Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 41
Found at i:4168456 original size:32 final size:32
Alignment explanation
Indices: 4168352--4168475 Score: 103
Period size: 31 Copynumber: 3.9 Consensus size: 32
4168342 ACCTTGGCAA
* * *
4168352 CTGTCCATAGGTCCCGAAGAACCTAAGTAAATT
1 CTGTCCATATGTCCCGAAGAACATAGGT-AATT
* ** * *
4168385 -T-TCCATATGTTCCTTAGAACATATGT-ATA
1 CTGTCCATATGTCCCGAAGAACATAGGTAATT
4168414 CTGTCCATATGTCCCGAA-AGACATAGGTAATT
1 CTGTCCATATGTCCCGAAGA-ACATAGGTAATT
* * *
4168446 CTGTTCATATGTTCCGTAGAACATAGGTAA
1 CTGTCCATATGTCCCGAAGAACATAGGTAA
4168476 ACCCTCGACT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
29 2 0.03
30 2 0.03
31 38 0.54
32 28 0.39
33 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (32 bp):
CTGTCCATATGTCCCGAAGAACATAGGTAATT
Found at i:4172783 original size:19 final size:20
Alignment explanation
Indices: 4172754--4172791 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4172744 AGAAATTTGT
4172754 TGAATGTGCATCGATGCATA
1 TGAATGTGCATCGATGCATA
4172774 TGAA-GTGCATCGATGCAT
1 TGAATGTGCATCGATGCAT
4172792 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
TGAATGTGCATCGATGCATA
Found at i:4172835 original size:63 final size:62
Alignment explanation
Indices: 4172759--4172915 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 62
4172749 TTTGTTGAAT
* * * *
4172759 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
4172822 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
4172885 GTGCATCGATGCATCAGGAGTGCATCGATGC
1 GTGCATCGATGCAT-AGGAGTGCATCGATGC
4172916 GTGCATCGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
63 78 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:4174164 original size:18 final size:18
Alignment explanation
Indices: 4174141--4174176 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4174131 CGAGGGTCTA
4174141 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174159 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174177 ATATATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4174341 original size:103 final size:103
Alignment explanation
Indices: 4174159--4174485 Score: 618
Period size: 103 Copynumber: 3.2 Consensus size: 103
4174149 TTCGGGACAT
*
4174159 TGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
4174224 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
*
4174262 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
4174327 GATCCCTAGTATATGTATATGATTCGTAAGGAATGATA
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
4174365 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
4174430 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
4174468 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174486 TGTGGTCCTT
Statistics
Matches: 217, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 217 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (103 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
Found at i:4174491 original size:18 final size:18
Alignment explanation
Indices: 4174468--4174539 Score: 144
Period size: 18 Copynumber: 4.0 Consensus size: 18
4174458 AGGAATGATA
4174468 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174486 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174504 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174522 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4174540 ATATGTATTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4174648 original size:18 final size:18
Alignment explanation
Indices: 4174625--4174660 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4174615 AGGAATGATA
4174625 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
4174643 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
4174661 ATATGTATTC
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:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4174651 original size:157 final size:157
Alignment explanation
Indices: 4174365--4174660 Score: 583
Period size: 157 Copynumber: 1.9 Consensus size: 157
4174355 AGGAATGATA
4174365 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
4174430 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
4174495 TCGGGACATTGTGGTCCTTCGGGACAT
131 TCGGGACATTGTGGTCCTTCGGGACAT
4174522 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
4174587 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
*
4174652 TTGGGACAT
131 TCGGGACAT
4174661 ATATGTATTC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (157 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
TCGGGACATTGTGGTCCTTCGGGACAT
Found at i:4174722 original size:121 final size:121
Alignment explanation
Indices: 4174504--4174752 Score: 462
Period size: 121 Copynumber: 2.1 Consensus size: 121
4174494 TTCGGGACAT
4174504 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
1 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
4174569 CTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
66 CTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
*
4174625 TGTGGTCCTTCGGGACATTGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
1 TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
* * *
4174690 CTGGTGAGACGCATACTTGATCCCTAGTATATGTATATGATTCTTAATGAATGATA
66 CTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
4174746 TGTGGTC
1 TGTGGTC
4174753 TTTATGGACA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGT
CTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
Found at i:4174839 original size:23 final size:23
Alignment explanation
Indices: 4174771--4174831 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
4174761 CATTATTATA
*
4174771 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
4174794 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
4174817 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
4174832 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:4178668 original size:19 final size:20
Alignment explanation
Indices: 4178639--4178676 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4178629 AGAAATTTGT
4178639 TGAATGTGCATCGATGCATA
1 TGAATGTGCATCGATGCATA
4178659 TGAA-GTGCATCGATGCAT
1 TGAATGTGCATCGATGCAT
4178677 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
TGAATGTGCATCGATGCATA
Found at i:4178720 original size:63 final size:62
Alignment explanation
Indices: 4178644--4178802 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
4178634 TTTGTTGAAT
* * * *
4178644 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
4178707 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
4178770 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
4178803 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:4180039 original size:18 final size:18
Alignment explanation
Indices: 4180016--4180051 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4180006 CGAGGGTCTA
4180016 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180034 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180052 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4180160 original size:18 final size:18
Alignment explanation
Indices: 4180137--4180172 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4180127 AGGAATGATA
4180137 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180155 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180173 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4180228 original size:121 final size:121
Alignment explanation
Indices: 4180014--4180639 Score: 1180
Period size: 121 Copynumber: 5.2 Consensus size: 121
4180004 GTCGAGGGTC
4180014 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
4180079 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
4180135 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
*
4180200 GTCTAGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
4180256 TATGTGGTCCTTCGGGACATTGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
4180321 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
4180377 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
4180442 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
4180498 TATGTGGTCCTTCGGTACATTGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
* *
4180563 GTCTGGTGAGACGCATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
**
4180619 TATGTGGTCCTTATGGACATT
1 TATGTGGTCCTTCGGGACATT
4180640 ATTATATGGC
Statistics
Matches: 494, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 494 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:4180281 original size:18 final size:18
Alignment explanation
Indices: 4180258--4180293 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4180248 AGGAATGATA
4180258 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
4180276 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
4180294 ATATGTATTC
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:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4180402 original size:18 final size:18
