTGTTTCTTTTCT
1 TTTTTGCTTATTTTCT
1488528 TTTTTG
1 TTTTTG
1488534 TTCTTGATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 19 0.54
17 1 0.03
18 1 0.03
19 1 0.03
20 13 0.37
ACGTcount: A:0.02, C:0.10, G:0.09, T:0.79
Consensus pattern (16 bp):
TTTTTGCTTATTTTCT
Found at i:1488538 original size:10 final size:10
Alignment explanation
Indices: 1488488--1488525 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
1488478 TTTGCTTATT
1488488 TTCTTTTTTG
1 TTCTTTTTTG
1488498 TTCTTGTTTT-
1 TTCTT-TTTTG
1488508 TTCTTTTTTG
1 TTCTTTTTTG
1488518 TTTCTTTT
1 -TTCTTTT
1488526 CTTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 10 0.40
11 11 0.44
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (10 bp):
TTCTTTTTTG
Found at i:1492003 original size:5 final size:5
Alignment explanation
Indices: 1491977--1492026 Score: 75
Period size: 5 Copynumber: 9.8 Consensus size: 5
1491967 AAACAATTAG
1491977 TAAAA TAAAA -ATAAA TAGAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TA-AAA TA-AAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1492027 TGGCAAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
4 1 0.02
5 35 0.83
6 6 0.14
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1493165 original size:15 final size:15
Alignment explanation
Indices: 1493147--1493176 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1493137 TGAATCAATG
*
1493147 AATAAAGTAAATAAA
1 AATAAAATAAATAAA
1493162 AATAAAATAAATAAA
1 AATAAAATAAATAAA
1493177 CAAAACGAAG
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:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AATAAAATAAATAAA
Found at i:1494032 original size:28 final size:28
Alignment explanation
Indices: 1493992--1494047 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
1493982 AGGAGGAGTC
1493992 TTCGGGGAGGAGGCATGTGGCGCTGGAA
1 TTCGGGGAGGAGGCATGTGGCGCTGGAA
*
1494020 TTCGGGGAGGAGGCATGTGGCGTTGGAA
1 TTCGGGGAGGAGGCATGTGGCGCTGGAA
1494048 AATTAGTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.12, G:0.50, T:0.20
Consensus pattern (28 bp):
TTCGGGGAGGAGGCATGTGGCGCTGGAA
Found at i:1494339 original size:2 final size:2
Alignment explanation
Indices: 1494332--1494359 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1494322 TATAGCTAAC
1494332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1494360 TTTAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1496543 original size:20 final size:20
Alignment explanation
Indices: 1496498--1496547 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
1496488 AGATGAACAC
1496498 TATCGATACTGATTGAAGTAG
1 TATCGATACTGATTGAAG-AG
*
1496519 TATCGATACTGATGTGGAG-G
1 TATCGATACTGAT-TGAAGAG
1496539 TATCGATAC
1 TATCGATAC
1496548 CAAGAGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGATACTGATTGAAGAG
Found at i:1497426 original size:23 final size:22
Alignment explanation
Indices: 1497396--1497496 Score: 67
Period size: 23 Copynumber: 4.4 Consensus size: 22
1497386 AGTCGAGAGT
1497396 TCTATGTGGTCCTTCCGGAAAAA
1 TCTATGTGGTCCTT-CGGAAAAA
* * *
1497419 TCTATGTGGTCATTCGAGACAAT
1 TCTATGTGGTCCTTCG-GAAAAA
* * *
1497442 TCTACGTGGTCTTTTGGGAAAAA
1 TCTATGTGGTC-CTTCGGAAAAA
* * * *
1497465 TTCTATGCGATCCTTAGGGACAAA
1 -TCTATGTGGTCCTT-CGGAAAAA
1497489 TCTATGTG
1 TCTATGTG
1497497 ACACTTCGGT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.03
23 40 0.67
24 18 0.30
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (22 bp):
