Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 97 of 433
Found at i:29443453 original size:25 final size:25
Alignment explanation
Indices: 29443400--29443455 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
29443390 CTCTATTTCT
* * *
29443400 TTTTATGCTTTGTTTCCTTTATTCC
1 TTTTATGCTTTATTTACTTTATTAC
* *
29443425 TTTTATGTTTTATTTACTTTATTAG
1 TTTTATGCTTTATTTACTTTATTAC
29443450 TTTTAT
1 TTTTAT
29443456 AATAAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.11, G:0.07, T:0.68
Consensus pattern (25 bp):
TTTTATGCTTTATTTACTTTATTAC
Found at i:29443828 original size:24 final size:22
Alignment explanation
Indices: 29443785--29443829 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
29443775 TTAATTTAAT
*
29443785 TATATATTTTATAATGAAATCA
1 TATATATTTTATAATAAAATCA
29443807 TATATAGTTTTATAATTAAAATC
1 TATATA-TTTTATAA-TAAAATC
29443830 TAAAGTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TATATATTTTATAATAAAATCA
Found at i:29446321 original size:21 final size:21
Alignment explanation
Indices: 29446295--29446336 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29446285 TCGGTCTGAA
29446295 GATAGAACGCAGTACTGAAGT
1 GATAGAACGCAGTACTGAAGT
29446316 GATAGAACGCAGTACTGAAGT
1 GATAGAACGCAGTACTGAAGT
29446337 CCAATCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (21 bp):
GATAGAACGCAGTACTGAAGT
Found at i:29458665 original size:66 final size:66
Alignment explanation
Indices: 29458559--29458692 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
29458549 TACAAAAGTT
29458559 GATAAAATTCCTTTCGCTTAGTTATGCTTAAAGAGTGGAAGAATGGAATAACATCGATCAAATGG
1 GATAAAATTCCTTTCGCTTAGTTATGCTTAAAGAGTGGAAGAATGGAATAACATCGATCAAATGG
29458624 A
66 A
29458625 GATAAAATTCCTTTCGCTTAGTTATGCTTAAAGAGTGGAAGAATGGAATAACATCGATCAAATGG
1 GATAAAATTCCTTTCGCTTAGTTATGCTTAAAGAGTGGAAGAATGGAATAACATCGATCAAATGG
29458690 A
66 A
29458691 GA
1 GA
29458693 GGGAAGGTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (66 bp):
GATAAAATTCCTTTCGCTTAGTTATGCTTAAAGAGTGGAAGAATGGAATAACATCGATCAAATGG
A
Found at i:29458852 original size:13 final size:13
Alignment explanation
Indices: 29458834--29458858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29458824 CAAGATGCTG
29458834 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
29458847 GTTTTTTTTTTT
1 GTTTTTTTTTTT
29458859 ATTTTTATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
GTTTTTTTTTTTT
Found at i:29464954 original size:15 final size:16
Alignment explanation
Indices: 29464932--29464965 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29464922 GGATAATTCC
* *
29464932 CTTTTTTTCTCCTTTT
1 CTTTTTTCCCCCTTTT
29464948 CTTTTTTCCCCCTTTT
1 CTTTTTTCCCCCTTTT
29464964 CT
1 CT
29464966 ATTGGTCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
CTTTTTTCCCCCTTTT
Found at i:29467238 original size:2 final size:2
Alignment explanation
Indices: 29467233--29467274 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
29467223 ACACACACAC
29467233 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
29467275 CCCTTTCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29470184 original size:49 final size:48
Alignment explanation
Indices: 29470128--29470264 Score: 123
Period size: 50 Copynumber: 2.8 Consensus size: 48
29470118 TAAAATACTA
*
29470128 ACCTTGCTCTTAGACACATGGGGGAGACTTATGGAAGGCAATAAATGTG
1 ACCTTGCTCTTAGACACATGGGGGAG-CTTATGGAAGGCAATAAATATG
*** * * * * *
29470177 GGTTTGCTCCTAAAAACATGAGGGGATGCTTACGGAAGGTAATAAATATG
1 ACCTTGCTCTTAGACACATG-GGGGA-GCTTATGGAAGGCAATAAATATG
* *
29470227 ACCTTGCT-TCTAGACATATGGGGGAGGTTTATGGAAGG
1 ACCTTGCTCT-TAGACACATGGGGGA-GCTTATGGAAGG
29470265 TAAAATAATA
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
49 29 0.44
50 36 0.55
51 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (48 bp):
ACCTTGCTCTTAGACACATGGGGGAGCTTATGGAAGGCAATAAATATG
Found at i:29470265 original size:49 final size:49
Alignment explanation
Indices: 29470085--29470267 Score: 138
Period size: 49 Copynumber: 3.7 Consensus size: 49
29470075 AATAAAATTA
* * *** *
29470085 CTTCTAGACGCATGGGAGAAGGCTTACAAAAGGT-A-AAATACTAACCTTG
1 CTTCTAGACACATGGG-GGAGGCTTATGGAAGGTAATAAATA-TGACCTTG
* * * ***
29470134 C-TCTTAGACACATGGGGGAGACTTATGGAAGGCAATAAATGTGGGTTTG
1 CTTC-TAGACACATGGGGGAGGCTTATGGAAGGTAATAAATATGACCTTG
* * * * *
29470183 CTCCTAAAAACATGAGGGGATGCTTACGGAAGGTAATAAATATGACCTTG
1 CTTCTAGACACATG-GGGGAGGCTTATGGAAGGTAATAAATATGACCTTG
* *
29470233 CTTCTAGACATATGGGGGAGGTTTATGGAAGGTAA
1 CTTCTAGACACATGGGGGAGGCTTATGGAAGGTAA
29470268 AATAATAACT
Statistics
Matches: 99, Mismatches: 30, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
48 13 0.13
49 44 0.44
50 42 0.42
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (49 bp):
CTTCTAGACACATGGGGGAGGCTTATGGAAGGTAATAAATATGACCTTG
Found at i:29470480 original size:17 final size:17
Alignment explanation
Indices: 29470458--29470493 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29470448 ATAGATATGC
* *
29470458 AAAATAATAAAATTAAT
1 AAAATAACAAAATCAAT
29470475 AAAATAACAAAATCAAT
1 AAAATAACAAAATCAAT
29470492 AA
1 AA
29470494 TGAATCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAACAAAATCAAT
Found at i:29478524 original size:1 final size:1
Alignment explanation
Indices: 29478518--29478550 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
29478508 ACAAACAATC
29478518 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
29478551 ACTAAAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:29480646 original size:18 final size:18
Alignment explanation
Indices: 29480623--29480658 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29480613 CATACTCCTA
29480623 AGAGAACCTACATTGCTG
1 AGAGAACCTACATTGCTG
29480641 AGAGAACCTACATTGCTG
1 AGAGAACCTACATTGCTG
29480659 TTACACTTCA
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:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
AGAGAACCTACATTGCTG
Found at i:29481956 original size:18 final size:17
Alignment explanation
Indices: 29481911--29481958 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
29481901 GCACTATAAT
*
29481911 TATAAATTTTAAAAATA
1 TATAAATATTAAAAATA
*
29481928 TATAAAAATTAAAAAT-
1 TATAAATATTAAAAATA
29481944 TAATCAAATATTAAA
1 T-AT-AAATATTAAA
29481959 TTCACAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAATATTAAAAATA
Found at i:29498582 original size:13 final size:13
Alignment explanation
Indices: 29498564--29498591 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29498554 ATCTAGGCAT
29498564 TTATTTTATTTTA
1 TTATTTTATTTTA
29498577 TTATTTTATTTTA
1 TTATTTTATTTTA
29498590 TT
1 TT
29498592 TCTAGATTTT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:29498600 original size:18 final size:18
Alignment explanation
Indices: 29498563--29498601 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29498553 TATCTAGGCA
*
29498563 TTTATTTTATTTTATTAT
1 TTTATTTTATTTTATGAT
29498581 TTTATTTTATTTCTA-GAT
1 TTTATTTTATTT-TATGAT
29498599 TTT
1 TTT
29498602 TCTGTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTTTATGAT
Found at i:29509133 original size:23 final size:23
Alignment explanation
Indices: 29509107--29509152 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
29509097 TTATATCGAT
29509107 GGTCGAGATTAAATCCTATCTAC
1 GGTCGAGATTAAATCCTATCTAC
29509130 GGTCGAGATTAAATCCTATCTAC
1 GGTCGAGATTAAATCCTATCTAC
29509153 AATTGAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (23 bp):
GGTCGAGATTAAATCCTATCTAC
Found at i:29510756 original size:23 final size:23
Alignment explanation
Indices: 29510730--29510775 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
29510720 AACCTTAAAT
*
29510730 TATGAGTCCTTATATGGTAGTTA
1 TATGAGTCCTTACATGGTAGTTA
*
29510753 TATGAGTCCTTACGTGGTAGTTA
1 TATGAGTCCTTACATGGTAGTTA
29510776 GACCATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (23 bp):
TATGAGTCCTTACATGGTAGTTA
Found at i:29515146 original size:24 final size:24
Alignment explanation
Indices: 29515118--29515178 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
29515108 AACCGTATTT
* * *
29515118 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
29515142 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
29515166 GCACACATAGTGC
1 GCACACATAGTGC
29515179 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:29519651 original size:16 final size:19
Alignment explanation
Indices: 29519630--29519673 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
29519620 AGAGACTTCC
29519630 CTTTCTTT-TTC-CT-TTT
1 CTTTCTTTATTCTCTATTT
29519646 CTTTCTTTTATTCTCTATTT
1 CTTTC-TTTATTCTCTATTT
29519666 CTTTCTTT
1 CTTTCTTT
29519674 CCTTTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 3 0.12
18 3 0.12
19 5 0.21
20 8 0.33
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.73
Consensus pattern (19 bp):
CTTTCTTTATTCTCTATTT
Found at i:29521850 original size:10 final size:10
Alignment explanation
Indices: 29521817--29521859 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
29521807 AGCAAAAATC
*
29521817 AAAGAAGGAGA
1 AAAGAAAGA-A
29521828 AAAGAAA-AA
1 AAAGAAAGAA
29521837 AAAGAAAGAA
1 AAAGAAAGAA
*
29521847 AAAGAGAGAA
1 AAAGAAAGAA
29521857 AAA
1 AAA
29521860 AATGGAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 8 0.28
10 15 0.52
11 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:29524006 original size:18 final size:19
Alignment explanation