Alignment explanation
Indices: 4180379--4180414 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4180369 AGGAATGATA
4180379 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180397 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4180415 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4180535 original size:18 final size:18
Alignment explanation
Indices: 4180500--4180535 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4180490 AGGAATGATA
*
4180500 TGTGGTCCTTCGGTACAT
1 TGTGGTCCTTCGGGACAT
*
4180518 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
4180536 ATATGTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.19, G:0.31, T:0.39
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4180714 original size:23 final size:23
Alignment explanation
Indices: 4180646--4180706 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
4180636 CATTATTATA
*
4180646 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
4180669 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
4180692 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
4180707 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:4183666 original size:2 final size:2
Alignment explanation
Indices: 4183659--4183717 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
4183649 TTTCCGTATG
4183659 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
4183701 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
4183718 CGAAATGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4184127 original size:2 final size:2
Alignment explanation
Indices: 4184120--4184146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4184110 TAGAACATAC
4184120 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 A
4184147 GGACTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4189735 original size:20 final size:20
Alignment explanation
Indices: 4189712--4189780 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 20
4189702 AAATTGATTT
*
4189712 TTTTTAAACTGGATCGGATA
1 TTTTAAAACTGGATCGGATA
*
4189732 TTTTAAAACT---T--GATT
1 TTTTAAAACTGGATCGGATA
* * *
4189747 TTTTTAAACCGGATCGAATA
1 TTTTAAAACTGGATCGGATA
4189767 TTTTAAAACTGGAT
1 TTTTAAAACTGGAT
4189781 AGTATAACCG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
15 11 0.31
17 1 0.03
18 1 0.03
20 23 0.64
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (20 bp):
TTTTAAAACTGGATCGGATA
Found at i:4189755 original size:35 final size:36
Alignment explanation
Indices: 4189701--4189776 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
4189691 AGATTTAGAG
* *
4189701 AAAA-TTGATTTTTTTTAAACTGGATCGGATATTTT
1 AAAACTTGATTTTTTTTAAACCGGATCGAATATTTT
4189736 AAAACTTGA-TTTTTTTAAACCGGATCGAATATTTT
1 AAAACTTGATTTTTTTTAAACCGGATCGAATATTTT
4189771 AAAACT
1 AAAACT
4189777 GGATAGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 34 0.89
36 4 0.11
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (36 bp):
AAAACTTGATTTTTTTTAAACCGGATCGAATATTTT
Found at i:4190685 original size:22 final size:22
Alignment explanation
Indices: 4190659--4190708 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
4190649 GATTTGACAT
*
4190659 TTCGCAGGACGAATTTGTCAAA
1 TTCGCAGCACGAATTTGTCAAA
4190681 TTCGCAGCACGAATTTGTCAAA
1 TTCGCAGCACGAATTTGTCAAA
4190703 TTCGCA
1 TTCGCA
4190709 ACTCAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (22 bp):
TTCGCAGCACGAATTTGTCAAA
Found at i:4201554 original size:13 final size:13
Alignment explanation
Indices: 4201536--4201561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4201526 GCAAGTTTTG
4201536 GCAGTGGAAACCA
1 GCAGTGGAAACCA
4201549 GCAGTGGAAACCA
1 GCAGTGGAAACCA
4201562 AACTAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.31, T:0.08
Consensus pattern (13 bp):
GCAGTGGAAACCA
Found at i:4202936 original size:16 final size:16
Alignment explanation
Indices: 4202865--4202929 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
4202855 TAATAAATAA
4202865 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4202881 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
* *
4202897 ACGAATATAAATGAAC
1 ACGAACATAAACGAAC
4202913 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4202929 A
1 A
4202930 TAAACATTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4203743 original size:8 final size:8
Alignment explanation
Indices: 4203727--4203760 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4203717 TACGGATAAG
4203727 TAATTAAA
1 TAATTAAA
*
4203735 TAGTTAAA
1 TAATTAAA
*
4203743 TAATTGAA
1 TAATTAAA
4203751 TAATTAAA
1 TAATTAAA
4203759 TA
1 TA
4203761 TATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:4205458 original size:2 final size:2
Alignment explanation
Indices: 4205451--4205475 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4205441 GTATAGAGTG
4205451 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 T
4205476 TTTAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4213642 original size:8 final size:8
Alignment explanation
Indices: 4213629--4213656 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4213619 GGATTCTCCC
4213629 ATATGTAT
1 ATATGTAT
4213637 ATATGTAT
1 ATATGTAT
4213645 ATATGTAT
1 ATATGTAT
4213653 ATAT
1 ATAT
4213657 ATCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:4217182 original size:8 final size:8
Alignment explanation
Indices: 4217169--4217211 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
4217159 AAAATGAGTG
4217169 AAAATGAA
1 AAAATGAA
4217177 AAAATGAA
1 AAAATGAA
*
4217185 AAAATAAAAA
1 AAAAT--GAA
4217195 AAAAT-AA
1 AAAATGAA
4217202 AAAATGAA
1 AAAATGAA
4217210 AA
1 AA
4217212 TGGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
10 7 0.23
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:4217195 original size:17 final size:17
Alignment explanation
Indices: 4217175--4217211 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
4217165 AGTGAAAATG
4217175 AAAAAATGAAAAAATAAA
1 AAAAAAT-AAAAAATAAA
4217193 AAAAAATAAAAAATGAAA
1 AAAAAATAAAAAAT-AAA
4217211 A
1 A
4217212 TGGAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAAATAAA
Found at i:4218435 original size:55 final size:54
Alignment explanation
Indices: 4218132--4218506 Score: 359
Period size: 54 Copynumber: 6.9 Consensus size: 54
4218122 AACAATTGTT
* * * **
4218132 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATT-GTT
1 GAAGATTATTCGAGTTCT-ATACTCCCTGAA-AAATAGGGAGCGA-ACCCG-TTAGCA
* * * * * *
4218187 GAAGA-TATTCGAGTTCTATTCTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGATTATTCGAGTTCTATACTCCCT-GAAAAATAGGGAGCGAACCCGTTAGCA
* * * * *
4218241 AAAGA-TATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATTATTCGAGTTCTATACTCCCTGAA-AAATAGGGAGCGAACCCGTTAGCA
* *
4218295 GAAGA-TATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAA-AAATAGGGAGCGAACCCGTTAGCA
* *
4218349 GAAGATTCTT-GAGTTCTATACTCCCTGAAACAATAGGGAGCGGACCCGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCGTTAGCA
***
4218403 GAAGATTATTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTCCCCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCGTTAGCA
* * ** *
4218458 GAAGATTCTTCAAGTTCTATGTTCCCTGAAACGATAGGGAGCGAACCCG
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCG
4218507 ATTTTGAAGA
Statistics
Matches: 282, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
53 5 0.02
54 179 0.63
55 98 0.35
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (54 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAAAATAGGGAGCGAACCCGTTAGCA
Found at i:4218794 original size:8 final size:8
Alignment explanation
Indices: 4218778--4218811 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4218768 TACGGATAAG
4218778 TAATTAAA
1 TAATTAAA
*
4218786 TAGTTAAA
1 TAATTAAA
*
4218794 TAATTGAA
1 TAATTAAA
4218802 TAATTAAA
1 TAATTAAA
4218810 TA
1 TA
4218812 TATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:4220511 original size:2 final size:2
Alignment explanation
Indices: 4220506--4220538 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4220496 ATAGAGTGTG
4220506 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 T
4220539 TTTAAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4221879 original size:14 final size:14
Alignment explanation
Indices: 4221862--4221917 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
4221852 AATGAACATA
*
4221862 AACGAACATAACTG
1 AACGAACATAACCG
4221876 AACGAACAT-A---
1 AACGAACATAACCG
*
4221886 AACTAACATAACCG
1 AACGAACATAACCG
4221900 AACGAACATAACCG
1 AACGAACATAACCG
4221914 AACG
1 AACG
4221918 TTCACGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
13 1 0.03
14 26 0.72
ACGTcount: A:0.52, C:0.25, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:4221882 original size:24 final size:24
Alignment explanation
Indices: 4221855--4221916 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
4221845 ATAAATAAAT
*
4221855 GAACATAAACGAACATAACTGAAC
1 GAACATAAACGAACATAACCGAAC
*
4221879 GAACATAAACTAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