TCTATGTGGTCCTTCGGAAAAA
Found at i:1497517 original size:24 final size:24
Alignment explanation
Indices: 1497462--1497542 Score: 96
Period size: 24 Copynumber: 3.4 Consensus size: 24
1497452 CTTTTGGGAA
*
1497462 AAATTCTATGCGATC-CTTAGG-GAC
1 AAATTCTATGCGA-CACTTCGGTG-C
*
1497486 AAA-TCTATGTGACACTTCGGTGC
1 AAATTCTATGCGACACTTCGGTGC
1497509 AAATTCTATGCGACACTTCGGTGC
1 AAATTCTATGCGACACTTCGGTGC
*
1497533 AAATTATATG
1 AAATTCTATG
1497543 AGCAGTGGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.02
23 17 0.34
24 32 0.64
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
AAATTCTATGCGACACTTCGGTGC
Found at i:1499329 original size:33 final size:34
Alignment explanation
Indices: 1499275--1499340 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
1499265 TCTCTCACAC
1499275 TCTCTCTCTGAACAGTAAGAGGCGGGAAACATAT
1 TCTCTCTCTGAACAGTAAGAGGCGGGAAACATAT
*
1499309 TCTCTCTCT-AATAGTAAGAGGCGGGAAACATA
1 TCTCTCTCTGAACAGTAAGAGGCGGGAAACATA
1499341 AAGCAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (34 bp):
TCTCTCTCTGAACAGTAAGAGGCGGGAAACATAT
Found at i:1503160 original size:45 final size:45
Alignment explanation
Indices: 1503095--1503184 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
1503085 AGCAAAAATG
* *
1503095 ACCTCAACTCTCTACATCACTCCGATATGAAATTAAAACTAAGAT
1 ACCTCAACTCTCTACATCACTCCCATATGAAACTAAAACTAAGAT
*
1503140 ACCTCAACTCTCTACTTCACTCCCATATGAAACTAAAACTAAGAT
1 ACCTCAACTCTCTACATCACTCCCATATGAAACTAAAACTAAGAT
1503185 CTGCAAACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (45 bp):
ACCTCAACTCTCTACATCACTCCCATATGAAACTAAAACTAAGAT
Found at i:1508373 original size:14 final size:14
Alignment explanation
Indices: 1508354--1508405 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1508344 GTAATTGGTT
1508354 TTCTGGAAATTGAA
1 TTCTGGAAATTGAA
*
1508368 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
* *
1508382 TGACTGAAAATTGAA
1 T-TCTGGAAATTGAA
*
1508397 TTATGGAAA
1 TTCTGGAAA
1508406 ACGAATTACA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:1508645 original size:15 final size:15
Alignment explanation
Indices: 1508622--1508651 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1508612 AATATTAAAA
1508622 TAAAATTTTTTTTAT
1 TAAAATTTTTTTTAT
*
1508637 TAAATTTTTTTTTAT
1 TAAAATTTTTTTTAT
1508652 AATTTTATTA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAAAATTTTTTTTAT
Found at i:1508794 original size:23 final size:23
Alignment explanation
Indices: 1508745--1508795 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1508735 TAGTGTTATT
**
1508745 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
1508768 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
1508791 ATATT
1 ATATT
1508796 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:1508943 original size:8 final size:8
Alignment explanation
Indices: 1508932--1508981 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
1508922 ATATAATATC
1508932 TTATATTA
1 TTATATTA
*
1508940 TTATAATA
1 TTATATTA
1508948 -TA-ATTGA
1 TTATATT-A
*
1508955 TTATTTTA
1 TTATATTA
*
1508963 TTATAATA
1 TTATATTA
1508971 TTATATTA
1 TTATATTA
1508979 TTA
1 TTA
1508982 GAAATATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
6 2 0.06
7 3 0.09
8 26 0.79
9 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:1508951 original size:23 final size:24
Alignment explanation
Indices: 1508921--1508981 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
1508911 TTAAAATAAA
