Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 265 of 297
Found at i:90369660 original size:27 final size:26
Alignment explanation
Indices: 90369599--90369661 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
90369589 ACTCCATTTT
90369599 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
90369626 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
90369654 ATTTTATT
1 ATTTTATT
90369662 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:90371536 original size:40 final size:39
Alignment explanation
Indices: 90371482--90371564 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
90371472 CGACTTATCG
* *
90371482 GCTAAAATGGCACTTAGTGTGCAGTTGGAAATAGCTTCA
1 GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCA
* * *
90371521 GCTAAAAGTGGCACTTGGTGTGCAATTCGAGATAGCTTCG
1 GCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTTCA
90371561 GCTA
1 GCTA
90371565 TCTATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (39 bp):
GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCA
Found at i:90371615 original size:28 final size:28
Alignment explanation
Indices: 90371575--90371675 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
90371565 TCTATATATA
90371575 AATGGCACTTAGTGTGCAAAGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
*
90371603 AATGGCACTTAGTGTGAAAAGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * ** *
90371631 AATGGAACTTAGCGTGTGAGGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * *
90371659 TATGGTACATAGTGTGC
1 AATGGCACTTAGTGTGC
90371676 TAGACATCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGGCACTTAGTGTGCAAAGTATCGAG
Found at i:90373786 original size:27 final size:26
Alignment explanation
Indices: 90373736--90373786 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
90373726 AGACACACCT
* *
90373736 TAGCTCTTATAAGCTTCTCGATTATA
1 TAGCTCTTATAAGCTTCCCAATTATA
*
90373762 TAGCTCTTCGTAAGCTTCCCAATTA
1 TAGCTCTT-ATAAGCTTCCCAATTA
90373787 AAGGCTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (26 bp):
TAGCTCTTATAAGCTTCCCAATTATA
Found at i:90377521 original size:26 final size:27
Alignment explanation
Indices: 90377492--90377544 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
90377482 AAAAAACATA
90377492 TAAAAGAG-CTTAAAATAAATAATAAG
1 TAAAAGAGACTTAAAATAAATAATAAG
*
90377518 TAAAAGAGAAATTTAAAATAAATAATA
1 TAAAAGAG--ACTTAAAATAAATAATA
90377545 TACAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
29 15 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (27 bp):
TAAAAGAGACTTAAAATAAATAATAAG
Found at i:90377831 original size:26 final size:25
Alignment explanation
Indices: 90377802--90377865 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
90377792 TTCAAAATAT
* *
90377802 ATAATATGTATAAGAGTTTAAAATCA
1 ATAATATATATAA-AATTTAAAATCA
** *
90377828 ATAACGTATATAAAATTTAAAATGA
1 ATAATATATATAAAATTTAAAATCA
90377853 ATAATA-AT-TAAAA
1 ATAATATATATAAAA
90377866 ATATGTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 5 0.16
24 2 0.06
25 14 0.45
26 10 0.32
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (25 bp):
ATAATATATATAAAATTTAAAATCA
Found at i:90384706 original size:15 final size:15
Alignment explanation
Indices: 90384662--90384708 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
90384652 CATGATAATG
90384662 TAAGTGACTAAAACA
1 TAAGTGACTAAAACA
* *
90384677 TAA-T-ATTCCAAACA
1 TAAGTGACT-AAAACA
90384691 TAAGTGACTAAAACA
1 TAAGTGACTAAAACA
90384706 TAA
1 TAA
90384709 TACGAGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.23
Consensus pattern (15 bp):
TAAGTGACTAAAACA
Found at i:90384727 original size:31 final size:29
Alignment explanation
Indices: 90384663--90384731 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
90384653 ATGATAATGT
*** *
90384663 AAGTGACTAAAACATAATATTCCAAACAT
1 AAGTGACTAAAACATAATAAGACAAACAA
90384692 AAGTGACTAAAACATAATACGAGACAAACAA
1 AAGTGACTAAAACATAATA--AGACAAACAA
90384723 AAGTGACTA
1 AAGTGACTA
90384732 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.19
Consensus pattern (29 bp):
AAGTGACTAAAACATAATAAGACAAACAA
Found at i:90393521 original size:27 final size:27
Alignment explanation
Indices: 90393490--90393667 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90393480 TGAATTGTAC
90393490 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90393517 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90393543 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90393571 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90393599 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90393626 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90393653 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90393668 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90393604 original size:82 final size:81
Alignment explanation
Indices: 90393491--90393646 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90393481 GAATTGTACA
* *
90393491 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90393555 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90393572 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90393637 TGCGAGTTGA
65 TGCGAATTGA
90393647 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90393658 original size:82 final size:81
Alignment explanation
Indices: 90393487--90393667 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90393477 GATTGAATTG
* *
90393487 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90393552 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90393568 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90393632 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90393650 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90393668 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90408332 original size:54 final size:54
Alignment explanation
Indices: 90408250--90408360 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
90408240 TTCACCTTAG
* * * *
90408250 CTAGTAAGAATTTGATTTCAAGTTACATACCTCCAAGGTATAATGCTTTAAGGA
1 CTAGTAAGAATTCGATTCCAAGTTACATACCTCCAAGGTATAACGCTTTAAAGA
* *
90408304 CTAGTAAGAATTCGATTCCGAGTTACATACCTCCGAGGTATAACGCTTTAAAGA
1 CTAGTAAGAATTCGATTCCAAGTTACATACCTCCAAGGTATAACGCTTTAAAGA
90408358 CTA
1 CTA
90408361 TATTGTAGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (54 bp):
CTAGTAAGAATTCGATTCCAAGTTACATACCTCCAAGGTATAACGCTTTAAAGA
Found at i:90423332 original size:27 final size:27
Alignment explanation
Indices: 90423302--90423356 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
90423292 TTTCAGCTTG
90423302 ATATAAAACATTTTGTGGCGAATGAAT
1 ATATAAAACATTTTGTGGCGAATGAAT
90423329 ATATAAAACATTTTGTGGCGAATGAAT
1 ATATAAAACATTTTGTGGCGAATGAAT
90423356 A
1 A
90423357 AAATTATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (27 bp):
ATATAAAACATTTTGTGGCGAATGAAT
Found at i:90428806 original size:13 final size:13
Alignment explanation
Indices: 90428783--90428816 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90428773 AAACATATTA
90428783 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
90428797 TAAAATTTTGTGT
1 TAAAATTTTGTGT
90428810 TAGAAAT
1 TA-AAAT
90428817 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:90430167 original size:39 final size:40
Alignment explanation
Indices: 90430042--90430167 Score: 182
Period size: 40 Copynumber: 3.2 Consensus size: 40
90430032 GGACTAAGAT
* *
90430042 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTC
1 CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
*
90430082 CCGAAGGCATTTGCGCGAGTTATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
* * * *
90430122 CCGAAGGCATTTGGGCAAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
90430161 CCGAAGG
1 CCGAAGG
90430168 TACTTGGGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 15 0.19
40 63 0.81
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
Found at i:90438715 original size:21 final size:22
Alignment explanation
Indices: 90438686--90438732 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
90438676 CAGAAGGAGT
*
90438686 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
90438708 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
90438729 GAGT
1 GAGT
90438733 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:90446456 original size:40 final size:40
Alignment explanation
Indices: 90446377--90446553 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
90446367 CGGATGATAA
* * * * *
90446377 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
90446417 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
90446457 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
*
90446497 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
90446537 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
90446554 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 99 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:90446515 original size:80 final size:80
Alignment explanation
Indices: 90446377--90446553 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
90446367 CGGATGATAA
* * * *
90446377 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
90446442 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * *
90446457 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
90446522 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
90446537 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
90446554 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 71 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:90451402 original size:46 final size:46
Alignment explanation