4221903 GAACATAACCGAAC
1 GAACATAAACGAAC
4221917 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.24, G:0.11, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:4222067 original size:12 final size:12
Alignment explanation
Indices: 4222050--4222080 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4222040 CGCACGGTTT
4222050 ATGAACGGTTCG
1 ATGAACGGTTCG
4222062 ATGAACGGTTCG
1 ATGAACGGTTCG
4222074 ATGAACG
1 ATGAACG
4222081 TTCAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (12 bp):
ATGAACGGTTCG
Found at i:4223182 original size:15 final size:14
Alignment explanation
Indices: 4223149--4223180 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4223139 CGAACATCGT
*
4223149 AAAACGTTTTTCAG
1 AAAATGTTTTTCAG
4223163 AAAATGTTTTTCAG
1 AAAATGTTTTTCAG
4223177 AAAA
1 AAAA
4223181 ATATAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (14 bp):
AAAATGTTTTTCAG
Found at i:4224026 original size:764 final size:764
Alignment explanation
Indices: 4222558--4224838 Score: 4525
Period size: 764 Copynumber: 3.0 Consensus size: 764
4222548 CTCAAGTTCG
4222558 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
1 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
4222623 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
66 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
4222688 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
131 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
4222753 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
196 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
4222818 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
261 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
4222883 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
326 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
4222948 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
391 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
4223013 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
456 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
4223078 TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
521 TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
4223143 CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
586 CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
4223208 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
651 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
4223273 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACTAATTTGA
716 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACTAATTTGA
4223322 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
1 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
4223387 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
66 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
4223452 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
131 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
4223517 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
196 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
4223582 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
261 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
4223647 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
326 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
4223712 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
391 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
4223777 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
456 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
4223842 TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
521 TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
*
4223907 CATCGTAAAACGTTTTTCAGAAAATTTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
586 CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
4223972 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
651 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
4224037 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACTAATTTGA
716 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACTAATTTGA
4224086 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGA--TTTTTTTAAAGAAAT
1 AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
4224149 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
66 CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
4224214 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
131 ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
4224279 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
196 TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
4224344 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
261 GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
4224409 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
326 ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
4224474 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
391 CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
4224539 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAAT-AAAAATAATATA
456 ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
4224603 TAAC-AAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
521 TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
4224667 CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
586 CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
4224732 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
651 TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
4224797 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACT
716 AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACT
4224839 GTTGTATTAT
Statistics
Matches: 1515, Mismatches: 2, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
760 231 0.15
761 16 0.01
762 457 0.30
764 811 0.54
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (764 bp):
AACATTTATATTTATAGAAGTGTGTATGTTAACAATAATTTGAAATGATTTTTTTTTAAAGAAAT
CACTAATTTTATTAAAAATAAGAAATATCCTAAATTATAATAAATATTTACGATCATAATCGTAA
ATTAAGCATATAATTACGACCATTTCCTATAATCATTGAAACAAAACTAATAACTTAAGATTACA
TAGGCACCATACAAGGAAAGATTAAATTCTAACCAAGAAAACTCGAACAAAGATAGATATAAACA
GATCTAATCGCATCAGCAAACGAACCACAAAAGGAATCAAACTACTAAAAGCCCACCGAAAAACC
ATAATTCGGACTCAAACGACGCGAAAAACTATCCACGAACGCATAACATGTATCCAAATACAATC
CGATGGTCTAAAGCAGGAAAGATAAACAATATAACAGATAAACCTCATTTTGATAAGTCGTGGCT
ATATTTCATCAATCCTTAAAAAAAGATAAATGAAAACAACAACCAAACGAATAAAAAATAATATA
TAACAAAAAACAATAACAATTAACCATCTTCGTTTTAATTATATCATTATAGAAAACCTTCCGAA
CATCGTAAAACGTTTTTCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTTCGGAAAATATTT
TCCTGAAAACGTTTTCCATAAATGTAATTCATTTTCCAAAATTCAATTTTAAAAAAATCAATTAC
AGCCAAACAAATAGATCATTGGTTTACGTCAAATATTTTACTAATTTGA
Found at i:4224706 original size:15 final size:14
Alignment explanation
Indices: 4224673--4224704 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4224663 CGAACATCGT
*
4224673 AAAACGTTTTTCAG
1 AAAATGTTTTTCAG
4224687 AAAATGTTTTTCAG
1 AAAATGTTTTTCAG
4224701 AAAA
1 AAAA
4224705 ATATAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (14 bp):
AAAATGTTTTTCAG
Found at i:4232626 original size:47 final size:47
Alignment explanation
Indices: 4232557--4232651 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
4232547 TAACTTGGAC
4232557 TCCAGATCTTTTCTTTCTTCAATGAAAAAAATAATCTTTTTGTAGGA
1 TCCAGATCTTTTCTTTCTTCAATGAAAAAAATAATCTTTTTGTAGGA
4232604 TCCAGATCTTTTCTTTCTTCAATGAAAAAAATAATCTTTTTGTAGGA
1 TCCAGATCTTTTCTTTCTTCAATGAAAAAAATAATCTTTTTGTAGGA
4232651 T
1 T
4232652 TTGTGCTGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (47 bp):
TCCAGATCTTTTCTTTCTTCAATGAAAAAAATAATCTTTTTGTAGGA
Found at i:4239685 original size:12 final size:12
Alignment explanation
Indices: 4239665--4239714 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
4239655 AAAATCATTT
*
4239665 AAATATATTTTA
1 AAATTTATTTTA
4239677 AAATTTATTTTA
1 AAATTTATTTTA
***
4239689 AAA--TATAAAA
1 AAATTTATTTTA
4239699 AAATTTATTTTA
1 AAATTTATTTTA
4239711 AAAT
1 AAAT
4239715 ATGAATTGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:4239732 original size:44 final size:44
Alignment explanation
Indices: 4239679--4240093 Score: 602
Period size: 44 Copynumber: 9.4 Consensus size: 44
4239669 ATATTTTAAA
*
4239679 ATTTATTTTAAAATATAAAAAAATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
*** *
4239723 ATTTATTTTAAAATATGAATTGATTTATTTTAAAATACTG-ATTA
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATA-TGAATTG
4239767 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
* *
4239811 ATTTATTTTAAAATATGGAAAATTTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
* *
4239855 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
* **
4239899 ATTTATTTTAAAATATGGATTAATTTATTTTAAAATAT-AGATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGA-ATTG
*** *
4239943 ATTTATTTTAAAATATGAATTTATTTATTTTAAAATATGAATTT
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