Indices: 29523965--29524006 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
29523955 AGAAAAAAGT
* *
29523965 TTAATAGCACAAATAAATA
1 TTAATAGCAAAAATAAACA
*
29523984 ATAATAG-AAAAATAAACA
1 TTAATAGCAAAAATAAACA
29524002 TTAAT
1 TTAAT
29524007 TTTATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (19 bp):
TTAATAGCAAAAATAAACA
Found at i:29531448 original size:33 final size:33
Alignment explanation
Indices: 29531406--29531473 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
29531396 CTTACCCTCA
*
29531406 TCCCTTTATTTTGATTCTTCTGTGATTGGGCAT
1 TCCCTTTATTTCGATTCTTCTGTGATTGGGCAT
29531439 TCCCTTTATTTCGATTCTTCTGTGATTGGGCAT
1 TCCCTTTATTTCGATTCTTCTGTGATTGGGCAT
29531472 TC
1 TC
29531474 TTCTTTTCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (33 bp):
TCCCTTTATTTCGATTCTTCTGTGATTGGGCAT
Found at i:29531475 original size:18 final size:18
Alignment explanation
Indices: 29531419--29531477 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
29531409 CTTTATTTTG
29531419 ATTCTTCTGTGATTGGGC
1 ATTCTTCTGTGATTGGGC
* * **
29531437 ATTC-CCT-TTATTTCG-
1 ATTCTTCTGTGATTGGGC
29531452 ATTCTTCTGTGATTGGGC
1 ATTCTTCTGTGATTGGGC
29531470 ATTCTTCT
1 ATTCTTCT
29531478 TTTCTCTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
15 4 0.13
16 7 0.23
17 7 0.23
18 12 0.40
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.49
Consensus pattern (18 bp):
ATTCTTCTGTGATTGGGC
Found at i:29543458 original size:40 final size:40
Alignment explanation
Indices: 29543403--29543520 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
29543393 TAGAAAAAAA
29543403 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
29543443 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
29543483 TATAACAGGGTTAAGTCTCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
29543521 GTTACATCCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:29545584 original size:26 final size:26
Alignment explanation
Indices: 29545555--29545604 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
29545545 TTTATATTGA
*
29545555 TTACTGGCAGCTTTACTGTGATACCG
1 TTACTGGCAGCTTTACTGCGATACCG
*
29545581 TTACTGGCAGCTTTGCTGCGATAC
1 TTACTGGCAGCTTTACTGCGATAC
29545605 TGATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (26 bp):
TTACTGGCAGCTTTACTGCGATACCG
Found at i:29547973 original size:23 final size:23
Alignment explanation
Indices: 29547930--29548010 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
29547920 TAACATTTGA
* **
29547930 TATGCTTTAAATGCTGGCAAAAG
1 TATGTTTTAAATGCTATCAAAAG
*
29547953 TATGTTTCAAATGCTATC-AAAG
1 TATGTTTTAAATGCTATCAAAAG
*
29547975 TAAGTTTTAAATG-TAGTCCAAAA-
1 TATGTTTTAAATGCTA-T-CAAAAG
29547998 TATGTTTTAAATG
1 TATGTTTTAAATG
29548011 GCATCCAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 2 0.04
22 16 0.33
23 27 0.56
24 3 0.06
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (23 bp):
TATGTTTTAAATGCTATCAAAAG
Found at i:29548017 original size:23 final size:22
Alignment explanation
Indices: 29547929--29548019 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 22
29547919 GTAACATTTG
* *
29547929 ATATGCTTTAAATGC-TGGCAAA
1 ATATGTTTTAAATGCAT-CCAAA
*
29547951 AGTATGTTTCAAATGCTAT-CAAA
1 A-TATGTTTTAAATGC-ATCCAAA
* * *
29547974 GTAAGTTTTAAATGTAGTCCAAA
1 ATATGTTTTAAATGCA-TCCAAA
29547997 ATATGTTTTAAATGGCATCCAAA
1 ATATGTTTTAAAT-GCATCCAAA
29548020 GCAAATTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.02
22 13 0.24
23 37 0.69
24 2 0.04
25 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (22 bp):
ATATGTTTTAAATGCATCCAAA
Found at i:29548029 original size:46 final size:46
Alignment explanation
Indices: 29547947--29548036 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
29547937 TAAATGCTGG
* *
29547947 CAAAAGTATGTTTCAAATGCTATCAAAGTAAGTTTTAAATGTAGTC
1 CAAAAGTATGTTTCAAATGCTATCAAAGCAAATTTTAAATGTAGTC
* *
29547993 CAAAA-TATGTTTTAAATGGC-ATCCAAAGCAAATTTTAAGTGTAG
1 CAAAAGTATGTTTCAAAT-GCTAT-CAAAGCAAATTTTAAATGTAG
29548037 CAGGGGTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 13 0.34
46 25 0.66
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (46 bp):
CAAAAGTATGTTTCAAATGCTATCAAAGCAAATTTTAAATGTAGTC
Found at i:29553690 original size:2 final size:2
Alignment explanation
Indices: 29553683--29553713 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29553673 TCATGACATG
29553683 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 T
29553714 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29557242 original size:47 final size:45
Alignment explanation
Indices: 29557090--29557248 Score: 117
Period size: 47 Copynumber: 3.4 Consensus size: 45
29557080 GTATAGGACC
* * *
29557090 ATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCTAGTGTAAGAT
1 ATGTCTGGGACAT-GCATCGGCATAGAG-TGAGTGCCAGTGTAAGAT
* * * * *
29557137 GTGTCTGGGACATGCATCAGCCGCAT-CA-TGA-TAGCCTGTGTAACACC
1 ATGTCTGGGACATGCATC-G--GCATAGAGTGAGT-GCCAGTGTAAGA-T
* * *
29557184 ACGTCTAGGACATGGCATCGACATAGAGGTGAGTGCCAGTGTAAGAT
1 ATGTCTGGGACAT-GCATCGGCATAGA-GTGAGTGCCAGTGTAAGAT
29557231 ATGTCTGGGACATGCATC
1 ATGTCTGGGACATGCATC
29557249 AGCACGTATA
Statistics
Matches: 84, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
45 3 0.04
46 22 0.26
47 35 0.42
48 19 0.23
49 5 0.06
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
ATGTCTGGGACATGCATCGGCATAGAGTGAGTGCCAGTGTAAGAT
Found at i:29558226 original size:54 final size:54
Alignment explanation
Indices: 29558109--29558226 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 54
29558099 CTTAAACTTT
* * *
29558109 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGTGTGCCATAGCCATGTC
1 TAAAGTCAGTATTGACCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCC
* * *
29558162 TATAAGTCAGTATTGACCACGGGTAGGCCACAC-GGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGACCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATG-CC
29558217 TAAAGTCAGT
1 TAAAGTCAGT
29558227 GTCGTACACG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 2 0.04
54 26 0.46
55 28 0.50
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (54 bp):
TAAAGTCAGTATTGACCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCC
Found at i:29564598 original size:47 final size:47
Alignment explanation
Indices: 29564544--29564745 Score: 157
Period size: 47 Copynumber: 4.3 Consensus size: 47
29564534 ATACTATGTT
* *
29564544 TGGGACATGGCATCGGCATTGA-GACGAAGGCTAGTGTAAGACGTGTC
1 TGGGACAT-GCATCGGCATTGATGATGAAGGCCAGTGTAAGACGTGTC
* * *
29564591 TGGGACATGCATCAG--TTGCATCATGATA-GCCCGTGTAAGACGTCGTC
1 TGGGACATGCATCGGCATTG-ATGATGA-AGGCCAGTGTAAGACGT-GTC
* * * * *
29564638 AGGGACATGGCATCGGCATAGA-GGTG-AGTACCAGTGTAAGACATGTC
1 TGGGACAT-GCATCGGCATTGATGATGAAG-GCCAGTGTAAGACGTGTC
* * * *
29564685 TGGGACATGCATCAGCCTCGATGATGTTAGG-CAGTGTAAGACGTGTC
1 TGGGACATGCATCGGCATTGATGATG-AAGGCCAGTGTAAGACGTGTC
*
29564732 TGGAACATGCATCG
1 TGGGACATGCATCG
29564746 ACTAAGTTTC
Statistics
Matches: 121, Mismatches: 22, Indels: 24
0.72 0.13 0.14
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 33 0.27
47 59 0.49
48 20 0.17
49 3 0.02
50 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (47 bp):
TGGGACATGCATCGGCATTGATGATGAAGGCCAGTGTAAGACGTGTC
Found at i:29564740 original size:94 final size:92
Alignment explanation
Indices: 29564576--29564791 Score: 231
Period size: 94 Copynumber: 2.3 Consensus size: 92
29564566 GACGAAGGCT
* * *
29564576 AGTGTAAGACGTGTCTGGGACATGCATCAG-TTGCATCATGATAGCCCGTGTAAGACGTCGTCAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCGCATCATGATAGCCAGTGTAAGACGTCGTCAG
* *
29564640 GGACATGGCATCGGCATAGAGGTGAGTACC
66 GAACAT-GCATCGAC-TA-AGGTGAGTACC
* * * *
29564670 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-ATGATGTTAGGCAGTGTAAGACGT-GTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCGCATCATGATAGCCAGTGTAAGACGTCGTCA
* ** * *
29564733 GGAACATGCATCGACTAAGTTTCGTGCT
65 GGAACATGCATCGACTAAGGTGAGTACC
* *
29564761 AGTGTAAGACATGTTTGGGAAATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
29564792 ACGTATACAC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
90 1 0.01
91 34 0.33
92 2 0.02
93 7 0.07
94 38 0.37
95 20 0.19
96 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCGCATCATGATAGCCAGTGTAAGACGTCGTCAG
GAACATGCATCGACTAAGGTGAGTACC
Found at i:29565672 original size:55 final size:55
Alignment explanation
Indices: 29565599--29565717 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
29565589 CTTAAACTTT
* * * ** * *
29565599 TAAA-TCAGTATTGTCCACGATTAGGCCATACGGGCGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGACCACGAGTAGGCCACACAAGCGTGTGCCATACCCGTGCCC
* *
29565652 TATAAGTCAGTATTGACCACGGGTAGGCCACACAAGCGTGTGTCATACCCGTGCCC
1 TA-AAGTCAGTATTGACCACGAGTAGGCCACACAAGCGTGTGCCATACCCGTGCCC
29565708 TAAAGTCAGT
1 TAAAGTCAGT
29565718 GTCGCACACA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.87
56 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGACCACGAGTAGGCCACACAAGCGTGTGCCATACCCGTGCCC
Found at i:29566254 original size:19 final size:17
Alignment explanation
Indices: 29566225--29566275 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
29566215 ATAAAGAAAT
29566225 GAAAA-AAAAAAAAAGA
1 GAAAAGAAAAAAAAAGA
*
29566241 GAATATGAAGAAAAACAA-A
1 GAA-AAGAA-AAAAA-AAGA
29566260 GAAAAGAAAAAAAAAG
1 GAAAAGAAAAAAAAAG
29566276 TGTTCATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 6 0.21
19 9 0.32
20 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
