Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 62 of 84
Found at i:13900225 original size:98 final size:98
Alignment explanation
Indices: 13900093--13900536 Score: 397
Period size: 98 Copynumber: 4.6 Consensus size: 98
13900083 GCAAAAATGA
* * *
13900093 GATTTTTAAAGTTTCCTAACC-TTACTTTAAAA-GAGCTTTTCAAAACTGATATTTTTAAAGTTT
1 GATTTTTAAAGTTTCCTAGCCTTTA-TTTAAAAGGAGCTTTTCAAAATTGAGATTTTTAAAGTTT
* * *
13900156 CCTAGCCTTTCCTTAAATGAGTTTTTCAAATTTTG
65 CTTAGCCTTT-CTTAAAAGAGTTTTTCAAATTTGG
* * * *
13900191 GTTTTTTAAAGTTTCCTAGCCTTTATTTACAA-GAGCTTTTTAAAATTAAGATTTTTGAAAGTTT
1 GATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGGAGCTTTTCAAAATTGAGATTTTT-AAAGTTT
* *
13900255 TTTAGCCTTTCTTAAAAAGAGCTTTTCAAATTTGG
65 CTTAGCCTTTCTT-AAAAGAGTTTTTCAAATTTGG
* * * * * *
13900290 GATTTTCAAA-ATTCCTAGTCTTT-TTTCAAAGGAGTTTTTCAAAATTTAGATTTTTAAAGTTTT
1 GATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGGAGCTTTTCAAAATTGAGATTTTTAAAG-TTT
* *
13900353 CTTA-ACTTTC-TAAAAGAGCTTTTCCAAA-TTGG
65 CTTAGCCTTTCTTAAAAGAG-TTTTTCAAATTTGG
* * * * *
13900385 GATTTTTAAAGTTTCTTA-CCATTTTTTTAAAAGGAGCTTTCCAAAGTTGAGATTTTTAAATTTT
1 GATTTTTAAAGTTTCCTAGCC-TTTATTTAAAAGGAGCTTTTCAAAATTGAGATTTTTAAAGTTT
* * * * **
13900449 CGTAGCCTCTCTTTAGAGGAGTTTTTCAAATTTAA
65 CTTAGCCTTTC-TTAAAAGAGTTTTTCAAATTTGG
*** * * *
13900484 GA-TTTTAAAGTTTTAAAGCCTCTATTT-AAAGGAGTTTTTCAAAAGTTAAGATT
1 GATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGGAGCTTTTCAAAA-TTGAGATT
13900537 GTTTTTTAAG
Statistics
Matches: 279, Mismatches: 52, Indels: 30
0.77 0.14 0.08
Matches are distributed among these distances:
95 21 0.08
96 22 0.08
97 62 0.22
98 118 0.42
99 56 0.20
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (98 bp):
GATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGGAGCTTTTCAAAATTGAGATTTTTAAAGTTTC
TTAGCCTTTCTTAAAAGAGTTTTTCAAATTTGG
Found at i:13900252 original size:50 final size:49
Alignment explanation
Indices: 13900085--13900599 Score: 268
Period size: 49 Copynumber: 10.4 Consensus size: 49
13900075 CAAACATTGC
* * *
13900085 AAAAATGAGATTTTTAAAGTTTCCTAACC-TTACTTTAAAAGAGCTTTTC
1 AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTA-TTTAAAAGAGCTTTTT
* * ** *
13900134 AAAACTGATATTTTTAAAGTTTCCTAGCCTTTCCTTAAATGAG-TTTTT
1 AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* * *
13900182 CAAATTTTG-GTTTTTTAAAGTTTCCTAGCCTTTATTTACAAGAGCTTTTT
1 -AAA-ATTGAGATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* ** * * *
13900232 AAAATTAAGATTTTTGAAAGTTTTTTAGCCTTTCTTAAAAAGAGCTTTTC
1 AAAATTGAGATTTTT-AAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* * * * * *
13900282 AAATTTGGGATTTTCAAA-ATTCCTAGTCTTT-TTTCAAAGGAG-TTTTT
1 AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTATTT-AAAAGAGCTTTTT
* * * * *
13900329 CAAAATTTAGATTTTTAAAGTTTTCTTA-AC-TT-TCTAAAAGAGCTTTTC
1 -AAAATTGAGATTTTTAAAG-TTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* * * * **
13900377 CAAATTGGGATTTTTAAAGTTTCTTA-CCATTTTTTTAAAAGGAGCTTTCC
1 AAAATTGAGATTTTTAAAGTTTCCTAGCC-TTTATTTAAAA-GAGCTTTTT
* * * * * * *
13900427 AAAGTTGAGATTTTTAAATTTTCGTAGCCTCTCTTTAGAGGAG-TTTTT
1 AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* * *** * *
13900475 CAAATTTAAGA-TTTTAAAGTTTTAAAGCCTCTATTTAAAGGAG-TTTTT
1 -AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
* * * **
13900523 CAAAAGTTAAGATTGTTTTTTAAGTTT-TTAGAGCCTTTATTTAAAAGAATTTTTT
1 -AAAA-TTGAGA---TTTTTAAAGTTTCCT--AGCCTTTATTTAAAAGAGCTTTTT
* *
13900578 AAAGTTCA-AGTTTTTAAAGTTT
1 AAAATTGAGA-TTTTTAAAGTTT
13900600 TTAAAACTTC
Statistics
Matches: 361, Mismatches: 80, Indels: 49
0.74 0.16 0.10
Matches are distributed among these distances:
46 8 0.02
47 28 0.08
48 83 0.23
49 102 0.28
50 101 0.28
51 2 0.01
52 1 0.00
53 13 0.04
54 18 0.05
55 5 0.01
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (49 bp):
AAAATTGAGATTTTTAAAGTTTCCTAGCCTTTATTTAAAAGAGCTTTTT
Found at i:13900552 original size:54 final size:51
Alignment explanation
Indices: 13900414--13900604 Score: 169
Period size: 48 Copynumber: 3.8 Consensus size: 51
13900404 CATTTTTTTA
* * * *** *
13900414 AAAGGAGCTTTCCAAAGTTGAGA-TTTTTAAA-TTTTCGTAGCCTCTCTTT
1 AAAGGAGTTTTTCAAAGTTAAGAGTTTTTAAAGTTTTTAAAGCCTCTATTT
* *
13900463 AGAGGAGTTTTTCAAATTTAAGA--TTTTAAAG-TTTTAAAGCCTCTATTT
1 AAAGGAGTTTTTCAAAGTTAAGAGTTTTTAAAGTTTTTAAAGCCTCTATTT
* * *
13900511 AAAGGAGTTTTTCAAAAGTTAAGATTGTTTTTTAAGTTTTTAGAGCCTTTATTT
1 AAAGGAGTTTTTC-AAAGTTAAGA--GTTTTTAAAGTTTTTAAAGCCTCTATTT
* * * *
13900565 AAAAGAATTTTTTAAAGTTCA-AGTTTTTAAAGTTTTTAAA
1 AAAGGAGTTTTTCAAAGTTAAGAGTTTTTAAAGTTTTTAAA
13900605 ACTTCTGATG
Statistics
Matches: 115, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
48 32 0.28
49 27 0.23
50 16 0.14
52 1 0.01
53 14 0.12
54 25 0.22
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (51 bp):
AAAGGAGTTTTTCAAAGTTAAGAGTTTTTAAAGTTTTTAAAGCCTCTATTT
Found at i:13900654 original size:23 final size:24
Alignment explanation
Indices: 13900628--13900682 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
13900618 CAAAAATGTG
*
13900628 AAAAAAAAA-ACATAAAAACAAAT
1 AAAAAAAAACACAAAAAAACAAAT
*
13900651 AAAAAAAAACACAAAAAAATAAAT
1 AAAAAAAAACACAAAAAAACAAAT
13900675 AAAAAAAA
1 AAAAAAAA
13900683 GCAAAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (24 bp):
AAAAAAAAACACAAAAAAACAAAT
Found at i:13903508 original size:21 final size:23
Alignment explanation
Indices: 13903484--13903530 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
13903474 TTTCATAACA
13903484 TTTCATATCATTT-TCCA-TAGT
1 TTTCATATCATTTATCCATTAGT
**
13903505 TTTCATATTGTTTATCCATTAGT
1 TTTCATATCATTTATCCATTAGT
13903528 TTT
1 TTT
13903531 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 4 0.18
23 7 0.32
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTCATATCATTTATCCATTAGT
Found at i:13903920 original size:721 final size:718
Alignment explanation
Indices: 13901430--13904318 Score: 3891
Period size: 721 Copynumber: 4.0 Consensus size: 718
13901420 ACTTTGACTT
*
13901430 TCCTAAGGTTGGCTTTTCATGAAACACTCTAAATCATATTTTGAAA-TATTTCATGATTTTTGGT
1 TCCTAAGGTTGGCTTTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
* * *
13901494 ACATCGAAAA-CTGTAATCACACTTCGAAAGGTGTGAAATTACTATACCTTTTAAGGGTATTTTT
66 ACATTGAAAACCT-TAATCACACTTCAAAAGGTGTGAAATTACTATACCTTTTAGGGGTATTTTT
* * * ** * *
13901558 GTAATTTAATTTCTTGAGATCAATTTTTTACAAAAACTTTCATATCACGATTTCATATTATTCTA
130 GTAATTTGATTTCTTGAGATCAGTTTTTCATGAAAACTTTCAAATCATGATTTCATATTATTCTA
* * * * *
13901623 AGATTTTTAGTGCTTTAAAATCACAAAAACAAATAAAGATCAGGGTTTTCTAAGGAAATTCCATA
195 AGATTTTTGGTGCTTTAAAATCACAAAAACAAAGAAAGATCAAGGTTTTCCAAGAAAATTCCATA
* * * * *
13901688 AAAAGATCAAAACTTTCAAAAAGACAAATTAGTCATGTCACACTATTCCAGTTGCACTCATAGAC
260 AAAAGATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCCAGTTGCACTCAGAGCC
* ** * *
13901753 TCATATTCTACCAAATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTCAAAGG
325 TCATTTTCTATTAGATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGAAAGG
* * *
13901818 TGATTGCATGCAAAATAAACCAAGGGGGAATACTAGTTTTAGGATGTATTTTTTATCAAGGGCCT
390 TGATTGCTTGCAAAATAAACCAAGGGGGAATACTAGCTTTAGGATGCATTTTTTATCAAGGGCCT
* *
13901883 TCATGCATTTGTATGGCATATATATTCATAATTTAGGACTGAAATG-AGGGAAGCAAGTAGCCTT
455 TCATGCATTTGCATGGCATATATATTCATAATTTAGG-CTGAAA-GAAGGGAA-CAGGTAGCCTT
* * * * *
13901947 GAAAGTGGTGTGAAAATAAGGAAAAAGG-A-AAAAAATAAAAAAATTTGTGAAAGCTTTATGGAG
517 GAAAGTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAAAAAATTTTGGGAAAGCTTTGTGGAG
* *
13902010 GTATAATTTTTACTATTTTTTCATTGCATTTCATACCATTTCATATCATTTTCCATAGTTTTCAC
582 GTATAATTTTTACTATTTCTT-ATTGCA-TTCATACCATTTCATATCATTTTCCATAGTTTTCAT
* *
13902075 ATTGTTTATCCATTAATTTTTCTTTTTTTTTTTGTGAGAAAACAACTTTCTTTATAGTTGTTTGC
645 ATTGTTTATCCATTAATTTTTCTTTTTTTTTTTGTGAGAAAACAACTTCCTCTATAGTTGTTTGC
*
13902140 CTTCATAAC
710 CTCCATAAC
* * *
13902149 TCCTAAGATTGACTCTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
1 TCCTAAGGTTGGCTTTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
* * * * * * * * *
13902214 GCATTGAAAACCCTGATCGCATTTCGAAATGTGTGAAATTACTATGCCTTTTAGGAGTATTTTTG
66 ACATTGAAAACCTTAATCACACTTCAAAAGGTGTGAAATTACTATACCTTTTAGGGGTATTTTTG
* * * *
13902279 TAATTTGATTTCTTAAGA-CCGATTTTTCATGAAAACTTTCATATCATGATCTCATATTATTCTA
131 TAATTTGATTTCTTGAGATCAG-TTTTTCATGAAAACTTTCAAATCATGATTTCATATTATTCTA
13902343 AGATTTTTGGTGCTTTAAAATCATGCAAAAA-AAAGAAAGGATCAAGGTTTTCCAAGAAAATTCC
195 AGATTTTTGGTGCTTTAAAATCA--CAAAAACAAAGAAA-GATCAAGGTTTTCCAAGAAAATTCC
* ** *
13902407 ATAAATA-ATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCTTGTTGCACT-TGA
257 ATAAAAAGATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCCAGTTGCACTCAGA
*
13902470 GCCTCATTTTTTATT-GTATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGA
322 GCCTCATTTTCTATTAG-ATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGA
13902534 AAGGTGATTGCTTGCAAAATAAACCAAGGGGGAATACTAGCTTTAGGATGCATTTTTTATCAAGG
386 AAGGTGATTGCTTGCAAAATAAACCAAGGGGGAATACTAGCTTTAGGATGCATTTTTTATCAAGG
* * * * *
13902599 GCCTTCATACATTTGCATGGCATATGTATTCATAATTTAAGGTTGAAAGAAAGGG-AGATGTAGC
451 GCCTTCATGCATTTGCATGGCATATATATTCATAATTT-AGGCTGAAAG-AAGGGAACAGGTAGC
*
13902663 CTTGAAAGTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAGAAAATTTTGGGAAAGCTTTGTG
514 CTTGAAAGTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAAAAAATTTTGGGAAAGCTTTGTG
* * * *
13902728 GCGGTGTAATTTCTACTATTTCTTCATTGCATTTCATACCATTTCATATAATTTTCCATAGTTTT
579 GAGGTATAATTTTTACTATTTCTT-ATTGCA-TTCATACCATTTCATATCATTTTCCATAGTTTT
* *
13902793 CATATTGTTTACCCATTAATTTTTC-TTTTTTTTTTGTAAGAAAACAACTTCCTCTATAGTTGTT
642 CATATTGTTTATCCATTAATTTTTCTTTTTTTTTTTGTGAGAAAACAACTTCCTCTATAGTTG-T
* *
13902857 TTAAACACCTCTATAAC
706 TT----GCCTCCATAAC
* **
13902874 TCCTAAGGTTGGCTTTTAACGAAATGCTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
1 TCCTAAGGTTGGCTTTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
* * ** * * * *
13902939 ACAGTGAAAACC-TAATCGCACTTTGAAAGGTGTAAAATTACTATGCCTTTTTGGGATATTTTTG
66 ACATTGAAAACCTTAATCACACTTCAAAAGGTGTGAAATTACTATACCTTTTAGGGGTATTTTTG
* * * *
13903003 TAATTTGATTTCTTGAGAT-TGATTTTCATGACAACTTTCAAATGATGATTTCATATTATTCTAA
131 TAATTTGATTTCTTGAGATCAGTTTTTCATGAAAACTTTCAAATCATGATTTCATATTATTCTAA
*
13903067 GATTTTTGGTGCTTTAAAATCACAAAAACAAAGAAGAGATCAAGATTTTCCAAGAAAATTCCATA
196 GATTTTTGGTGCTTTAAAATCACAAAAACAAAGAA-AGATCAAGGTTTTCCAAGAAAATTCCATA
* * * * * * *
13903132 AAAGGATCAAAAATTTCAAAAGGGCAAATTGGCCATTTCACACTGTTCCAGTTGCACTTAAAGCC
260 AAAAGATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCCAGTTGCACTCAGAGCC
* * *
13903197 TCATTTTTTGTTGGATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGAAAGG
325 TCATTTTCTATTAGATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGAAAGG
*
13903262 TGATTGCTTGCAAAATAAACCAAAGGGGGAATACTAGCTTTAAGATGCATTTTTTATCAAGGGCC
390 TGATTGCTTGCAAAATAAACC-AAGGGGGAATACTAGCTTTAGGATGCATTTTTTATCAAGGGCC
* * *
13903327 TTCATGCCTTTGCATGGCATATATATTCATAATTTCAGGCTGAAAGGAGGGAAACAGGTAACCTT
454 TTCATGCATTTGCATGGCATATATATTCATAATTT-AGGCTGAAAGAAGGG-AACAGGTAGCCTT
* * *
13903392 AAAAGTGGTGTGGAAATGAGCAAAAA-GAAGAAAAAATAGAAAATTTTGGGAAAGCTTTGTGGAG
517 GAAAGTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAAAAAATTTTGGGAAAGCTTTGTGGAG
*
13903456 GTGTAATTTTTACTA-TT-TT-TT-CA-T-A-A-CATTTCATATCATTTTCCATAGTTTTCATAT
582 GTATAATTTTTACTATTTCTTATTGCATTCATACCATTTCATATCATTTTCCATAGTTTTCATAT
*