Indices: 90451334--90451470 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
90451324 TATATATACA
* * * * *
90451334 CATCTCAAACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
90451380 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
90451426 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
90451471 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:90451515 original size:47 final size:47
Alignment explanation
Indices: 90451444--90451627 Score: 154
Period size: 47 Copynumber: 4.1 Consensus size: 47
90451434 ACACATTTCG
* * *
90451444 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACA-TGTCCACATTCATCA
* * * *
90451491 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCAT--
1 CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
* * *
90451536 CA-----CATT-GG-CTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
* * * * *
90451576 CATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
90451623 CATTG
1 CATTG
90451628 AAATCCTAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 20
0.80 0.07 0.14
Matches are distributed among these distances:
38 30 0.26
39 1 0.01
40 6 0.05
45 6 0.05
46 2 0.02
47 72 0.62
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
Found at i:90451548 original size:38 final size:40
Alignment explanation
Indices: 90451504--90451627 Score: 162
Period size: 38 Copynumber: 3.0 Consensus size: 40
90451494 TGGCCATTCT
90451504 GCCTTATCACATATATGCATGTTCACATTCATCACATTG-
1 GCCTTATCACATATATGCATGTTCACATTCATCACATTGC
90451543 G-CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GCCTTATCACATATATGCATGTTCACATTCATCACATT-G-----C
*
90451588 AGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 -GCCTTATCACATATATGCATGTTCACATTCATCACATTG
90451628 AAATCCTAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
38 36 0.48
39 2 0.03
46 2 0.03
47 35 0.47
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (40 bp):
GCCTTATCACATATATGCATGTTCACATTCATCACATTGC
Found at i:90451622 original size:25 final size:25
Alignment explanation
Indices: 90451547--90451624 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
90451537 ACATTGGCTT
*
90451547 ATCACATATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
90451572 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
90451594 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
90451619 ATCACA
1 ATCACA
90451625 TTGAAATCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 7 0.17
23 10 0.24
24 11 0.27
25 13 0.32
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:90454929 original size:28 final size:28
Alignment explanation
Indices: 90454898--90455054 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
90454888 CTGACTGATT
*
90454898 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
90454926 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
90454955 TCGGACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
90454983 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * **
90455012 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
90455040 TTGCACACACAGTGC
1 TCGCACACATAGTGC
90455055 CTCATAATTC
Statistics
Matches: 99, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.55
29 43 0.43
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:90454962 original size:29 final size:29
Alignment explanation
Indices: 90454925--90455026 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
90454915 GATTAAAGAA
90454925 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * **
90454954 CTCGGACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
90454982 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
90455011 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
90455027 TCGGTTGGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:90454972 original size:57 final size:57
Alignment explanation
Indices: 90454900--90455058 Score: 221
Period size: 57 Copynumber: 2.8 Consensus size: 57
90454890 GACTGATTTC
* * *
90454900 GCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTCG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCT-G
**
90454958 G-ACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
* * * *
90455014 GCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
90455059 TAATTCCAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 2 0.02
57 88 0.97
58 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
Found at i:90455130 original size:40 final size:40
Alignment explanation
Indices: 90455086--90455220 Score: 225
Period size: 40 Copynumber: 3.4 Consensus size: 40
90455076 CCTTCGAGGT
*
90455086 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
90455126 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
** *
90455166 TTAGCCTAGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
90455206 TTAGCTCGGATATAT
1 TTAGCCCGGATATAT
90455221 ATAACTCTCA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:90455392 original size:29 final size:29
Alignment explanation
Indices: 90455348--90455405 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
90455338 CCACATACAA
90455348 AGATCACATTTATAGTCATAACACTCTTT
1 AGATCACATTTATAGTCATAACACTCTTT
*
90455377 AGATCACATTTTTAGTCATAACACTCTTT
1 AGATCACATTTATAGTCATAACACTCTTT
90455406 CAAAATTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (29 bp):
AGATCACATTTATAGTCATAACACTCTTT
Found at i:90456785 original size:46 final size:46
Alignment explanation
Indices: 90456750--90457006 Score: 370
Period size: 46 Copynumber: 5.6 Consensus size: 46
90456740 ACATATCTCA
* *
90456750 CATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGGGTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
* * **
90456796 CATTAGCCATTCGCCTTTACCTCATATCCCTCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
* *
90456842 CATGAGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
* * **
90456888 CATTAGCCATTCGCCTTTACCTCATATCCCTCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
* *
90456934 CATGAGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
* *
90456980 CATTAGCCATTCGACTTTACCACATAT
1 CATTAGCCATTCGGCTTTACCTCATAT
90457007 ATACGCTTCC
Statistics
Matches: 183, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 183 1.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGGGTCG
Found at i:90456891 original size:92 final size:92
Alignment explanation
Indices: 90456754--90457006 Score: 461
Period size: 92 Copynumber: 2.8 Consensus size: 92
90456744 ATCTCACATT
* * *
90456754 AGCCATTTGGCTTTACCACATATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
1 AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
90456819 ATATCCCTCTCATACACGTTTCGCATG
66 ATATCCCTCTCATACACGTTTCGCATG
90456846 AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
1 AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
90456911 ATATCCCTCTCATACACGTTTCGCATG
66 ATATCCCTCTCATACACGTTTCGCATG
* *
90456938 AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGACTTTACCAC
1 AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
90457003 ATAT
66 ATAT
90457007 ATACGCTTCC
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 156 1.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.31
Consensus pattern (92 bp):
AGCCATTCGGCTTTACCTCCTATCCATCTCATACACGGGTCGCATTAGCCATTCGCCTTTACCTC
ATATCCCTCTCATACACGTTTCGCATG
Found at i:90457058 original size:38 final size:38
Alignment explanation
Indices: 90457016--90457118 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 38
90457006 TATACGCTTC
*
90457016 CACATTCATCACATTGGCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCTTATCACACATATGCATGTT
90457054 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCAT--CA-----CATT-GG-CTTATCACACATATGCATGTT
90457101 CACATTCATCACATTGGC
1 CACATTCATCACATTGGC
90457119 CATTCGGCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
38 10 0.18
39 2 0.04
40 6 0.11
45 6 0.11
46 2 0.04
47 29 0.53
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (38 bp):
CACATTCATCACATTGGCTTATCACACATATGCATGTT
Found at i:90457086 original size:47 final size:47
Alignment explanation
Indices: 90457033--90457163 Score: 235
Period size: 47 Copynumber: 2.8 Consensus size: 47
90457023 ATCACATTGG
*
90457033 CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
90457080 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
* *
90457127 CTTCTCACACATATTCATGTTCACATTCATCACATTG
1 CTTATCACACATATGCATGTTCACATTCATCACATTG
90457164 AAATCCTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:90459793 original size:19 final size:19
Alignment explanation
Indices: 90459769--90459810 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
90459759 TGTCACAAAG
*
90459769 TTTATTTCCATTT-AAAATA
1 TTTATTTCC-TTTGAAAACA
90459788 TTTATTTCCTTTGAAAACA
1 TTTATTTCCTTTGAAAACA
90459807 TTTA
1 TTTA
90459811 CGTTGCGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTATTTCCTTTGAAAACA
Found at i:90460280 original size:60 final size:60
Alignment explanation
Indices: 90460202--90460338 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
90460192 CAAAGTTAAC
* *
90460202 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
90460263 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTCGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
90460323 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
90460339 TGACACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
60 52 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:90464812 original size:47 final size:47
Alignment explanation
Indices: 90464789--90465002 Score: 347
Period size: 47 Copynumber: 4.6 Consensus size: 47
90464779 ATATATGAGC
* * *