GAAAAGAAAAAAAAAGA
Found at i:29567470 original size:29 final size:29
Alignment explanation
Indices: 29567437--29567519 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
29567427 GTGACGAGAT
29567437 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29567466 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29567495 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
29567520 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29567559 original size:59 final size:58
Alignment explanation
Indices: 29567433--29567568 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
29567423 TACGGTGACG
* * *
29567433 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
29567490 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
29567549 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
29567569 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:29576152 original size:40 final size:40
Alignment explanation
Indices: 29576107--29576273 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
29576097 CGGAATATAA
29576107 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
29576147 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
29576187 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
29576227 CCGGATATAATTTCCAGCATAATTGTCTT-GGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29576266 CCGGATAT
1 CCGGATAT
29576274 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 17 0.16
40 89 0.84
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29583355 original size:40 final size:40
Alignment explanation
Indices: 29583310--29583477 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
29583300 CGGAATATAA
29583310 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
29583350 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
29583390 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * * *
29583430 CCGGATATAATTTCCAGCATAATTGTCTTTGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29583470 CCGGATAT
1 CCGGATAT
29583478 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29586919 original size:16 final size:17
Alignment explanation
Indices: 29586900--29586937 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
29586890 ACCACTTGGG
29586900 GAACTCTAAGG-CTGGC
1 GAACTCTAAGGTCTGGC
* *
29586916 GAACTCTAGGGTTTGGC
1 GAACTCTAAGGTCTGGC
29586933 GAACT
1 GAACT
29586938 TTTTTATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (17 bp):
GAACTCTAAGGTCTGGC
Found at i:29598566 original size:27 final size:27
Alignment explanation
Indices: 29598536--29598705 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
29598526 GCAAAATGGC
* * * *
29598536 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
29598563 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
** * * *
29598590 TTTTCCACCCTGCAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
29598617 AATTCTATCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
**
29598644 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
29598671 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
29598698 AATTCTAC
1 AATTCTAC
29598706 AACTTATCCA
Statistics
Matches: 119, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:29598650 original size:81 final size:81
Alignment explanation
Indices: 29598551--29598704 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
29598541 TACCCCACAA
* ** *
29598551 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTTTTTCCACCCTGCAAGGGTATTTCGG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCCACCCTACAAGGGTATTTCGG
29598616 TAATTCTATCCTATAG
66 TAATTCTATCCTATAG
* * *
29598632 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCCACCCTACAAGGGTATTTCGG
29598697 TAATTCTA
66 TAATTCTA
29598705 CAACTTATCC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCCACCCTACAAGGGTATTTCGG
TAATTCTATCCTATAG
Found at i:29602364 original size:44 final size:44
Alignment explanation
Indices: 29602309--29602395 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
29602299 ATGTATGAGT
*
29602309 CATCCGAGCTCGTTGAGTTGTTCCGAGTTCATTATGGATGCGAG
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAG
*
29602353 CATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
29602396 TACATGTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (44 bp):
CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAG
Found at i:29612550 original size:20 final size:20
Alignment explanation
Indices: 29612525--29612562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29612515 GTTTATTCGC
*
29612525 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
29612545 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
29612563 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:29614208 original size:28 final size:28
Alignment explanation
Indices: 29614176--29614244 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
29614166 GCGTAGATCA
29614176 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
29614204 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29614232 CGATA-TACCCCTA
1 CGAAATTACCCCTA
29614245 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:29620515 original size:20 final size:20
Alignment explanation
Indices: 29620490--29620527 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29620480 GTTTATTCGC
*
29620490 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
29620510 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
29620528 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:29628727 original size:80 final size:80
Alignment explanation
Indices: 29628643--29628791 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29628633 TATGGTAACC
* * * *
29628643 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29628707 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29628723 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29628788 CCGG
66 CCGG
29628792 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29628733 original size:40 final size:38
Alignment explanation
Indices: 29628684--29628791 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29628674 ATCACGATTT
*
29628684 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29628724 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29628764 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29628792 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29632180 original size:80 final size:79
Alignment explanation
Indices: 29632075--29632286 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
29632065 TCTTCGGAAT
* *
29632075 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29632139 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
29632154 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGTAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29632219 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
29632234 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCTGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
29632287 CATTCAATTG
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 5 0.04
80 113 0.95
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:29632277 original size:40 final size:41
Alignment explanation
Indices: 29632095--29632279 Score: 261
Period size: 40 Copynumber: 4.6 Consensus size: 41
29632085 ATAACCACAA
* * *
29632095 GCACAATTGCCTTCGGGTCTTAACCCGGGTAT-AGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCAACTC
29632135 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCAACTC
*
29632175 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCAACTC
* * *
29632215 GTACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCAACTC
* *
29632255 GCATAAATGCCTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCC
29632280 TGGGTATCAT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 127 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCAACTC
Found at i:29635629 original size:40 final size:40
Alignment explanation
Indices: 29635582--29635782 Score: 282
Period size: 40 Copynumber: 5.0 Consensus size: 40
29635572 GAATTTAACT
* * *
29635582 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
29635622 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
29635662 GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
29635702 GGATATAATAACTCGCACAATTGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
29635741 GGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
29635781 GG
1 GG
29635783 TTATCATCCT
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.23
40 110 0.76
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:29640211 original size:439 final size:439
Alignment explanation
Indices: 29639393--29640268 Score: 1725
Period size: 439 Copynumber: 2.0 Consensus size: 439
29639383 CAGAAAATGT
29639393 TCTGGCCCTGTTTCACAAAAACTTAAACATCTCATAAAATACGGCTCATATGGTCGTTTCGTTTC
1 TCTGGCCCTGTTTCACAAAAACTTAAACATCTCATAAAATACGGCTCATATGGTCGTTTCGTTTC
*
29639458 TTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTATTCACTATTTAATTTCATTCC
66 TTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTATTCACTATTTAATTCCATTCC
*
29639523 TACTATTTTTAGTGATTTTTCAAATTTACATCACTGCTGCTGTCAGCATCTATTCTAAGGTAAAT
131 TACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGTCAGCATCTATTCTAAGGTAAAT
29639588 TTTACCTATTTCATAATTTTCCATGAATCAATTAGTAAATTGACATACATCATTTTCAAGTATAA