13903513 TGTTTATCCATTAGTTTTTCTTTTTTTTTTTTTTTTGTGTGAGAAAACAACTTCCTCTATAGTTG
647 TGTTTATCCATTAATTTTTC------TTTTTTTTTT-TGTGAGAAAACAACTTCCTCTATAGTTG
13903578 TTTGCCTCCATAAC
705 TTTGCCTCCATAAC
* * *** *
13903592 TCATAAGGTTGGCTTTTCACAAAATGTTCTAAATCATATTTTGAAATTGTTTCATGATTTTTGGT
1 TCCTAAGGTTGGCTTTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
* * *
13903657 ACATTAAAAACCTTTATCACACTTCAAAAGATGTGAAATTACTATACCTTTTAGGGGTATTTTTG
66 ACATTGAAAACCTTAATCACACTTCAAAAGGTGTGAAATTACTATACCTTTTAGGGGTATTTTTG
* * *
13903722 TAATTTGATTTCTTGAGATTAGTTTTTCATGAAAACTTTCAAACCATGATTTTCATATTATTCTT
131 TAATTTGATTTCTTGAGATCAGTTTTTCATGAAAACTTTCAAATCATGA-TTTCATATTATTCTA
13903787 AGATTTTTGGTGCTTTAAAATCACAAAAACAAAGAAGAGATCAAGGTTTTCCAAGAAAATTCCAT
195 AGATTTTTGGTGCTTTAAAATCACAAAAACAAAGAA-AGATCAAGGTTTTCCAAGAAAATTCCAT
* * *
13903852 AAAAAGATCAAAACTTTCAAAAGGGCAAATTGGTCATTTCACACTATTTCAGCTGCACTCAGAGC
259 AAAAAGATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCCAGTTGCACTCAGAGC
* * *
13903917 CTCATTTTCTGTTAGATTCATCATGAATCATTGATCATTTAAAGACCTAGATCTAAGTTTGAAAG
324 CTCATTTTCTATTAGATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGAAAG
* * **
13903982 GTGATTGCTTGCAAAAAAAACCAAGGGTAGAATACTAGCTTTAGGATGCATTTTTCGTCAAGGGC
389 GTGATTGCTTGCAAAATAAACCAAGGG-GGAATACTAGCTTTAGGATGCATTTTTTATCAAGGGC
** * * * **
13904047 CTTCATGCATTAACGTGGCATATATATTCATAATTTAGGGTTGAAAAAAAGGGAGTAGGTAGCCT
453 CTTCATGCATTTGCATGGCATATATATTCATAATTTA-GGCTG-AAAGAAGGGAACAGGTAGCCT
* * *
13904112 TGAAAGTGGTGTGGAAAGGAGGAAAAAGGAAGAAAAAATAAAAAATTTTTGGAAAGCTTTGTAGA
516 TGAAAGTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAAAAAATTTTGGGAAAGCTTTGTGGA
* * * * *
13904177 GGTATAATTTCTAATATTTCTTCATTGTATTGAATACCATTTCATATCATTTTTCATAGTTTTCA
581 GGTATAATTTTTACTATTTCTT-ATTGCATT-CATACCATTTCATATCATTTTCCATAGTTTTCA
* * * *
13904242 TATTGTTTATCCATTAATTTTTC-TTTTTTTTTTGTGAGGAAACAACATCCTTTATAGTTTTTTG
644 TATTGTTTATCCATTAATTTTTCTTTTTTTTTTTGTGAGAAAACAACTTCCTCTATAGTTGTTTG
*
13904306 CCTCCATTAC
709 CCTCCATAAC
13904316 TCC
1 TCC
13904319 AAGCTTGATC
Statistics
Matches: 1925, Mismatches: 194, Indels: 97
0.87 0.09 0.04
Matches are distributed among these distances:
715 48 0.02
716 1 0.00
717 1 0.00
718 80 0.04
719 141 0.07
720 373 0.19
721 502 0.26
722 135 0.07
723 139 0.07
724 196 0.10
725 221 0.11
726 35 0.02
727 1 0.00
728 1 0.00
730 1 0.00
731 1 0.00
732 49 0.03
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (718 bp):
TCCTAAGGTTGGCTTTTCACGAAACACTCTAAATCATATTTTGAAATTATTTCATGATTTTTGGT
ACATTGAAAACCTTAATCACACTTCAAAAGGTGTGAAATTACTATACCTTTTAGGGGTATTTTTG
TAATTTGATTTCTTGAGATCAGTTTTTCATGAAAACTTTCAAATCATGATTTCATATTATTCTAA
GATTTTTGGTGCTTTAAAATCACAAAAACAAAGAAAGATCAAGGTTTTCCAAGAAAATTCCATAA
AAAGATCAAAACTTTCAAAAAGGCAAATTGGTCATTTCACACTATTCCAGTTGCACTCAGAGCCT
CATTTTCTATTAGATTCATCATGAACCATTGATCATTTAAAGGCCTAGATCTAAGTTTGAAAGGT
GATTGCTTGCAAAATAAACCAAGGGGGAATACTAGCTTTAGGATGCATTTTTTATCAAGGGCCTT
CATGCATTTGCATGGCATATATATTCATAATTTAGGCTGAAAGAAGGGAACAGGTAGCCTTGAAA
GTGGTGTGGAAATGAGGAAAAAGGAAGAAAAAATAAAAAATTTTGGGAAAGCTTTGTGGAGGTAT
AATTTTTACTATTTCTTATTGCATTCATACCATTTCATATCATTTTCCATAGTTTTCATATTGTT
TATCCATTAATTTTTCTTTTTTTTTTTGTGAGAAAACAACTTCCTCTATAGTTGTTTGCCTCCAT
AAC
Found at i:13905200 original size:32 final size:32
Alignment explanation
Indices: 13905144--13905205 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
13905134 CCCTAAATTA
* *
13905144 AAACCCTAAAACCTAACCATAAATCCTAAACC
1 AAACCCTAAAACCTAACCACAAATCATAAACC
*
13905176 AAACCCT-AAACCTTAACCCCAAATCATAAA
1 AAACCCTAAAACC-TAACCACAAATCATAAA
13905206 ACATACACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (32 bp):
AAACCCTAAAACCTAACCACAAATCATAAACC
Found at i:13909894 original size:61 final size:62
Alignment explanation
Indices: 13909821--13909938 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
13909811 GAAGGCAATT
* * * * *
13909821 AAAAAACGCCTTCAATAAT-CCCT-TCATTTTTTATGAGAGGATTATTGAAGGTGTTTTGTGC
1 AAAAAACGCCTTCAATAATCCCCTCTAACTTTTTATAAG-GGATTATTAAAGGCGTTTTGTGC
*
13909882 AAAAAATGCCTTCAATAATCCCCTCTAACTTTTTATAAGGGATTATTAAAGGCGTTT
1 AAAAAACGCCTTCAATAATCCCCTCTAACTTTTTATAAGGGATTATTAAAGGCGTTT
13909939 CAGGAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
61 18 0.37
62 20 0.41
63 11 0.22
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (62 bp):
AAAAAACGCCTTCAATAATCCCCTCTAACTTTTTATAAGGGATTATTAAAGGCGTTTTGTGC
Found at i:13909947 original size:61 final size:62
Alignment explanation
Indices: 13909821--13909963 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 62
13909811 GAAGGCAATT
* * * * * * * *
13909821 AAAAAACGCCTTCAATAAT-CCCTTCATTTTTTATGAGAGGATTATTGAAGGTGTTTTGTGC
1 AAAAAATGCCTTCAATAATCCCCTTAACTTTTTATAAGAGGATTATTAAAGGCGTTTAGTGA
13909882 AAAAAATGCCTTCAATAATCCCCTCTAACTTTTTATAAG-GGATTATTAAAGGCGTTTCAG-GA
1 AAAAAATGCCTTCAATAATCCCCT-TAACTTTTTATAAGAGGATTATTAAAGGCGTTT-AGTGA
* *
13909944 AAAAAATGCTTTGAATAATC
1 AAAAAATGCCTTCAATAATC
13909964 TACTCATAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
61 18 0.26
62 39 0.57
63 12 0.17
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (62 bp):
AAAAAATGCCTTCAATAATCCCCTTAACTTTTTATAAGAGGATTATTAAAGGCGTTTAGTGA
Found at i:13911094 original size:20 final size:20
Alignment explanation
Indices: 13911069--13911162 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
13911059 TAATCCAAAA
13911069 CCAAACCCTAAACCTTAACC
1 CCAAACCCTAAACCTTAACC
* * *
13911089 CCAAACCCTAAAACATAA-A
1 CCAAACCCTAAACCTTAACC
13911108 CCATAACCCTAAACC--AGACC
1 CCA-AACCCTAAACCTTA-ACC
* ** *
13911128 CTAAAATCTAAACTTTAACC
1 CCAAACCCTAAACCTTAACC
*
13911148 CTAAACCCTAAACCT
1 CCAAACCCTAAACCT
13911163 AAATTGAAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.02
19 12 0.21
20 43 0.75
21 1 0.02
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (20 bp):
CCAAACCCTAAACCTTAACC
Found at i:13911122 original size:7 final size:7
Alignment explanation
Indices: 13911071--13911211 Score: 77
Period size: 7 Copynumber: 21.3 Consensus size: 7
13911061 ATCCAAAACC
13911071 AAACCCT
1 AAACCCT
13911078 AAA-CCT
1 AAACCCT
* *
13911084 TAACCCC
1 AAACCCT
13911091 AAACCCT
1 AAACCCT
* *
13911098 AAAACAT
1 AAACCCT
*
13911105 AAACCAT
1 AAACCCT
13911112 -AACCCT
1 AAACCCT
13911118 AAA-CC-
1 AAACCCT
*
13911123 AGACCCT
1 AAACCCT
**
13911130 AAAATCT
1 AAACCCT
*
13911137 AAA-CTT
1 AAACCCT
*
13911143 TAACCCT
1 AAACCCT
13911150 AAACCCT
1 AAACCCT
13911157 AAA-CCT
1 AAACCCT
*
13911163 AAA--TT
1 AAACCCT
*
13911168 GAAACCTT
1 -AAACCCT
*
13911176 AAACCAT
1 AAACCCT
13911183 AAACCCT
1 AAACCCT
13911190 AAA--CT
1 AAACCCT
13911195 AAAACCCT
1 -AAACCCT
13911203 AAACCCT
1 AAACCCT
13911210 AA
1 AA
13911212 CCAAACCATA
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
5 5 0.05
6 29 0.28
7 65 0.63
8 4 0.04
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:13911123 original size:13 final size:13
Alignment explanation
Indices: 13911052--13911222 Score: 76
Period size: 13 Copynumber: 13.8 Consensus size: 13
13911042 TTTTTAGTGA
*
13911052 TAAACCATAATCC
1 TAAACCATAACCC
*
13911065 AAAACCA-AACCC
1 TAAACCATAACCC
*
13911077 TAAACCTTAACCC
1 TAAACCATAACCC
* * * *
13911090 CAAACCCTAAAACA
1 TAAACCAT-AACCC
13911104 TAAACCATAACCC
1 TAAACCATAACCC
*
13911117 TAAACCA-GACCC
1 TAAACCATAACCC
13911129 TAAA--AT----C
1 TAAACCATAACCC
**
13911136 TAAACTTTAACCC
1 TAAACCATAACCC
* *
13911149 TAAACCCTAAACC
1 TAAACCATAACCC
** *
13911162 TAAATTGA-AACCT
1 TAAA-CCATAACCC
13911175 TAAACCATAAACCC
1 TAAACCAT-AACCC
* *
13911189 TAAACTAAAACCC
1 TAAACCATAACCC
*
13911202 TAAACCCTAA-CC
1 TAAACCATAACCC
13911214 -AAACCATAA
1 TAAACCATAA
13911223 AACTTAAACC
Statistics
Matches: 115, Mismatches: 31, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
7 5 0.04
9 1 0.01
10 1 0.01
11 8 0.07
12 20 0.17
13 61 0.53
14 19 0.17
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (13 bp):
TAAACCATAACCC
Found at i:13911129 original size:32 final size:32
Alignment explanation
Indices: 13911093--13911154 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
13911083 TTAACCCCAA
13911093 ACCCTAAAA-CATAAACCATAACCCTAAACCAG
1 ACCCTAAAATC-TAAACCATAACCCTAAACCAG
**
13911125 ACCCTAAAATCTAAACTTTAACCCTAAACC
1 ACCCTAAAATCTAAACCATAACCCTAAACC
13911155 CTAAACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.18
Consensus pattern (32 bp):
ACCCTAAAATCTAAACCATAACCCTAAACCAG
Found at i:13911139 original size:39 final size:38
Alignment explanation
Indices: 13911066--13911164 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 38
13911056 CCATAATCCA
*
13911066 AAACCA-AACCCTAAACCTTAACCCCAAACCCTAAAACAT
1 AAACCATAACCCTAAACC-TAACCCCAAAACCT-AAACAT
* * *
13911105 AAACCATAACCCTAAACC-AGACCCTAAAATCTAAACTT
1 AAACCATAACCCTAAACCTA-ACCCCAAAACCTAAACAT
* *
13911143 TAACCCTAAACCCTAAACCTAA
1 AAACCAT-AACCCTAAACCTAA
13911165 ATTGAAACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
38 11 0.22
39 27 0.54
40 12 0.24
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.16
Consensus pattern (38 bp):
AAACCATAACCCTAAACCTAACCCCAAAACCTAAACAT
Found at i:13911199 original size:20 final size:18
Alignment explanation
Indices: 13911176--13911223 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
13911166 TTGAAACCTT
13911176 AAACCATAAACCCTAAACTA
1 AAACCATAAACCCT-AAC-A
* *
13911196 AAACCCTAAACCCTAACC
1 AAACCATAAACCCTAACA
13911214 AAACCATAAA
1 AAACCATAAA
13911224 ACTTAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 3 0.12
20 13 0.52
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (18 bp):
AAACCATAAACCCTAACA
Found at i:13911241 original size:13 final size:13
Alignment explanation
Indices: 13911169--13911246 Score: 58
Period size: 13 Copynumber: 6.1 Consensus size: 13
13911159 ACCTAAATTG
13911169 AAACCTTAAACCAT
1 AAACCTTAAACC-T
*
13911183 AAACCCTAAA-CT
1 AAACCTTAAACCT
*
13911195 AAAACCCTAAACCCT
1 -AAACCTTAAA-CCT
13911210 -AACC--AAACCAT
1 AAACCTTAAACC-T
*
13911221 AAAACTTAAACCT
1 AAACCTTAAACCT
13911234 AAACCTT-AACCT
1 AAACCTTAAACCT
13911246 A
1 A
13911247 GATCCAAACC
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 10 0.19
13 22 0.41
14 14 0.26
15 2 0.04
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCTTAAACCT
Found at i:13915923 original size:15 final size:16
Alignment explanation
Indices: 13915895--13915924 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13915885 TTTTTCACCA
13915895 TTTTTTTCTCTTTTCT
1 TTTTTTTCTCTTTTCT
13915911 TTTTTTTCT-TTTTC
1 TTTTTTTCTCTTTTC
13915925 AAATTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTCTCTTTTCT
Found at i:13925987 original size:37 final size:37
Alignment explanation
Indices: 13925921--13926048 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 37
13925911 TGACACTACC
* * * *
13925921 ATTAAGACATGCGTAAGATGGAATACATGTACTATCT
1 ATTAAGATATGCATGAGATAGAATACATGTACTATCT
* * *
13925958 ATTAAGATATGCATGATATAGAATGCATGTACTACCT
1 ATTAAGATATGCATGAGATAGAATACATGTACTATCT
* * * ** *
13925995 AATTAAGATGTGCATGAGATAAAATATACATATTATCT
1 -ATTAAGATATGCATGAGATAGAATACATGTACTATCT
*
13926033 ATTAATATATGCATGA
1 ATTAAGATATGCATGA
13926049 AACGAAGTGC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
37 44 0.61
38 28 0.39
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (37 bp):
ATTAAGATATGCATGAGATAGAATACATGTACTATCT
Found at i:13931040 original size:29 final size:30
Alignment explanation
Indices: 13931004--13931083 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