90464789 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
90464836 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
90464883 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
90464930 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
90464977 TAAGGCTGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
90465003 CGTGGAAGTG
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:90468784 original size:19 final size:19
Alignment explanation
Indices: 90468749--90468786 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90468739 TTGTATTGAA
*
90468749 TGTTGTCGAAATTAATGAT
1 TGTTGTCGAAATGAATGAT
90468768 TGTTGCTCG-AATGAATGAT
1 TGTTG-TCGAAATGAATGAT
90468787 GACCCATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (19 bp):
TGTTGTCGAAATGAATGAT
Found at i:90470292 original size:20 final size:22
Alignment explanation
Indices: 90470267--90470309 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90470257 TTAATTGAAT
90470267 TATTAA-ATAT-AATTAAAATA
1 TATTAACATATCAATTAAAATA
*
90470287 TATTAACTTATCAATTAAAATA
1 TATTAACATATCAATTAAAATA
90470309 T
1 T
90470310 TATAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTAACATATCAATTAAAATA
Found at i:90472180 original size:61 final size:61
Alignment explanation
Indices: 90472085--90472256 Score: 326
Period size: 61 Copynumber: 2.8 Consensus size: 61
90472075 TGTAAATATC
* *
90472085 CTCTTCAAGTTATCTATGCAAAAATGCAGTTTTTACATCTAACTGCTCAAGCTCCAGATCA
1 CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAAGCTCCAGATCA
90472146 CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAAGCTCCAGATCA
1 CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAAGCTCCAGATCA
90472207 CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAA
1 CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAA
90472257 ACCCCAAATC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 109 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (61 bp):
CTCTTCAAGTTCTCCATGCAAAAATGCAGTTTTTACATCTAACTGCTCAAGCTCCAGATCA
Found at i:90475768 original size:29 final size:31
Alignment explanation
Indices: 90475734--90475804 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
90475724 AGCGTGTTTC
90475734 TATTTTGGTCACCCAAGTT-TAAAATTTT-A
1 TATTTTGGTCACCCAAGTTATAAAATTTTAA
* * * *
90475763 TATTTTAGTCA-CTACGTTATCAAATTTTAA
1 TATTTTGGTCACCCAAGTTATAAAATTTTAA
90475793 TATTTTGGTCAC
1 TATTTTGGTCAC
90475805 ACCATTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.15
29 18 0.53
30 11 0.32
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (31 bp):
TATTTTGGTCACCCAAGTTATAAAATTTTAA
Found at i:90478101 original size:30 final size:30
Alignment explanation
Indices: 90478067--90478127 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
90478057 TTTCCGAGCC
90478067 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
90478097 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
90478127 T
1 T
90478128 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:90478943 original size:64 final size:64
Alignment explanation
Indices: 90478862--90479032 Score: 184
Period size: 67 Copynumber: 2.6 Consensus size: 64
90478852 AGACATTATG
* * *
90478862 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGCAGACAAGAGAGCTACGAGATAA
* * * * * *
90478926 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGCAGACAAGAGAGCTACGAGAT
90478991 AA
63 AA
* * *
90478993 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATG
90479033 TGTATAAGAG
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 8 0.09
64 25 0.29
66 21 0.24
67 32 0.37
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGCAGACAAGAGAGCTACGAGATAA
Found at i:90481878 original size:11 final size:11
Alignment explanation
Indices: 90481862--90481886 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90481852 TCCCTTGAAG
90481862 ATAGAAATTGA
1 ATAGAAATTGA
90481873 ATAGAAATTGA
1 ATAGAAATTGA
90481884 ATA
1 ATA
90481887 CATTTCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (11 bp):
ATAGAAATTGA
Found at i:90484003 original size:6 final size:6
Alignment explanation
Indices: 90483980--90484100 Score: 77
Period size: 6 Copynumber: 19.7 Consensus size: 6
90483970 TATCAAAACT
* * *
90483980 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * * *
90484029 AGAATC AGAATC AAAATT AG-GTGAC TGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
90484078 AGGTAA-C AGAATC AAAATC AGAA
1 A-G-AATC AGAATC AGAATC AGAA
90484101 GGTGAATGCA
Statistics
Matches: 86, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
5 4 0.05
6 72 0.84
7 7 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:90484021 original size:37 final size:37
Alignment explanation
Indices: 90483980--90484100 Score: 137
Period size: 37 Copynumber: 3.4 Consensus size: 37
90483970 TATCAAAACT
*
90483980 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
90484017 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
90484054 TGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
90484085 AGAATCAAAATCAGAA
1 AGAATCAAAATCAGAA
90484101 GGTGAATGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
36 1 0.01
37 41 0.60
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:90484030 original size:31 final size:31
Alignment explanation
Indices: 90483992--90484100 Score: 119
Period size: 31 Copynumber: 3.3 Consensus size: 31
90483982 AATCAAAATG
90483992 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
90484023 AGAATCAGAATCAGAATCAAAATTAGGTGACTGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* *
90484060 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
90484091 AAAATCAGAA
1 AGAATCAGAA
90484101 GGTGAATGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
31 37 0.57
37 28 0.43
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:90484292 original size:33 final size:32
Alignment explanation
Indices: 90484241--90484304 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
90484231 ATGAAGTCAC
* *
90484241 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCAAAGCCACCAGAA
* *
90484273 CAGATATATATATATGTGGCAAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCAAAGCCACCAGA
90484305 TTGCAGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCAAAGCCACCAGAA
Found at i:90484637 original size:27 final size:27
Alignment explanation
Indices: 90484607--90484935 Score: 462
Period size: 27 Copynumber: 12.2 Consensus size: 27
90484597 CACACCCTAG
** * * *
90484607 GGGTAAAATGGTAATTTTATAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
90484634 GGGTAAAACGGTAATTCTGTAAGTCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
90484661 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
** *
90484688 GGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
90484715 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
90484742 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
90484769 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
90484796 GGGTAAAACAGTATTTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
90484823 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
90484850 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
90484877 GGGTAAAACAGTAATTCTGTAAATAGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
90484904 GGGTAAAAC-GATAATTCTATAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
90484931 GGGTA
1 GGGTA
90484936 CTTTGGTAAT
Statistics
Matches: 277, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 1 0.00
27 276 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:90484973 original size:54 final size:52
Alignment explanation
Indices: 90484915--90485061 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 52
90484905 GGTAAAACGA
* * *
90484915 TAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGT-AGAGGGTATTTCAG
1 TAATTTTATAAA-CGAGGGTA-TTTGGTAATTTTACAAATCA-AGGATATTTCAG
** **
90484969 TAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCAAGGATATTTGGG
1 TAATTTTATAAAC-GAGGGTATTT-GGTAATTTTACAAATCAAGGATATTTCAG
* *
90485023 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA
1 TAATTTTATAAA-CGAGGGTA-TTTGGTAATTTTACAAA
90485062 CCAAAGGTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
53 4 0.05
54 68 0.88
55 5 0.06
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (52 bp):
TAATTTTATAAACGAGGGTATTTGGTAATTTTACAAATCAAGGATATTTCAG
Found at i:90485062 original size:27 final size:27
Alignment explanation
Indices: 90484930--90485082 Score: 146
Period size: 27 Copynumber: 5.7 Consensus size: 27
90484920 CTATAAATCG
* **
90484930 AGGGTACTTTGGTAATTTTAC-AAGTA
1 AGGGTATTTTGGTAATTTTACAAACCA
** * **
90484956 GAGGGTATTTCAGTAATTTTGCAAACTG
1 -AGGGTATTTTGGTAATTTTACAAACCA
* *
90484984 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
90485011 AGGATATTTGGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
90485038 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
90485065 AAGGTATTTTGGCAATTT
1 AGGGTATTTTGGTAATTT
90485083 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 100 0.97
28 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:90485089 original size:27 final size:27
Alignment explanation
Indices: 90485024--90485098 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
90485014 ATATTTGGGT
* * *
90485024 AATTTTATAAACCAAGGGTATTTTAGT
1 AATTTGATAAACCAAAGGTATTTTAGC
* * *
90485051 AATTTTACAAACCAAAGGTATTTTGGC
1 AATTTGATAAACCAAAGGTATTTTAGC
* *
90485078 AATTTGGTAAACTAAA-GTATT
1 AATTTGATAAACCAAAGGTATT
90485099 CTAAACAGGG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (27 bp):
AATTTGATAAACCAAAGGTATTTTAGC
Found at i:90486945 original size:35 final size:35
Alignment explanation