*
4239987 ATTTATTTTAAAATATGGAAAAAA-TTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GAAAAAATTTATTTTAAAATATGAATTG
* * *
4240031 ATTTATTTTAAAATATGGAAAAAGTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
4240075 ATTTATTTTAAAATATGAA
1 ATTTATTTTAAAATATGAA
4240094 TTGATTTATT
Statistics
Matches: 339, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
43 8 0.02
44 324 0.96
45 7 0.02
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (44 bp):
ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTG
Found at i:4240091 original size:22 final size:22
Alignment explanation
Indices: 4239701--4240106 Score: 519
Period size: 22 Copynumber: 18.5 Consensus size: 22
4239691 ATATAAAAAA
*
4239701 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
*
4239723 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
*
4239745 ATTTATTTTAAAATACT-GATTA
1 ATTTATTTTAAAATA-TGGATTG
* ***
4239767 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
*
4239789 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
**
4239811 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
*
4239832 ATTTTATTTTAAAATATGAATTG
1 A-TTTATTTTAAAATATGGATTG
***
4239855 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
4239877 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
4239899 ATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAAATATGGATTG
*
4239921 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
* *
4239943 ATTTATTTTAAAATATGAATTT
1 ATTTATTTTAAAATATGGATTG
* *
4239965 ATTTATTTTAAAATATGAATTT
1 ATTTATTTTAAAATATGGATTG
***
4239987 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
*
4240009 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
4240031 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
*
4240053 AGTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
4240075 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
4240097 ATTTATTTTA
1 ATTTATTTTA
4240107 GTATTGCAAA
Statistics
Matches: 335, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
21 2 0.01
22 331 0.99
23 2 0.01
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:4245298 original size:27 final size:27
Alignment explanation
Indices: 4245244--4245299 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4245234 TATACAAAAC
* *
4245244 TTAAAATATCTTTTTATAATAGTGGAA
1 TTAAAATAACTTTTTATAATAGTAGAA
*
4245271 TTAAAATAACTTTTATATAGTA-TAGAA
1 TTAAAATAACTTTT-TATAATAGTAGAA
4245298 TT
1 TT
4245300 CACATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (27 bp):
TTAAAATAACTTTTTATAATAGTAGAA
Found at i:4251217 original size:20 final size:20
Alignment explanation
Indices: 4251189--4251231 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4251179 TATATTGGGC
* *
4251189 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
4251209 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
4251229 TAT
1 TAT
4251232 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:4252443 original size:20 final size:23
Alignment explanation
Indices: 4252415--4252458 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 23
4252405 GCTAAATTCC
4252415 ATTTCAAA-T-TTCTT-TAAAAG
1 ATTTCAAATTATTCTTCTAAAAG
*
4252435 ATTTGAAATTATTCTTCTAAAAG
1 ATTTCAAATTATTCTTCTAAAAG
4252458 A
1 A
4252459 CGGGTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 5 0.25
23 7 0.35
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
ATTTCAAATTATTCTTCTAAAAG
Found at i:4262470 original size:30 final size:31
Alignment explanation
Indices: 4262389--4262470 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
4262379 TTTTAAGTAG
* * * *
4262389 AATATTAATTTAACCT-TAAACTTTATATAA
1 AATACTAATTTAAACTCTAAATTTTAGATAA
4262419 AATACTAATTTAAACTCTAAATTTTAGATAA
1 AATACTAATTTAAACTCTAAATTTTAGATAA
*
4262450 AATA-TCAATTT-GACTCTAAAT
1 AATACT-AATTTAAACTCTAAAT
4262471 CTAGTCAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
30 24 0.53
31 21 0.47
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (31 bp):
AATACTAATTTAAACTCTAAATTTTAGATAA
Found at i:4263317 original size:22 final size:22
Alignment explanation
Indices: 4263267--4263327 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
4263257 TTTTTAAATT
* * *
4263267 TTTTTATATTATATATATATATA
1 TTTTTATA-TATTTAAAAATATA
*
4263290 TATTTATATATTTAAAAATATA
1 TTTTTATATATTTAAAAATATA
* *
4263312 TTTTTATCTCTTTAAA
1 TTTTTATATATTTAAA
4263328 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTATATATTTAAAAATATA
Found at i:4268786 original size:17 final size:17
Alignment explanation
Indices: 4268764--4268797 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4268754 ATATATTAAT
4268764 ATAATATTAAAAATATA
1 ATAATATTAAAAATATA
*
4268781 ATAATATTAAAATTATA
1 ATAATATTAAAAATATA
4268798 TTATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATATTAAAAATATA
Found at i:4268798 original size:28 final size:28
Alignment explanation
Indices: 4268751--4268852 Score: 80
Period size: 31 Copynumber: 3.4 Consensus size: 28
4268741 AATATAACTG
* *
4268751 AATATATATTAATATAATATTAAAAATAT
1 AATA-ATATTAAAATTATATTAAAAATAT
4268780 AATAATATTAAAATTATATTATAAAAT-T
1 AATAATATTAAAATTATATTA-AAAATAT
**
4268808 AATGTTTTCATTAAAATTATATTAAAATATCAT
1 AA--TAAT-ATTAAAATTATATTAAAA-AT-AT
**
4268841 TTTAATATTAAA
1 AATAATATTAAA
4268853 TAAATAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
28 18 0.31
29 9 0.16
30 11 0.19
31 19 0.33
33 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (28 bp):
AATAATATTAAAATTATATTAAAAATAT
Found at i:4269669 original size:4 final size:4
Alignment explanation
Indices: 4269660--4269694 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
4269650 ATTTTCCCAT
4269660 TTTC TTTC TTTC TTTC TTTC TTT- TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
4269695 CTTATCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:4281742 original size:23 final size:23
Alignment explanation
Indices: 4281716--4281779 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
4281706 CAACTCATAT
4281716 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
4281739 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
4281762 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
4281780 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:4281966 original size:103 final size:103
Alignment explanation
Indices: 4281795--4282012 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
4281785 TAATGTCCAT
* * *
4281795 AAGGACCAGATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
4281860 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
4281898 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
4281963 GACTTTACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
4282001 AAGGACCACATA
1 AAGGACCACATA
4282013 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:4296090 original size:17 final size:18
Alignment explanation
Indices: 4296068--4296102 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4296058 GAAGTTGGTT
4296068 AAAAATAT-TTCATAATA
1 AAAAATATATTCATAATA
*
4296085 AAAAATATATTGATAATA
1 AAAAATATATTCATAATA
4296103 TTGTATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATATATTCATAATA
Found at i:4296712 original size:35 final size:36
Alignment explanation
Indices: 4296654--4296724 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
4296644 CGAAGACATT
4296654 TTTTTCATTCTGAAAAAGGAAAGTTATTACAATATA
1 TTTTTCATTCTGAAAAAGGAAAGTTATTACAATATA
* *
4296690 TTTTTCATTCT-TAAAAGGAAAGTTATTACGATATA
1 TTTTTCATTCTGAAAAAGGAAAGTTATTACAATATA
4296725 AAAATGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 22 0.67
36 11 0.33
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
TTTTTCATTCTGAAAAAGGAAAGTTATTACAATATA
Found at i:4298723 original size:3 final size:3
Alignment explanation
Indices: 4298715--4298790 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
4298705 CTTGTTAATT
* * * *
4298715 TTA TTA TTA TTA ATA ATA TTA TTA TTA TT- TCTA TTA TTA TTT TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
4298760 TTA -TA TTT TTA TTA TT- TATA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
4298791 TTGTTTCAGC
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.07
3 54 0.90
4 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:4298749 original size:12 final size:12
Alignment explanation
Indices: 4298733--4298792 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
4298723 ATTAATAATA
4298733 TTATTATTATTT
1 TTATTATTATTT
*
4298745 CTATTATTATTT
1 TTATTATTATTT
*
4298757 TTTTTA-TATTT
1 TTATTATTATTT
*
4298768 TTATTATTTATAT
1 TTATTA-TTATTT
4298781 TT-TTATTATTT
1 TTATTATTATTT
4298792 T
1 T
4298793 GTTTCAGCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 16 0.40
12 18 0.45
13 6 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:4298772 original size:23 final size:26
Alignment explanation
Indices: 4298719--4298789 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 26
4298709 TTAATTTTAT
* * *
4298719 TATTATTAATAATATTATTATTATTTC