13930994 CTTTCTCATC
13931004 CTTT-CTCTTTCTCTTTTCTTA-TTTTCTGT
1 CTTTCCTCTTTCTCTTTTCTTATTTTTCT-T
*
13931033 -TTTCCTCTTTCTCTTATCTTATTTTTCTT
1 CTTTCCTCTTTCTCTTTTCTTATTTTTCTT
13931062 CTTTCCTCTCCTT-TCTTTTCTT
1 CTTTCCTCT--TTCTCTTTTCTT
13931084 CCAGCGGTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 3 0.07
29 17 0.39
30 14 0.32
31 8 0.18
32 2 0.05
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.68
Consensus pattern (30 bp):
CTTTCCTCTTTCTCTTTTCTTATTTTTCTT
Found at i:13931058 original size:23 final size:24
Alignment explanation
Indices: 13931014--13931066 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
13931004 CTTTCTCTTT
* *
13931014 CTCTTT-TCTTATTTTCTGTTTTC
1 CTCTTTCTCTTATCTTATGTTTTC
13931037 CTCTTTCTCTTATCTTAT-TTTTC
1 CTCTTTCTCTTATCTTATGTTTTC
*
13931060 TTCTTTC
1 CTCTTTC
13931067 CTCTCCTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.68
Consensus pattern (24 bp):
CTCTTTCTCTTATCTTATGTTTTC
Found at i:13934299 original size:10 final size:11
Alignment explanation
Indices: 13934262--13934315 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
13934252 TAGTCTAATC
*
13934262 TATTTAAAT-A
1 TATTAAAATAA
*
13934272 TATTAAAATTA
1 TATTAAAATAA
13934283 TATTAAAATAA
1 TATTAAAATAA
13934294 TA-TAAAA-AA
1 TATTAAAATAA
*
13934303 TTTTCAAAATAA
1 TATT-AAAATAA
13934315 T
1 T
13934316 TTTTAAGATC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.08
10 14 0.38
11 17 0.46
12 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TATTAAAATAA
Found at i:13934491 original size:24 final size:24
Alignment explanation
Indices: 13934459--13934532 Score: 130
Period size: 24 Copynumber: 3.1 Consensus size: 24
13934449 CAAATCGAAT
13934459 TGTTATCACCCCTATAACCTTGGG
1 TGTTATCACCCCTATAACCTTGGG
13934483 TGTTATCACCCCTATAACCTTGGG
1 TGTTATCACCCCTATAACCTTGGG
* *
13934507 TGTTATCACCCCTATTACTTTGGG
1 TGTTATCACCCCTATAACCTTGGG
13934531 TG
1 TG
13934533 GATTCCTCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (24 bp):
TGTTATCACCCCTATAACCTTGGG
Found at i:13943935 original size:38 final size:38
Alignment explanation
Indices: 13943884--13943961 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
13943874 GTTATGTTGT
* * *
13943884 ATTGGATTAGGATGCATAAATTGAGGGGGAGTTTTGCC
1 ATTGGATTAGGATGCACAAATTGAAGGAGAGTTTTGCC
13943922 ATTGGATTAGGATGCACAAATTGAAGGAGAGTTTTGCC
1 ATTGGATTAGGATGCACAAATTGAAGGAGAGTTTTGCC
13943960 AT
1 AT
13943962 GCATTGTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (38 bp):
ATTGGATTAGGATGCACAAATTGAAGGAGAGTTTTGCC
Found at i:13944879 original size:20 final size:21
Alignment explanation
Indices: 13944856--13944909 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
13944846 TTTCCTAGAA
13944856 AAGGGATCGATCCCCTA-CGT
1 AAGGGATCGATCCCCTATCGT
* * *
13944876 AAGGGATCAATCACCTATGGT
1 AAGGGATCGATCCCCTATCGT
13944897 AAGGGATCGATCC
1 AAGGGATCGATCC
13944910 TCTCTTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (21 bp):
AAGGGATCGATCCCCTATCGT
Found at i:13948915 original size:14 final size:15
Alignment explanation
Indices: 13948889--13948930 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
13948879 GTGAAAGCTA
13948889 AAAAAATGTAAAGTGC
1 AAAAAA-GTAAAGTGC
13948905 AAAAAAG-AAAGTGC
1 AAAAAAGTAAAGTGC
*
13948919 AAGAAAGTAAAG
1 AAAAAAGTAAAG
13948931 AAAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 13 0.54
15 5 0.21
16 6 0.25
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.12
Consensus pattern (15 bp):
AAAAAAGTAAAGTGC
Found at i:13957468 original size:144 final size:143
Alignment explanation
Indices: 13957266--13957538 Score: 368
Period size: 144 Copynumber: 1.9 Consensus size: 143
13957256 CGCTTTTGAT
* * *
13957266 ATGTGTAAAAAGTTGTGGTTTATGTTTGTTTAGGACTTTTTGTGCCGTTAAAAGGTAAAAAAGCA
1 ATGTGTAAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAAAGCA
* *** * * * *
13957331 AGTT-TGCAATTATTGTTTTGTTTTAATTGTTTAGATAGCTTCAATACATGATATTAAACTTGTC
66 A-TTATGCAATTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
13957395 TGATTTCACTATTG
130 TGATTTCACTATTG
* * ** *
13957409 ATGTGTAAAAAAGTTATGGTTTATGTTTGTTTATAACTTTTTGTGCCATTAAAGGGTAAAATTGT
1 ATGTGT-AAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAAAGC
*
13957474 AATTATGCAGTTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
65 AATTATGCAATTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
13957539 CAAATGATTA
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
143 8 0.07
144 103 0.93
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (143 bp):
ATGTGTAAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAAAGCA
ATTATGCAATTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTCT
GATTTCACTATTG
Found at i:13957696 original size:161 final size:159
Alignment explanation
Indices: 13957481--13957944 Score: 459
Period size: 161 Copynumber: 2.9 Consensus size: 159
13957471 TGTAATTATG
* * * * *
13957481 CAGTTATTGCTT-TGTTTTAACAATTTAGATAGCC-TAAATAAATGATACTAAACTTGTCCAAAT
1 CAGTTATTG-TTATATTTTAACAA-TTAAATA-CCTTCAATATATGATATTAAACTTGTCCAAAT
* * * * * * *
13957544 GATTAAACATAGTTTCCATAATTGATATGTGTGAAAAAGTTACAGTTTATGTCTATTTAGGACTT
63 AATTGAACTTGGTTTCCATAATTGATATGTATGAAAAAGTTA-AGTTTATGTCTGTTTAAGACTT
*
13957609 TTTATGCTGTTAAAAGAAAAAAATGCAAATTTA
127 TTTATGCTATTAAAAGAAAAAAATGCAAATTTA
* * * * * *
13957642 TAGTTATTGTTATATTTTAACAGTTTAAATACCTTCAGTATCTGATATTAAACTTGTCCCAATTA
1 CAGTTATTGTTATATTTTAACA-ATTAAATACCTTCAATATATGATATTAAACTTGTCCAAATAA
*** * * * * **
13957707 TTGAACTTGGTTTCCACGGTTGATATGCATGAAAAAGTTATGGTTTATATTTGTTTAAGAAATTT
65 TTGAACTTGGTTTCCATAATTGATATGTATGAAAAAGTTA-AGTTTATGTCTGTTTAAGACTTTT
* ** * *
13957772 TCTGCTATTAAAAGGCAAAATTGCAAGTTTA
129 TATGCTATTAAAAGAAAAAAATGCAAATTTA
* * * * **
13957803 CAGTTATTGTTCTATTTTAACAATTAGATAGCTTCAATATATGATATTAAACTTATCTGAATAAT
1 CAGTTATTGTTATATTTTAACAATTAAATACCTTCAATATATGATATTAAACTTGTCCAAATAAT
* *
13957868 TGAACTTGGTTT-C-TACATTGATATGTTTGAAAAAGTTATGATTTATGTCTGTTTAAGACTTTT
66 TGAACTTGGTTTCCATA-ATTGATATGTATGAAAAAGTTAAG-TTTATGTCTGTTTAAGACTTTT
13957931 TATGCTATTAAAAG
129 TATGCTATTAAAAG
13957945 GCAAATTATA
Statistics
Matches: 243, Mismatches: 55, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
158 1 0.00
159 51 0.21
160 50 0.21
161 141 0.58
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (159 bp):
CAGTTATTGTTATATTTTAACAATTAAATACCTTCAATATATGATATTAAACTTGTCCAAATAAT
TGAACTTGGTTTCCATAATTGATATGTATGAAAAAGTTAAGTTTATGTCTGTTTAAGACTTTTTA
TGCTATTAAAAGAAAAAAATGCAAATTTA
Found at i:13958131 original size:480 final size:481
Alignment explanation
Indices: 13957409--13958471 Score: 1038
Period size: 480 Copynumber: 2.2 Consensus size: 481
13957399 TTCACTATTG
* * * * * *
13957409 ATGTGTAAAAAAGTTATGGTTTATGTTTGTTTATAACTTTTTGTGCCATTAAAGGGTAAAATTGT
1 ATGTGTGAAAAAGTTATGATTTATGTCTGTTTATAACTTTTTATGCCATTAAAAGGTAAAATTAT
*
13957474 AATTATGCAGTTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
66 AATTATGCAGTTACTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
* * * *
13957539 CAAATGATTAAACATAGTTTCCATAATTGATATGTGTGAAAAAGTTACAGTTTATGTCTATTTAG
131 CAAATAATTAAACATAATTTCCATAATTGATATGTGTGAAAAAATTACAGTTTATATCTATTTAG
* *
13957604 GACTTTTTATGCTGTTAAAAGAAAAAAATGCAAATTTATAGTTATTGTTATATTTTAACAGTTTA
196 GACTTTTTATGCTGATAAAAGAAAAAAATGCAAATTTAGAGTTATTGTTATATTTTAACAGTTTA
* * * * *
13957669 AATACCTTCAGTATCTGATATTAAACTTGTCCCAATTATTGAACTTGGTTTCCACGGTTGATATG
261 AATACCTTCAATATATGATATTAAACTTGTCCCAATGATTGAACTT-G-TCCCACAGTTGATATG
* * * * * *
13957734 CATGAAAAAGTT-ATGGTTTATATTTGTTTAAGAAATTTTCTGCTATTAAAAGGCAAAATTGCAA
324 CATGAAAAAATTGAT-ATTTATATCTGTTTAAGAAATTTTCTGCCATTAAAAGGCAAAAATACAA
* **
13957798 GTTTACAGTTAT-TGTTCTATTTTAACA-ATTAGATAGCTTCAATATATGATATTAAACTTATCT
388 GTTTACAGTTATAT-TTCTATTTTAACAGATTAGATAGCTTCAATACATGATACCAAACTTATCT
*
13957861 GAATAATTGAACTTGGTTTCTA-CATTGAT
452 GAATAATTAAACTTGGTTTCTATCATTGAT
* * *
13957890 ATGTTTGAAAAAGTTATGATTTATGTCTGTTTA-AGACTTTTTATGCTATTAAAAGG-CAAATTA
1 ATGTGTGAAAAAGTTATGATTTATGTCTGTTTATA-ACTTTTTATGCCATTAAAAGGTAAAATTA
* * * * * *
13957953 TAATTATGCCGTTACTGTTTTGTTTTAACAGTTTAGATAGCCTAAATACATGATATTAATA-TTT
65 TAATTATGCAGTTACTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAA-ACTTG
*** * * * * * * * * * * *
13958017 TTTGAATAATTTAACCTAATTTCTATTATTGGTATTTTTGAAAAAATTA-TGTTTTCTATTTGTT
129 TCCAAATAATTAAACATAATTTCCATAATTGATATGTGTGAAAAAATTACAG-TTTATATCTATT
* * ** * * * * *
13958081 TAGGATTTTTTGTG-TCGATAAAAGGCAAAAATGTAAATTT-GCGATTATTGTTTTGTTTTAAGA
193 TAGGACTTTTTATGCT-GATAAAAGAAAAAAATGCAAATTTAGAG-TTATTGTTATATTTTAACA
* * ** *
13958144 GTTTAAATAGCTTTAATATATGATATTAAACTTGTCTGAATGATTGAACTTGTCCCACAGTTGCT
256 GTTTAAATACCTTCAATATATGATATTAAACTTGTCCCAATGATTGAACTTGTCCCACAGTTGAT
** * * * ** * * * *
13958209 ATGTTTGAAAAAATTGCTATTTATGTCTGTTTATGACTTTTTGTGCCATTAAAGGGGAAAAATAT
321 ATGCATGAAAAAATTGATATTTATATCTGTTTAAGAAATTTTCTGCCATTAAAAGGCAAAAATAC
* * * * * * * *
13958274 AATTTTGCAGTTATATTTCTATTTTGACAGTTTAGATTGCTTTAATACATGATACCAAACTTGTT
386 AAGTTTACAGTTATATTTCTATTTTAACAGATTAGATAGCTTCAATACATGATACCAAACTTATC
* *
13958339 TGAATGATTAAACTTGGTTTCTATGATTGAT
451 TGAATAATTAAACTTGGTTTCTATCATTGAT
** * * ** *
13958370 ATGTGTGAAAAAGTTACCATTTATATCTATTTAGGA-TTTTT-TGCGACATCAAAAGGTAAAAAT
1 ATGTGTGAAAAAGTTATGATTTATGTCTGTTTATAACTTTTTATGC--CATTAAAAGGT-AAAAT
* ** *
13958433 GTA-AATT-TGCAATTGTTGTTTTGTTTTAACAATTTAGAT
63 -TATAATTATGCAGTTACTGCTTTGTTTTAACAATTTAGAT
13958472 GGCTCCAATA
Statistics
Matches: 467, Mismatches: 100, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
478 83 0.18
479 59 0.13
480 240 0.51
481 75 0.16
482 8 0.02
483 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (481 bp):
ATGTGTGAAAAAGTTATGATTTATGTCTGTTTATAACTTTTTATGCCATTAAAAGGTAAAATTAT
AATTATGCAGTTACTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTC
CAAATAATTAAACATAATTTCCATAATTGATATGTGTGAAAAAATTACAGTTTATATCTATTTAG
GACTTTTTATGCTGATAAAAGAAAAAAATGCAAATTTAGAGTTATTGTTATATTTTAACAGTTTA
AATACCTTCAATATATGATATTAAACTTGTCCCAATGATTGAACTTGTCCCACAGTTGATATGCA
TGAAAAAATTGATATTTATATCTGTTTAAGAAATTTTCTGCCATTAAAAGGCAAAAATACAAGTT
TACAGTTATATTTCTATTTTAACAGATTAGATAGCTTCAATACATGATACCAAACTTATCTGAAT
AATTAAACTTGGTTTCTATCATTGAT
Found at i:13958164 original size:320 final size:320
Alignment explanation
Indices: 13957781--13958504 Score: 796
Period size: 320 Copynumber: 2.3 Consensus size: 320
13957771 TTCTGCTATT
* * * * * * * *
13957781 AAAAGGCAAAATTGCAAGTTTACAGTTATTGTTCTATTTTAACAA-TTAGATAGCTTCAATATAT
1 AAAAGGCAAAAATGTAAATTTGCAATTATTGTTTTGTTTTAACAATTTAAATAGCTTCAATATAT
* * *
13957845 GATATTAAACTTATCTGAATAATTGAACTTGGTTTCTACA-TTGATATGTTTGAAAAAGTT-ATG
66 GATATTAAACTTATCTGAATAATTGAACTT-G-TCCCACAGTTGATATGTTTGAAAAAATTGAT-
* * * * *
13957908 ATTTATGTCTGTTTAAGACTTTTTATGCTATTAAA-AGGCAAATTATAATTATGCCGTTACTGTT
128 ATTTATGTCTGTTTAAGACTTTTTATGCCATTAAAGAGGAAAAATATAATTATGCAGTTA-TATT
* ** * *
13957972 T-TGTTTTAACAGTTTAGATAGCCTAAATACATGATATTAATA-TTTTTTGAATAATTTAACCTA
192 TCTATTTTAACAGTTTAGATAGCCTAAATACATGATACCAA-ACTTGTTTGAATAATTAAACCTA
* * * * *** * * * * *
13958035 ATTTCTATTATTGGTATTTTTGAAAAAATTATGTTTTCTATTTGTTTAGGATTTTTTGTGTCGAT
256 ATTTCTATGATTGATATGTGTGAAAAAATTACCATTTATATCTATTTAGGATTTTTTGCGAC-AT
13958100 -
320 C
* * * *
13958100 AAAAGGCAAAAATGTAAATTTGCGATTATTGTTTTGTTTTAAGAGTTTAAATAGCTTTAATATAT
1 AAAAGGCAAAAATGTAAATTTGCAATTATTGTTTTGTTTTAACAATTTAAATAGCTTCAATATAT
* * * *
13958165 GATATTAAACTTGTCTGAATGATTGAACTTGTCCCACAGTTGCTATGTTTGAAAAAATTGCTATT