Indices: 90486899--90486970 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
90486889 GTGTTACCCT
*
90486899 AAACCTAGGCACAGTTTGTCCCAATTCGCTTGTAA
1 AAACCTAGGCACAGTTTGCCCCAATTCGCTTGTAA
90486934 AAACCTAGGCACAGTTTGCCCCAATTCGCTTGTAA
1 AAACCTAGGCACAGTTTGCCCCAATTCGCTTGTAA
90486969 AA
1 AA
90486971 GAACACATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (35 bp):
AAACCTAGGCACAGTTTGCCCCAATTCGCTTGTAA
Found at i:90492508 original size:23 final size:23
Alignment explanation
Indices: 90492478--90492524 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
90492468 GTGTCGTTGG
90492478 CAAAGAACTTTTACTAAAGCTAC
1 CAAAGAACTTTTACTAAAGCTAC
90492501 CAAAGAACTTTTACTAAAGCTAC
1 CAAAGAACTTTTACTAAAGCTAC
90492524 C
1 C
90492525 TTTTTATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (23 bp):
CAAAGAACTTTTACTAAAGCTAC
Found at i:90495197 original size:43 final size:44
Alignment explanation
Indices: 90495141--90495480 Score: 355
Period size: 43 Copynumber: 8.0 Consensus size: 44
90495131 ATATCGTACA
*
90495141 ATGCCAAC-GTCCCAGACGTAGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
* ** *
90495184 ATGCC-ACTATCCCAGA-AAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCAACTGTCCCAGACGTA-GTCTTACACGTAATCACATATCG
* * * *
90495225 ATACCGA-TGTCCCAGACATAGTCTTACACGTAATCACATATTG
1 ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
* *
90495268 ATGCCAAC-GTCCCAGATGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
* * *
90495311 ATGCC-ACTGTCCCAGAC-AAGGTCTTACGCGTAATCACATATCA
1 ATGCCAACTGTCCCAGACGTA-GTCTTACACGTAATCACATATCG
* * * *
90495354 ATGCCAA-TGTCTCAAACGTGGTCTTACACGTAATCACACATCG
1 ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
* * * *
90495397 ATGCCAAC-GTCCTAAACGTGGTCTTACACGTAATCACATATCA
1 ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
*
90495440 ATGCCAAC-GTCTCAGACGT-GATCTTACACGTAATCACATAT
1 ATGCCAACTGTCCCAGACGTAG-TCTTACACGTAATCACATAT
90495481 TGGAATCACA
Statistics
Matches: 249, Mismatches: 35, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
41 24 0.10
42 25 0.10
43 199 0.80
44 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACGTAGTCTTACACGTAATCACATATCG
Found at i:90495422 original size:129 final size:129
Alignment explanation
Indices: 90495141--90495480 Score: 443
Period size: 129 Copynumber: 2.7 Consensus size: 129
90495131 ATATCGTACA
* * * *
90495141 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCACATATCGATGCCACTATCCCAGAAAAGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAAGGT
* * * * * *
90495206 CTTACACG-AATCAAATA-CGATACCGATGTCCCAGACATAGTCTTACACGTAATCACATATTG
66 CTTACACGTAATCACATATCAATACCAATGTCCCAAACATAGTCTTACACGTAATCACACATCG
*
90495268 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAAGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAAGGT
* * * * *
90495333 CTTACGCGTAATCACATATCAATGCCAATGTCTCAAACGTGGTCTTACACGTAATCACACATCG
66 CTTACACGTAATCACATATCAATACCAATGTCCCAAACATAGTCTTACACGTAATCACACATCG
* * * * ** *
90495397 ATGCCAACGTCCTAAACGTGGTCTTACACGTAATCACATATCAATGCCAAC-GTCTCAGACGTGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC-ACTGTCCCAGACAAGG
90495461 TCTTACACGTAATCACATAT
65 TCTTACACGTAATCACATAT
90495481 TGGAATCACA
Statistics
Matches: 185, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 67 0.36
128 8 0.04
129 108 0.58
130 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (129 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAAGGT
CTTACACGTAATCACATATCAATACCAATGTCCCAAACATAGTCTTACACGTAATCACACATCG
Found at i:90500653 original size:27 final size:27
Alignment explanation
Indices: 90500615--90500670 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
90500605 ATAATTTAGG
90500615 ATACAATGTGACATGTCACTACGAACT
1 ATACAATGTGACATGTCACTACGAACT
*
90500642 ATACAATGTGACATGTCACTAGGAACT
1 ATACAATGTGACATGTCACTACGAACT
90500669 AT
1 AT
90500671 GTAATTATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
ATACAATGTGACATGTCACTACGAACT
Found at i:90506626 original size:20 final size:20
Alignment explanation
Indices: 90506601--90506641 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
90506591 AATTTGAAGT
90506601 TAGGGACTAAATTGAATAAG
1 TAGGGACTAAATTGAATAAG
90506621 TAGGGACTAAATTGAATAAG
1 TAGGGACTAAATTGAATAAG
90506641 T
1 T
90506642 TGCAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (20 bp):
TAGGGACTAAATTGAATAAG
Found at i:90512630 original size:68 final size:66
Alignment explanation
Indices: 90512553--90512700 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 66
90512543 TCATGTGTAT
* * * *
90512553 AAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATG
1 AAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
90512616 TAGAC
62 TAGAC
** * *
90512621 AAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAG
1 AAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGTAG
90512686 AC
65 AC
90512688 AAGAGAGCTACGA
1 AAGAGAGCTACGA
90512701 GATAAAATGG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 26 0.38
68 11 0.16
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.22
Consensus pattern (66 bp):
AAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTAGA
C
Found at i:90512654 original size:64 final size:65
Alignment explanation
Indices: 90512575--90512758 Score: 198
Period size: 67 Copynumber: 2.8 Consensus size: 65
90512565 AGACATTATG
* * *
90512575 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGAT-AT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAA
* * * * *
90512639 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
90512704 AAA
63 AAA
* *
90512707 ATG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
90512759 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 20 0.20
67 30 0.30
68 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAA
Found at i:90517476 original size:37 final size:37
Alignment explanation
Indices: 90517431--90517515 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
90517421 TTTGAGCACG
*
90517431 TGTAAGACCATAGCTAGGCTATGACATCGTAATGACA
1 TGTAAGACCATAGCTAGGCTATGACATCGTAATCACA
* * * * * *
90517468 TGTAAGACCATAGTTGGGCTATGGCATTGTGATCCCA
1 TGTAAGACCATAGCTAGGCTATGACATCGTAATCACA
90517505 TGTAAGACCAT
1 TGTAAGACCAT
90517516 GTCTGGGGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCTATGACATCGTAATCACA
Found at i:90517583 original size:48 final size:48
Alignment explanation
Indices: 90517497--90517596 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
90517487 TATGGCATTG
** * *
90517497 TGATCCCATGTAAGACCATGTCTGGGGGATGGCATTGGCATCGATATC
1 TGATCCCATGTAAGACCATAACTAGGAGATGGCATTGGCATCGATATC
* ** * *
90517545 TGATCCCATGTAAGACCATAACTAGGATATGGTGTTGGCATTGATATG
1 TGATCCCATGTAAGACCATAACTAGGAGATGGCATTGGCATCGATATC
90517593 TGAT
1 TGAT
90517597 TTTGTGTAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATAACTAGGAGATGGCATTGGCATCGATATC
Found at i:90519704 original size:42 final size:40
Alignment explanation
Indices: 90519657--90519773 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 40
90519647 CTGAGATTCC
* *
90519657 GTATAAGACCATATCTGGGATATGGCATCGATGTGGGATTTT
1 GTATAAGACCATATCAGGGATATGGCATCGATAT--GATTTT
* * * *
90519699 GTATAAGACCATGTCACGGACATGGCGTCGATATGATTTT
1 GTATAAGACCATATCAGGGATATGGCATCGATATGATTTT
* *
90519739 -TCAAGTAAGACCATATCCGGGATATGGCATTGATA
1 GT--A-TAAGACCATATCAGGGATATGGCATCGATA
90519774 CTGTACTAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
39 1 0.02
40 6 0.10
41 1 0.02
42 52 0.87
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (40 bp):
GTATAAGACCATATCAGGGATATGGCATCGATATGATTTT
Found at i:90531217 original size:42 final size:41
Alignment explanation
Indices: 90531114--90531251 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 41
90531104 TGTGTTATCG
*
90531114 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTAT
1 TGTAAGACC-CGTCTGGGACGTTGGCATCGTA-TT-TGATTTCT
* *
90531157 GTGTAAGACAACGTCTGGGATGTTGGCATCGTATTTGATTTCT
1 -TGTAAGAC-CCGTCTGGGACGTTGGCATCGTATTTGATTTCT
** * *
90531200 TGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCC-GTCTGGGACGTTGGCATCG-TATTTGATTTCT
90531243 TGTAAGACC
1 TGTAAGACC
90531252 ACGTTTGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.30
43 26 0.32
44 29 0.36
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TGTAAGACCCGTCTGGGACGTTGGCATCGTATTTGATTTCT
Found at i:90531607 original size:26 final size:26
Alignment explanation
Indices: 90531574--90531625 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
90531564 TAAGTTGATA
90531574 AGTTTATTTGTATATGACTTACTAAG
1 AGTTTATTTGTATATGACTTACTAAG
90531600 AGTTTATTTGTATATGACTTACTAAG
1 AGTTTATTTGTATATGACTTACTAAG
90531626 CTTTTGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (26 bp):
AGTTTATTTGTATATGACTTACTAAG
Found at i:90531877 original size:23 final size:23
Alignment explanation
Indices: 90531825--90531877 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
90531815 TTTAGCCATG
*
90531825 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
90531848 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
90531871 TGATATG
1 TGATATG
90531878 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:90534873 original size:22 final size:22
Alignment explanation
Indices: 90534848--90534891 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
90534838 ACGATTTTCC
90534848 TAGTTCGCTTTGCGATACTATA
1 TAGTTCGCTTTGCGATACTATA
*
90534870 TAGTTTGCTTTGCGATACTATA
1 TAGTTCGCTTTGCGATACTATA
90534892 AAAAAGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (22 bp):
TAGTTCGCTTTGCGATACTATA
Found at i:90535157 original size:53 final size:54
Alignment explanation
Indices: 90535074--90535297 Score: 197