196 TTTACCTATTTCATAATTTTCCATGAATCAATTAGTAAATTGACATACATCATTTTCAAGTATAA
29639653 TCACGATTAGCTATGTCGTACGTAGCACCAAAAGGACCATGATTGGCCATTCCAATGGCTAATCA
261 TCACGATTAGCTATGTCGTACGTAGCACCAAAAGGACCATGATTGGCCATTCCAATGGCTAATCA
29639718 TTACCAACATTTCAACACCACTTAATAACCATATCATAAGACCATATATACAAAATGACCATAAT
326 TTACCAACATTTCAACACCACTTAATAACCATATCATAAGACCATATATACAAAATGACCATAAT
29639783 GTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATATGC
391 GTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATATGC
29639832 TCTGGCCCTGTTTCACAAAAACTTAAACATCTCATAAAATACGGCTCATATGGTCGTTTCGTTTC
1 TCTGGCCCTGTTTCACAAAAACTTAAACATCTCATAAAATACGGCTCATATGGTCGTTTCGTTTC
29639897 TTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTATTCACTATTTAATTCCATTCC
66 TTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTATTCACTATTTAATTCCATTCC
29639962 TACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGTCAGCATCTATTCTAAGGTAAAT
131 TACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGTCAGCATCTATTCTAAGGTAAAT
29640027 TTTACCTATTTCATAATTTTCCATGAATCAATTAGTAAATTGACATACATCATTTTCAAGTATAA
196 TTTACCTATTTCATAATTTTCCATGAATCAATTAGTAAATTGACATACATCATTTTCAAGTATAA
*
29640092 TGACGATTAGCTATGTCGTACGTAGCACCAAAAGGACCATGATTGGCCATTCCAATGGCTAATCA
261 TCACGATTAGCTATGTCGTACGTAGCACCAAAAGGACCATGATTGGCCATTCCAATGGCTAATCA
29640157 TTACCAACATTTCAACACCACTTAATAACCATATCATAAGACCATATATACAAAATGACCATAAT
326 TTACCAACATTTCAACACCACTTAATAACCATATCATAAGACCATATATACAAAATGACCATAAT
29640222 GTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATAT
391 GTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATAT
29640269 ACATTACCAA
Statistics
Matches: 434, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
439 434 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (439 bp):
TCTGGCCCTGTTTCACAAAAACTTAAACATCTCATAAAATACGGCTCATATGGTCGTTTCGTTTC
TTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTATTCACTATTTAATTCCATTCC
TACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGTCAGCATCTATTCTAAGGTAAAT
TTTACCTATTTCATAATTTTCCATGAATCAATTAGTAAATTGACATACATCATTTTCAAGTATAA
TCACGATTAGCTATGTCGTACGTAGCACCAAAAGGACCATGATTGGCCATTCCAATGGCTAATCA
TTACCAACATTTCAACACCACTTAATAACCATATCATAAGACCATATATACAAAATGACCATAAT
GTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATATGC
Found at i:29640973 original size:40 final size:40
Alignment explanation
Indices: 29640771--29640966 Score: 333
Period size: 40 Copynumber: 4.9 Consensus size: 40
29640761 CTTTCAGGAT
*
29640771 TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
* *
29640810 TTAGCCCGGATATAGTAACTAGCACAGATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
29640850 TTAGCCTGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
29640890 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
29640930 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
29640967 ATCTTAGTCC
Statistics
Matches: 148, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:29642361 original size:13 final size:13
Alignment explanation
Indices: 29642343--29642368 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29642333 ATTTTTATTT
29642343 TTAACATAAAATA
1 TTAACATAAAATA
29642356 TTAACATAAAATA
1 TTAACATAAAATA
29642369 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:29655169 original size:26 final size:25
Alignment explanation
Indices: 29655140--29655209 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 25
29655130 AAATTAGTAA
29655140 TTAAGCTTTTTTTCCCAATTTGATAC
1 TTAAG-TTTTTTTCCCAATTTGATAC
*
29655166 TTAAG-TTTTTT-CCAATATGATAC
1 TTAAGTTTTTTTCCCAATTTGATAC
* *
29655189 TTGAGGTATTTTGTCCCAATT
1 TT-AAGT-TTTTTTCCCAATT
29655210 AAGTACTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 13 0.36
24 8 0.22
26 10 0.28
27 5 0.14
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (25 bp):
TTAAGTTTTTTTCCCAATTTGATAC
Found at i:29655588 original size:7 final size:7
Alignment explanation
Indices: 29655578--29655611 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
29655568 TTTTTAATTT
29655578 TTATATA
1 TTATATA
29655585 TTATATA
1 TTATATA
29655592 TTATATAA
1 TTATAT-A
29655600 TT-TATA
1 TTATATA
29655606 TTATAT
1 TTATAT
29655612 GAGAACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:29658186 original size:20 final size:20
Alignment explanation
Indices: 29658161--29658207 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
29658151 CAAAACTTTT
*
29658161 CATACACATGCATCATGTCC
1 CATACACATGCATAATGTCC
29658181 CATACACATGCATAATGTCC
1 CATACACATGCATAATGTCC
29658201 CATACAC
1 CATACAC
29658208 GGGCCTACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (20 bp):
CATACACATGCATAATGTCC
Found at i:29661123 original size:51 final size:49
Alignment explanation
Indices: 29660954--29661185 Score: 221
Period size: 49 Copynumber: 4.7 Consensus size: 49
29660944 CTAGTATGCT
* * ** * *
29660954 TAGTAGCCTGCACTTAGTACTACATATGCAACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACA
* * ** *** *
29661003 TAGTAGCCTACACTTAGTACTACACACATGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACA
* * * ** **
29661053 TAGTAGCTTGTACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACA
* * *
29661104 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACA
29661153 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
29661186 TCACAATAGA
Statistics
Matches: 144, Mismatches: 36, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
49 67 0.47
50 44 0.31
51 33 0.23
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACA
Found at i:29664326 original size:50 final size:50
Alignment explanation
Indices: 29664251--29664437 Score: 154
Period size: 50 Copynumber: 3.8 Consensus size: 50
29664241 ACATCAAAGT
* * * * *
29664251 CGATGTCATTTCCCAGACATGGTCTTACACTGACTCTCGTATACCGAG-GC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATACAG-GTGC
* * * * *
29664301 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATTTATAGGTGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATACAGGTGC
* * * *
29664351 CGATGCCATGTCCTAGACATGGTATTACACT-A-ACACATAT-CA--AGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATACAGGTGC
* * *
29664396 TGATGTCATGTCCCAGACATGGTCTTACACT-AGCTCTCATAT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGA-CTCTCATAT
29664438 CTCCCTAGCA
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
45 29 0.27
47 7 0.06
48 5 0.05
49 1 0.01
50 67 0.61
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (50 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATACAGGTGC
Found at i:29668402 original size:48 final size:49
Alignment explanation
Indices: 29668328--29668553 Score: 207
Period size: 48 Copynumber: 4.7 Consensus size: 49
29668318 GTTATGTGAG
* * * *
29668328 CCAGTGTAAGACCATG-CTTAGAACATGGCATCGGCATTGT-TGTGAGAT
1 CCAGTGTAAGACCATGTC-TGGGACATGGCATCGGCATTATATATGAGAT
* * * *
29668376 CTAGTGTAAGACCATGTCTGGGACATGGCATTGGTC-TCGATATGTGAG--
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TATATATGAGAT
* * * *
29668424 CCAGT-TAAGACCATGTTTGGAACATGGCATCGGTATTAT-TATGTAGGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATATATG-AGAT
* * * *
29668472 -CAGTGTAAAACCATGTCTGGGACATGGCATCAGCACTAATATATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTATATATGAGAT
29668521 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
29668554 AAATTTTACC
Statistics
Matches: 143, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 4 0.03
47 30 0.21
48 58 0.41
49 8 0.06
50 40 0.28
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (49 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATATATGAGAT
Found at i:29668485 original size:95 final size:98
Alignment explanation
Indices: 29668320--29668553 Score: 296
Period size: 95 Copynumber: 2.4 Consensus size: 98
29668310 ATACTAGGGT
* * * *
29668320 TATGTGAGCCAGTGTAAGACCATGCTTAGAACATGGCATCGGCATTGTTGTGAGATCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGAGATCTAGTGTAA
* * ** *
29668385 GACCATGTCTGGGACATGGCAT-TGGTCT-CGA
66 AACCATGTCTGGGACATGGCATCAGCACTAAGA
* *
29668416 TATGTGAGCCAGT-TAAGACCATGTTTGGAACATGGCATCGGTATTATTATGTAGGTC-AGTGTA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATG-AGATCTAGTGTA
*
29668479 AAACCATGTCTGGGACATGGCATCAGCACTAATA
65 AAACCATGTCTGGGACATGGCATCAGCACTAAGA
* * *
29668513 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
29668554 AAATTTTACC
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
95 61 0.51
96 20 0.17
97 13 0.11
98 25 0.21
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (98 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGAGATCTAGTGTAA
AACCATGTCTGGGACATGGCATCAGCACTAAGA
Found at i:29671049 original size:40 final size:39
Alignment explanation
Indices: 29670884--29671067 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
29670874 AAATTGAATG
* * *
29670884 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
29670924 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
29670964 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
29671004 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
29671043 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29671068 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:29671092 original size:80 final size:81
Alignment explanation
Indices: 29670924--29671112 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
29670914 GCTGGAAATT
* * * *