66 GATATTAAACTTATCTGAATAATTGAACTTGTCCCACAGTTGATATGTTTGAAAAAATTGATATT
* * * *
13958230 TATGTCTGTTTATGACTTTTTGTGCCATTAAAGGGGAAAAATATAATTTTGCAGTTATATTTCTA
131 TATGTCTGTTTAAGACTTTTTATGCCATTAAAGAGGAAAAATATAATTATGCAGTTATATTTCTA
* * * * * * **
13958295 TTTTGACAGTTTAGATTGCTTTAATACATGATACCAAACTTGTTTGAATGATTAAACTTGGTTTC
196 TTTTAACAGTTTAGATAGCCTAAATACATGATACCAAACTTGTTTGAATAATTAAACCTAATTTC
*
13958360 TATGATTGATATGTGTGAAAAAGTTACCATTTATATCTATTTAGGATTTTTTGCGACATC
261 TATGATTGATATGTGTGAAAAAATTACCATTTATATCTATTTAGGATTTTTTGCGACATC
* * * * * *
13958420 AAAAGGTAAAAATGTAAATTTGCAATTGTTGTTTTGTTTTAACAATTTAGATGGCTCCAATACAT
1 AAAAGGCAAAAATGTAAATTTGCAATTATTGTTTTGTTTTAACAATTTAAATAGCTTCAATATAT
*
13958485 GATATTAAACTTATCAGAAT
66 GATATTAAACTTATCTGAAT
13958505 GTTTACACAT
Statistics
Matches: 332, Mismatches: 66, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
318 5 0.02
319 93 0.28
320 234 0.70
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (320 bp):
AAAAGGCAAAAATGTAAATTTGCAATTATTGTTTTGTTTTAACAATTTAAATAGCTTCAATATAT
GATATTAAACTTATCTGAATAATTGAACTTGTCCCACAGTTGATATGTTTGAAAAAATTGATATT
TATGTCTGTTTAAGACTTTTTATGCCATTAAAGAGGAAAAATATAATTATGCAGTTATATTTCTA
TTTTAACAGTTTAGATAGCCTAAATACATGATACCAAACTTGTTTGAATAATTAAACCTAATTTC
TATGATTGATATGTGTGAAAAAATTACCATTTATATCTATTTAGGATTTTTTGCGACATC
Found at i:13958170 original size:161 final size:159
Alignment explanation
Indices: 13957415--13958504 Score: 444
Period size: 161 Copynumber: 6.8 Consensus size: 159
13957405 ATTGATGTGT
* * * * * * * *
13957415 AAAAAAGTTATGGTTTATGTTTGTTTATA-ACTTTTTGTGCCATTAAAGGGTAAAATTGTAATTA
1 AAAAAA-TTATGATTTATATCTGTTTA-AGACTTTTTATGCGATTAAAAGG-CAAATTATAATTA
* * * * * * * * * **
13957479 TGCAGTTATTGCTTTGTTTTAACAATTTAGATAGCCTAAATAAATGATACTAAACTTGTCCAAAT
63 TGCCGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGAAT
* * * * *
13957544 GATTAAACATAGTTTCCATA-ATTGATATGTGTG
128 AATTGAACCTAATTT-C-TACATTGATATGTTTG
* * * * * * **
13957577 AAAAAGTTA-CAGTTTATGTCTATTTAGGACTTTTTATGCTG-TTAAAA-GAAAAAAATGCAAAT
1 AAAAAATTATGA-TTTATATCTGTTTAAGACTTTTTATGC-GATTAAAAGGCAAATTAT---AA-
* * * * * * * * * **
13957639 TTAT--AGTTATTGTTATATTTTAACAGTTTAAATACCTTCAGTATCTGATATTAAACTTGTCCC
60 TTATGCCGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTG
* * ** * * **
13957702 AATTATTGAACTTGGTTTCCACGGTTGATATGCATG
125 AATAATTGAACCTAATTTCTAC-ATTGATATGTTTG
* * * ** * * **
13957738 AAAAAGTTATGGTTTATATTTGTTTAAGAAATTTTCTGCTATTAAAAGGCAAAATTGCAAGTT-T
1 AAAAAATTATGATTTATATCTGTTTAAGACTTTTTATGCGATTAAAAGGC-AAATTATAA-TTAT
* * * * * * * *
13957802 ACAGTTATTGTTCTATTTTAACA-ATTAGATAGCTTCAATATATGATATTAAACTTATCTGAATA
64 GCCGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGAATA
* **
13957866 ATTGAACTTGGTTTCTACATTGATATGTTTG
129 ATTGAACCTAATTTCTACATTGATATGTTTG
* * *
13957897 AAAAAGTTATGATTTATGTCTGTTTAAGACTTTTTATGCTATTAAAAGGCAAATTATAATTATGC
1 AAAAAATTATGATTTATATCTGTTTAAGACTTTTTATGCGATTAAAAGGCAAATTATAATTATGC
* * * * *
13957962 CGTTACTGTTTTGTTTTAACAGTTTAGATAGCCTAAATACATGATATTAATA-TTTTTTGAATAA
66 CGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAA-ACTTATCTGAATAA
* * * *
13958026 TTTAACCTAATTTCTATTATTGGTATTTTTG
130 TTGAACCTAATTTCTA-CATTGATATGTTTG
* * * * * *
13958057 AAAAAATTATGTTTTCTATTTGTTTAGGATTTTTTGTGTCGA-TAAAAGGCAAAAATGTA-AATT
1 AAAAAATTATGATTTATATCTGTTTAAGACTTTTTATG-CGATTAAAAGGC--AAAT-TATAATT
* * * *
13958120 -TG-CGATTATTGTTTTGTTTTAAGAGTTTAAATAGCTTTAATATATGATATTAAACTTGTCTGA
62 ATGCCG-TTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGA
* * * *
13958183 ATGATTGAA-CT--TGTCCCACAGTTGCTATGTTTG
126 ATAATTGAACCTAAT-TTCTACA-TTGATATGTTTG
* * * * * * * * *
13958216 AAAAAATTGCT-ATTTATGTCTGTTTATGACTTTTTGTGCCATTAAAGGGGAAAAATATAATTTT
1 AAAAAATT-ATGATTTATATCTGTTTAAGACTTTTTATGCGATTAAA-AGGCAAATTATAATTAT
* * * * * * * * ** * *
13958280 GCAGTTA-TATTTCTATTTTGACAGTTTAGATTGCTTTAATACATGATACCAAACTTGTTTGAAT
64 GCCGTTACTGTTT-TGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGAAT
* * * ** * *
13958344 GATTAAACTTGGTTTCTATGATTGATATGTGTG
128 AATTGAACCTAATTTCTA-CATTGATATGTTTG
* ** * * * *
13958377 AAAAAGTTACCATTTATATCTATTTAGGA-TTTTT-TGCGACATCAAAAGGTAAAAATGTA-AAT
1 AAAAAATTATGATTTATATCTGTTTAAGACTTTTTATGCG--ATTAAAAGG--CAAAT-TATAAT
** ** * * * ** * *
13958439 T-TGCAATTGTTGTTTTGTTTTAACAATTTAGATGGCTCCAATACATGATATTAAACTTATCAGA
61 TATGCCGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGA
13958503 AT
126 AT
13958505 GTTTACACAT
Statistics
Matches: 717, Mismatches: 166, Indels: 91
0.74 0.17 0.09
Matches are distributed among these distances:
157 4 0.01
158 41 0.06
159 209 0.29
160 122 0.17
161 300 0.42
162 30 0.04
163 11 0.02
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (159 bp):
AAAAAATTATGATTTATATCTGTTTAAGACTTTTTATGCGATTAAAAGGCAAATTATAATTATGC
CGTTACTGTTTTGTTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTATCTGAATAAT
TGAACCTAATTTCTACATTGATATGTTTG
Found at i:13963490 original size:21 final size:21
Alignment explanation
Indices: 13963456--13963498 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13963446 TAATTTAGTG
13963456 ATGTTGATACTC-AAGTTGATA
1 ATGTTGATACTCAAAG-TGATA
**
13963477 ATGTTGATGTTCAAAGTGATA
1 ATGTTGATACTCAAAGTGATA
13963498 A
1 A
13963499 GAAGGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (21 bp):
ATGTTGATACTCAAAGTGATA
Found at i:13964193 original size:19 final size:19
Alignment explanation
Indices: 13964169--13964205 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13964159 GAAGTAAAAA
13964169 TTGATGGATAAATTAATTG
1 TTGATGGATAAATTAATTG
*
13964188 TTGATGGATCAATTAATT
1 TTGATGGATAAATTAATT
13964206 ATCAATGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (19 bp):
TTGATGGATAAATTAATTG
Found at i:13964213 original size:19 final size:19
Alignment explanation
Indices: 13964172--13964215 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13964162 GTAAAAATTG
* **
13964172 ATGGATAAATTAATTGTTG
1 ATGGATAAATTAATTATCA
*
13964191 ATGGATCAATTAATTATCA
1 ATGGATAAATTAATTATCA
13964210 ATGGAT
1 ATGGAT
13964216 GTATCCTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (19 bp):
ATGGATAAATTAATTATCA
Found at i:13966511 original size:93 final size:94
Alignment explanation
Indices: 13966296--13966537 Score: 285
Period size: 93 Copynumber: 2.6 Consensus size: 94
13966286 CTGCACATCT
* * * *
13966296 TGAATCCCACATC-GCTTAACAACTAATAA-AAGGGATAGGTAAAGCCTATAAATTCTCATCCTC
1 TGAATCCCACATCAG-TTAAGAACTAA-AACAAAGGATGGGTAAAGCCTATAAATTCCCATCCTC
13966359 TTTCATTACTATACATATGTGCATAAATAAA
64 TTTCATTACTATACATATGTGCATAAATAAA
* * *
13966390 TGAATCCTACATCACTTAAGAACTAAAACAAAGGATGGGTAAAGCCTATATATTCCCATCCTCTT
1 TGAATCCCACATCAGTTAAGAACTAAAACAAAGGATGGGTAAAGCCTATAAATTCCCATCCTCTT
* * * * ***
13966455 T-TTTCCT-TGACATTTGTTCATGTTTAAA
66 TCATTACTAT-ACATATGTGCATAAATAAA
* *
13966483 TGAATCCCACATCAGTTAAGAACCAAAACAAAGGATGGGTAAAGCTTATAAATTC
1 TGAATCCCACATCAGTTAAGAACTAAAACAAAGGATGGGTAAAGCCTATAAATTC
13966538 TGACCCTCTA
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 70 0.56
94 55 0.44
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (94 bp):
TGAATCCCACATCAGTTAAGAACTAAAACAAAGGATGGGTAAAGCCTATAAATTCCCATCCTCTT
TCATTACTATACATATGTGCATAAATAAA
Found at i:13968473 original size:161 final size:161
Alignment explanation
Indices: 13968187--13969600 Score: 1158
Period size: 161 Copynumber: 8.8 Consensus size: 161
13968177 GCAAAGTTAT
* * * * * * **
13968187 AATTATGCAATTATTATTCTATTTTAACAATTTAGATAG-TTTAAAATCAAAATATTAAACTTGT
1 AATT-TGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATA-CATGATATTAAACTTGT
** * * * *
13968251 CCAAATGATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTATGGTTTATGTTTGTTTA
64 CCAAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTTA
* *
13968316 AGACTTTTTGTGCCGTTAAAAGGTAAAAAAGCA
129 AGACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * * *
13968349 ATTTTACAGTAATTGTTTTGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCT
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* * * * * *
13968414 AAATGATTGAACTTAGTTTTCATGGTTGATATGCATGAAAAAATTGTCGTTTATGTTTGTTTATA
66 AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTTA-A
* * *** *
13968479 -ACTTTTTGTGCTATTAAAGGGCAAATTTGTA
130 GACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * * * * * *
13968510 ACTATGCAGTCATTGTTCTATTTTAATAGTTTAGATAGCCTAAATAAATGATATTAAACTTGTCC
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* * * * *
13968575 AAATGATTTAACTTGGTTTCCACGATTGATATG--TGAAAAAGTTATAGTTTATGTCTATTTAAG
66 AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTTAAG
* *** *
13968638 ACTTTTTATGCTGCTAATAGG-AAAAAATGCA
131 ACTTTTTGTGCCATTAAAAGGCAAAAAA-GCA
* * *
13968669 AATTTGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATATATGATATTAAACTTGTCC
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* * * * * * *
13968734 CAATTATTGAACTTGGTTCCCACAGCTGATATGTGTGAAAAAGTTA-CAATTTATGTTTGTTTAA
66 AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATC-GTTTATGTTTGTTTAA
* **
13968798 GACCTTTTGTGCCATTAAAAGGCAAAATTGCA
130 GACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * * *
13968830 AGTTTGTAGTTATTGTTTTGTTTTAACAATTTAGATAGCTTCAATACATGATATTAAATTTGTCC
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* * * * * ** * *
13968895 GAATAATTGAACTTGGTTTCTACGGTTGATATGTGTGACAAAGTTATAATTTATGTCTGTTTAGG
66 AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTTAAG
* * * * * *
13968960 ATTTTTTATGCTATTAAAGGGCAAAATTA--T
131 ACTTTTTGTGCCATTAAAAGGCAAAA-AAGCA
* * * * * * * * *
13968990 AATTATGCAGTTATTGTTATGTTTGAACATTTTAGATAGCCTAAATACAGGATATTAAATTTTTC
1 AATT-TGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTC
* * * *
13969055 TAAATGATTGATCTTGGTTTCCACGATTGATATTTATGAAAAAGTTGA--GTTTTATGTTTGTTT
65 CAAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTT-ATCG-TTTATGTTTGTTT
* * * ** * *
13969118 AGGACTTTTTATGTCGGTAAAAGGCAAAAATGTA
128 AAGACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * * * * * *
13969152 AACTTGTAGTTATTTTTTTGTTTTAACAGTTTAAATAGCTTCAATATATGATATTGAACTTGTCT
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* * * * *
13969217 GAATGATTGAACTTGG-TCCCATGGTTGACATGTATGAAAAAGTTA-CTGTTTATGTCTGTTT-A
66 AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATC-GTTTATGTTTGTTTAA
* *
13969279 GAACTTTTTGTGCC-TT-AAAGGGAAAAAA-TA
130 G-ACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * * * *
13969309 TAATTTTGCAGTTACAT-TTCTATTTTAACAGTTTAAATAGCTTTAATACATGATATCAAACTTA
1 -AA-TTTGCAGTTA-TTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTG
* * * * * * * * *
13969373 CCCGATTGATTGAATTTGGTTTTCACGGTTGATGTGTATGAAAAAGTTACCGTTTATGTTTATTC
63 TCCAAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTT
* * * * *
13969438 AGGATTTTTTGTGACATCAAAAGGCAAAAATGCA
128 AAGACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
* * * *
13969472 AATTTGCAGTTATTATTCTATTTTAACAATTTAGATAGC-TCTAATACATGATATTAAACTTATC
1 AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTC-AATACATGATATTAAACTTGTC
* * * * * * * * * *
13969536 CGAATG-TTTACACTTGATTGT-CACGCTTGATATGCATGAATAATTTATAGTTGATGTGTGTTT
65 CAAATGATTGA-ACTTGGTT-TCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTT
13969599 AA
128 AA
13969601 CAATAATATG
Statistics
Matches: 996, Mismatches: 225, Indels: 63
0.78 0.18 0.05
Matches are distributed among these distances:
157 2 0.00
158 16 0.02
159 188 0.19