Period size: 53 Copynumber: 4.2 Consensus size: 54
90535064 AGGATACACA
** * *
90535074 GGTA-CCTTTCCTT-TTTAACTTACTATTGCCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTTCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* *
90535126 GGTATCCTTTCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACAT
1 GGTATCCTTTCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* ** * * * * *
90535179 GGGAT-CTTTGCCTTATAGTAGTTTATCAATGTCATGTCTTGACATGCTCTTACAT
1 GGTATCCTTT-CCTTATAG-AACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* * * * * * *
90535234 GATTTCCTTGCCTTGTAGAACTTACCAATT-CCATGCCTTGCCATGGTATTACTT
1 GGTATCCTTTCCTTATAGAACTTACC-ATTGCCATGCCTTGACATGGTCTTACAT
90535288 GGTATCCTTT
1 GGTATCCTTT
90535298 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 33, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
52 8 0.06
53 51 0.39
54 32 0.24
55 38 0.29
56 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.41
Consensus pattern (54 bp):
GGTATCCTTTCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
Found at i:90542390 original size:137 final size:137
Alignment explanation
Indices: 90542144--90542418 Score: 487
Period size: 137 Copynumber: 2.0 Consensus size: 137
90542134 AAGGGCATTG
* *
90542144 TGGTCATTTAGGGGTAAAATGAATTTAAATACAAAATTAAAAGCCTATTTTGCTCATCTTCAACC
1 TGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACC
* *
90542209 CCATGGCCGAATATAGCAAGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTGTA
66 CCATAGCCAAATATAGCAAGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTGTA
90542274 AGTCCGT
131 AGTCCGT
* *
90542281 TGGTCATTTAGGGGTAACATGAATTAAAATACAAAATTAAAAGTCAATTTTGCTCATCTTCAACC
1 TGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACC
*
90542346 CCATAGCCAAATATAGCATGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTGTA
66 CCATAGCCAAATATAGCAAGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTGTA
90542411 AGTCCGT
131 AGTCCGT
90542418 T
1 T
90542419 CTAGCCTCGT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (137 bp):
TGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACC
CCATAGCCAAATATAGCAAGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTGTA
AGTCCGT
Found at i:90554131 original size:55 final size:54
Alignment explanation
Indices: 90553973--90554166 Score: 160
Period size: 53 Copynumber: 3.6 Consensus size: 54
90553963 TTCCTTTCAG
* * * * *
90553973 CTTACCATTGTCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTTACATGGTCTTACATGAG-ATCCTTGCCTTATAGAA
* * * ** * * * *
90554026 CTCACCATTGCCAAGCCTTGGCATGGTCTTACATGGGATCTTTGCTTTATAGTAG
1 CTTACCAATGCCATGCCTTTACATGGTCTTACATGAGATCCTTGCCTTATAG-AA
* * * **
90554081 TTTATCAATGCCATG-TTTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAA
1 CTTACCAATGCCATGCCTTT-ACATGGTCTTACATGAGATCCTTGCCTTATAGAA
*
90554135 CTTACCAATGCCATGCCTTTCCATGGTCTTAC
1 CTTACCAATGCCATGCCTTTACATGGTCTTAC
90554167 TTGGTATCCT
Statistics
Matches: 109, Mismatches: 27, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 40 0.37
54 29 0.27
55 40 0.37
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTTACATGGTCTTACATGAGATCCTTGCCTTATAGAA
Found at i:90556698 original size:43 final size:43
Alignment explanation
Indices: 90556628--90556740 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
90556618 CACGGGCAGA
* * ** * *
90556628 GACACGGCCGTGTGTCTTTTCCATGTGTAGGACACGGCCCCGG
1 GACACGGGCGTGTGACTTGGCCGTGTGTAGGACACGGCCCCAG
* *
90556671 GACATGGGTGTGTGACTTGGCCGTGTGTAGGACACGGCCCCAG
1 GACACGGGCGTGTGACTTGGCCGTGTGTAGGACACGGCCCCAG
90556714 GACACGGGCGTGTGACTTGGCCGTGTG
1 GACACGGGCGTGTGACTTGGCCGTGTG
90556741 ACCCCAAATT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (43 bp):
GACACGGGCGTGTGACTTGGCCGTGTGTAGGACACGGCCCCAG
Found at i:90559635 original size:16 final size:17
Alignment explanation
Indices: 90559614--90559647 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
90559604 TTACCATGCA
90559614 TATAACAT-TTAAATGT
1 TATAACATATTAAATGT
90559630 TATAACATAATTAAATGT
1 TATAACAT-ATTAAATGT
90559648 AAATTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAACATATTAAATGT
Found at i:90562143 original size:22 final size:22
Alignment explanation
Indices: 90562113--90562166 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
90562103 AGAGCTCACG
*
90562113 CGCCCGTGTGGTCCGAAGGACA
1 CGCCCGTGTGGTCCAAAGGACA
*
90562135 CTCCCGTGTGGTCCAAAGGACA
1 CGCCCGTGTGGTCCAAAGGACA
*
90562157 CGCCTGTGTG
1 CGCCCGTGTG
90562167 ACCCTTCGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (22 bp):
CGCCCGTGTGGTCCAAAGGACA
Found at i:90563808 original size:47 final size:48
Alignment explanation
Indices: 90563722--90563815 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
90563712 ATGAATCCAC
* * * *
90563722 ATATCATCGCCGATGGCATGTCCCAGACATGGTCTTACACTGGCACAA
1 ATATCATCCCCGACGCCATGTCCCAGACATGGTCTTACACAGGCACAA
*
90563770 ATATCATCCCCGACGCCAT-TCCTAGACATGGTCTTACACAGGCACA
1 ATATCATCCCCGACGCCATGTCCCAGACATGGTCTTACACAGGCACA
90563816 CTGTAGCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 25 0.61
48 16 0.39
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (48 bp):
ATATCATCCCCGACGCCATGTCCCAGACATGGTCTTACACAGGCACAA
Found at i:90568854 original size:40 final size:40
Alignment explanation
Indices: 90568810--90569037 Score: 336
Period size: 40 Copynumber: 5.7 Consensus size: 40
90568800 GCTACTTGCT
90568810 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
90568850 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
90568890 CAAATGCCTTCGAGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
90568930 CAAATGCCTTCGGTACTTA-CCTCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCC-CGGTTATAGTAACTCGCA
* * *
90568970 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
90569009 CAAATGCCTTCGAGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
90569038 CATCCGAATA
Statistics
Matches: 169, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 135 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:90572234 original size:28 final size:28
Alignment explanation
Indices: 90572169--90572319 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
90572159 GAGATTGGCG
* * * *
90572169 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
90572198 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
90572226 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
90572254 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
90572282 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
90572309 CTGAGTGTGCG
1 CTAAGTGTGCG
90572320 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:90576114 original size:39 final size:40
Alignment explanation
Indices: 90576019--90576194 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
90576009 CGGATGATAA
* * * *
90576019 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
90576059 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
90576099 -CGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
90576138 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
90576178 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
90576195 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 44 0.39
40 69 0.61
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:90576156 original size:79 final size:79
Alignment explanation
Indices: 90576019--90576194 Score: 230
Period size: 79 Copynumber: 2.2 Consensus size: 79
90576009 CGGATGATAA
* * * *
90576019 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
90576084 TGCTAG-TGATTATAT
65 TGCGAGTTG-TTATAT
* * * *
90576099 CGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATATCCGGGCTAAGACCTGAAGGCATTTGT
1 CCGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
90576164 GCGAGTTGTTATAT
66 GCGAGTTGTTATAT
90576178 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
90576195 ATACTTGGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 78 0.93
80 5 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCGAGTTGTTATAT
Found at i:90576462 original size:22 final size:22
Alignment explanation
Indices: 90576422--90576463 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90576412 GAATGTGCAT
*
90576422 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
90576444 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
90576464 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:90586604 original size:24 final size:24
Alignment explanation
Indices: 90586554--90586607 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
90586544 AATCGAATTT
*
90586554 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
90586578 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
90586602 GCACAC
1 GCACAC
90586608 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:90590306 original size:37 final size:37
Alignment explanation
Indices: 90590199--90590307 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
90590189 AGCTCAGATG
* * *
90590199 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
90590236 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
90590273 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
90590308 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:90590509 original size:48 final size:48
Alignment explanation
Indices: 90590454--90591418 Score: 1894
Period size: 48 Copynumber: 20.1 Consensus size: 48
90590444 TCACATCGCC
*