*
1508921 AATATAATAT-CTTATATTATTAT
1 AATATAATATGATTATATTATTAT
*
1508944 AATATAAT-TGATTATTTTATTAT
1 AATATAATATGATTATATTATTAT
* *
1508967 AATATTATATTATTA
1 AATATAATATGATTA
1508982 GAAATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.03
23 26 0.81
24 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
AATATAATATGATTATATTATTAT
Found at i:1515155 original size:21 final size:22
Alignment explanation
Indices: 1515120--1515200 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 22
1515110 TTGGTGCAGA
1515120 GGGAATCGA-TCCCCCCATGA-
1 GGGAATCGATTCCCCCCATGAG
* ** *
1515140 GGGAACCGATTCCCCCTTTAAAG
1 GGGAATCGATTCCCCCCAT-GAG
1515163 GGGAATCGATTCCCCCCAT-AG
1 GGGAATCGATTCCCCCCATGAG
*
1515184 GGGAATCGATACCCCCC
1 GGGAATCGATTCCCCCC
1515201 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.16
21 25 0.50
22 1 0.02
23 16 0.32
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (22 bp):
GGGAATCGATTCCCCCCATGAG
Found at i:1518648 original size:42 final size:42
Alignment explanation
Indices: 1518602--1518697 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
1518592 TTAACTCAAC
**
1518602 ACAAACATTGAAAAACATTTTCCGAAAAACGAATTACGTGAA
1 ACAAACACAGAAAAACATTTTCCGAAAAACGAATTACGTGAA
* * *
1518644 ACAAACACAGGAAAACATTTTCGGGAAAACGAATTACGTGAA
1 ACAAACACAGAAAAACATTTTCCGAAAAACGAATTACGTGAA
1518686 ACAAACAC-GAAA
1 ACAAACACAGAAA
1518698 TTTCGGAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 3 0.06
42 45 0.94
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.17
Consensus pattern (42 bp):
ACAAACACAGAAAAACATTTTCCGAAAAACGAATTACGTGAA
Found at i:1519430 original size:29 final size:30
Alignment explanation
Indices: 1519376--1519437 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
1519366 AAAACATAAT
1519376 ATATGATCTCTTTTGTTTTATTTAATTAAG
1 ATATGATCTCTTTTGTTTTATTTAATTAAG
*
1519406 ATATGATCAT-TTTTGTTTTA-TTAATTATG
1 ATATGATC-TCTTTTGTTTTATTTAATTAAG
1519435 ATA
1 ATA
1519438 CGGTCACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.37
30 18 0.60
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (30 bp):
ATATGATCTCTTTTGTTTTATTTAATTAAG
Found at i:1519697 original size:26 final size:25
Alignment explanation
Indices: 1519668--1519740 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
1519658 AAATAAAAAT
1519668 AAAATATTTTTAAATTAAATTAATA-A
1 AAAATATTTTT-AA-TAAATTAATATA
* *
1519694 AAAATATATTTAATAAGTTAATATA
1 AAAATATTTTTAATAAATTAATATA
*
1519719 AAAA-ATTTTT--TAAAGTAATATA
1 AAAATATTTTTAATAAATTAATATA
1519741 TATAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 10 0.24
24 14 0.34
25 7 0.17
26 10 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (25 bp):
AAAATATTTTTAATAAATTAATATA
Found at i:1519714 original size:24 final size:27
Alignment explanation
Indices: 1519668--1519722 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
1519658 AAATAAAAAT
*
1519668 AAAATATTTTTAAATTAAATTAATA-A
1 AAAATATATTTAAATTAAATTAATATA
*
1519694 AAAATATATTT-AA-TAAGTTAATATA
1 AAAATATATTTAAATTAAATTAATATA
1519719 AAAA
1 AAAA
1519723 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 9 0.35
25 7 0.27
26 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AAAATATATTTAAATTAAATTAATATA
Found at i:1523736 original size:61 final size:60
Alignment explanation
Indices: 1523629--1523761 Score: 205
Period size: 61 Copynumber: 2.2 Consensus size: 60
1523619 GAAAAATATA
*
1523629 ACAC-AATAATTTATAGTGGTTCGACTTCTAAACAAAGTATACATCAATTATCTTAGCTCC