160 99 0.10
161 659 0.66
162 31 0.03
163 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (161 bp):
AATTTGCAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCC
AAATGATTGAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGTTTATGTTTGTTTAAG
ACTTTTTGTGCCATTAAAAGGCAAAAAAGCA
Found at i:13969337 original size:481 final size:481
Alignment explanation
Indices: 13968192--13969541 Score: 1506
Period size: 481 Copynumber: 2.8 Consensus size: 481
13968182 GTTATAATTA
* * * * * * **
13968192 TGCAATTATTATTCTATTTTAACAATTTAGATAG-TTTAAAATCAAAATATTAAACTTGTCCAAA
1 TGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATAT-ATGATATTAAACTTGTCCAAA
* * * *
13968256 TGATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTA-TGGTTTATGTTTGTTTAAGAC
65 TGATTGAACTTGGTTCCCACAGTTGATATGTGTGAAAAAGTTACT-GTTTATGTTTGTTTAAGAC
* * *
13968320 TTTTTGTGCCGTTAAAAGGTAAAAAA-GCAATTTTACAG-TAATTGTTTTGTTTTAACAGTTTAG
129 TTTTTGTGCCATT-AAAGGGAAAAAATGCAATTTTGCAGTTAA-TGTTTTGTTTTAACAGTTTAG
** * * *
13968383 ATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTGAACTTAGTTTTCATGGTTGATATGC
192 ATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCACGGTTGATATGT
* * ** * * * *
13968448 ATGAAAAAATTGTCGTTTATGTTTGTTTATAACTTTTTGTGCTATTAAAGGGCAAATTTGTAACT
257 ATGAAAAAGTTATCGTTTATGTTTGTTTAGGATTTTTTGTGCTATTAAAGGGCAAAATTATAATT
* * * *
13968513 ATGCAGTCATTGTTCTATTTTAATAGTTTAGATAGCCTAAATAAATGATATTAAACTTGTCCAAA
322 ATGCAGTTATTGTTCTATTTTAACAATTTAGATAGCCTAAATACATGATATTAAACTTGTCCAAA
* * *
13968578 TGATTTAACTTGGTTTCCACGATTGATATGTGAAAAAGTTATAGTTTATGTCTATTTAAGACTTT
387 TGATTGAACTTGGTTTCCACGATTGATATATGAAAAAGTTAGAGTTTATGTCTATTTAAGACTTT
* *
13968643 TTATGCTGCTAATAGGAAAAAATGCAAATT
452 TTATGCTGCTAAAAGGAAAAAATGCAAACT
*
13968673 TGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATATATGATATTAAACTTGTCCCAAT
1 TGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATATATGATATTAAACTTGTCCAAAT
* * ** *
13968738 TATTGAACTTGGTTCCCACAGCTGATATGTGTGAAAAAGTTACAATTTATGTTTGTTTAAGACCT
66 GATTGAACTTGGTTCCCACAGTTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAAGACTT
* * * * * * *
13968803 TTTGTGCCATTAAAAGGCAAAATTGCAAGTTTGTAGTTATTGTTTTGTTTTAACAATTTAGATAG
131 TTTGTGCCATTAAAGGGAAAAAATGCAATTTTGCAGTTAATGTTTTGTTTTAACAGTTTAGATAG
* * *
13968868 CTTCAATACATGATATTAAATTTGTCCGAATAATTGAACTTGG-TTTCTACGGTTGATATGTGTG
196 CTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTC-ACGGTTGATATGTATG
* ** * *
13968932 ACAAAGTTATAATTTATGTCTGTTTAGGATTTTTTATGCTATTAAAGGGCAAAATTATAATTATG
260 AAAAAGTTATCGTTTATGTTTGTTTAGGATTTTTTGTGCTATTAAAGGGCAAAATTATAATTATG
* * * * * * * *
13968997 CAGTTATTGTTATGTTTGAACATTTTAGATAGCCTAAATACAGGATATTAAATTTTTCTAAATGA
325 CAGTTATTGTTCTATTTTAACAATTTAGATAGCCTAAATACATGATATTAAACTTGTCCAAATGA
* * * *
13969062 TTGATCTTGGTTTCCACGATTGATATTTATGAAAAAGTT-GAGTTTTATGTTTGTTTAGGACTTT
390 TTGAACTTGGTTTCCACGATTGATA--TATGAAAAAGTTAGAG-TTTATGTCTATTTAAGACTTT
* * *
13969126 TTATG-TCGGTAAAAGGCAAAAATGTAAACT
452 TTATGCT-GCTAAAAGGAAAAAATGCAAACT
* * * * * **
13969156 TGTAGTTATTTTTTTGTTTTAACAGTTTAAATAGCTTCAATATATGATATTGAACTTGTCTGAAT
1 TGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATATATGATATTAAACTTGTCCAAAT
** * * *
13969221 GATTGAACTTGG-TCCCATGGTTGACATGTATGAAAAAGTTACTGTTTATGTCTGTTT-AGAACT
66 GATTGAACTTGGTTCCCACAGTTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAAG-ACT
** * * *
13969284 TTTTGTGCC-TTAAAGGGAAAAAATATAATTTTGCAGTTACAT-TTCTATTTTAACAGTTTAAAT
130 TTTTGTGCCATTAAAGGGAAAAAATGCAATTTTGCAGTTA-ATGTTTTGTTTTAACAGTTTAGAT
* * ** * * *
13969347 AGCTTTAATACATGATATCAAACTTACCCGATTGATTGAATTTGGTTTTCACGGTTGATGTGTAT
194 AGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCACGGTTGATATGTAT
* * * * * *
13969412 GAAAAAGTTACCGTTTATGTTTATTCAGGATTTTTTGTGAC-ATCAAAAGGCAAAAATGCA-AAT
259 GAAAAAGTTATCGTTTATGTTTGTTTAGGATTTTTTGTG-CTATTAAAGGGC-AAAAT-TATAAT
* * *
13969475 T-TGCAGTTATTATTCTATTTTAACAATTTAGATAGCTCT-AATACATGATATTAAACTTATCCG
321 TATGCAGTTATTGTTCTATTTTAACAATTTAGATAGC-CTAAATACATGATATTAAACTTGTCCA
13969538 AATG
385 AATG
13969542 TTTACACTTG
Statistics
Matches: 721, Mismatches: 132, Indels: 32
0.81 0.15 0.04
Matches are distributed among these distances:
480 12 0.02
481 511 0.71
482 76 0.11
483 122 0.17
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (481 bp):
TGCAATTATTGTTTTATTTTAACAGTTTAAATAGCTTCAATATATGATATTAAACTTGTCCAAAT
GATTGAACTTGGTTCCCACAGTTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAAGACTT
TTTGTGCCATTAAAGGGAAAAAATGCAATTTTGCAGTTAATGTTTTGTTTTAACAGTTTAGATAG
CTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCACGGTTGATATGTATGA
AAAAGTTATCGTTTATGTTTGTTTAGGATTTTTTGTGCTATTAAAGGGCAAAATTATAATTATGC
AGTTATTGTTCTATTTTAACAATTTAGATAGCCTAAATACATGATATTAAACTTGTCCAAATGAT
TGAACTTGGTTTCCACGATTGATATATGAAAAAGTTAGAGTTTATGTCTATTTAAGACTTTTTAT
GCTGCTAAAAGGAAAAAATGCAAACT
Found at i:13969431 original size:642 final size:641
Alignment explanation
Indices: 13968187--13969540 Score: 1501
Period size: 642 Copynumber: 2.1 Consensus size: 641
13968177 GCAAAGTTAT
* * * **
13968187 AATTATGCAATTATTATTCTATTTTAACAATTTAGATAG-TTTAAAATCAAAATATTAAACTTGT
1 AATT-TGCAGTTATTATTCTATTTTAACAATTTAGATAGCTTCAATA-CATGATATTAAACTTGT
* * ** *
13968251 CCAAATGATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTATGGTTTATGTTTGTTTA
64 CCGAATAATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTATAATTTATGTCTGTTTA
* * * * * *
13968316 AGACTTTTTGTGCCGTTAAAAGGTAAAAAAGCAATTTTACAGTAATTGTTTTGTTTTAACAGTTT
129 AGACTTTTTATGCCATTAAAAGGCAAAAAAGCAATTATACAGTAATTGTTATGTTTGAACAGTTT
* * * * * *
13968381 AGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTGAACTTAGTTTTCATGGTTGATAT
194 AGATAGCCTAAATACAGGATATTAAACTTGTCTAAATGATTGAACTTAGTTTCCACGATTGATAT
* * * * * **
13968446 GCATGAAAAAATTGTCGTTTATGTTTGTTTATAACTTTTTGTGCTATTAAAGGGCAAATTTGTAA
259 GCATGAAAAAATTGTAGTTTATGTTTGTTTAGAACTTTTTATGCTAGTAAAAGGCAAAAATGTAA
* *
13968511 CTATGCAGTCATTGTTCTATTTTAATAGTTTAGATAGCCTAAATAAATGATATTAAACTTGTCCA
324 CTATGCAGTCATTGTTCTATTTTAACAGTTTAAATAGCCTAAATAAATGATATTAAACTTGTCCA
* * *
13968576 AATGATTTAACTTGGTTTCCACGATTGATATGTGAAAAAGTTATAGTTTATGTCTATTTAAGACT
389 AATGATTGAACTTGGTTCCCACGATTGACATGTGAAAAAGTTATAGTTTATGTCTATTTAAGACT
* * *
13968641 TTTTATGCTGCTAATAGGAAAAAATGCAAATTTGCAATTATTGTTTTATTTTAACAGTTTAAATA
454 TTTTATGCT-CTAATAGGAAAAAATACAAATTTGCAATTAATGTTCTATTTTAACAGTTTAAATA
* * * *
13968706 GCTTCAATATATGATATTAAACTTGTCCCAATTATTGAACTTGGTTCCCACAGCTGATATGTGTG
518 GCTTCAATACATGATATCAAACTTGACCCAATTATTGAACTTGGTTCCCACAGCTGATATGTATG
* * * * *
13968771 AAAAAGTTACAATTTATGTTTGTTTAAGACCTTTTGTGCCATTAAAAGGCAAAATTGCA
583 AAAAAGTTACAATTTATGTTTATTCAAGACCTTTTGTGACATCAAAAGGCAAAAATGCA
* * * * * *
13968830 AGTTTGTAGTTATTGTTTTGTTTTAACAATTTAGATAGCTTCAATACATGATATTAAATTTGTCC
1 AATTTGCAGTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCC
* ** * * * *
13968895 GAATAATTGAACTTGGTTTCTACGGTTGATATGTGTGACAAAGTTATAATTTATGTCTGTTTAGG
66 GAATAATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTATAATTTATGTCTGTTTAAG
* * * * * * * *
13968960 ATTTTTTATGCTATTAAAGGGCAAAATTA-TAATTATGCAGTTATTGTTATGTTTGAACATTTTA
131 ACTTTTTATGCCATTAAAAGGCAAAA-AAGCAATTATACAGTAATTGTTATGTTTGAACAGTTTA
* * * * *
13969024 GATAGCCTAAATACAGGATATTAAATTTTTCTAAATGATTGATCTTGGTTTCCACGATTGATATT
195 GATAGCCTAAATACAGGATATTAAACTTGTCTAAATGATTGAACTTAGTTTCCACGATTGATATG
* * * *
13969089 TATGAAAAAGTTG-AGTTTTATGTTTGTTTAGGACTTTTTATG-TCGGTAAAAGGCAAAAATGTA
260 CATGAAAAAATTGTAG-TTTATGTTTGTTTAGAACTTTTTATGCT-AGTAAAAGGCAAAAATGT-
* * * * * * * * *
13969152 AACT-TGTAGTTATTTTTTTGTTTTAACAGTTTAAATAGCTTCAATATATGATATTGAACTTGTC
322 AACTATGCAGTCATTGTTCTATTTTAACAGTTTAAATAGCCTAAATAAATGATATTAAACTTGTC
** * * *
13969216 TGAATGATTGAACTTGG-TCCCATGGTTGACATGTATGAAAAAGTTACT-GTTTATGTCTGTTT-
387 CAAATGATTGAACTTGGTTCCCACGATTGACATG--TGAAAAAGTTA-TAGTTTATGTCTATTTA
* * * *
13969278 AGAACTTTTTGTGC-CTTAA-AGGGAAAAAATATAATTTTGCAGTTACAT-TTCTATTTTAACAG
449 AG-ACTTTTTATGCTC-TAATA-GGAAAAAATACAAATTTGCAATTA-ATGTTCTATTTTAACAG
* * * ** * *
13969340 TTTAAATAGCTTTAATACATGATATCAAACTT-ACCCGATTGATTGAATTTGGTTTTCACGGTTG
510 TTTAAATAGCTTCAATACATGATATCAAACTTGACCCAATT-ATTGAACTTGGTTCCCACAGCTG
* ** * **
13969404 ATGTGTATGAAAAAGTTACCGTTTATGTTTATTCAGGATTTTTTGTGACATCAAAAGGCAAAAAT
574 ATATGTATGAAAAAGTTACAATTTATGTTTATTCAAGACCTTTTGTGACATCAAAAGGCAAAAAT
13969469 GCA
639 GCA
*
13969472 AATTTGCAGTTATTATTCTATTTTAACAATTTAGATAGC-TCTAATACATGATATTAAACTTATC
1 AATTTGCAGTTATTATTCTATTTTAACAATTTAGATAGCTTC-AATACATGATATTAAACTTGTC
13969536 CGAAT
65 CGAAT
13969541 GTTTACACTT
Statistics
Matches: 583, Mismatches: 114, Indels: 29
0.80 0.16 0.04
Matches are distributed among these distances:
641 24 0.04
642 510 0.87
643 48 0.08
644 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (641 bp):
AATTTGCAGTTATTATTCTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCC
GAATAATTGAACTTGGTTTCCACAATTGATATGTGTAAAAAAGCTATAATTTATGTCTGTTTAAG
ACTTTTTATGCCATTAAAAGGCAAAAAAGCAATTATACAGTAATTGTTATGTTTGAACAGTTTAG
ATAGCCTAAATACAGGATATTAAACTTGTCTAAATGATTGAACTTAGTTTCCACGATTGATATGC
ATGAAAAAATTGTAGTTTATGTTTGTTTAGAACTTTTTATGCTAGTAAAAGGCAAAAATGTAACT
ATGCAGTCATTGTTCTATTTTAACAGTTTAAATAGCCTAAATAAATGATATTAAACTTGTCCAAA
TGATTGAACTTGGTTCCCACGATTGACATGTGAAAAAGTTATAGTTTATGTCTATTTAAGACTTT
TTATGCTCTAATAGGAAAAAATACAAATTTGCAATTAATGTTCTATTTTAACAGTTTAAATAGCT
TCAATACATGATATCAAACTTGACCCAATTATTGAACTTGGTTCCCACAGCTGATATGTATGAAA
AAGTTACAATTTATGTTTATTCAAGACCTTTTGTGACATCAAAAGGCAAAAATGCA
Found at i:13973739 original size:25 final size:24
Alignment explanation
Indices: 13973697--13973743 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
13973687 ATTTCATCCT
*
13973697 ATCAAAACAAACTTAAAACAAAAAC
1 ATCAAAACAAAC-TAAAAAAAAAAC
13973722 ATCAAAACATAAC-AAAAAAAAA
1 ATCAAAACA-AACTAAAAAAAAA
13973744 TTAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 9 0.45
26 3 0.15
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (24 bp):
ATCAAAACAAACTAAAAAAAAAAC
Found at i:13977179 original size:14 final size:14
Alignment explanation
Indices: 13977160--13977186 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13977150 GGTAAAGATA
13977160 AGGAATGATGAAAG
1 AGGAATGATGAAAG
13977174 AGGAATGATGAAA
1 AGGAATGATGAAA
13977187 TCAAGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (14 bp):
AGGAATGATGAAAG
Found at i:13997473 original size:22 final size:22
Alignment explanation
Indices: 13997448--13997494 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13997438 GAAATTTTCT
*
13997448 ATTAAAAATGATTAAA-TAATAA
1 ATTAAAAATGA-TAAATTAAAAA
*
13997470 ATTAAAATTGATAAATTAAAAA
1 ATTAAAAATGATAAATTAAAAA
13997492 ATT
1 ATT
13997495 TATTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
ATTAAAAATGATAAATTAAAAA
Found at i:13997683 original size:22 final size:23
Alignment explanation
Indices: 13997655--13997700 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13997645 TTTTACTTAC
13997655 TATTAATTT-TCACA-TTAAATTT
1 TATTAATTTATCA-ATTTAAATTT
13997677 TATTAATTTATCAATTTAAATTT
1 TATTAATTTATCAATTTAAATTT
13997700 T
1 T
13997701 TTATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAATTTATCAATTTAAATTT
Found at i:14000054 original size:20 final size:20
Alignment explanation
Indices: 14000029--14000077 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
14000019 AGGCATCAAT
* *
14000029 TATAAATCTATATAAGAATA
1 TATAAATCCATAAAAGAATA
*
14000049 TATAAATCCATAAAAGAATG
1 TATAAATCCATAAAAGAATA