90590454 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590502 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590550 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590598 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590646 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590694 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590742 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590790 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590838 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590886 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590934 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90590982 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591030 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591078 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591126 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591174 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591222 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591270 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
90591318 TACATATTTCACATTAGCCATTCGACTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90591366 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90591414 TACAT
1 TACAT
90591419 CAATTTCAGC
Statistics
Matches: 911, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 911 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:90600490 original size:137 final size:137
Alignment explanation
Indices: 90600244--90600520 Score: 545
Period size: 137 Copynumber: 2.0 Consensus size: 137
90600234 TACAATAAAG
*
90600244 CTTGAAAAGTTAAAAACCCTAGCTCTAGAGACTCCCTAAATTTTGGCACCCAAAGAGAAGATGGA
1 CTTGAAAAGTTAAAAACCCTAGCTCTAGAGACTCCCCAAATTTTGGCACCCAAAGAGAAGATGGA
90600309 CATCATTTTTTCTTGATTTTTCCCTTTTTATTCTTTTATTAACCAAATGACCAAAATGCCCTTAA
66 CATCATTTTTTCTTGATTTTTCCCTTTTTATTCTTTTATTAACCAAATGACCAAAATGCCCTTAA
90600374 AGTTTTT
131 AGTTTTT
90600381 CTTGAAAAGTTAAAAACCCTAGCTCTAGAGACTCCCCAAATTTTGGCACCCAAAGAGAAGATGGA
1 CTTGAAAAGTTAAAAACCCTAGCTCTAGAGACTCCCCAAATTTTGGCACCCAAAGAGAAGATGGA
90600446 CATCATTTTTTCTTGATTTTTCCCTTTTTATTCTTTTATTAACCAAATGACCAAAATGCCCTTAA
66 CATCATTTTTTCTTGATTTTTCCCTTTTTATTCTTTTATTAACCAAATGACCAAAATGCCCTTAA
90600511 AGTTTTT
131 AGTTTTT
90600518 CTT
1 CTT
90600521 TCAGATTTTT
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (137 bp):
CTTGAAAAGTTAAAAACCCTAGCTCTAGAGACTCCCCAAATTTTGGCACCCAAAGAGAAGATGGA
CATCATTTTTTCTTGATTTTTCCCTTTTTATTCTTTTATTAACCAAATGACCAAAATGCCCTTAA
AGTTTTT
Found at i:90605639 original size:39 final size:39
Alignment explanation
Indices: 90605592--90605675 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
90605582 CTCTGACTGA
90605592 CATTCTTTTCTTTTTCTCTTTAGCCGAATGTCCTATTCT
1 CATTCTTTTCTTTTTCTCTTTAGCCGAATGTCCTATTCT
* * *
90605631 CCTTCTTTTCTTTTTCTCTTTAGCTGAATGTCTTATTCT
1 CATTCTTTTCTTTTTCTCTTTAGCCGAATGTCCTATTCT
90605670 CATTCT
1 CATTCT
90605676 CTCTCAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.12, C:0.25, G:0.07, T:0.56
Consensus pattern (39 bp):
CATTCTTTTCTTTTTCTCTTTAGCCGAATGTCCTATTCT
Found at i:90605700 original size:20 final size:22
Alignment explanation
Indices: 90605672--90605716 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90605662 CTTATTCTCA
90605672 TTCTCTCTCAATTCTTTTAGTT
1 TTCTCTCTCAATTCTTTTAGTT
90605694 TTCTCTCTCAATTCTTTTAGTT
1 TTCTCTCTCAATTCTTTTAGTT
90605716 T
1 T
90605717 AACATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.04, T:0.60
Consensus pattern (22 bp):
TTCTCTCTCAATTCTTTTAGTT
Found at i:90609305 original size:21 final size:23
Alignment explanation
Indices: 90609279--90609327 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
90609269 GGACTTTATA
*
90609279 ATGATGCGTGAC-AATG-ATGCT
1 ATGATGAGTGACAAATGAATGCT
*
90609300 ATGATGATTGACAAATGAATGCT
1 ATGATGAGTGACAAATGAATGCT
90609323 A-GATG
1 ATGATG
90609328 TTGATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (23 bp):
ATGATGAGTGACAAATGAATGCT
Found at i:90626264 original size:27 final size:27
Alignment explanation
Indices: 90626234--90626411 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
90626224 ATATTGAGTC
* *
90626234 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
90626261 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
90626288 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
90626316 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
90626343 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
90626370 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
90626397 CGCGCACTTAGTGCT
1 CGCACACTTAGTGCT
90626412 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:90626373 original size:82 final size:81
Alignment explanation
Indices: 90626255--90626410 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
90626245 TGCTATATAA
* *
90626255 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90626320 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
90626337 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCG
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90626401 CACTTAGTGC
65 CACTTAGTGC
90626411 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90626394 original size:54 final size:54
Alignment explanation
Indices: 90626234--90626410 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
90626224 ATATTGAGTC
* * * *
90626234 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
90626288 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
90626343 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
90626397 CGCGCACTTAGTGC
1 CGCACACTTAGTGC
90626411 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:90634583 original size:64 final size:64
Alignment explanation
Indices: 90634478--90634684 Score: 222
Period size: 64 Copynumber: 3.2 Consensus size: 64
90634468 CATCATGTGT
* * *
90634478 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATG
90634543 TAG
62 TAG
* * * * *
90634546 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACATGTA
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTA-CAC-CATGTA
90634611 G
64 G
* * *
90634612 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG
90634674 TACAAGAGAGC
1 -ACAAGAGAGC
90634685 CGAACTATAT
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.13
64 30 0.25
65 28 0.24
66 30 0.25
67 2 0.02
68 13 0.11
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG
Found at i:90634622 original size:66 final size:65
Alignment explanation
Indices: 90634478--90634630 Score: 182
Period size: 66 Copynumber: 2.3 Consensus size: 65
90634468 CATCATGTGT
* * * * *
90634478 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGAACACCATG
90634543 TAG
63 TAG
* * *
90634546 ACAAGAGAGCTACGAGATAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACATGT
1 ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGAA-CAC-CATGT
90634610 AG
64 AG
90634612 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
90634631 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
64 28 0.37
65 5 0.07
66 29 0.39
68 13 0.17
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGAACACCATGTAG
Found at i:90637034 original size:48 final size:46
Alignment explanation
Indices: 90636872--90637038 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
90636862 TGATATGTGT
* * * * *
90636872 GCTAGTGTAAGACATCTCTGGTACAAGCATCGGCCAT--ATCATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GATGAAA
* * *
90636918 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAAA
* * *
90636964 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAT-GA-AA
* *
90637012 GCTAGTGTAAGACTTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
90637039 GCAACAGCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
45 3 0.03
46 72 0.70
47 2 0.02
48 26 0.25
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAAA
Found at i:90637132 original size:95 final size:95
Alignment explanation
Indices: 90636963--90637183 Score: 242
Period size: 95 Copynumber: 2.3 Consensus size: 95
90636953 TTGAGATGAG
* * * *
90636963 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGGGATATACAAGCTAGTGTAAGACTT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTC-GGATAGACAAGCTAGTGTAAGACCT
*
90637027 ATCTGGGACATGGCAAC-AGCTTGTTAAGTG-T
65 ATCTGGGACATGGCAACGA-CTT-TGAAGTGCT
90637058 -G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-GATAGATCATAGCCT-GTGTAAG
1 AGCT-AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGGATAGA-CA-AG-CTAGTGTAAG
* *
90637118 ACCTATCTGGGACATGGCATCGACTTTGATGTGCT
61 ACCTATCTGGGACATGGCAACGACTTTGAAGTGCT
90637153 AGCTAGTGTAAGACCATGTCTGGGACATGGC
1 AGCTAGTGTAAGACC-TGTCTGGGACATGGC
90637184 GTTGGCATTT
Statistics
Matches: 108, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
93 6 0.06
94 30 0.28
95 40 0.37
96 16 0.15
97 16 0.15
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (95 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGGATAGACAAGCTAGTGTAAGACCTA
TCTGGGACATGGCAACGACTTTGAAGTGCT
Found at i:90645154 original size:46 final size:45
Alignment explanation
Indices: 90644993--90645205 Score: 177
Period size: 46 Copynumber: 4.6 Consensus size: 45
90644983 TGTGTGAGCT
*
90644993 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-GAA-CC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-TTGA-GATGAAGCC
* * * * *
90645039 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAGATGA-AGCC
* *
90645087 AGTGTAAG-CATGTTTGAGACATGCATCAGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATG-AAGCC
* * *
90645132 AATGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATG-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-TGAGATGAAGCC
*
90645176 AGTGTAAGACCATGTATGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
90645206 GGCACAGATA
Statistics
Matches: 139, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.08
45 42 0.30
46 55 0.40
47 15 0.11