1 ACACTAATGATTTATAGTGGTTCGACTTCTAAACAAAGTATACATCAA-TATCTTAGCTCC
* * *
1523689 ACACTAATGATTTATAGTGGTTCGACTTCTAAACCAAGTCTATATCAATATCTTAGCTCC
1 ACACTAATGATTTATAGTGGTTCGACTTCTAAACAAAGTATACATCAATATCTTAGCTCC
*
1523749 ACACTAAAGATTT
1 ACACTAATGATTT
1523762 TCCAACAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
60 28 0.42
61 39 0.58
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (60 bp):
ACACTAATGATTTATAGTGGTTCGACTTCTAAACAAAGTATACATCAATATCTTAGCTCC
Found at i:1531176 original size:23 final size:23
Alignment explanation
Indices: 1531115--1531234 Score: 136
Period size: 23 Copynumber: 5.2 Consensus size: 23
1531105 AATAACTATA
*
1531115 TCTTTATGACATATTTTCTTCTG
1 TCTTTATGACATGTTTTCTTCTG
* *
1531138 CCTTTATGATATGTTTTCTTCTG
1 TCTTTATGACATGTTTTCTTCTG
* *
1531161 TCTTTATGACACGTTTTTCTT-TA
1 TCTTTATGACATG-TTTTCTTCTG
* *
1531184 TCTTTATGACACGTTTTTCTT-TA
1 TCTTTATGACATG-TTTTCTTCTG
*
1531207 TCTTTATGACATGTTTTCCTCTG
1 TCTTTATGACATGTTTTCTTCTG
1531230 TCTTT
1 TCTTT
1531235 TGATGATTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 6 0.07
23 72 0.85
24 7 0.08
ACGTcount: A:0.15, C:0.18, G:0.10, T:0.57
Consensus pattern (23 bp):
TCTTTATGACATGTTTTCTTCTG
Found at i:1534766 original size:17 final size:17
Alignment explanation
Indices: 1534744--1534785 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1534734 CCGAGCCAAG
*
1534744 CCGTTGACCTCCATTGA
1 CCGTTGACCACCATTGA
*
1534761 CCGTTGACCACCGTTGA
1 CCGTTGACCACCATTGA
*
1534778 CAGTTGAC
1 CCGTTGAC
1534786 TTTGACCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.26
Consensus pattern (17 bp):
CCGTTGACCACCATTGA
Found at i:1536636 original size:24 final size:24
Alignment explanation
Indices: 1536609--1536702 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
1536599 TATCTGATTT
* *
1536609 CTGATTTGAATTATGTTATGATAC
1 CTGATCTGAATTCTGTTATGATAC
* * * **
1536633 CTGACCTGGATTCTGTTCTGATTT
1 CTGATCTGAATTCTGTTATGATAC
*
1536657 CTGATCTGAATTCTGTTATGATAT
1 CTGATCTGAATTCTGTTATGATAC
*
1536681 TTGATCTGAATTCTAGTT-TGAT
1 CTGATCTGAATTCT-GTTATGAT
1536703 TTCTAATATA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 54 0.95
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (24 bp):
CTGATCTGAATTCTGTTATGATAC
Found at i:1536657 original size:48 final size:49
Alignment explanation
Indices: 1536601--1536706 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 49
1536591 GAATATTTTA
* *
1536601 TCTGATTTCTGATTTGAATTATGTTATGATACCTGACCTGGATTCT-GT
1 TCTGATTTCTGATCTGAATTATGTTATGATACCTGACCTGAATTCTAGT
* ** *
1536649 TCTGATTTCTGATCTGAATTCTGTTATGATATTTGATCTGAATTCTAGT
1 TCTGATTTCTGATCTGAATTATGTTATGATACCTGACCTGAATTCTAGT
1536698 T-TGATTTCT
1 TCTGATTTCT
1536707 AATATATCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 48 0.94
49 3 0.06
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (49 bp):
TCTGATTTCTGATCTGAATTATGTTATGATACCTGACCTGAATTCTAGT
Found at i:1536664 original size:12 final size:12
Alignment explanation
Indices: 1536642--1536694 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
1536632 CCTGACCTGG
*
1536642 ATTCTGTTCTGA
1 ATTCTGATCTGA
*
1536654 TTTCTGATCTGA
1 ATTCTGATCTGA
* *
1536666 ATTCTGTTATGA
1 ATTCTGATCTGA
1536678 TATT-TGATCTGA
1 -ATTCTGATCTGA
1536690 ATTCT
1 ATTCT
1536695 AGTTTGATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
11 3 0.09
12 26 0.81
13 3 0.09
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (12 bp):