1 TATTATTTATATTTTTATTA-TATTTC
*
4298746 TATTA-TTAT-TTTTT-TTATATTTT
1 TATTATTTATATTTTTATTATATTTC
4298769 TATTATTTATATTTTTATTAT
1 TATTATTTATATTTTTATTAT
4298790 TTTGTTTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 10 0.27
24 7 0.19
25 8 0.22
26 7 0.19
27 5 0.14
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTATTTATATTTTTATTATATTTC
Found at i:4298772 original size:32 final size:32
Alignment explanation
Indices: 4298715--4298792 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
4298705 CTTGTTAATT
* * *
4298715 TTATTATTATTAATAATATTATTATTATTTCTA
1 TTATTATTATT-TTTATATTATTATTATTTATA
* *
4298748 TTATTATTTTTTTTATATTTTTATTATTTATA
1 TTATTATTATTTTTATATTATTATTATTTATA
*
4298780 TTTTTATTATTTT
1 TTATTATTATTTT
4298793 GTTTCAGCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 28 0.74
33 10 0.26
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (32 bp):
TTATTATTATTTTTATATTATTATTATTTATA
Found at i:4298779 original size:15 final size:15
Alignment explanation
Indices: 4298712--4298791 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 15
4298702 GATCTTGTTA
*
4298712 ATTT-TATTATTATT
1 ATTTATATTTTTATT
* * *
4298726 AATAATATTATTATT
1 ATTTATATTTTTATT
* *
4298741 ATTTCTATTATTATTTT
1 ATTTATATT-TT-TATT
*
4298758 TTTTATATTTTTATT
1 ATTTATATTTTTATT
4298773 ATTTATATTTTTATT
1 ATTTATATTTTTATT
4298788 ATTT
1 ATTT
4298792 TGTTTCAGCA
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 2 0.04
15 37 0.71
16 3 0.06
17 10 0.19
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTATATTTTTATT
Found at i:4299508 original size:20 final size:21
Alignment explanation
Indices: 4299483--4299537 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
4299473 TTGCAGCCTT
*
4299483 GATGCATGGATGCATGG-AAG
1 GATGCATCGATGCATGGCAAG
4299503 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
4299524 GATGCATCGATGCA
1 GATGCATCGATGCA
4299538 CTAATTGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:4299626 original size:21 final size:21
Alignment explanation
Indices: 4299600--4299657 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
4299590 CATTAGTGCA
4299600 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
4299621 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
4299642 GATGCATGGATGCACT
1 GATGCATGGATGCACT
4299658 TTGACACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:4299772 original size:30 final size:30
Alignment explanation
Indices: 4299738--4299797 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
4299728 AACTTTGAAT
4299738 AAATTCAAGTCAAATCCAAAAACATTTTGC
1 AAATTCAAGTCAAATCCAAAAACATTTTGC
* *
4299768 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAAGTCAAATCCAAAAACATTTTGC
4299798 CTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (30 bp):
AAATTCAAGTCAAATCCAAAAACATTTTGC
Found at i:4299999 original size:37 final size:37
Alignment explanation
Indices: 4299957--4300031 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
4299947 AAATGTTATG
*
4299957 CTCCCCCTTTTTCATTAAGAAAATGAATTTTTCAAAC
1 CTCCCCCTTTTTCATTAAGAAAATGAAATTTTCAAAC
*
4299994 CTCCCCCTTTTTCATTAAGAAATTGAAATTTTCAAAC
1 CTCCCCCTTTTTCATTAAGAAAATGAAATTTTCAAAC
4300031 C
1 C
4300032 AAACTTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (37 bp):
CTCCCCCTTTTTCATTAAGAAAATGAAATTTTCAAAC
Found at i:4302045 original size:32 final size:34
Alignment explanation
Indices: 4302009--4302078 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
4301999 ACCTTACAAC
* *
4302009 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
4302041 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
4302075 TCCC
1 TCCC
4302079 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:4302691 original size:30 final size:30
Alignment explanation
Indices: 4302657--4302716 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
4302647 AACTTTGAAT
4302657 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
4302687 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
4302717 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:4307061 original size:28 final size:28
Alignment explanation
Indices: 4307017--4307109 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 28
4307007 ATGTAGTGAT
4307017 TGTAAAAATATAGGTTGTTATTGTAATA
1 TGTAAAAATATAGGTTGTTATTGTAATA
*
4307045 TGTAAAAATAT-GAGTTGTTATTGTAATT
1 TGTAAAAATATAG-GTTGTTATTGTAATA
* * ** *
4307073 TATAAAAAGTATATGTCATTATTGTAATT
1 TGTAAAAA-TATAGGTTGTTATTGTAATA
*
4307102 TATAAAAA
1 TGTAAAAA
4307110 GATTTGTTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.02
28 32 0.56
29 24 0.42
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (28 bp):
TGTAAAAATATAGGTTGTTATTGTAATA
Found at i:4307095 original size:29 final size:27
Alignment explanation
Indices: 4307062--4307196 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 27
4307052 ATATGAGTTG
*
4307062 TTATTGTAATTTATAAAAAGTATATGTC
1 TTATTGTAATTTATAAAAAG-ATTTGTC
4307090 ATTATTGTAATTTATAAAAAGATTTGTTC
1 -TTATTGTAATTTATAAAAAGATTTG-TC
* *
4307119 TCTATTTTAAATTATAAAAAGATTTGTCC
1 T-TATTGTAATTTATAAAAAGATTTGT-C
* **
4307148 TTTGTTGTAATTTATAAAAATCTTTGTCC
1 -TTATTGTAATTTATAAAAAGATTTGT-C
*
4307177 TTAAATGTAATTTATAAAAA
1 TT-ATTGTAATTTATAAAAA
4307197 ATATTTAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.09
29 82 0.90
30 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (27 bp):
TTATTGTAATTTATAAAAAGATTTGTC
Found at i:4307192 original size:58 final size:58
Alignment explanation
Indices: 4307066--4307196 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 58
4307056 GAGTTGTTAT
* *
4307066 TGTAATTTATAAAAAGTATATGTCATTATTGTAATTTATAAAAAGATTTGTTCTCTAT
1 TGTAATTTATAAAAAGTATATGTCATTATTGTAATTTATAAAAAGATTTGTCCTCTAA
* * * * * **
4307124 TTTAAATTATAAAAAG-ATTTGTCCTTTGTTGTAATTTATAAAAATCTTTGTCCT-TAAA
1 TGTAATTTATAAAAAGTATATGT-CATTATTGTAATTTATAAAAAGATTTGTCCTCT-AA
4307182 TGTAATTTATAAAAA
1 TGTAATTTATAAAAA
4307197 ATATTTAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 6 0.10
58 54 0.90
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (58 bp):
TGTAATTTATAAAAAGTATATGTCATTATTGTAATTTATAAAAAGATTTGTCCTCTAA
Found at i:4312470 original size:41 final size:41
Alignment explanation
Indices: 4312410--4312495 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
4312400 TGGGTGTTGT
4312410 GTGTGTTTTGTTGTAGTTTGGGGAATGCATTGCTGGATGTA
1 GTGTGTTTTGTTGTAGTTTGGGGAATGCATTGCTGGATGTA
* ** *
4312451 GTGTGTTTTGTTGTGGTTTGGGGTTTGTATTGCTGGATGTA
1 GTGTGTTTTGTTGTAGTTTGGGGAATGCATTGCTGGATGTA
4312492 GTGT
1 GTGT
4312496 TTCCCTAGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.48
Consensus pattern (41 bp):
GTGTGTTTTGTTGTAGTTTGGGGAATGCATTGCTGGATGTA
Found at i:4313441 original size:31 final size:31
Alignment explanation
Indices: 4313381--4313460 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
4313371 TACACAATGA
*
4313381 TCATTAAACCTTATCAAACTATTGTAAAATAG
1 TCATTAAA-CTTATCAAACTATTGCAAAATAG
* ** *
4313413 TTATTAAACTTATTGAACTGTTGCAAAATAG
1 TCATTAAACTTATCAAACTATTGCAAAATAG
*
4313444 TCCTTAAACTTATCAAA
1 TCATTAAACTTATCAAA
4313461 ATTTATTAGT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.36
Consensus pattern (31 bp):
TCATTAAACTTATCAAACTATTGCAAAATAG
Found at i:4324642 original size:31 final size:31
Alignment explanation
Indices: 4324591--4324669 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
4324581 ATTTAAAAAG
* * * *
4324591 ATAACATTTTGATCACTTATATTATCGATTT
1 ATAATATTTTAATCACTTATATCATCAATTT
* *
4324622 ATAATATTTTAATCATTTATATCATTAATTT
1 ATAATATTTTAATCACTTATATCATCAATTT
*
4324653 ATAATATTTTCATCACT
1 ATAATATTTTAATCACT
4324670 AAAATTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (31 bp):
ATAATATTTTAATCACTTATATCATCAATTT
Found at i:4324800 original size:31 final size:31
Alignment explanation
Indices: 4324723--4324800 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
4324713 AATTAATTTT
*
4324723 AATTTAATTTATAAATTTTAAATAAAATATT
1 AATTTAATTTATAAATTTTAAATAAAATATC
* * *
4324754 AAGTCGT-CTCT-TAAATTTTAAATAAAATATC
1 AA-T-TTAATTTATAAATTTTAAATAAAATATC
4324785 AATTTAATTTATAAAT
1 AATTTAATTTATAAAT
4324801 ATGATCAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
29 1 0.03
30 3 0.08
31 28 0.78
32 3 0.08
33 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (31 bp):
AATTTAATTTATAAATTTTAAATAAAATATC
Found at i:4328299 original size:57 final size:57
Alignment explanation
Indices: 4328228--4328393 Score: 287
Period size: 57 Copynumber: 2.9 Consensus size: 57
4328218 TTCACGGCTG
* *
4328228 CAGCAGAACATCAGTCTGGTTCGATACACCAAACTGATTTCGCGAGAAAATCGACTA
1 CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTGATTTCGCGAGAAAATCGACTA
* *
4328285 CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTGATTTCGCGAGAAAATCGATTG
1 CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTGATTTCGCGAGAAAATCGACTA
*
4328342 CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTAATTTCGCGAGAAAATC
1 CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTGATTTCGCGAGAAAATC
4328394 AAGAATTGCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 104 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (57 bp):
CAGCAGAACGTCAGTCTGGTTGGATACACCAAACTGATTTCGCGAGAAAATCGACTA
Found at i:4332821 original size:39 final size:40
Alignment explanation
Indices: 4332767--4332846 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
4332757 ACTTTATTCA
* *
4332767 AGTATATAACTATC-AAAGCACCAA-GGAAATGAAGGATGG
1 AGTATATAACTATCAAAAG-AACAATGGAAATGAAGAATGG
4332806 AGTATATAACTATCAAAAGAACAATGGAAATGAAGAATGG
1 AGTATATAACTATCAAAAGAACAATGGAAATGAAGAATGG
4332846 A
1 A
4332847 TTAACAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 18 0.49
40 19 0.51
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (40 bp):
AGTATATAACTATCAAAAGAACAATGGAAATGAAGAATGG
Found at i:4335382 original size:15 final size:15
Alignment explanation
Indices: 4335358--4335392 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4335348 GCATCATTAA
*
4335358 ATTAATTTATAAAAC
1 ATTAAATTATAAAAC
*
4335373 ATTAAATTATAAAAT
1 ATTAAATTATAAAAC
4335388 ATTAA
1 ATTAA
4335393 TCATATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAATTATAAAAC
Found at i:4338897 original size:11 final size:11
Alignment explanation
Indices: 4338883--4338908 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4338873 TAAAATGAGG
4338883 AAAAAAGGTTA
1 AAAAAAGGTTA
4338894 AAAAAAGGTTA
1 AAAAAAGGTTA
4338905 AAAA
1 AAAA
4338909 TTAGAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAAAAGGTTA
Found at i:4339046 original size:20 final size:20
Alignment explanation
Indices: 4339008--4339046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4338998 ATTAATAATG
* *
4339008 AAAATGAAATGAAATAAAAT
1 AAAATGAAAAGAAAAAAAAT
*
4339028 AAAATTAAAAGAAAAAAAA
1 AAAATGAAAAGAAAAAAAA
4339047 AGAAAATTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAGAAAAAAAAT
Found at i:4340829 original size:84 final size:84
Alignment explanation
Indices: 4340640--4340835 Score: 248
Period size: 84 Copynumber: 2.3 Consensus size: 84
4340630 CGCCGTCATC
* * * *
4340640 GAGCTGAATGAAATCGAACTCGTCAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTAC
1 GAGCTGAGTGTAATCGAACTCG-AAGGTCTTTGGTTGGCAAATAGCCCCTCTCGACTTAAGCTAC
4340705 GCTGCAAATGATGTGCCTCG
65 GCTGCAAATGATGTGCCTCG
* ** ** * * *
4340725 GAGCTGAGCGTGGTAAAACTCGAAGGTCTTTGGTTGGCAAATAGCCCCTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCCTCTCGACTTAAGCTACG
* * *
4340790 TTGCAAATTATGTGCCTTG
66 CTGCAAATGATGTGCCTCG
4340809 GAGCTGAGTGTAATCGAACTCGAAGGT
1 GAGCTGAGTGTAATCGAACTCGAAGGT
4340836 TTGGTGTTTC
Statistics
Matches: 91, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
84 76 0.84
85 15 0.16
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (84 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCCTCTCGACTTAAGCTACG
CTGCAAATGATGTGCCTCG
Found at i:4340952 original size:67 final size:67
Alignment explanation
Indices: 4340840--4340996 Score: 183
Period size: 67 Copynumber: 2.3 Consensus size: 67
4340830 GAAGGTTTGG
* * **** * * * *
4340840 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTTCAAGATAAACTGTCTCAAGGGAGATAAAAT
1 TGTTTCAAGAGAAACATATTCAAAGATTGGAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
4340905 TT
66 TT
4340907 TGTTTCAAGAGAAACATATTCAAAGATTGGAGTTTCAACG-GAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACATATTCAAAGATTGGAGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA
4340971 CTT
65 CTT
*
4340974 TGTTTCAAGGGAAAC-TATCTCAA
1 TGTTTCAAGAGAAACATAT-TCAA
4340997 GAAAGACAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 3 0.04
67 73 0.95
68 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (67 bp):
TGTTTCAAGAGAAACATATTCAAAGATTGGAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
TT
Found at i:4340988 original size:37 final size:36
Alignment explanation
Indices: 4340938--4341011 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
4340928 AAAGATTGGA
* *
4340938 GTTTCAACGGAAACTGTCTCAAGAGAGACAAAACTTT
1 GTTTCAACGGAAACTATCTCAAGAAAGACAAAA-TTT
*
4340975 GTTTCAAGGGAAACTATCTCAAGAAAGACAAAATTT
1 GTTTCAACGGAAACTATCTCAAGAAAGACAAAATTT
4341011 G
1 G
4341012 GAAACTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (36 bp):
GTTTCAACGGAAACTATCTCAAGAAAGACAAAATTT
Found at i:4341589 original size:106 final size:106
Alignment explanation
Indices: 4341384--4341858 Score: 761
Period size: 106 Copynumber: 4.5 Consensus size: 106
4341374 CGTCGTGAAC
* * * * *
4341384 GAGTCCAATATCCTCCACCGTGAAGTTGAAATTGGCTCTGGAACTGGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTATTTGTTGACA
4341449 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
* * * * *
4341491 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGACATTGTTTGTTGATAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
* * *
4341556 TTAGCCACCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
*
4341597 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
*
4341662 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
* *
4341703 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTCGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
* *
4341768 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
*
4341809 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
4341859 GCCCCTTCGT
Statistics
Matches: 339, Mismatches: 29, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
106 304 0.90
107 35 0.10
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
Found at i:4346792 original size:2 final size:2
Alignment explanation
Indices: 4346785--4346810 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4346775 GGGTTCATCG
4346785 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
4346811 TAGAACAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4347335 original size:27 final size:27
Alignment explanation
Indices: 4347298--4347359 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4347288 TATAAACAAA
* * * *
4347298 AAAAATGAAATATATATATATTAATAAT
1 AAAAAT-AAATAAATAAATAGTAAAAAT
*
4347326 AATAATAAATAAATAAATAGTAAAAAT
1 AAAAATAAATAAATAAATAGTAAAAAT
4347353 AAAAATA
1 AAAAATA
4347360 TAAGACCCGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (27 bp):
AAAAATAAATAAATAAATAGTAAAAAT
Found at i:4347362 original size:21 final size:22
Alignment explanation
Indices: 4347305--4347362 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
4347295 AAAAAAAATG
* *
4347305 AAATATATATATATTAATAATAA
1 AAATAAATA-ATATAAATAATAA
* *
4347328 TAATAAATAA-ATAAATAGTAA
1 AAATAAATAATATAAATAATAA
4347349 AAATAAA-AATATAA
1 AAATAAATAATATAA
4347363 GACCCGGTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.07
21 19 0.66
22 1 0.03
23 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATAAATAATATAAATAATAA
Found at i:4347562 original size:20 final size:20
Alignment explanation
Indices: 4347537--4347589 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
4347527 GACCAACAAA
4347537 TTTGCAACGCGAATTCCAAT
1 TTTGCAACGCGAATTCCAAT
*
4347557 TTTGCAAC-C-AGTTTCCAAT
1 TTTGCAACGCGA-ATTCCAAT
*
4347576 TTCGCAACGCGAAT
1 TTTGCAACGCGAAT
4347590 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.56
20 10 0.37
21 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (20 bp):
TTTGCAACGCGAATTCCAAT
Found at i:4347626 original size:21 final size:21
Alignment explanation
Indices: 4347597--4347705 Score: 173
Period size: 21 Copynumber: 5.2 Consensus size: 21
4347587 AATATGTAAA
*
4347597 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
4347618 TCGCTTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
4347639 TCGCTTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
4347660 TCGCGTTGCGATATTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
4347681 TCGCGTTGCGATATTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
4347702 TCGC
1 TCGC
4347706 AACGCGATAG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 85 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:4347712 original size:21 final size:21
Alignment explanation
Indices: 4347533--4347807 Score: 135
Period size: 21 Copynumber: 13.6 Consensus size: 21
4347523 AAATGACCAA
*
4347533 CAAATTTGCAACGCGA-ATTC
1 CAAATTCGCAACGCGATATTC
* *
4347553 CAATTTTGCAAC-C-AGT-TTC
1 CAAATTCGCAACGCGA-TATTC
*
4347572 CAATTTCGCAACGCGAATATGT-
1 CAAATTCGCAACGCG-ATAT-TC
** *
4347594 -AAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
*** *
4347613 CAAATTCGCTTTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
*** *
4347634 CAAATTCGCTTTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
***
4347655 CAAATTCGCGTTGCGATATTC
1 CAAATTCGCAACGCGATATTC
***
4347676 CAAATTCGCGTTGCGATATTC
1 CAAATTCGCAACGCGATATTC
*
4347697 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGATATTC
* * *
4347717 CAAATTCTCAACGCGAAAGT-
1 CAAATTCGCAACGCGATATTC
* *
4347737 CAAATTTGCAACGCGATAGT-
1 CAAATTCGCAACGCGATATTC
* * *
4347757 CAAATTCGCAAAGCGAAAGT-
1 CAAATTCGCAACGCGATATTC
* * *
4347777 CAAATTCACAAC-TGA-ATTT