48 16 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATGAAGCC
Found at i:90646252 original size:41 final size:41
Alignment explanation
Indices: 90646207--90646291 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
90646197 GACACGGACA
*
90646207 TGTCATGGCCGTGTTAAGGACACGGGCCAGGGACATGAGCG
1 TGTCATGGCCGTGTGAAGGACACGGGCCAGGGACATGAGCG
* * * *
90646248 TGTCATTGTCGTGTGAAGGATACGGGCCAGGGACATGGGCG
1 TGTCATGGCCGTGTGAAGGACACGGGCCAGGGACATGAGCG
90646289 TGT
1 TGT
90646292 GCTCGGCCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.19, G:0.40, T:0.21
Consensus pattern (41 bp):
TGTCATGGCCGTGTGAAGGACACGGGCCAGGGACATGAGCG
Found at i:90651875 original size:144 final size:144
Alignment explanation
Indices: 90651623--90652630 Score: 2016
Period size: 144 Copynumber: 7.0 Consensus size: 144
90651613 GCGAAAAAGG
90651623 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90651688 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90651753 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90651767 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90651832 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90651897 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90651911 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90651976 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90652041 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90652055 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90652120 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90652185 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90652199 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90652264 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90652329 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90652343 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90652408 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90652473 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90652487 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
1 ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
90652552 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
66 AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
90652617 TGAATTGAAAATTT
131 TGAATTGAAAATTT
90652631 TCAATGTTAG
Statistics
Matches: 864, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 864 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (144 bp):
ACTAAATCGCATAAAGTTTAAAAGTCCTGAATTGATAGGTAAAGTTGTCAAATAGCTAGGGAATA
AATATTGGGGGCCTTTAAAGGGCAATTAGACCCTTAGAAATAGGGTGGCCGGCCATAGGGGACAA
TGAATTGAAAATTT
Found at i:90655117 original size:17 final size:17
Alignment explanation
Indices: 90655095--90655130 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
90655085 GGTTGGCCGT
90655095 GTGATCCAAGTCAGGGA
1 GTGATCCAAGTCAGGGA
90655112 GTGATCCAAGTCAGGGA
1 GTGATCCAAGTCAGGGA
90655129 GT
1 GT
90655131 TACACAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (17 bp):
GTGATCCAAGTCAGGGA
Found at i:90659084 original size:40 final size:40
Alignment explanation
Indices: 90659009--90659103 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
90658999 TAGCTATTTG
* * * * *
90659009 TGGCACTTAGTGTACGATTCGACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCAATTCGAAATAACTTCGGCTATATA
* *
90659049 TGGCACTTAGTGTGCAATTTGAAATAACTTCGGCTATGTA
1 TGGCACTTAGTGTGCAATTCGAAATAACTTCGGCTATATA
*
90659089 CGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
90659104 GAGATATCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGAAATAACTTCGGCTATATA
Found at i:90659130 original size:28 final size:28
Alignment explanation
Indices: 90659090--90659162 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
90659080 GGCTATGTAC
* *
90659090 GGCACTTAGTGTGCGAGATATCGAGTGT
1 GGCACTTAGTGTGCGAGACATCGAGTAT
*
90659118 GGCACTTAGTGTGTGAGACATCGAGTAT
1 GGCACTTAGTGTGCGAGACATCGAGTAT
*
90659146 GGAACTTAGTGTGCGAG
1 GGCACTTAGTGTGCGAG
90659163 GCATTTAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGACATCGAGTAT
Found at i:90666642 original size:40 final size:40
Alignment explanation
Indices: 90666566--90666660 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
90666556 AGACTATTTG
* **
90666566 TGGCACTTAGTGTGGGATTCGACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
* * *
90666606 TGGCACTTAGTGTGCGATTTGAGATAG-TTCCAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTT-CAGCTATATA
* *
90666646 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
90666661 AAGATATCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
Found at i:90666729 original size:28 final size:28
Alignment explanation
Indices: 90666649--90666719 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
90666639 CTATGTACGA
*
90666649 CACTTAGTGTGCAAGATATCGAGTGTGG
1 CACTTAGTGTGCAAGATATCGAGTATGG
*
90666677 CACTTAGTGTGCGAGATATCGAGTATGG
1 CACTTAGTGTGCAAGATATCGAGTATGG
*
90666705 CACTAAGTGTGCAAG
1 CACTTAGTGTGCAAG
90666720 GCATTGAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCAAGATATCGAGTATGG
Found at i:90671361 original size:28 final size:26
Alignment explanation
Indices: 90671311--90671423 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
90671301 AGCATGGCTG
* *
90671311 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
90671337 CCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
90671365 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
90671392 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
90671420 CCAG
1 CCAG
90671424 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 33 0.43
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:90671394 original size:55 final size:54
Alignment explanation
Indices: 90671311--90671423 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
90671301 AGCATGGCTG
*
90671311 CCAGAACAGATAATGTGACAGAGTCACCAGATACAAATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAAATAATTCGTGGCAGAGCCA
* * * *
90671365 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCA
90671420 CCAG
1 CCAG
90671424 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCA
Found at i:90674156 original size:21 final size:22
Alignment explanation
Indices: 90674129--90674179 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
90674119 ATTGTTTAGA
*
90674129 AGGAAGTTGA-TGCTGCAGAAG
1 AGGAAGTTGATTGCTGAAGAAG
*
90674150 ATGAAGTT-ATTGCTGAAGAAG
1 AGGAAGTTGATTGCTGAAGAAG
90674171 AGGAAGTTG
1 AGGAAGTTG
90674180 CTAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (22 bp):
AGGAAGTTGATTGCTGAAGAAG
Found at i:90674575 original size:17 final size:17
Alignment explanation
Indices: 90674553--90674586 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90674543 GATAAGTATA
*
90674553 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
90674570 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
90674587 AATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:90686241 original size:39 final size:41
Alignment explanation
Indices: 90686146--90686329 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
90686136 TTGAATGCTG
*
90686146 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
90686185 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
90686225 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
90686264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
90686304 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90686330 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:90686281 original size:79 final size:81
Alignment explanation
Indices: 90686146--90686329 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
90686136 TTGAATGCTG
90686146 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
90686209 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
90686224 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
90686285 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
90686304 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90686330 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:90686351 original size:79 final size:79
Alignment explanation
Indices: 90686198--90686362 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
90686188 GGACTAAGAT
* ** *
90686198 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
90686263 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
90686277 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
90686339 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
90686356 CCGAAGG
1 CCGAAGG
90686363 TACGTAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:90708052 original size:41 final size:41
Alignment explanation
Indices: 90707986--90708102 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
90707976 AAAAGCCCTT
*
90707986 AGTTCGG-TATGA-CACTGGCTCAAAAGCCCTTCGAAACTA
1 AGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAAACTA
* * *
90708025 AGTTCGGTTATTAGTACTGGCTTAAAAGCCCTTCGAAATTA
1 AGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAAACTA
90708066 AGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAA
1 AGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAA
90708103 CCCAAGCTCG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
39 7 0.10
40 4 0.06
41 59 0.84
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
AGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAAACTA
Found at i:90709649 original size:68 final size:68
Alignment explanation
Indices: 90709569--90709704 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
90709559 TTTTCTAATT
*
90709569 AACTAGAAACAAGCTTAAAATTTTAAAATCTAACACAATTAACTAACCTTCCTTGAGTTTAAAGT
1 AACTAGAAACAAGCTTAAAATTTTAAAATCTAACACAATTAACTAACCTTCCTTGAGCTTAAAGT