ATTCTGATCTGA
Found at i:1540334 original size:44 final size:44
Alignment explanation
Indices: 1540278--1540364 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
1540268 TTGGAGGAAG
* *
1540278 TTTCTGAAGGCTCATTTGCTATCTG-CAAGGGTAAGACTTTACCA
1 TTTCTGAAGGCTCATCTGCTATCTGTCAA-GGTAAGACCTTACCA
* *
1540322 TTTCTGAAGGCTCCTCTGCTATGTGTCAAGGTAAGACCTTACC
1 TTTCTGAAGGCTCATCTGCTATCTGTCAAGGTAAGACCTTACC
1540365 GTTTTCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (44 bp):
TTTCTGAAGGCTCATCTGCTATCTGTCAAGGTAAGACCTTACCA
Found at i:1540381 original size:45 final size:44
Alignment explanation
Indices: 1540278--1540382 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 44
1540268 TTGGAGGAAG
* * * *
1540278 TTTCTGAAGGCTCATTTGCTATCTGCAAGGGTAAGACTTTACCA
1 TTTCTGAAGACTCCTCTGCTATCTGCAAGGGTAAGACCTTACCA
* * *
1540322 TTTCTGAAGGCTCCTCTGCTATGTGTCAA-GGTAAGACCTTACCGT
1 TTTCTGAAGACTCCTCTGCTATCTG-CAAGGGTAAGACCTTACC-A
1540367 TTTCT-ATAGACTCCTC
1 TTTCTGA-AGACTCCTC
1540383 GGATTTTTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 36 0.69
45 16 0.31
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (44 bp):
TTTCTGAAGACTCCTCTGCTATCTGCAAGGGTAAGACCTTACCA
Found at i:1542417 original size:25 final size:26
Alignment explanation
Indices: 1542373--1542431 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
1542363 AGGTAATTAG
*
1542373 GTGGGTAGTGGTGGATTAGGTGGTTA
1 GTGGGTAGTAGTGGATTAGGTGGTTA
1542399 GTGGGT-GTAGTGGATTAGGTGGTTA
1 GTGGGTAGTAGTGGATTAGGTGGTTA
1542424 GTGGGTAG
1 GTGGGTAG
1542432 GTAATAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 24 0.77
26 7 0.23
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.34
Consensus pattern (26 bp):
GTGGGTAGTAGTGGATTAGGTGGTTA
Found at i:1543330 original size:259 final size:259
Alignment explanation
Indices: 1542871--1543357 Score: 661
Period size: 259 Copynumber: 1.9 Consensus size: 259
1542861 CAGATCTCAT
* ** *
1542871 TCTTGACTTAAAGACCTCGGTTTGAACTTTGACCGGAAAGTAGTCCTCCGTTGCTACAATGCAGT
1 TCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGGAAAGTAGTCCTCCGATGCTACAATGCAGT
* * * * * *
1542936 TGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAAGTCTTCATTGACAGATAACCCTTCTTGC
66 TGATATACCATCGAGATGAATGGAATCGAACTCGAAAGTCTTCATTAACAGATAACCCTTCTCGC
** * * * * *
1543001 CTTGAGTTATGTTGTAAACTTGTTATGTCTTTGAGCTGAATGGAATCGAACTCAAAGGTTTCTGT
131 CTTGAACTATGCTGTAAACTTGATATGCCCTTGAGCTGAATGGAATCGAACTCAAAGGTTTCTAT
*
1543066 TGACAGATAACCCTCATCGTCTTGAGTTATGCTATACTAAGCTGAGAGATTGCCCAAATCTTCC
196 TGACAGATAACCCTCATCGCCTTGAGTTATGCTATACTAAGCTGAGAGATTGCCCAAATCTTCC
* *
1543130 TCTTGACTTAAAGACCTTGGTTTAAACTTCAACCGGAAAGTAGTTCCT-CGATGCTACCATGCAG
1 TCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGGAAAGTAG-TCCTCCGATGCTACAATGCAG
* * * ** *
1543194 TTGATATATCATCGAGATGAATGGAATCGAACTCGACAGTTTTTGTTAACAGATAGCCCTTCTCG
65 TTGATATACCATCGAGATGAATGGAATCGAACTCGAAAGTCTTCATTAACAGATAACCCTTCTCG
* * * ** *
1543259 CCTTGAACTATGCTGTAAATTTGATATGCCCTTGAGCTTAATGTAATCGAACTTGAAGGTTTTTA
130 CCTTGAACTATGCTGTAAACTTGATATGCCCTTGAGCTGAATGGAATCGAACTCAAAGGTTTCTA
*
1543324 TTGACAGATAACCCTTATCGCCTTGAGTTATGCT
195 TTGACAGATAACCCTCATCGCCTTGAGTTATGCT
1543358 GTAAATTTGA
Statistics
Matches: 194, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
259 190 0.98
260 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (259 bp):
TCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGGAAAGTAGTCCTCCGATGCTACAATGCAGT