1 CAAATTCGCAACGCGATATTC
4347796 CAAATTCGCAAC
1 CAAATTCGCAAC
4347808 AAGTTTTAGT
Statistics
Matches: 218, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
18 4 0.02
19 31 0.14
20 85 0.39
21 95 0.44
22 2 0.01
23 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (21 bp):
CAAATTCGCAACGCGATATTC
Found at i:4347713 original size:42 final size:41
Alignment explanation
Indices: 4347568--4347766 Score: 161
Period size: 42 Copynumber: 4.8 Consensus size: 41
4347558 TTGCAACCAG
*
4347568 TTTCCAATTTCGCAACGCGAATATGT-AAA-TCGCATTGCGAT
1 TTTCCAAATTCGCAACGCG-ATAT-TCAAATTCGCATTGCGAT
*** * *
4347609 TTTCCAAATTCGCTTTGCGATTTTCCAAATTCGCTTTGCGAT
1 TTTCCAAATTCGCAACGCGATATT-CAAATTCGCATTGCGAT
*** *
4347651 TTTCCAAATTCGCGTTGCGATATTCCAAATTCGCGTTGCGAT
1 TTTCCAAATTCGCAACGCGATATT-CAAATTCGCATTGCGAT
* * * ** *
4347693 ATTCCAAATTCGCAACGCGATAGTCAAATTCTCAACGCGAA
1 TTTCCAAATTCGCAACGCGATATTCAAATTCGCATTGCGAT
** * *
4347734 AGT-CAAATTTGCAACGCGATAGTCAAATTCGCA
1 TTTCCAAATTCGCAACGCGATATTCAAATTCGCA
4347767 AAGCGAAAGT
Statistics
Matches: 133, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 31 0.23
41 32 0.24
42 69 0.52
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGATATTCAAATTCGCATTGCGAT
Found at i:4347713 original size:63 final size:62
Alignment explanation
Indices: 4347569--4347713 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 62
4347559 TGCAACCAGT
* * ** * * *
4347569 TTCCAATTTCGCAACGCGAATATGTAAATCGCATTGCGATTTTCCAAATTCGCTTTGCGATT
1 TTCCAAATTCGCAACGCGATTATCCAAATCGCATTGCGATATTCCAAATTCGCGTTGCGATA
*** * *
4347631 TTCCAAATTCGCTTTGCGATTTTCCAAATTCGCGTTGCGATATTCCAAATTCGCGTTGCGATA
1 TTCCAAATTCGCAACGCGATTATCCAAA-TCGCATTGCGATATTCCAAATTCGCGTTGCGATA
4347694 TTCCAAATTCGCAACGCGAT
1 TTCCAAATTCGCAACGCGAT
4347714 AGTCAAATTC
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
62 20 0.30
63 47 0.70
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (62 bp):
TTCCAAATTCGCAACGCGATTATCCAAATCGCATTGCGATATTCCAAATTCGCGTTGCGATA
Found at i:4347722 original size:20 final size:20
Alignment explanation
Indices: 4347697--4347807 Score: 134
Period size: 20 Copynumber: 5.6 Consensus size: 20
4347687 TGCGATATTC
*
4347697 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
4347717 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
4347737 CAAATTTGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
4347757 CAAATTCGCAAAGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* * **
4347777 CAAATTCACAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
4347796 CAAATTCGCAAC
1 CAAATTCGCAAC
4347808 AAGTTTTAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 15 0.19
20 62 0.81
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:4347748 original size:40 final size:40
Alignment explanation
Indices: 4347697--4347788 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
4347687 TGCGATATTC
* *
4347697 CAAATTCGCAACGCGATAGTCAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAAAGCGAAAGT
*
4347737 CAAATTTGCAACGCGATAGTCAAATTCGCAAAGCGAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAAAGCGAAAGT
*
4347777 CAAATTCACAAC
1 CAAATTCGCAAC
4347789 TGAATTTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAAAGCGAAAGT
Found at i:4348574 original size:12 final size:12
Alignment explanation
Indices: 4348553--4348586 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4348543 ACCACATTTC
*
4348553 CAATACCAAACA
1 CAATATCAAACA
4348565 CAATATCAAACA
1 CAATATCAAACA
*
4348577 CAATCTCAAA
1 CAATATCAAA
4348587 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:4351034 original size:18 final size:18
Alignment explanation
Indices: 4351000--4351035 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4350990 AAGCAAAAGG
**
4351000 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
4351018 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
4351036 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:4351402 original size:20 final size:20
Alignment explanation
Indices: 4351357--4351395 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4351347 ATTTCGCGTT
*
4351357 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
4351377 GCGAAAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
4351396 ACCGAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:4351612 original size:61 final size:63
Alignment explanation
Indices: 4351480--4351621 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 63
4351470 TTATTAGAAA
*
4351480 TAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAAT
1 TAACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAAT
4351545 T
63 T
* * * **
4351546 AAACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATT
1 TAACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT
4351606 GTAACAAATCAACTTT
1 -TAACAAATCAACTTT
4351622 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
60 4 0.06
61 35 0.51
62 3 0.04
66 26 0.38
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (63 bp):
TAACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT
Found at i:4355309 original size:13 final size:13
Alignment explanation
Indices: 4355291--4355322 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4355281 GGGTTTCTTC
4355291 AACAAAAAGACAA
1 AACAAAAAGACAA
4355304 AACAAAAAGACAA
1 AACAAAAAGACAA
4355317 AACAAA
1 AACAAA
4355323 GATAAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:4355567 original size:22 final size:22
Alignment explanation
Indices: 4355536--4355606 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
4355526 GATGGAGATA
4355536 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
4355558 GATGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
4355580 GACGGA--TCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
4355600 GACGGAT
1 GACGGAT
4355607 GTCACCGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.42
22 26 0.58
ACGTcount: A:0.23, C:0.13, G:0.44, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:4355591 original size:20 final size:20
Alignment explanation
Indices: 4355544--4355606 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 20
4355534 TAGACGGATT
*
4355544 TCGTCGGAAATGGGGATGGA
1 TCGTCGGAAATGGGGACGGA
4355564 TTTCGTCGGAAATGGGGACGGA
1 --TCGTCGGAAATGGGGACGGA
*
4355586 TCGTCGGAGATGGGGACGGA
1 TCGTCGGAAATGGGGACGGA
4355606 T
1 T
4355607 GTCACCGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 20 0.51
22 19 0.49
ACGTcount: A:0.22, C:0.13, G:0.44, T:0.21
Consensus pattern (20 bp):
TCGTCGGAAATGGGGACGGA
Found at i:4355787 original size:20 final size:20
Alignment explanation
Indices: 4355734--4355787 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
4355724 GCGTAAAAAC
* *
4355734 ATTTGACTTTCGCATTGCGA
1 ATTTGACTTTCGCGTTGAGA
4355754 ATTTGACTTTCGCGTTGAGA
1 ATTTGACTTTCGCGTTGAGA
*
4355774 ATTTGACTATCGCG
1 ATTTGACTTTCGCG
4355788 CAACGCGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGAGA
Found at i:4355873 original size:20 final size:20
Alignment explanation
Indices: 4355827--4355877 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4355817 TTTACATATT
4355827 TGCGTTGCGAAATTGGAAAC
1 TGCGTTGCGAAATTGGAAAC
* *
4355847 TGGGTTGCGAAATTGG-AAT
1 TGCGTTGCGAAATTGGAAAC
4355866 TCGCGTTGCGAA
1 T-GCGTTGCGAA
4355878 TTTATTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (20 bp):
TGCGTTGCGAAATTGGAAAC
Found at i:4379571 original size:37 final size:36
Alignment explanation
Indices: 4379510--4379613 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
4379500 CAAATTGTAA
4379510 AATATTTATATATTTTCTTTAAAAAATTAAATTCAT
1 AATATTTATATATTTTCTTTAAAAAATTAAATTCAT
4379546 AATATTTATATATTTTCTTTAAAAAATTAAATTCAT
1 AATATTTATATATTTTCTTTAAAAAATTAAATTCAT
* *
4379582 AATATTTATATAATTTTTTTTATAAAATTAAA
1 AATATTTATAT-ATTTTCTTTAAAAAATTAAA
4379614 AATATAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 47 0.72
37 18 0.28
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (36 bp):
AATATTTATATATTTTCTTTAAAAAATTAAATTCAT
Found at i:4383284 original size:24 final size:24
Alignment explanation
Indices: 4383214--4383276 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 24
4383204 AAACAAACAC
*
4383214 TAAACAAATATGTTCGTGAACGT-
1 TAAACAAATATGTTCGTGAACATA
* *
4383237 TAAACGAACATGTTCGTGAACATA
1 TAAACAAATATGTTCGTGAACATA
4383261 TAAACAAATATGTTCG
1 TAAACAAATATGTTCG
4383277 CAAACATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (24 bp):
TAAACAAATATGTTCGTGAACATA
Found at i:4383312 original size:47 final size:46
Alignment explanation
Indices: 4383209--4383312 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 46
4383199 ACTCTAAACA
** * * *
4383209 AACACTAAACAAATATGTTCGTGAACGTTAAACGAACATGTTCGTG
1 AACACTAAACAAATATGTTCGCAAACATAAAACGAACATGTTCGCG
* * *
4383255 AACATATAAACAAATATGTTCGCAAACATAAAATTGAACATGTTTGCG
1 AACA-CTAAACAAATATGTTCGCAAACATAAAA-CGAACATGTTCGCG
4383303 AACACTAAAC
1 AACACTAAAC
4383313 GAACATATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
46 4 0.09
47 28 0.60
48 15 0.32