90709634 GAC
66 GAC
90709637 AACTAGAAACAAGCTTAAAATTTTAAAATCTAACACAATTAACTAACCTTCCTTGAGCTTAAAGT
1 AACTAGAAACAAGCTTAAAATTTTAAAATCTAACACAATTAACTAACCTTCCTTGAGCTTAAAGT
90709702 GAC
66 GAC
90709705 CGAAATCTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (68 bp):
AACTAGAAACAAGCTTAAAATTTTAAAATCTAACACAATTAACTAACCTTCCTTGAGCTTAAAGT
GAC
Found at i:90715140 original size:69 final size:69
Alignment explanation
Indices: 90715029--90715165 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
90715019 TCTTTTCTAC
90715029 CTTAGATGGTAACAAGAGCCTGTAAGTAACCGGTCCAACACACTCTATAATCTCATACGGCCCAA
1 CTTAGATGGTAACAAGAGCCTGTAAGTAACCGGTCCAACACACTCTATAATCTCATACGGCCCAA
90715094 TAAA
66 TAAA
90715098 CTTAGATGGTAACAAGAGCCTGTAAGTAACCGGTCCAACACACTCTATAATCTCATACGGCCCAA
1 CTTAGATGGTAACAAGAGCCTGTAAGTAACCGGTCCAACACACTCTATAATCTCATACGGCCCAA
90715163 TAA
66 TAA
90715166 CCCTCGGACT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (69 bp):
CTTAGATGGTAACAAGAGCCTGTAAGTAACCGGTCCAACACACTCTATAATCTCATACGGCCCAA
TAAA
Found at i:90728041 original size:52 final size:52
Alignment explanation
Indices: 90727963--90728070 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
90727953 ACTCTAACCA
90727963 AAACCCAACTTCATTTACCAGCACTGATATTATATACACAGTTGCAGTTTGC
1 AAACCCAACTTCATTTACCAGCACTGATATTATATACACAGTTGCAGTTTGC
90728015 AAACCCAACTTCATTTACCAGCACTGATATTATATACACAGTTGCAGTTTGC
1 AAACCCAACTTCATTTACCAGCACTGATATTATATACACAGTTGCAGTTTGC
90728067 AAAC
1 AAAC
90728071 ATCCACAGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (52 bp):
AAACCCAACTTCATTTACCAGCACTGATATTATATACACAGTTGCAGTTTGC
Found at i:90738608 original size:179 final size:179
Alignment explanation
Indices: 90738304--90738657 Score: 663
Period size: 179 Copynumber: 2.0 Consensus size: 179
90738294 TAAAGCTTTT
90738304 TTTGAAGATATTACAGCAGGTAATTCATTCCAATCACTAGATTCAATTCTGACTATTTCATCATT
1 TTTGAAGATATTACAGCAGGTAATTCATTCCAATCACTAGATTCAATTCTGACTATTTCATCATT
*
90738369 CTTGCATCTCAAATCAATAGTTTTCCATTTGCAGTTCACCACAGCATCATGCACAGTTAACCAAT
66 CTTGCATCTCAAATCAATAGTTTTCCATTTGCAGTTCACCACAGCATCATGCAAAGTTAACCAAT
* * *
90738434 CCATGCCCAGAATTATATCAAACTCATCAAAAGGTAATAACATCAAATC
131 CCATACCCAGAATTACATCAAACTCATCAAAAGGTAACAACATCAAATC
90738483 TTTGAAGATATTACAGCAGGTAATTCATTCCAATCACTAGATTCAATTCTGACTATTTCATCATT
1 TTTGAAGATATTACAGCAGGTAATTCATTCCAATCACTAGATTCAATTCTGACTATTTCATCATT
90738548 CTTGCATCTCAAATCAATAGTTTTCCATTTGCAGTTCACCACAGCATCATGCAAAGTTAACCAAT
66 CTTGCATCTCAAATCAATAGTTTTCCATTTGCAGTTCACCACAGCATCATGCAAAGTTAACCAAT
*
90738613 CCATACCCAGAATTACATCAAATTCATCAAAAGGTAACAACATCA
131 CCATACCCAGAATTACATCAAACTCATCAAAAGGTAACAACATCA
90738658 CAGCAGGAAA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 170 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (179 bp):
TTTGAAGATATTACAGCAGGTAATTCATTCCAATCACTAGATTCAATTCTGACTATTTCATCATT
CTTGCATCTCAAATCAATAGTTTTCCATTTGCAGTTCACCACAGCATCATGCAAAGTTAACCAAT
CCATACCCAGAATTACATCAAACTCATCAAAAGGTAACAACATCAAATC
Found at i:90742983 original size:96 final size:96
Alignment explanation
Indices: 90742819--90743051 Score: 376
Period size: 96 Copynumber: 2.4 Consensus size: 96
90742809 GAAGTGCGCA
* ** * *
90742819 TGTGTAAGACCATGTCTAGGAGATGGCATCGGTGATGATTTATATGCCTGTGTAAGACCATGTTT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
90742884 GGGACATGGCATCGACGATGATATATGTGCT
66 GGGACATGGCATCGACGATGATATATGTGCT
* *
90742915 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATTTGTCTGTGTAAGACCATGTGT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
*
90742980 GGGACATGGCATCGATGATGATATATGTGCT
66 GGGACATGGCATCGACGATGATATATGTGCT
* *
90743011 TGTGTAAGACCATGTCTGGGACATGGCATTGGCAATGATAT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATAT
90743052 GTGGATTCAT
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 127 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (96 bp):
TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
GGGACATGGCATCGACGATGATATATGTGCT
Found at i:90743049 original size:48 final size:48
Alignment explanation
Indices: 90742819--90743073 Score: 307
Period size: 48 Copynumber: 5.3 Consensus size: 48
90742809 GAAGTGCGCA
* * * * * *
90742819 TGTGTAAGACCATGTCTAGGAGATGGCATCGGTGATGATTTATATGCC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
* *
90742867 TGTGTAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTGCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
* * *
90742915 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATTTG-T
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
* **
90742962 CTGTGTAAGACCATGTGTGGGACATGGCATCGATGATGATATATGTGCT
1 -TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
* * * *
90743011 TGTGTAAGACCATGTCTGGGACATGGCATTGGCAATGATATGTG-GAT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
*
90743058 TCATGTAAGACCATGT
1 T-GTGTAAGACCATGT
90743074 GTTGGTACTT
Statistics
Matches: 177, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
47 4 0.02
48 172 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCT
Found at i:90744696 original size:46 final size:46
Alignment explanation
Indices: 90744646--90744818 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
90744636 TGGTTGAGCA
90744646 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90744692 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90744737 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
90744785 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90744819 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90744802 original size:93 final size:93
Alignment explanation
Indices: 90744643--90744813 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
90744633 GGATGGTTGA
*
90744643 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
90744708 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
90744736 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
90744801 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90744814 ACTTAGGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:90747483 original size:14 final size:13
Alignment explanation
Indices: 90747459--90747488 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
90747449 GGTTGTTTAT
90747459 TAAACTAATTAAC
1 TAAACTAATTAAC
90747472 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
90747486 TAA
1 TAA
90747489 TTCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:90762065 original size:55 final size:55
Alignment explanation
Indices: 90761978--90762087 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
90761968 TGAGCAGCAG
* *
90761978 TGCTGCAACTGTAGAGTGTAGGACTAGGTGGGTTGAGTTATTCCCCACATGGAGT
1 TGCTGCAACTATAGAGTGTAGGACTAGGTGGGTTGAGCTATTCCCCACATGGAGT
*
90762033 TGCTGCAACTATAGAGTGTAGGGCT-GGATGGGTTGAGCTATTCCCCACATGGAGT
1 TGCTGCAACTATAGAGTGTAGGACTAGG-TGGGTTGAGCTATTCCCCACATGGAGT
90762088 GTAGGGTTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (55 bp):
TGCTGCAACTATAGAGTGTAGGACTAGGTGGGTTGAGCTATTCCCCACATGGAGT
Found at i:90781126 original size:16 final size:16
Alignment explanation
Indices: 90781098--90781139 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
90781088 AATATAATGT
* *
90781098 AAACAA-AATAAAAAC
1 AAACAATAAGAAAAAA
90781113 AAA-AATAAGAAAAAA
1 AAACAATAAGAAAAAA
90781128 AAACAATAAGAA
1 AAACAATAAGAA
90781140 GTGTCAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.81, C:0.07, G:0.05, T:0.07
Consensus pattern (16 bp):
AAACAATAAGAAAAAA
Found at i:90784526 original size:48 final size:46
Alignment explanation
Indices: 90784425--90784650 Score: 219
Period size: 44 Copynumber: 4.8 Consensus size: 46
90784415 ATGTGTGTGT
* * **
90784425 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCA-CATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-GCATTAAGATGAGA
* * *
90784471 GCCAGTGTAAGACCATGCCTGGGACATGGCATTGGCATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTAAGATGAGA
* *
90784519 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC--TACGA-GATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGA-GA
* *
90784563 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGGATATG-TGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT---TAAGATGAGA
* *
90784611 GCTAGAGTAAGACCATGTCTGGGACATGGCATTGGCATTA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTA
90784651 TACCCTATGT
Statistics
Matches: 150, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.01
44 38 0.25
46 18 0.12
47 30 0.20
48 35 0.23
49 19 0.13
50 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
Found at i:90785639 original size:19 final size:19
Alignment explanation
Indices: 90785615--90785679 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
90785605 CTAGAATCAT
**
90785615 AATCAGAACCAGGTGACAG
1 AATCAGAATTAGGTGACAG
*
90785634 AATCAGAATTA-G-AATCAG
1 AATCAGAATTAGGTGA-CAG
90785652 AATCAGAATTAGGTGACAG
1 AATCAGAATTAGGTGACAG
90785671 AATCAGAAT
1 AATCAGAAT
90785680 CAGCATCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
19 22 0.56
20 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (19 bp):
AATCAGAATTAGGTGACAG
Found at i:90785642 original size:6 final size:6
Alignment explanation
Indices: 90785631--90785710 Score: 65
Period size: 6 Copynumber: 13.0 Consensus size: 6
90785621 AACCAGGTGA
* * *
90785631 CAGAAT CAGAAT TAGAAT CAGAAT CAGAAT TAG-GT GACAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT
* *
90785680 CAGCAT CA-ACTAA CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGA--AT CAGAAT CAGAAT CAGAAT
90785711 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.02
6 50 0.86
7 5 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
CAGAAT
Done.