14000069 TATACAATC
1 TATA-AATC
14000078 ATTTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
TATAAATCCATAAAAGAATA
Found at i:14009138 original size:3 final size:3
Alignment explanation
Indices: 14009130--14009181 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
14009120 TTATAGATGG
*
14009130 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14009178 ATT A
1 ATT A
14009182 ATTTTCGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14012649 original size:13 final size:13
Alignment explanation
Indices: 14012631--14012656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14012621 GCTGGACCTC
14012631 GTGCAGGATATTA
1 GTGCAGGATATTA
14012644 GTGCAGGATATTA
1 GTGCAGGATATTA
14012657 TAACTATCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
GTGCAGGATATTA
Found at i:14014016 original size:2 final size:2
Alignment explanation
Indices: 14014009--14014043 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14013999 CAAGCAAATG
14014009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14014044 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14015918 original size:15 final size:16
Alignment explanation
Indices: 14015864--14015909 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14015854 AAAATATATT
14015864 TAAAA-AAAATAAATAA
1 TAAAATAAAATAAA-AA
*
14015880 TCAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
14015895 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
14015910 TAACCTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:14016801 original size:43 final size:43
Alignment explanation
Indices: 14016730--14017043 Score: 200
Period size: 44 Copynumber: 7.7 Consensus size: 43
14016720 ACAAACTAAA
* * * *
14016730 CTCCTATATATAAAGGC-AAACAAATTTAAGTTAAGAAATGGG
1 CTCCTCTATATAGAGGCTAAACAACTTTAAATTAAGAAATGGG
* *
14016772 CTCCTCTATATAGAGACTAAACAAC--T---TT-A-AAATAGG
1 CTCCTCTATATAGAGGCTAAACAACTTTAAATTAAGAAATGGG
* * * *
14016808 ATCCTCTATATAGAGGCTAAATAACTTTAAAATAGGAAATGGG
1 CTCCTCTATATAGAGGCTAAACAACTTTAAATTAAGAAATGGG
* * * * *
14016851 -----C-----A-AGGTTAAATAACTTTAAAATAGGAAATGAG
1 CTCCTCTATATAGAGGCTAAACAACTTTAAATTAAGAAATGGG
* ** * *
14016883 CTCTTCTATATAGAAGTTTAAA-AACTTTAAAATAAGAAATGGT
1 CTCCTCTATATAG-AGGCTAAACAACTTTAAATTAAGAAATGGG
* * *
14016926 CTCCTCTATACAAAGGCTAAACAATTTTAAAATTAAGAAATGGG
1 CTCCTCTATATAGAGGCTAAACAACTTT-AAATTAAGAAATGGG
* * *
14016970 CTCCCCTATATAGAGACTAAAACAACTTTAAATTCAGAAATGGG
1 CTCCTCTATATAGAGGCT-AAACAACTTTAAATTAAGAAATGGG
* * *
14017014 CTCTTTTATATAGAGGCTCAACAACTTTAA
1 CTCCTCTATATAGAGGCTAAACAACTTTAA
14017044 GAACTTTAAA
Statistics
Matches: 213, Mismatches: 36, Indels: 45
0.72 0.12 0.15
Matches are distributed among these distances:
32 28 0.13
33 1 0.00
36 28 0.13
37 2 0.01
38 4 0.02
41 2 0.01
42 21 0.10
43 56 0.26
44 62 0.29
45 9 0.04
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (43 bp):
CTCCTCTATATAGAGGCTAAACAACTTTAAATTAAGAAATGGG
Found at i:14016820 original size:36 final size:36
Alignment explanation
Indices: 14016773--14016844 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
14016763 AGAAATGGGC
14016773 TCCTCTATATAGAGACTAAACAACTTTAAAATAGGA
1 TCCTCTATATAGAGACTAAACAACTTTAAAATAGGA
* *
14016809 TCCTCTATATAGAGGCTAAATAACTTTAAAATAGGA
1 TCCTCTATATAGAGACTAAACAACTTTAAAATAGGA
14016845 AATGGGCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (36 bp):
TCCTCTATATAGAGACTAAACAACTTTAAAATAGGA
Found at i:14017872 original size:21 final size:21
Alignment explanation
Indices: 14017848--14017904 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
14017838 GGTTGAAGAA
14017848 GGGATCAATCACCCTATGTAG
1 GGGATCAATCACCCTATGTAG
14017869 GGGATCGAA-CACCCTATGTAG
1 GGGATC-AATCACCCTATGTAG
*
14017890 AGGATCAATCACCCT
1 GGGATCAATCACCCT
14017905 CTTGACAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (21 bp):
GGGATCAATCACCCTATGTAG
Found at i:14020294 original size:16 final size:16
Alignment explanation
Indices: 14020275--14020305 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14020265 TTATGATAAC
*
14020275 ATATCTTTAATAATTG
1 ATATCTTTAACAATTG
14020291 ATATCTTTAACAATT
1 ATATCTTTAACAATT
14020306 AGTATGAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATCTTTAACAATTG
Found at i:14022683 original size:17 final size:18
Alignment explanation
Indices: 14022593--14022685 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 18
14022583 GCTTCACAAG
* *
14022593 GATTCCAAAGTTTTATAAA
1 GATTCC-AAGATTCATAAA
14022612 TGATT-CAAGATTC-TCAAA
1 -GATTCCAAGATTCAT-AAA
* *
14022630 GGTTTC-AGATTCATAAA
1 GATTCCAAGATTCATAAA
* *
14022647 GATTCTAAGTTTCATAAA
1 GATTCCAAGATTCATAAA
*
14022665 GATTCCAA-ATTCGTAAA
1 GATTCCAAGATTCATAAA
14022682 GATT
1 GATT
14022686 TTAAATTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 27 0.46
18 27 0.46
19 1 0.02
20 4 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
GATTCCAAGATTCATAAA
Found at i:14022691 original size:17 final size:17
Alignment explanation
Indices: 14022638--14022692 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
14022628 AAGGTTTCAG
14022638 ATTCATAAAGATTCTAA
1 ATTCATAAAGATTCTAA
* *
14022655 GTTTCATAAAGATTCCAA
1 -ATTCATAAAGATTCTAA
* *
14022673 ATTCGTAAAGATTTTAA
1 ATTCATAAAGATTCTAA
14022690 ATT
1 ATT
14022693 TTGTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (17 bp):
ATTCATAAAGATTCTAA
Found at i:14022726 original size:17 final size:17
Alignment explanation
Indices: 14022706--14022764 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
14022696 TAGGGGTTCC
14022706 AGATTTGTAAAGGTTTT
1 AGATTTGTAAAGGTTTT
* *
14022723 AGATTCGT-AAGTTTTTTT
1 AGATTTGTAAAG--GTTTT
*
14022741 AGATTT-TCAAAGGTTCT
1 AGATTTGT-AAAGGTTTT
14022758 AGATTTG
1 AGATTTG
14022765 CAAGGTTCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
16 3 0.09
17 17 0.53
18 9 0.28
19 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.47
Consensus pattern (17 bp):
AGATTTGTAAAGGTTTT
Found at i:14022771 original size:16 final size:16
Alignment explanation
Indices: 14022750--14022802 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
14022740 TAGATTTTCA
*
14022750 AAGGTTCTAGATTTGC
1 AAGGTTCCAGATTTGC
14022766 AAGGTTCCA-AGTTTCGC
1 AAGGTTCCAGA-TTT-GC
14022783 AGAGGTTCCAGATTTGC
1 A-AGGTTCCAGATTTGC
14022800 AAG
1 AAG
14022803 AATTTCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 6 0.19
18 11 0.34
19 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (16 bp):
AAGGTTCCAGATTTGC
Found at i:14022990 original size:17 final size:17
Alignment explanation
Indices: 14022969--14023113 Score: 121
Period size: 17 Copynumber: 8.5 Consensus size: 17
14022959 TTCAAATTCT
*
14022969 TAAGAACTTAAGGTTCG
1 TAAGAATTTAAGGTTCG
* ** *
14022986 CAAGAGCTTAAAGTTC-
1 TAAGAATTTAAGGTTCG
* * *
14023002 TCAAGAGTTTCAGGTTTG
1 T-AAGAATTTAAGGTTCG
* * * *
14023020 TAAGAACTTCATGTTCA
1 TAAGAATTTAAGGTTCG
* *
14023037 TAAGAATTTCATGTTCG
1 TAAGAATTTAAGGTTCG
14023054 TAAGAATTTAAGGTTCG
1 TAAGAATTTAAGGTTCG
14023071 TAAGAATTTAAGGTTCG
1 TAAGAATTTAAGGTTCG
* *
14023088 TAAGAATCTAAAGTTCG
1 TAAGAATTTAAGGTTCG
*
14023105 TAAAAATTT
1 TAAGAATTT
14023114 TTAGATTCGC
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
17 104 0.99
18 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (17 bp):
TAAGAATTTAAGGTTCG
Found at i:14023094 original size:34 final size:34
Alignment explanation
Indices: 14022955--14023113 Score: 135
Period size: 34 Copynumber: 4.7 Consensus size: 34
14022945 AGTTTCACAT
* * *
14022955 GAACTTCAAA-TTCTTAAGAACTTAAGGTTCGCAA
1 GAACTT-AAAGTTCGTAAGAATTTAAGGTTCGTAA
* * * *
14022989 GAGCTTAAAGTTC-TCAAGAGTTTCAGGTTTGTAA
1 GAACTTAAAGTTCGT-AAGAATTTAAGGTTCGTAA
* * * * *
14023023 GAACTTCATGTTCATAAGAATTTCATGTTCGTAA
1 GAACTTAAAGTTCGTAAGAATTTAAGGTTCGTAA
* *
14023057 GAATTTAAGGTTCGTAAGAATTTAAGGTTCGTAA
1 GAACTTAAAGTTCGTAAGAATTTAAGGTTCGTAA
*
14023091 GAA-TCTAAAGTTCGTAAAAATTT
1 GAACT-TAAAGTTCGTAAGAATTT
14023114 TTAGATTCGC
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
33 5 0.05
34 95 0.94
35 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (34 bp):
GAACTTAAAGTTCGTAAGAATTTAAGGTTCGTAA
Found at i:14023340 original size:46 final size:45
Alignment explanation
Indices: 14023287--14023407 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 45
14023277 ACTTCTAGAA
*
14023287 TTCAAAGATTCTTATTTGAAAATTTTCAAGG-TTTCAC-ATCCAAAAT
1 TTCAAAGATTCTTATTTGAAAATTTT--AGGAATTC-CTATCCAAAAT
** * *
14023333 TTCAAAGATTCACATTTAAAAAATTTTAGGAATTCCTATCCAAATT
1 TTCAAAGATTCTTATTT-GAAAATTTTAGGAATTCCTATCCAAAAT
*
14023379 TTCAAAGATTCTTGTTTGAAACATTTTAG
1 TTCAAAGATTCTTATTTGAAA-ATTTTAG
14023408 AGATTCACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
45 7 0.11
46 47 0.76
47 8 0.13
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (45 bp):
TTCAAAGATTCTTATTTGAAAATTTTAGGAATTCCTATCCAAAAT
Found at i:14023353 original size:22 final size:23
Alignment explanation
Indices: 14023287--14023353 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
14023277 ACTTCTAGAA
**
14023287 TTCAAAGATTCTTATTTGAAAATT
1 TTCAAAGATTCACATTT-AAAATT
* * **
14023311 TTCAAGGTTTCACATCCAAAA-T
1 TTCAAAGATTCACATTTAAAATT
14023333 TTCAAAGATTCACATTTAAAA
1 TTCAAAGATTCACATTTAAAA
14023354 AATTTTAGGA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
22 18 0.55
23 4 0.12
24 11 0.33
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (23 bp):
TTCAAAGATTCACATTTAAAATT
Found at i:14024512 original size:13 final size:13
Alignment explanation
Indices: 14024491--14024524 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14024481 CAGTTTAAGT
*
14024491 CTTTCTTTTTTTA
1 CTTTTTTTTTTTA
*
14024504 CTTTTTTTTTTTG
1 CTTTTTTTTTTTA
14024517 CTTTTTTT
1 CTTTTTTT
14024525 GCACATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTTTA
Found at i:14028709 original size:58 final size:58
Alignment explanation
Indices: 14028551--14028864 Score: 354
Period size: 58 Copynumber: 5.3 Consensus size: 58
14028541 AAAAATATAT
* * **
14028551 TTTTTTTGGAAAGTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
1 TTTTTTT-GAAAATTTATTTT-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CC
* *
14028612 TTTTTTTGGAAACTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCC
1 TTTTTTT-GAAAATTT-ATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCC
*
14028672 TTTTTTTGAAAATTTATCTTTAAAG-AAATTGATACTTTCAACTTTTCCTC-AAAA-CC
1 TTTTTTTGAAAATTTAT-TTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCC
* *
14028728 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCGACTTTTTCC-CAAAAAT-A
1 TTTTTTTGAAAATTTA-TTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATCC
* * ** *
14028786 TTTTTTGGAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCT-TAAAA-CC
1 TTTTTTTGAAA-ATTT-ATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCC
14028844 TTTTTTTTGAAAATTTATTTT
1 -TTTTTTTGAAAATTTATTTT
14028865 TAAAAAATTT
Statistics
Matches: 220, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
56 24 0.11
57 26 0.12
58 60 0.27
59 48 0.22
60 8 0.04
61 50 0.23
62 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.46
Consensus pattern (58 bp):
TTTTTTTGAAAATTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCC
Found at i:14028822 original size:59 final size:59
Alignment explanation
Indices: 14028552--14028860 Score: 323
Period size: 59 Copynumber: 5.3 Consensus size: 59
14028542 AAAATATATT
* * *
14028552 TTTTTTGGAAAGTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCCCAAAAATA
1 TTTTTTGGAAAATTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATA
* *
14028610 TTTTTTTTTGGAAACTTTAATTTCAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATCC
1 ---TTTTTTGGAAAATTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAAT-A
* * * *
14028672 TTTTTTTGAAAATTT-ATCTTTAAAG-AAATTGATACTTTCAAC-TTTTCCTCAAAACCT-
1 TTTTTTGGAAAATTTAAT-TTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAA-ATA
* * *
14028729 TTTTTT-GAAAATTTATTTTTAAGGAAAATTGATACTTTCGACTTTTTCC-CAAAAATA
1 TTTTTTGGAAAATTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATA
* * * *
14028786 TTTTTTGGAAACTTTTAATTTCGAGGAAAATTGATACTTTCAAC-TTTTCCTTAAAACCT-
1 TTTTTTGGAAA-ATTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAA-ATA
*
14028845 TTTTTTTGAAAATTTA
1 TTTTTTGGAAAATTTA
14028861 TTTTTAAAAA
Statistics
Matches: 215, Mismatches: 22, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
56 15 0.07
57 34 0.16
58 51 0.24
59 60 0.28
60 1 0.00
61 54 0.25
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (59 bp):
TTTTTTGGAAAATTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATA
Found at i:14028856 original size:15 final size:14
Alignment explanation
Indices: 14028838--14028889 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
14028828 ACTTTTCCTT
14028838 AAAACCTTTTTTTTG
1 AAAA-CTTTTTTTTG
*
14028853 AAAA-TTTATTTTTA
1 AAAACTTT-TTTTTG
*
14028867 AAAAATTTTTTTTG
1 AAAACTTTTTTTTG
14028881 AAAACTTTT
1 AAAACTTTT
14028890 AATTTTGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.09
14 22 0.69
15 7 0.22
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (14 bp):
AAAACTTTTTTTTG
Found at i:14028939 original size:88 final size:88
Alignment explanation
Indices: 14028779--14028938 Score: 259
Period size: 88 Copynumber: 1.8 Consensus size: 88
14028769 ACTTTTTCCC
* *
14028779 AAAAATATTTTTTGGAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTTAAAACC
1 AAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACC
14028844 TTTTTTTTGAAAATTTATTTTTA
66 TTTTTTTTGAAAATTTATTTTTA
* * **
14028867 AAAAATTTTTTTTGAAAACTTTTAATTTTGAGGAAAATTGATACTTT-AACTTTTCCTCAAAATT
1 AAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACC
14028931 TTTTTTTT
66 TTTTTTTT
14028939 TAATTTTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
87 22 0.33
88 44 0.67
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (88 bp):
AAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACC
TTTTTTTTGAAAATTTATTTTTA
Found at i:14028985 original size:29 final size:29
Alignment explanation
Indices: 14028953--14029010 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
14028943 TTTATTTAAA
14028953 GAAAATAAAATAATAA-AAAT-AATAAAAAT
1 GAAAAT-AAATAA-AATAAATAAATAAAAAT
14028982 GAAAATAAATAAAATAAATAAATAAAAAT
1 GAAAATAAATAAAATAAATAAATAAAAAT
14029011 ATTAAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.07
28 10 0.37
29 15 0.56
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (29 bp):
GAAAATAAATAAAATAAATAAATAAAAAT
Found at i:14028988 original size:15 final size:15
Alignment explanation
Indices: 14028953--14028995 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14028943 TTTATTTAAA
*
14028953 GAAAATAA-AATAAT
1 GAAAATAATAAAAAT
*
14028967 AAAAATAATAAAAAT
1 GAAAATAATAAAAAT
14028982 GAAAATAAATAAAA
1 GAAAAT-AATAAAA
14028996 TAAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
16 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
GAAAATAATAAAAAT
Found at i:14029016 original size:13 final size:13
Alignment explanation
Indices: 14028984--14029008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14028974 ATAAAAATGA
14028984 AAATAAATAAAAT
1 AAATAAATAAAAT
14028997 AAATAAATAAAA
1 AAATAAATAAAA
14029009 ATATTAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:14029104 original size:22 final size:22
Alignment explanation
Indices: 14029076--14029126 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
14029066 AATCTAGCAA
14029076 CGGCTCGACTAACGGTTTGGCT
1 CGGCTCGACTAACGGTTTGGCT
14029098 CGGCTCGACTAACGGTTTGGCT
1 CGGCTCGACTAACGGTTTGGCT
14029120 CGGCTCG
1 CGGCTCG
14029127 GCTTGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.12, C:0.29, G:0.33, T:0.25
Consensus pattern (22 bp):
CGGCTCGACTAACGGTTTGGCT
Found at i:14030060 original size:4 final size:4
Alignment explanation
Indices: 14030039--14030157 Score: 56
Period size: 4 Copynumber: 30.2 Consensus size: 4
14030029 GATAAATTAT
* * * * *
14030039 AATA GATA AAT- AAT- AATA AATA TATA ACTA GATA AATA AA-A TATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* *
14030084 TATTA ACAT- AA-A AATA AA-A AATA AAAA AATA TTAATA AATA GTAAT-
1 -AATA A-ATA AATA AATA AATA AATA AATA AATA --AATA AATA --AATA
*
14030130 AATA AATA AATA AAT- AATA AATA TATA A
1 AATA AATA AATA AATA AATA AATA AATA A
14030158 GATATAAAGA
Statistics
Matches: 86, Mismatches: 16, Indels: 26
0.67 0.12 0.20
Matches are distributed among these distances:
3 20 0.23
4 56 0.65
5 3 0.03
6 7 0.08
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:14030075 original size:16 final size:16
Alignment explanation
Indices: 14030002--14030076 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 16
14029992 AGATAAATCA
14030002 AAATAT-TAAC-AGAT
1 AAATATATAACTAGAT
*
14030016 AAAAATA-ATACTAGAT
1 AAATATATA-ACTAGAT
14030032 AAAT-TATAA-TAGAT
1 AAATATATAACTAGAT
14030046 --A-A-ATAA-TA-AT
1 AAATATATAACTAGAT
14030056 AAATATATAACTAGAT
1 AAATATATAACTAGAT
14030072 AAATA
1 AAATA
14030077 AAATATATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
10 2 0.04
11 6 0.12
12 2 0.04
13 1 0.02
14 15 0.31
15 7 0.15
16 15 0.31
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.29
Consensus pattern (16 bp):
AAATATATAACTAGAT
Found at i:14030081 original size:31 final size:29
Alignment explanation
Indices: 14030017--14030224 Score: 110
Period size: 30 Copynumber: 7.1 Consensus size: 29
14030007 TTAACAGATA
* * * * *
14030017 AAAATAATACTAGATAAATTATAATAGAT
1 AAAATAATAATAAATATATAATAATAAAT
14030046 -AAATAATAATAAATATATAACTAGATAAAT
1 AAAATAATAATAAATATATAA-TA-ATAAAT
* * *
14030076 AAAATATATATTAACATA-AAAATAAAAAAT
1 AAAATA-ATAATAA-ATATATAATAATAAAT
* * *
14030106 AAAAAAATATTAATAAATAGTAATAATAAAT
1 AAAATAATAATAA-ATATA-TAATAATAAAT
*
14030137 -AAATAAATAATAAATATATAAGATATAAA-
1 AAAAT-AATAATAAATATATAATA-ATAAAT
* *
14030166 GAAAT-AT-ATATAATATAAAATAA-AAAT
1 AAAATAATAATA-AATATATAATAATAAAT
* * *
14030193 -AAA-AATAATAAAATACAAAATAATAAAA
1 AAAATAATAAT-AAATATATAATAATAAAT
14030221 AAAA
1 AAAA
14030225 CAATGTAGAC
Statistics
Matches: 141, Mismatches: 21, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
26 8 0.06
27 17 0.12
28 31 0.22
29 18 0.13
30 32 0.23
31 23 0.16
32 9 0.06
33 3 0.02
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAATAATAATAAATATATAATAATAAAT
Found at i:14030113 original size:15 final size:15
Alignment explanation
Indices: 14030093--14030221 Score: 50
Period size: 17 Copynumber: 8.3 Consensus size: 15
14030083 ATATTAACAT
14030093 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
**
14030108 AAAAAT-ATTAATAA
1 AAAAATAAAAAATAA
* *
14030122 ATAGTAATAATAAATAA
1 A-A-AAATAAAAAATAA
*
14030139 ATAAATAATAAATATATA
1 AAAAATAA-AAA-ATA-A
* *
14030157 AGATATAAAGAAATATA
1 AAAAATAAA-AAATA-A
* * *
14030174 TATAATATAAAAT--
1 AAAAATAAAAAATAA
14030187 AAAAAT-AAAAATAA
1 AAAAATAAAAAATAA
* *
14030201 TAAAATACAAAATAA
1 AAAAATAAAAAATAA
14030216 TAAAAA
1 -AAAAA
14030222 AAACAATGTA
Statistics
Matches: 83, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
12 5 0.06
13 4 0.05
14 12 0.14
15 19 0.23
16 13 0.16
17 21 0.25
18 9 0.11
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:14030170 original size:19 final size:19
Alignment explanation
Indices: 14030148--14030184 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14030138 AATAAATAAT
14030148 AAATATATA-AGATATAAAG
1 AAATATATATA-ATATAAAG
14030167 AAATATATATAATATAAA
1 AAATATATATAATATAAA
14030185 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATATATATAATATAAAG
Found at i:14030521 original size:42 final size:43
Alignment explanation
Indices: 14030417--14030792 Score: 419
Period size: 43 Copynumber: 8.8 Consensus size: 43
14030407 ATCAAGGCTT
* * * *
14030417 CTCTAAGCAGAGGCTCAACGACTTTGGAAAACATAAACAATGCTC
1 CTCTAATCAGAGGCTCAATGACTTT-GAAAA-ATAAATAAAGCTC
*
14030462 CTCTAATCAGAGGCTCAATGACTTTG-AAAATGAATAAAGCAT-
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGC-TC
*
14030504 CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAGCTC
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
* * *
14030547 ATCTAATCAGAGGCTCAAAGACTTTGAAAAATAAATAAAGTTC
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
*
14030590 CTCTAATCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCTC
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
* * * * * *
14030633 CTCTAATCAAAGACTCAACGACTTTG-AAAATGAGTAAAACTC
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
* * * **
14030675 CTCTAAACAGAGGCTCAATGAATTTGGAAAAT-AA-ACGGCTC
1 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
** *
14030716 CTCTAATCAGAGGCTCAGCGACTTTTGAAAAATAAAT--GGCTC
1 CTCTAATCAGAGGCTCAATGAC-TTTGAAAAATAAATAAAGCTC
*
14030758 CTCTAATCAGAGGCTCACA--ACTTTGGAAAATAAAT
1 CTCTAATCAGAGGCTCA-ATGACTTTGAAAAATAAAT
14030793 TGCTCCTTGA
Statistics
Matches: 285, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
40 13 0.05
41 24 0.08
42 100 0.35
43 124 0.44
44 1 0.00
45 23 0.08
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (43 bp):
CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
Found at i:14030604 original size:86 final size:85
Alignment explanation
Indices: 14030417--14030792 Score: 415
Period size: 85 Copynumber: 4.4 Consensus size: 85
14030407 ATCAAGGCTT
* ** * * *
14030417 CTCTAAGCAGAGGCTCAACGACTTTGGAAAACATAAACAATGCTCCTCTAATCAGAGGCTCAATG
1 CTCTAATCAGAGGCTCAATAACTTT-GAAAA-ATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
*
14030482 ACTTTGAAAATGAATAAAGCAT-
64 ACTTTGAAAATAAATAAAGC-TC
* *
14030504 CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAGCTCATCTAATCAGAGGCTCAAAGAC
1 CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
*
14030569 TTTGAAAAATAAATAAAGTTC
66 TTTG-AAAATAAATAAAGCTC
* * * *
14030590 CTCTAATCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCTCCTCTAATCAAAGACTCAACGAC
1 CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
* * *
14030655 TTTGAAAATGAGTAAAACTC
66 TTTGAAAATAAATAAAGCTC
* * ** *
14030675 CTCTAAACAGAGGCTCAATGAA-TTTGGAAAAT-AA-ACGGCTCCTCTAATCAGAGGCTCAGCGA
1 CTCTAATCAGAGGCTCAAT-AACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGA
*
14030737 CTTTTGAAAAATAAAT--GGCTC
65 C-TTTG-AAAATAAATAAAGCTC
* *
14030758 CTCTAATCAGAGGCTC-ACAACTTTGGAAAATAAAT
1 CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAAT
14030793 TGCTCCTTGA
Statistics
Matches: 248, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
81 2 0.01
82 11 0.04
83 44 0.18
84 6 0.02
85 82 0.33
86 81 0.33
87 22 0.09
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (85 bp):
CTCTAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
TTTGAAAATAAATAAAGCTC
Found at i:14031803 original size:18 final size:17
Alignment explanation
Indices: 14031795--14031850 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 17
14031785 TCATTCATTT