TGATATACCATCGAGATGAATGGAATCGAACTCGAAAGTCTTCATTAACAGATAACCCTTCTCGC
CTTGAACTATGCTGTAAACTTGATATGCCCTTGAGCTGAATGGAATCGAACTCAAAGGTTTCTAT
TGACAGATAACCCTCATCGCCTTGAGTTATGCTATACTAAGCTGAGAGATTGCCCAAATCTTCC
Found at i:1543339 original size:85 final size:84
Alignment explanation
Indices: 1543211--1543438 Score: 339
Period size: 85 Copynumber: 2.7 Consensus size: 84
1543201 ATCATCGAGA
* * * *
1543211 TGAATGGAATCGAACTCGACAGTTTTTGTTAACAGATAGCCCTTCTCGCCTTGAACTATGCTGTA
1 TGAATGTAATCGAACTCGA-AGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTA
1543276 AATTTGATATGCCCTTGAGC
65 AATTTGATATGCCCTTGAGC
* * * * *
1543296 TTAATGTAATCGAACTTGAAGGTTTTTATTGACAGATAACCCTTATCGCCTTGAGTTATGCTGTA
1 TGAATGTAATCGAACTCGAA-GTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTA
*
1543361 AATTTGATATGTCCTTGAGC
65 AATTTGATATGCCCTTGAGC
*
1543381 TGAATGTAATCGAACTCGAAGTTTTTGTTGACAGATATCCCTTCTCGCCTTGAGCTAT
1 TGAATGTAATCGAACTCGAAGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
1543439 ACTATAATAG
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 35 0.28
85 91 0.72
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (84 bp):
TGAATGTAATCGAACTCGAAGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAA
ATTTGATATGCCCTTGAGC
Found at i:1544321 original size:32 final size:32
Alignment explanation
Indices: 1544279--1544360 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
1544269 TCAGGATGGA
* *
1544279 GAATCCCTAAAGATGCCCCAATATTCGATGTT
1 GAATCTCTAAAGATGCCCCAATATTCAATGTT
*
1544311 GAATCTCTAAA-ACTGCCCCAATATTTAATGTT
1 GAATCTCTAAAGA-TGCCCCAATATTCAATGTT
1544343 GAATCT-TCAAAGATGCCC
1 GAATCTCT-AAAGATGCCC
1544361 TCATTGTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 2 0.05
32 41 0.93
33 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (32 bp):
GAATCTCTAAAGATGCCCCAATATTCAATGTT
Found at i:1547231 original size:13 final size:13
Alignment explanation
Indices: 1547199--1547241 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
1547189 TGAATGATGT
*
1547199 AAATGATAAAAAATA
1 AAATGA-AAGAAA-A
1547214 AAATGAAAGAAAA
1 AAATGAAAGAAAA
1547227 AAATGAAAGGAAAA
1 AAATGAAA-GAAAA
1547241 A
1 A
1547242 GTTAGTGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (13 bp):
AAATGAAAGAAAA
Found at i:1547241 original size:14 final size:13
Alignment explanation
Indices: 1547199--1547241 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1547189 TGAATGATGT
*
1547199 AAATGATAAAAAATA
1 AAATGA-AAGAAA-A
1547214 AAATGAAAGAAAA
1 AAATGAAAGAAAA
*
1547227 AAATGAAAGGAAA
1 AAATGAAAGAAAA
1547240 AA
1 AA
1547242 GTTAGTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (13 bp):
AAATGAAAGAAAA
Found at i:1549549 original size:3 final size:3
Alignment explanation
Indices: 1549543--1549591 Score: 80
Period size: 3 Copynumber: 15.7 Consensus size: 3
1549533 GTAGGTAATA
1549543 ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT AATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
1549590 AT
1 AT
1549592 ATTTTTTCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1549562 original size:16 final size:16
Alignment explanation
Indices: 1549541--1549590 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
1549531 GGGTAGGTAA
1549541 TAATTATTATTATTAT
1 TAATTATTATTATTAT
1549557 TAATTATTATTATTAT
1 TAATTATTATTATTAT
1549573 TAATTATTATTATTAT
1 TAATTATTATTATTAT
1549589 TA
1 TA
1549591 TATTTTTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTATTATTATTAT
Done.