29670924 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
29670989 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
29671005 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
29671068 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
29671084 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
29671113 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:29680395 original size:29 final size:29
Alignment explanation
Indices: 29680362--29680444 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
29680352 ATGACGAGAT
29680362 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29680391 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29680420 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
29680445 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29680484 original size:59 final size:58
Alignment explanation
Indices: 29680358--29680493 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
29680348 TACGATGACG
* * *
29680358 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
29680415 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
29680474 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
29680494 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:29690135 original size:22 final size:23
Alignment explanation
Indices: 29690092--29690140 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
29690082 TATTACATTT
*
29690092 AAATGCTGGCAAAAGTATGTTTC
1 AAATGCTGGCAAAAGTAAGTTTC
* *
29690115 AAATGCTGTC-AAAGTAAGTTTT
1 AAATGCTGGCAAAAGTAAGTTTC
29690137 AAAT
1 AAAT
29690141 CTTGTCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (23 bp):
AAATGCTGGCAAAAGTAAGTTTC
Found at i:29690146 original size:22 final size:23
Alignment explanation
Indices: 29690089--29690195 Score: 94
Period size: 23 Copynumber: 4.7 Consensus size: 23
29690079 GGGTATTACA
* *
29690089 TTTAAATGCTGGCAAAAGTATGT
1 TTTAAATGCTGTCCAAAGTATGT
* *
29690112 TTCAAATGCTGT-CAAAGTAAGT
1 TTTAAATGCTGTCCAAAGTATGT
*
29690134 TTTAAAT-CTTGTCCAAAATATGT
1 TTTAAATGC-TGTCCAAAGTATGT
* *
29690157 TTTAAATG-TCATCCAAAGCATGT
1 TTTAAATGCT-GTCCAAAGTATGT
* *
29690180 TTTAAGTGTTGTCCAA
1 TTTAAATGCTGTCCAA
29690196 GCTGGACATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
21 1 0.01
22 18 0.27
23 47 0.70
24 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (23 bp):
TTTAAATGCTGTCCAAAGTATGT
Found at i:29690322 original size:105 final size:105
Alignment explanation
Indices: 29690182--29690620 Score: 675
Period size: 105 Copynumber: 4.2 Consensus size: 105
29690172 AAGCATGTTT
* *
29690182 TAAGTG-TTGTCC-AAGCTGGACATTTCTATTTTGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* * * ***
29690245 AAATGTTTATGTCAATTTTATTGCTAATATTATAGGTGTA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCAAA
*
29690285 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGACTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* * *
29690350 AAGTGTTTATGTCGATTTTAATGTTGATATTATAAGCAAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCAAA
* * *
29690390 TAAGTGTTTTTCCAAAGCTCGACATTTTTATTATGTTTATGTTAAATTAAATATTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* * *
29690455 AAGTGTTTATGTTGATTTTAATGCTGATATTATAGACAAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCAAA
29690495 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* **
29690560 AAGTGTTTATGTCGATTTTAATGCTAATATTTTAGGTGAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCAAA
29690600 TAAGTGTTTTTCCAAAGCTGG
1 TAAGTGTTTTTCCAAAGCTGG
29690621 TTATATCTGA
Statistics
Matches: 305, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
103 6 0.02
104 5 0.02
105 294 0.96
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.44
Consensus pattern (105 bp):
TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCAAA
Found at i:29691061 original size:36 final size:36
Alignment explanation
Indices: 29691016--29691130 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 36
29691006 ATGAACACTC
*
29691016 ATTTGTCAGTTTTACCGACCAGAGCAGGGCACATTT
1 ATTTATCAGTTTTACCGACCAGAGCAGGGCACATTT
* * * *
29691052 ATTTATCAGTTATACTGACC-GATGCTGGGCACATTC
1 ATTTATCAGTTTTACCGACCAGA-GCAGGGCACATTT
* * * * * * *
29691088 ATTTGTCAATTTTATCAACCAGCGTAGGGCGCATTT
1 ATTTATCAGTTTTACCGACCAGAGCAGGGCACATTT
*
29691124 GTTTATC
1 ATTTATC
29691131 GATTATACCA
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
35 2 0.03
36 56 0.95
37 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (36 bp):
ATTTATCAGTTTTACCGACCAGAGCAGGGCACATTT
Found at i:29691211 original size:74 final size:73
Alignment explanation
Indices: 29691113--29691373 Score: 265
Period size: 74 Copynumber: 3.6 Consensus size: 73
29691103 CAACCAGCGT
* * * * *
29691113 AGGGCGCATTTGTTTATCGATTATACCAACGAGTACTGGGCACACACAGTTGTCTCAGTTTTATT
1 AGGGCGCATTTATTTGTCGATTATACCAACCAGTGCTGGGCACACACAATTGTCTCAGTTTTA-T
29691178 GAACAGCAC
65 GAACAGCAC
* * * **
29691187 AGGGCTCATTTATTTGTCGGTTATACCGACCAGTGCTGGGCACACACAATTGTCTTGGTTTTACT
1 AGGGCGCATTTATTTGTCGATTATACCAACCAGTGCTGGGCACACACAATTGTCTCAGTTTTA-T
*
29691252 GTACAGCAC
65 GAACAGCAC
* * * * * * * *
29691261 AGGGCGCATTTATTTGTTGATTATATCGACTAGTGCTGGGCATACTCATTTG-C-CAGTTTTACG
1 AGGGCGCATTTATTTGTCGATTATACCAACCAGTGCTGGGCACACACAATTGTCTCAGTTTTATG
* *
29691324 ACCAACAC
66 AACAGCAC
* * * *
29691332 AGGGCACATTTATTTGTAGGTTATACCAACCAGTGCCGGGCA
1 AGGGCGCATTTATTTGTCGATTATACCAACCAGTGCTGGGCA
29691374 GACTCATTTG
Statistics
Matches: 154, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
71 41 0.27
72 6 0.04
73 1 0.01
74 106 0.69
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (73 bp):
AGGGCGCATTTATTTGTCGATTATACCAACCAGTGCTGGGCACACACAATTGTCTCAGTTTTATG
AACAGCAC
Found at i:29691436 original size:36 final size:36
Alignment explanation
Indices: 29691181--29691436 Score: 115
Period size: 36 Copynumber: 7.1 Consensus size: 36
29691171 TTTTATTGAA
* * *
29691181 CAGCACAGGGCTCATTTATTTGTCGGTTATACCGAC
1 CAGCGCAGGGCACATTTATTTGTCGGTTATACTGAC
* * *** * *
29691217 CAGTGCTGGGCACACACAATTGTCTTGGTTTTACTGTA-
1 CAGCGCAGGGCACATTTATTTGTC--GGTTATACTG-AC
* * * *
29691255 CAGCACAGGGCGCATTTATTTGTTGATTATA-TCGAC
1 CAGCGCAGGGCACATTTATTTGTCGGTTATACT-GAC
* * * * * * * * *
29691291 TAGTGCTGGGCATACTCATTTGCCAGTTTTAC-GAC
1 CAGCGCAGGGCACATTTATTTGTCGGTTATACTGAC
* * * **
29691326 CAACACAGGGCACATTTATTTGTAGGTTATACCAAC
1 CAGCGCAGGGCACATTTATTTGTCGGTTATACTGAC
* * * * * * *
29691362 CAGTGCCGGGCAGACTCATTTGTCGACTT-TACTAAC
1 CAGCGCAGGGCACATTTATTTGTCG-GTTATACTGAC
*
29691398 CAGCGCAGGGCACATTTATTTGTTGGTTATACTGAC
1 CAGCGCAGGGCACATTTATTTGTCGGTTATACTGAC
29691434 CAG
1 CAG
29691437 TGCTAAACAC
Statistics
Matches: 146, Mismatches: 65, Indels: 18
0.64 0.28 0.08
Matches are distributed among these distances:
35 27 0.18
36 93 0.64
37 2 0.01
38 23 0.16
39 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (36 bp):
CAGCGCAGGGCACATTTATTTGTCGGTTATACTGAC
Found at i:29691451 original size:72 final size:72
Alignment explanation
Indices: 29691010--29691538 Score: 340
Period size: 72 Copynumber: 7.3 Consensus size: 72
29691000 GAATGAATGA
** * ** *
29691010 ACACTCATTTGTC-AGTTTTACCGACCAG-AGCAGGGCACATTTATTTATCAGTTATACTGACC-
1 ACACTCATTTGTCGA-TTTTACTAACCAGCA-CAGGGCACATTTATTTGTTGGTTATACCGACCA
29691072 GATGCTGGGC
64 G-TGCTGGGC
* * ** * * * * * * *
29691082 ACATTCATTTGTCAATTTTA-TCAACCAGCGTAGGGCGCATTTGTTTATCGATTATACCAACGAG
1 ACACTCATTTGTCGATTTTACT-AACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACCAG
*
29691146 TACTGGGC
65 TGCTGGGC
* * * * * *
29691154 ACACACAGTTGTCTCAGTTTTATTGAA-CAGCACAGGGCTCATTTATTTGTCGGTTATACCGACC
1 ACACTCATTTGTC-GA-TTTTACT-AACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACC
29691218 AGTGCTGGGC
63 AGTGCTGGGC
* * * * * * * *
29691228 ACACACAATTGTCTTGGTTTTACTGTA-CAGCACAGGGCGCATTTATTTGTTGATTATATCGACT
1 ACACTCATTTGTC--GATTTTACT-AACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACC
29691292 AGTGCTGGGC
63 AGTGCTGGGC
* * * * * *
29691302 ATACTCATTTG-CCAGTTTTAC-GACCAACACAGGGCACATTTATTTGTAGGTTATACCAACCAG
1 ACACTCATTTGTCGA-TTTTACTAACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACCAG
*
29691365 TGCCGGGC
65 TGCTGGGC
* * * *
29691373 AGACTCATTTGTCGACTTTACTAACCAGCGCAGGGCACATTTATTTGTTGGTTATACTGACCAGT
1 ACACTCATTTGTCGATTTTACTAACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACCAGT
***
29691438 GCTAAAC
66 GCTGGGC
* * * * * * * ** * *
29691445 ACACTCATTTTTCGGTATTACCAA--AGAATGTAAGGCACATTTATTTGTCAGTTACACCGACAA
1 ACACTCATTTGTCGATTTTACTAACCAGCA--CAGGGCACATTTATTTGTTGGTTATACCGACCA
29691508 GTGCTGGGC
64 GTGCTGGGC
* *
29691517 ACACACATTTCTCGATTTTACT
1 ACACTCATTTGTCGATTTTACT
29691539 GAATAGCAGA
Statistics
Matches: 356, Mismatches: 87, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
70 3 0.01
71 54 0.15
72 178 0.50
73 4 0.01
74 113 0.32
75 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (72 bp):
ACACTCATTTGTCGATTTTACTAACCAGCACAGGGCACATTTATTTGTTGGTTATACCGACCAGT
GCTGGGC
Found at i:29693443 original size:7 final size:7
Alignment explanation
Indices: 29693431--29693462 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
29693421 GTTGTCTTCT
29693431 TGTTTGA
1 TGTTTGA
29693438 TGTTTGA
1 TGTTTGA
29693445 TGTTTGA
1 TGTTTGA
29693452 TGTTTGA
1 TGTTTGA
29693459 TGTT
1 TGTT
29693463 GTGGTGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TGTTTGA
Found at i:29694392 original size:27 final size:28