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (46 bp):
AACACTAAACAAATATGTTCGCAAACATAAAACGAACATGTTCGCG
Found at i:4383323 original size:23 final size:23
Alignment explanation
Indices: 4383290--4383334 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4383280 ACATAAAATT
* *
4383290 GAACATGTTTGCGAACACTAAAC
1 GAACATATTTGCGAACAATAAAC
*
4383313 GAACATATTTGTGAACAATAAA
1 GAACATATTTGCGAACAATAAA
4383335 TAAATGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (23 bp):
GAACATATTTGCGAACAATAAAC
Found at i:4383414 original size:30 final size:31
Alignment explanation
Indices: 4383365--4383424 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
4383355 TAAATAAAAA
*
4383365 GAACACGAACACAATATTAA-AAATTTAAAT
1 GAACACGAACACAACATTAACAAATTTAAAT
*
4383395 GAACACGAAC-CGAACATTAACACATTTAAA
1 GAACACGAACAC-AACATTAACAAATTTAAA
4383425 AATAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.20
Consensus pattern (31 bp):
GAACACGAACACAACATTAACAAATTTAAAT
Found at i:4388426 original size:2 final size:2
Alignment explanation
Indices: 4388389--4388414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4388379 CTCTATTATC
4388389 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
4388415 TTCATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4392734 original size:22 final size:23
Alignment explanation
Indices: 4392704--4392753 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
4392694 AGAAGAGGGA
4392704 ACTCCAAGAAAAGAACA-AAAAT
1 ACTCCAAGAAAAGAACAGAAAAT
* *
4392726 ACTCTAAGAAAAGAACAGGAAAT
1 ACTCCAAGAAAAGAACAGAAAAT
4392749 ACTCC
1 ACTCC
4392754 TAATGAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (23 bp):
ACTCCAAGAAAAGAACAGAAAAT
Found at i:4394392 original size:76 final size:75
Alignment explanation
Indices: 4394302--4394556 Score: 235
Period size: 85 Copynumber: 3.2 Consensus size: 75
4394292 TAAAATTCCA
* * *
4394302 AAAACAAATCATAAATTCTAAATCATAATCCATAAAAATCATAAGATCTATTTTCTAGAATGAAT
1 AAAA-AAATCATAAACTCTAAATCGTAATCCATAAAAAT-ATAAGATCTATTTTCTAAAATGAAT
*
4394367 TTAGGGATTACC
64 TTAGGGATTAAC
* * *
4394379 AAAAAAATCATAAACTCTCAATCGTAATCCCTAAAAATCATAAAAATTATAAGATTTATTTTTTA
1 AAAAAAATCATAAACTCTAAATCGTAAT--C-------CATAAAAA-TATAAGATCTATTTTCTA
4394444 AAATGAATTTAGGGATTAAC
56 AAATGAATTTAGGGATTAAC
* *** *
4394464 AAAAAAATCATAAACTCTAAATCGTAATCCCTAAAAATATAAGAT-TCATTTAAAAAAAAAAGAA
1 AAAAAAATCATAAACTCTAAATCGTAATCCATAAAAATATAAGATCT-ATTT--TCTAAAATGAA
*
4394528 TTTAGTGATT-AC
63 TTTAGGGATTAAC
*
4394540 CAAAAAATCATAAACTC
1 AAAAAAATCATAAACTC
4394557 CCTAAAAAAT
Statistics
Matches: 150, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
74 1 0.01
75 12 0.08
76 46 0.31
77 20 0.13
78 1 0.01
83 1 0.01
85 68 0.45
86 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (75 bp):
AAAAAAATCATAAACTCTAAATCGTAATCCATAAAAATATAAGATCTATTTTCTAAAATGAATTT
AGGGATTAAC
Found at i:4394431 original size:85 final size:85
Alignment explanation
Indices: 4394332--4394505 Score: 287
Period size: 85 Copynumber: 2.1 Consensus size: 85
4394322 AATCATAATC
* *
4394332 CATAAAAATCATAAGATCTATTTTCTAGAATGAATTTAGGGATTACCAAAAAAATCATAAACTCT
1 CATAAAAATCATAAGATCTATTTTCTAAAATGAATTTAGGGATTAACAAAAAAATCATAAACTCT
*
4394397 CAATCGTAATCCCTAAAAAT
66 AAATCGTAATCCCTAAAAAT
* * *
4394417 CATAAAAATTATAAGATTTATTTTTTAAAATGAATTTAGGGATTAACAAAAAAATCATAAACTCT
1 CATAAAAATCATAAGATCTATTTTCTAAAATGAATTTAGGGATTAACAAAAAAATCATAAACTCT
4394482 AAATCGTAATCCCTAAAAAT
66 AAATCGTAATCCCTAAAAAT
4394502 -ATAA
1 CATAA
4394506 GATTCATTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 4 0.05
85 79 0.95
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (85 bp):
CATAAAAATCATAAGATCTATTTTCTAAAATGAATTTAGGGATTAACAAAAAAATCATAAACTCT
AAATCGTAATCCCTAAAAAT
Found at i:4399505 original size:19 final size:19
Alignment explanation
Indices: 4399483--4399519 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4399473 TTAATATTTT
*
4399483 AAAATTAATAATAATTATA
1 AAAAATAATAATAATTATA
*
4399502 AAAAATAATATTAATTAT
1 AAAAATAATAATAATTAT
4399520 TATATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAATAATAATTATA
Found at i:4399521 original size:22 final size:22
Alignment explanation
Indices: 4399490--4399540 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4399480 TTTAAAATTA
*
4399490 ATAATAATTATAAAAAAT-AAT
1 ATAATTATTATAAAAAATGAAT
**
4399511 ATTAATTATTATATTAAATGAAT
1 A-TAATTATTATAAAAAATGAAT
4399534 ATAATTA
1 ATAATTA
4399541 ATCATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAATTATTATAAAAAATGAAT
Found at i:4402927 original size:116 final size:116
Alignment explanation
Indices: 4402721--4403054 Score: 614
Period size: 116 Copynumber: 2.9 Consensus size: 116
4402711 ACATGAAGGA
* *
4402721 GCGTTCCTGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTC
1 GCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
*
4402786 ACTCATGTCCCCCCGAAGAATTATTCATGTCAGTACCCAAAGTGGTGAAAGC
65 ACTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
4402838 GCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
1 GCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
4402903 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
66 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
* *
4402954 GCGTTCTCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTATTATGTCA
1 GCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
4403019 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACC
66 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACC
4403055 TATTATTTCT
Statistics
Matches: 212, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
116 200 0.94
117 12 0.06
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (116 bp):
GCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
Found at i:4403246 original size:23 final size:23
Alignment explanation
Indices: 4403213--4403334 Score: 98
Period size: 23 Copynumber: 5.6 Consensus size: 23
4403203 GAAGTTTGAT
4403213 TAAATTGGATAAAATGTTATGAA
1 TAAATTGGATAAAATGTTATGAA
* *
4403236 TAAATTTGATAAAATGTTATGGA
1 TAAATTGGATAAAATGTTATGAA
* *
4403259 TAAATTGAAT-AAATGTGAAGTG-A
1 TAAATTGGATAAAATGT-TA-TGAA
* *
4403282 TCAGTTGG-T----TGTT-TGAA
1 TAAATTGGATAAAATGTTATGAA
*
4403299 TATATTGGATAAAATGTTATGAA
1 TAAATTGGATAAAATGTTATGAA
*
4403322 TAAATTGAATAAA
1 TAAATTGGATAAA
4403335 TGTGAAGTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.03
17 6 0.08
18 1 0.01
19 3 0.04
22 11 0.14
23 51 0.67
24 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (23 bp):
TAAATTGGATAAAATGTTATGAA
Found at i:4403331 original size:63 final size:64
Alignment explanation
Indices: 4403227--4403356 Score: 217
Period size: 63 Copynumber: 2.0 Consensus size: 64
4403217 TTGGATAAAA
* * *
4403227 TGTTATGAATAAATTTGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATCAGTTGGT
1 TGTTATGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGT
*
4403291 TGTT-TGAATATATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGT
1 TGTTATGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGT
4403354 TGT
1 TGT
4403357 GAGCATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
63 58 0.94
64 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.38
Consensus pattern (64 bp):
TGTTATGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGT
Found at i:4403441 original size:14 final size:14
Alignment explanation
Indices: 4403422--4403452 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4403412 TGATAAGTTG
4403422 GTTTTAATGTATAT
1 GTTTTAATGTATAT
4403436 GTTTTAATGTATAT
1 GTTTTAATGTATAT
4403450 GTT
1 GTT
4403453 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:4404140 original size:21 final size:21
Alignment explanation
Indices: 4404114--4404173 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
4404104 ATAAAACCCT
*
4404114 GCGGGCTAGGCATGTAACATG
1 GCGGGCTAGGAATGTAACATG
* *
4404135 GCGGGCTAGGAATGTAACTTT
1 GCGGGCTAGGAATGTAACATG
*
4404156 GAGGGCTAGGAATGTAAC
1 GCGGGCTAGGAATGTAAC
4404174 CCTGCGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.22
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACATG
Found at i:4405974 original size:25 final size:24
Alignment explanation
Indices: 4405945--4405995 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
4405935 AAAAAAAATA
*
4405945 TAATTAGTTCAAAAAAATAATTAAT
1 TAATTAATTCAAAAAAATAA-TAAT
* *
4405970 TAATTAATTTAAATAAATAATAAT
1 TAATTAATTCAAAAAAATAATAAT
4405994 TA
1 TA
4405996 TATAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TAATTAATTCAAAAAAATAATAAT
Found at i:4407017 original size:16 final size:16
Alignment explanation
Indices: 4406976--4407017 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
4406966 TATTGTGTGA
4406976 AAAATACTTTCTACATT
1 AAAAT-CTTTCTACATT
4406993 ACAAA-CTTTCTACATT
1 A-AAATCTTTCTACATT
4407009 AAAATCTTT
1 AAAATCTTT
4407018 AAATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.13
16 16 0.70
17 1 0.04
18 3 0.13
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATCTTTCTACATT
Done.