Alignment explanation
Indices: 29694336--29694405 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
29694326 AAATTTGTAC
*
29694336 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
29694364 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29694391 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29694406 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29697933 original size:25 final size:25
Alignment explanation
Indices: 29697904--29697951 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29697894 TTATAACATG
* * *
29697904 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACAATTATACCCCTAGGTA
29697929 AAAATGACAATTATACCCCTAGG
1 AAAATGACAATTATACCCCTAGG
29697952 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACAATTATACCCCTAGGTA
Found at i:29698053 original size:11 final size:11
Alignment explanation
Indices: 29697998--29698054 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
29697988 ACATGGTATG
29697998 TATGATATGCA
1 TATGATATGCA
* *
29698009 CATGACATG--
1 TATGATATGCA
*
29698018 TATGATATACA
1 TATGATATGCA
29698029 TATGATATG--
1 TATGATATGCA
29698038 TATGATATGCA
1 TATGATATGCA
*
29698049 CATGAT
1 TATGAT
29698055 GTAATCATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:29698054 original size:20 final size:20
Alignment explanation
Indices: 29697988--29698054 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
29697978 ATTTTGATAA
*
29697988 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
29698008 ACATGACATGTATGATATAC
1 ACATGATATGTATGATATGC
*
29698028 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29698048 ACATGAT
1 ACATGAT
29698055 GTAATCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29698206 original size:24 final size:23
Alignment explanation
Indices: 29698105--29698244 Score: 192
Period size: 23 Copynumber: 6.0 Consensus size: 23
29698095 AGGAAGTGAA
**
29698105 AAAGGGCTTACCCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29698128 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29698151 GAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29698174 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29698197 AAAAGGGCTTTTGCCCCAGTTATTT
1 -AAAGGGCTTATGCCCCAGTTA-TT
*
29698222 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
29698245 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 65 0.61
24 29 0.27
25 12 0.11
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29698481 original size:31 final size:31
Alignment explanation
Indices: 29698438--29698501 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
29698428 CATTTACAGT
*
29698438 AAAGGCTTCGGCCCAGTAATATAAAATATGA
1 AAAGCCTTCGGCCCAGTAATATAAAATATGA
** *
29698469 AAAGCCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGCCTTCGGCCCAGTAATATAAAATATGA
29698500 AA
1 AA
29698502 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGCCTTCGGCCCAGTAATATAAAATATGA
Found at i:29700423 original size:46 final size:46
Alignment explanation
Indices: 29700370--29700545 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
29700360 TATTTGGGCA
29700370 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
29700416 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
29700463 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
29700509 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29700546 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:29700525 original size:93 final size:93
Alignment explanation
Indices: 29700366--29700537 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29700356 GGGATATTTG
* *
29700366 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29700431 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
29700459 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29700524 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
29700538 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:29702690 original size:30 final size:30
Alignment explanation
Indices: 29702646--29702734 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
29702636 CAAAGATAAC
29702646 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29702675 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
29702705 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29702735 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29702694 original size:15 final size:15
Alignment explanation
Indices: 29702646--29702725 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
29702636 CAAAGATAAC
*
29702646 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29702660 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29702675 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29702690 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29702705 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29702720 AAGAAA
1 AAGAAA
29702726 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29702734 original size:15 final size:15
Alignment explanation
Indices: 29702657--29702734 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
29702647 AGAAAACCGA
29702657 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
29702672 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
29702686 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29702701 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29702717 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29702732 ATA
1 ATA
29702735 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29705736 original size:93 final size:93
Alignment explanation
Indices: 29705624--29705795 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29705614 GCCCATAAGT
* *
29705624 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29705689 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
29705717 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29705782 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
29705796 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29705791 original size:46 final size:46
Alignment explanation
Indices: 29705616--29705791 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
29705606 TGTAACCCGC
* * *
29705616 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
29705662 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
29705712 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
29705755 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29705792 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:29712645 original size:25 final size:25
Alignment explanation
Indices: 29712616--29712663 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29712606 TTATAACATG
* *
29712616 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29712641 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29712664 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29712765 original size:11 final size:11
Alignment explanation
Indices: 29712711--29712768 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
29712701 CATGGTATGT
29712711 ATGATATGCAC
1 ATGATATGCAC
* *
29712722 ATGACATGTA-
1 ATGATATGCAC
29712732 A-GATATGCAC
1 ATGATATGCAC
*
29712742 ATGATAT-C-T
1 ATGATATGCAC
29712751 ATGATATGCAC
1 ATGATATGCAC
29712762 ATGATAT
1 ATGATAT
29712769 AATCATAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 13 0.35
10 4 0.11
11 20 0.54
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29712766 original size:20 final size:20
Alignment explanation
Indices: 29712700--29712768 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
29712690 ATTTTGATAA
*
29712700 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
29712720 ACATGACATGTAAGATATGC
1 ACATGATATGTATGATATGC
*
29712740 ACATGATATCTATGATATGC
1 ACATGATATGTATGATATGC
29712760 ACATGATAT
1 ACATGATAT
29712769 AATCATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29712900 original size:24 final size:24
Alignment explanation
Indices: 29712816--29712919 Score: 158
Period size: 23 Copynumber: 4.4 Consensus size: 24
29712806 GAGGAAGTGA
*
29712816 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29712840 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
29712863 -AATGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
29712886 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29712910 AAAAGAGGCT
1 AAAAG-GGCT
29712920 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.59
24 26 0.35
25 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:29712909 original size:47 final size:46
Alignment explanation
Indices: 29712820--29712911 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 46
29712810 AAGTGAAAAA
29712820 GGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAT
1 GGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAT
* *
29712866 GGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAA
1 GGGCTTACGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAA
29712912 AAGAGGCTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 19 0.44
47 24 0.56
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (46 bp):
GGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAT
Found at i:29713162 original size:31 final size:31
Alignment explanation
Indices: 29713127--29713190 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
29713117 CGTTTACAGT
29713127 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29713158 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29713189 AA
1 AA
29713191 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29715385 original size:48 final size:48
Alignment explanation
Indices: 29715327--29715843 Score: 837
Period size: 48 Copynumber: 10.9 Consensus size: 48
29715317 ATATACACAC
*
29715327 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
29715375 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
29715423 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
29715469 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
29715517 ATCTCA-AGTATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATA-CATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
29715565 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
29715613 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
29715661 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
29715707 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
29715755 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
29715803 ATCTCATATATATTTTACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
29715844 CACATATATA
Statistics
Matches: 437, Mismatches: 26, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 85 0.19
47 1 0.00
48 350 0.80
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:29715751 original size:238 final size:238
Alignment explanation
Indices: 29715327--29715843 Score: 971
Period size: 238 Copynumber: 2.2 Consensus size: 238
29715317 ATATACACAC
*
29715327 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
29715392 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
29715457 TACCACACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
131 TACCACACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
29715522 AAGTATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
196 AAGTATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
29715565 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
29715630 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
29715695 TACCACACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
131 TACCACACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* *
29715760 ATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
196 AAGTATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
* * *
29715803 ATCTCATATATATTTTACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
29715844 CACATATATA
Statistics
Matches: 272, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
238 272 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (238 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
TACCACACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
AAGTATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
Found at i:29715844 original size:142 final size:143
Alignment explanation
Indices: 29715327--29715850 Score: 860
Period size: 142 Copynumber: 3.7 Consensus size: 143
29715317 ATATACACAC
* *
29715327 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
* * * * *
29715392 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CATTAGCCATTCGGCTTTACCACA-ACACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
29715457 TACCAC--ACACAT
130 TACCACATATACAT
29715469 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-AGTATATTTC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA-TATATTTC
* *
29715533 ACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
65 ACATTAGCCATTCGGCTTTACCACA-ACACATATCTCATACATATTTCACACTAGCCATTCGGCT
29715598 TTACCACATATACAT
129 TTACCACATATACAT
29715613 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
29715678 CATTAGCCATTCGGCTTTACCAC-ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
66 CATTAGCCATTCGGCTTTACCACAACACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
29715742 ACCACATATACAT
131 ACCACATATACAT
** * *
29715755 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
29715820 CATTAGCCATTCGGCTTTACCAC-ACACATAT
66 CATTAGCCATTCGGCTTTACCACAACACATAT
29715851 ATATTTATCT
Statistics
Matches: 364, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
141 1 0.00
142 272 0.75
144 90 0.25
145 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (143 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
CATTAGCCATTCGGCTTTACCACAACACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
ACCACATATACAT
Found at i:29723789 original size:15 final size:15
Alignment explanation
Indices: 29723769--29723797 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29723759 ACGTATGCTC
29723769 GTATGTAATTATTTA
1 GTATGTAATTATTTA
29723784 GTATGTAATTATTT
1 GTATGTAATTATTT
29723798 CTTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
GTATGTAATTATTTA
Found at i:29725401 original size:40 final size:40
Alignment explanation
Indices: 29725331--29725556 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
29725321 CCGCACCAAG
* * *
29725331 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
29725371 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
** * * * *
29725411 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
* * * * *
29725451 GCCTTCGGGTCTTAGCCCGGATGT-AGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCA-CGATTTGCACAAAT
* * *
29725491 GCCTTCGGGTCTTAACCCGGTTAT-A--ATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCA-CA-AA-T
* *
29725531 GTCTTCGGGGCTTAGCCCGGATATCA
1 GCCTTCGGGTCTTAGCCCGGATATCA
29725557 TTCAATTTCT
Statistics
Matches: 154, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 2 0.01
40 145 0.94
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
Found at i:29726403 original size:17 final size:19
Alignment explanation
Indices: 29726380--29726425 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
29726370 AAGAAGCATG
29726380 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
29726398 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
29726416 AATCATGCTC
1 AATCATGCTC
29726426 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:29734615 original size:37 final size:36
Alignment explanation
Indices: 29734565--29734651 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
29734555 TGCGAAGTCT
*
29734565 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
29734601 GTACCCGGACATAATCTCCACACGTAGTCATCAGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
29734638 TCACCCGGAACATA
1 T-ACCCGG-ACATA
29734652 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
Found at i:29734779 original size:49 final size:49
Alignment explanation
Indices: 29734718--29734941 Score: 407
Period size: 49 Copynumber: 4.6 Consensus size: 49
29734708 GCTTTGCACG
*
29734718 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACG
1 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
*
29734767 TCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
*
29734816 TCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
29734865 TCGGCCATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
29734912 TCGGCCATTAGGCCTTATCACATATATACA
1 TCGGCCATTAGGCCTTATCACATATATACA
29734942 TCTCATACAT
Statistics
Matches: 170, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 47 0.28
49 123 0.72
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
Found at i:29737756 original size:40 final size:41
Alignment explanation
Indices: 29737712--29737809 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
29737702 TCGATTGTCC
* * **
29737712 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
29737752 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
29737793 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
29737810 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:29738603 original size:40 final size:40
Alignment explanation
Indices: 29738554--29738825 Score: 481
Period size: 40 Copynumber: 6.8 Consensus size: 40
29738544 CCAGCGCGAT
* * * *
29738554 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
29738594 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29738634 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29738674 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29738714 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29738754 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
29738794 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
29738826 CTCAATTCTC
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 226 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:29740761 original size:37 final size:36
Alignment explanation
Indices: 29740711--29740797 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
29740701 TGCGAAGTCT
29740711 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
29740747 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
29740784 TCACCCGGAACATA
1 T-ACCCGG-ACATA
29740798 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:29740927 original size:49 final size:49
Alignment explanation
Indices: 29740868--29741167 Score: 557
Period size: 49 Copynumber: 6.1 Consensus size: 49
29740858 TGCCACATAT
* * *
29740868 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
29740917 ATATACACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
29740965 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
29741014 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
29741063 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
29741112 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
29741161 ATATACA
1 ATATACA
29741168 TCTCATACAT
Statistics
Matches: 246, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
48 47 0.19
49 199 0.81
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:29744956 original size:60 final size:60
Alignment explanation
Indices: 29744884--29745005 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
29744874 AAGTCACTTC
29744884 TATGAGCCTTAGCCGATTGGTTATTATAAAAGTGATATTTAAATTATGATTTGTATGTGA
1 TATGAGCCTTAGCCGATTGGTTATTATAAAAGTGATATTTAAATTATGATTTGTATGTGA
29744944 TATGAGCCTTAGCCGATTGGTTATTATAAAAGTGATATTTAAATTATGATTTGTATGTGA
1 TATGAGCCTTAGCCGATTGGTTATTATAAAAGTGATATTTAAATTATGATTTGTATGTGA
29745004 TA
1 TA
29745006 ATAAGAAGTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (60 bp):
TATGAGCCTTAGCCGATTGGTTATTATAAAAGTGATATTTAAATTATGATTTGTATGTGA
Found at i:29746164 original size:47 final size:47
Alignment explanation
Indices: 29746109--29746198 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
29746099 TTAGGATTTT
* *
29746109 AATGTGATGAATGTCAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTCAACATGCATATATCTGATAAGGCCGAATGGCC
* *
29746156 AATGTGATGAATGTGAACATGCATATGTCTGATAAGGCCGAAT
1 AATGTGATGAATGTCAACATGCATATATCTGATAAGGCCGAAT
29746199 ATGTGTGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTCAACATGCATATATCTGATAAGGCCGAATGGCC
Found at i:29746202 original size:19 final size:19
Alignment explanation
Indices: 29746178--29746217 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
29746168 GTGAACATGC
29746178 ATATGTCTGATAAGGCCGA
1 ATATGTCTGATAAGGCCGA
*
29746197 ATATGTGTGATAAGGCCGA
1 ATATGTCTGATAAGGCCGA
29746216 AT
1 AT
29746218 GGCCAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (19 bp):
ATATGTCTGATAAGGCCGA
Found at i:29746237 original size:66 final size:66
Alignment explanation
Indices: 29746131--29746264 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
29746121 GTCAGCATGC
29746131 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTCTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTCTGATAAGGCCG
29746196 A
66 A
* * *
29746197 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTCTGATAAGGCCG
29746262 A
66 A
29746263 AT
1 AT
29746265 GGCCAATGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (66 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTCTGATAAGGCCG
A
Found at i:29746393 original size:47 final size:47
Alignment explanation
Indices: 29746197--29746373 Score: 309
Period size: 47 Copynumber: 3.8 Consensus size: 47
29746187 ATAAGGCCGA
29746197 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
29746244 ATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
29746291 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* **
29746338 ATATATGTGATAAGGTAGAATGGCCAATGTGATGAA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
29746374 CGTGGAAGTG
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 123 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:29746408 original size:94 final size:94
Alignment explanation
Indices: 29746197--29746393 Score: 290
Period size: 94 Copynumber: 2.1 Consensus size: 94
29746187 ATAAGGCCGA
* * *
29746197 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTG
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCTG
* *
29746262 AATGGCCAATGTGATGAATGTGAGCATGC
66 AATGGCCAATGTGATGAACGTGAGAATGC
* *
29746291 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG-TA
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCT-
*
29746355 GAATGGCCAATGTGATGAACGTG-GAAGTGT
65 GAATGGCCAATGTGATGAACGTGAGAA-TGC
29746385 ATATATGTG
1 ATATATGTG
29746394 GCGAAGCTGA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
93 3 0.03
94 93 0.97
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (94 bp):
ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCTG
AATGGCCAATGTGATGAACGTGAGAATGC
Found at i:29746458 original size:46 final size:46
Alignment explanation
Indices: 29746403--29746523 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
29746393 GGCGAAGCTG
* *
29746403 AATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAG-CA
1 AATGGCTAATGCGAAATATGTATGAGATGGATACGAGGTAAAGCCA
* * * *
29746448 GAGTGGCTAATGCAAAACATGTATGAGATGGATACGTGGTAAAGCCA
1 -AATGGCTAATGCGAAATATGTATGAGATGGATACGAGGTAAAGCCA
* *
29746495 AATGGCTAATGTGAGATATGTATGAGATG
1 AATGGCTAATGCGAAATATGTATGAGATG
29746524 TGTATATATA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 61 0.97
47 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (46 bp):
AATGGCTAATGCGAAATATGTATGAGATGGATACGAGGTAAAGCCA
Found at i:29746533 original size:2 final size:2
Alignment explanation
Indices: 29746526--29746552 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29746516 ATGAGATGTG
29746526 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 T
29746553 TGTGGCCAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29747896 original size:20 final size:20
Alignment explanation
Indices: 29747873--29747910 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29747863 ATGTATACGG
*
29747873 TTTATATTGATTCTATATTT
1 TTTATATCGATTCTATATTT
29747893 TTTATATCGATTCTATAT
1 TTTATATCGATTCTATAT
29747911 CGAGTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTATATCGATTCTATATTT
Found at i:29749406 original size:19 final size:19
Alignment explanation
Indices: 29749382--29749419 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29749372 CCTAAACATA
29749382 AACATATTTATCCACAAAT
1 AACATATTTATCCACAAAT
29749401 AACATATTTATCCACAAAT
1 AACATATTTATCCACAAAT
29749420 CAATCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (19 bp):
AACATATTTATCCACAAAT
Found at i:29767215 original size:28 final size:28
Alignment explanation
Indices: 29767183--29767281 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
29767173 GCAATAAGCC
*
29767183 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
29767211 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
29767239 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
29767268 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29767282 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:29778458 original size:28 final size:29
Alignment explanation
Indices: 29778391--29778491 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
29778381 ATAGTGAATC
*
29778391 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
29778420 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
29778448 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
29778478 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29778492 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:29782201 original size:39 final size:40
Alignment explanation
Indices: 29782029--29782205 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
29782019 CCAAGGCCAA
* * * * * *
29782029 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
29782068 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
29782108 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
29782148 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
29782187 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
29782206 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:29792985 original size:40 final size:39
Alignment explanation
Indices: 29792844--29792985 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 39
29792834 CCGCACCAAG
* * * * * * *
29792844 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAGCACAACTAGCAC-AAT
*
29792884 GCCTTCGGGTCTTAGCCCGGATAGCACAAAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATAGCAC--AACTAGCAC-AAT
29792926 GCCTTCGGGTCTTAGCCCGGATGTAGC-C-ACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGA--TAGCACAACTAGCACAA-T
*
29792966 GCCTTCGGGTCTTAACCCGG
1 GCCTTCGGGTCTTAGCCCGG
29792986 TTATAATTTC
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
39 2 0.02
40 50 0.57
42 30 0.34
43 1 0.01
44 4 0.05
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATAGCACAACTAGCACAAT
Found at i:29801000 original size:40 final size:40
Alignment explanation
Indices: 29800930--29801155 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
29800920 CCGCACCAAG
* * *
29800930 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
29800970 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
** * * * *
29801010 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
* * * * *
29801050 GCCTTCGGGTCTTAGCCCGGATGT-AGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCA-CGATTTGCACAAAT
* * *
29801090 GCCTTCGGGTCTTAACCCGGTTAT-A--ATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCA-CA-AA-T
* *
29801130 GTCTTCGGGGCTTAGCCCGGATATCA
1 GCCTTCGGGTCTTAGCCCGGATATCA
29801156 TTCAATTTCT
Statistics
Matches: 154, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 2 0.01
40 145 0.94
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
Found at i:29802000 original size:17 final size:19
Alignment explanation
Indices: 29801977--29802022 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
29801967 AAGAAGCATG
29801977 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
29801995 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
29802013 AATCATGCTC
1 AATCATGCTC
29802023 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Done.