14031795 TTTTC-TTTTTTTTTTC
1 TTTTCATTTTTTTTTTC
14031811 TTTTCATTTTTTTTTTC
1 TTTTCATTTTTTTTTTC
*
14031828 ATTTTCATTTCTTTTTTCC
1 -TTTTCATTT-TTTTTTTC
14031847 TTTT
1 TTTT
14031851 TTTTATTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 5 0.14
17 11 0.31
18 13 0.36
19 7 0.19
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCATTTTTTTTTTC
Found at i:14042125 original size:21 final size:23
Alignment explanation
Indices: 14042086--14042127 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
14042076 ATATTTAAAT
14042086 ATTTATAATATTCAGTTTTATGA
1 ATTTATAATATTCAGTTTTATGA
*
14042109 ATTTA-AA-ATTCATTTTTAT
1 ATTTATAATATTCAGTTTTAT
14042128 TTCTTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTTATAATATTCAGTTTTATGA
Found at i:14044439 original size:21 final size:23
Alignment explanation
Indices: 14044395--14044441 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
14044385 AAAAAAAAGA
14044395 AAAACTAATGGATAAACAATATG
1 AAAACTAATGGATAAACAATATG
**
14044418 AAAACT-ATGGA-AAATGATATG
1 AAAACTAATGGATAAACAATATG
14044439 AAA
1 AAA
14044442 TGGAATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.21
Consensus pattern (23 bp):
AAAACTAATGGATAAACAATATG
Found at i:14046455 original size:722 final size:719
Alignment explanation
Indices: 14043612--14046499 Score: 3823
Period size: 715 Copynumber: 4.0 Consensus size: 719
14043602 CTCACAGCTT
* * * * * * *
14043612 GGAGTAATGGAGGCAAAAAACTTTCAAGGATATGTTG-TTCCTCACAAAAAAAAAAAGACAAATT
1 GGAGTTATGAAGGCAAACAACTATAAAGGA-A-GTTGTTTTCTCACAAAAAAAAAAAGAAAAATT
* * *
14043676 AATGGATAAACAATATGAAAACTATGAAAAATGATATGAAATGGTATTAAATACAATGAAGAAAT
64 AATGGATAAACAATATGAAAACTATGGAAAATGATATGAAATGGTATGAAATGCAATGAAGAAAT
* * * * * *
14043741 AGTAGAAATTATACCTCCACAAATCTTTCCCAAATTTTTTTATATTTTCTTCCTTTTTCCTCCTT
129 AGTAAAAATTACACCTCCACAAAGCTTTCACAAA-TTTTTTATTTTTTCTTCCTTTTTCCTCATT
** *
14043806 TCCACACCACTTTCAAGGCTACCTACTCTATTTTTTTCATCCCTAAATTATGAATATATATGCCA
193 TCCACACCACTTTCAAGGCTACCTACTC-CCTTCTTTCAT-CCTAAATTATGAATATATATGCCA
* * * *
14043871 TGCTAATGCATGAAGGCCCTTGATGAAAAATGCATCCTAAAGCTAGTATTCCGCTCTTGGTTTTT
256 TGCAAATGCATGAAGGCCCTTGATAAAAAATGCATCCTAAAGCTAGTATTCC-CCCTTGGTTTAT
*
14043936 TTTGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATAGTTCATGATGAAT
320 TTTGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATGAAT
* * * *
14044001 CCAACAGAAAATGAGGCTCTGAGTGCAGCTGAAATAGTGTGAAATGACCAATTTGCCCTTTTGAA
385 CCAACAGAAAATGAGG-TTTAAGTGCAACTGGAATAGTGTGAAATGACCAATTTGCCCTTTTGAA
14044066 AGTTTTGATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTCTTCTTTGTTTTTGTGATTTTA
449 AGTTTTGATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTCTTCTTTGTTTTTGTGATTTTA
* * * *
14044131 AAGCACCAAAAATCTAAGAATAATATTAAATCATGGTTTGAAAGTTTT--TGAGAAAAATCGATC
514 AAGCACCAAAAATCTTAGAATAATATGAAATCATGATATGAAAGTTTTCAT-A-AAAAATCGATC
* * * * *
14044194 TCAAGAAATCAAATTATAAAAATACCCCTAAAAGGTATAGTAATTTCACATCTTTTGAAGTGTGA
577 TCAAGAAATCAAATTACAAAAATACCTCTAAAAGGTATAGTAATTTCACACCTTTCGAAGTGCGA
* * * * **
14044259 TCAAGGTTTTTAGTGTACTAAAAATCATGAAACAATTTCAAAATATGATTTAGAACATTTTGTGA
642 TCAAGGTTTTCAATGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTCATGA
14044324 AAAGCCAACCTTA
707 AAAGCCAACCTTA
* * * *
14044337 TGAGTTATGGAGGCAAACAACTATAGAGGAAGTTGTTTTCTCACACAAAAAAAAAAGAAAAACTA
1 GGAGTTATGAAGGCAAACAACTATAAAGGAAGTTGTTTTCTCACA-AAAAAAAAAAGAAAAATTA
14044402 ATGGATAAACAATATGAAAACTATGGAAAATGATATGAAAT-G---G-AATG--A--AA-AAATA
65 ATGGATAAACAATATGAAAACTATGGAAAATGATATGAAATGGTATGAAATGCAATGAAGAAATA
* *
14044457 GTAAAAATTACACCTCCACAAAGCTTTCCCAAAATTTTCTATTTTTTCTTCCTTTTTCCTCATTT
130 GTAAAAATTACACCTCCACAAAGCTTTCAC-AAATTTTTTATTTTTTCTTCCTTTTTCCTCATTT
* * * * * * * *
14044522 CGAAACCATTTTTAAGGTTGCCTGCTTCCCTTCTTTCAGCCTAAAATTATGAATATATATGCCAT
194 CCACACCACTTTCAAGGCTACCTAC-TCCCTTCTTTCATCCT-AAATTATGAATATATATGCCAT
* * * * *
14044587 GTAAAGGCATGAAGGCCCTTAATAAAAAATGCATCTTAAAGCTAGTACTCCCCCCTTGGTTTATT
257 GCAAATGCATGAAGGCCCTTGATAAAAAATGCATCCTAAAGCTAGTA-TTCCCCCTTGGTTTATT
*
14044652 TTGCAAGCAATCACCTTTCAAACTTAGATCTATGCCTTTAAATGATCAATGGTTCATGATGAATC
321 TTGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATGAATC
* * **
14044717 CAATAGAAAATGAGGCTTTAAGTGCAACTGGAACAGTGTGAAATGGTCAATTTGCCCTTTTGAAA
386 CAACAGAAAATGAGG-TTTAAGTGCAACTGGAATAGTGTGAAATGACCAATTTGCCCTTTTGAAA
* * *
14044782 GTTTTGATCCTTTTATGGAATTTTCTTGGAAAATCTTGATCTCTTCTTTGTTTTTGTGATTTTAA
450 GTTTTGATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTCTTCTTTGTTTTTGTGATTTTAA
* * * *
14044847 AGCACCAAAAATCTTAGAATAATATGAAATCATCATTTGAAAGTTGTCAT-GAAAATCGATCTCA
515 AGCACCAAAAATCTTAGAATAATATGAAATCATGATATGAAAGTTTTCATAAAAAATCGATCTCA
* *
14044911 AGAAATCAAATTACAAAAATATCC-CTAAAAGGTATAGTAATTTTACACCTTTCAAAGTGCGAT-
580 AGAAATCAAATTACAAAAATA-CCTCTAAAAGGTATAGTAATTTCACACCTTTCGAAGTGCGATC
* * *
14044974 TAGGTTTTCACTGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTCATTAAA
644 AAGGTTTTCAATGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTCATGAAA
14045039 AGCCAACCTTA
709 AGCCAACCTTA
* *
14045050 GGAGTTATAGAGGTGTTTAAAACAACTATAAAGGAAGTTGTTTTCTCAC-AAAAAAAAAAGAAAA
1 GGAGTTAT-GAAG-G---CAAACAACTATAAAGGAAGTTGTTTTCTCACAAAAAAAAAAAGAAAA
* * *
14045114 ATTAATGGGTAAACAATATGAAAACTAAGGAAAATTATATGAAATGGTATGAAATGCAATGAAGA
61 ATTAATGGATAAACAATATGAAAACTATGGAAAATGATATGAAATGGTATGAAATGCAATGAAGA
*
14045179 AATAGTAGAAATTACACCTCCACAAAGCTTTC-CTAAATTTTTCTATTTTTTCTTCCTTTTTCCT
126 AATAGTAAAAATTACACCTCCACAAAGCTTTCAC-AAATTTTT-TATTTTTTCTTCCTTTTTCCT
* * * *
14045243 CATTTCCACACCACTTTCAAGGCTACATGCTCCCTTTCTTTCAACCTTAAATTATGAATACATAT
189 CATTTCCACACCACTTTCAAGGCTACCTACTCCC-TTCTTTCATCC-TAAATTATGAATATATAT
* * * * *
14045308 GCCATGCAAATGTATAAAGGCCTTTGATAAAAAATGCA-CCTAAGGCTAGTATTCCCCTTTGGTT
252 GCCATGCAAATGCATGAAGGCCCTTGATAAAAAATGCATCCTAAAGCTAGTATTCCCCCTTGGTT
14045372 TATTTTGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATG
317 TATTTTGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATG
* * * * * *
14045437 AATACAACAGAAAATGAGGCTCAAGTGCAACTAGAATAGTGTGAAGTGACCAATTTACCCTTTTG
382 AATCCAACAGAAAATGAGGTTTAAGTGCAACTGGAATAGTGTGAAATGACCAATTTGCCCTTTTG
* * *
14045502 AAAGTTTTGAT-TGTTTATGGAATTTTCTTGGAAAGCCTTGATC-CTTTCTTTG-TTTTGCATGA
447 AAAGTTTTGATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTC-TTCTTTGTTTTTG--TGA
* * *
14045564 TTTTAAAGCATCAAAAATCTTAGAATAATATGAGATCATGATATGAAAGTTTTCATGAAAAATCG
509 TTTTAAAGCACCAAAAATCTTAGAATAATATGAAATCATGATATGAAAGTTTTCATAAAAAATCG
* * * * * *
14045629 GTCTTAAGAAATCAAATTACAAAAATA-CTCCTAAAAGGCATAGTAATTTCACACATTTAGAAAT
574 ATCTCAAGAAATCAAATTACAAAAATACCT-CTAAAAGGTATAGTAATTTCACACCTTTCGAAGT
* * * **
14045693 GCGATCAGGGTTTTCAATGCACCAAAAATCATGAAATAATTTCAAAATATGATTTAGAGTGTTTC
638 GCGATCAAGGTTTTCAATGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTC
* * *
14045758 GTGAAGAGTCAACCTTA
703 ATGAAAAGCCAACCTTA
* *
14045775 GGAGTTATGAAGGCAAACAACTATAAAGAAAGTTGTTTTCTCACAAAAAAAGAAAGAAAAATTAA
1 GGAGTTATGAAGGCAAACAACTATAAAGGAAGTTGTTTTCTCACAAAAAAAAAAAGAAAAATTAA
* *
14045840 TGGATAAACAATGTGAAAACTATGGAAAATGATATGAAATGGTGTGAAATGCAATGAAGAAATAG
66 TGGATAAACAATATGAAAACTATGGAAAATGATATGAAATGGTATGAAATGCAATGAAGAAATAG
* * * * * *
14045905 TAAAAATTATACCTCCATAAAGCTTTCAC-AATTTTTTTTTATTTTTTTCCTTTTTCCTTATTTT
131 TAAAAATTACACCTCCACAAAGCTTTCACAAATTTTTTATT-TTTTCTTCCTTTTTCCTCATTTC
*
14045969 CACACCACTTTCAAGGTTACCTACTTCCC-TCATTTCAGTCCTAAATTATGAATATATATGCCAT
195 CACACCACTTTCAAGGCTACCTAC-TCCCTTC-TTTCA-TCCTAAATTATGAATATATATGCCAT
* *
14046033 GCAAATGCATGAAGGCCCTTGATAAAAAATACATCCTAAAACTAGTATTCCCCCTTGGTTTATTT
257 GCAAATGCATGAAGGCCCTTGATAAAAAATGCATCCTAAAGCTAGTATTCCCCCTTGGTTTATTT
* * * **
14046098 TGCATGCAATCACCTTTGAAACTTAGATCTAGGCCTTTAAATTATCAATGGTTCATGATGAATTT
322 TGCAAGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATGAATCC
** * * * * *
14046163 GGCAGAATATGA-GTTTATGAGTGCAATTGGAATAGTGTGAAATGACTAATTTGTCTTTTTGAAA
387 AACAGAAAATGAGGTTTA--AGTGCAACTGGAATAGTGTGAAATGACCAATTTGCCCTTTTGAAA
* * *
14046227 GTTTTGATCTTTTTATGGAATTTCCTTAGAAAACCCTGATC-CTTTATTTGTTTTTGTGATTTTA
450 GTTTTGATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTC-TTCTTTGTTTTTGTGATTTTA
* * **
14046291 AAGCACAAAAAATCTTAGAATAATATGAAATCGTGATATGAAAGTTTTTGTAAAAAATCGATCTC
514 AAGCACCAAAAATCTTAGAATAATATGAAATCATGATATGAAAGTTTTCATAAAAAATCGATCTC
* * * *
14046356 AAGAAATTAAATTACAAAAATACCTCTAAAAGGTATAGTAATTTCACACCTTTCGAGGTGTGATT
579 AAGAAATCAAATTACAAAAATACCTCTAAAAGGTATAGTAATTTCACACCTTTCGAAGTGCGATC
* * * *
14046421 AAGGTTTTCAATGTACTAAAAATCATGAAATAATTTCAAAATAAGATTTAGAGCGTTTCATGAAA
644 AAGGTTTTCAATGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTCATGAAA
14046486 AGCCAACCTTA
709 AGCCAACCTTA
14046497 GGA
1 GGA
14046500 AAGTCAAAGT
Statistics
Matches: 1899, Mismatches: 218, Indels: 95
0.86 0.10 0.04
Matches are distributed among these distances:
713 75 0.04
714 72 0.04
715 386 0.20
716 66 0.03
717 2 0.00
718 30 0.02
719 5 0.00
720 140 0.07
721 216 0.11
722 272 0.14
723 146 0.08
724 175 0.09
725 179 0.09
726 134 0.07
727 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (719 bp):
GGAGTTATGAAGGCAAACAACTATAAAGGAAGTTGTTTTCTCACAAAAAAAAAAAGAAAAATTAA
TGGATAAACAATATGAAAACTATGGAAAATGATATGAAATGGTATGAAATGCAATGAAGAAATAG
TAAAAATTACACCTCCACAAAGCTTTCACAAATTTTTTATTTTTTCTTCCTTTTTCCTCATTTCC
ACACCACTTTCAAGGCTACCTACTCCCTTCTTTCATCCTAAATTATGAATATATATGCCATGCAA
ATGCATGAAGGCCCTTGATAAAAAATGCATCCTAAAGCTAGTATTCCCCCTTGGTTTATTTTGCA
AGCAATCACCTTTCAAACTTAGATCTAGGCCTTTAAATGATCAATGGTTCATGATGAATCCAACA
GAAAATGAGGTTTAAGTGCAACTGGAATAGTGTGAAATGACCAATTTGCCCTTTTGAAAGTTTTG
ATCTTTTTATGGAATTTTCTTGGAAAACCCTGATCTCTTCTTTGTTTTTGTGATTTTAAAGCACC
AAAAATCTTAGAATAATATGAAATCATGATATGAAAGTTTTCATAAAAAATCGATCTCAAGAAAT
CAAATTACAAAAATACCTCTAAAAGGTATAGTAATTTCACACCTTTCGAAGTGCGATCAAGGTTT
TCAATGTACCAAAAATCATGAAACAATTTCAAAATATGATTTAGAGCATTTCATGAAAAGCCAAC
CTTA
Found at i:14047266 original size:12 final size:12
Alignment explanation
Indices: 14047249--14047290 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
14047239 AACTTTTGCT
14047249 TTTTTTTATTTG
1 TTTTTTTATTTG
* *
14047261 TTTTTTTGTGTTA
1 TTTTTTTAT-TTG
14047274 TTTTTTTATTTG
1 TTTTTTTATTTG
14047286 TTTTT
1 TTTTT
14047291 ATGTTTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (12 bp):
TTTTTTTATTTG
Found at i:14047274 original size:17 final size:17
Alignment explanation
Indices: 14047254--14047286 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14047244 TTGCTTTTTT
14047254 TTATTTGTTTT-TTTGTG
1 TTATTT-TTTTATTTGTG
14047271 TTATTTTTTTATTTGT
1 TTATTTTTTTATTTGT
14047287 TTTTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (17 bp):
TTATTTTTTTATTTGTG
Found at i:14047424 original size:54 final size:49
Alignment explanation
Indices: 14047327--14047543 Score: 154
Period size: 50 Copynumber: 4.3 Consensus size: 49
14047317 ATCAGAAGTT
*
14047327 TTAAAAACTTTAAAAACTTGAACTTTAAAAAATTCTTTTAAATAAAGGC
1 TTAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGC
* * *
14047376 TCTAAAAACTTTAAAAACAATTTTAACTTTCGAAAAACTCTTTTAAATAGAGGC
1 T-TAAAAACTTTAAAAAC---TTGAACTTT-AAAAAACTCTTTTAAATAAAGGC
* * * * * * * *
14047430 TTTAAAACTTTAAAATCTT-AAATTTGAAAAACTCCTCTAAAGAGAGGC
1 TTAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGC
* * ** * *
14047478 TATGAAAA-TTTAAAAA-TCTCAACTTTGGAAAACTTCTTTTAAAAAAATGC
1 T-TAAAAACTTTAAAAACT-TGAACTTTAAAAAAC-TCTTTTAAATAAAGGC
*
14047528 -TAGGAAACTTTAAAAA
1 TTA-AAAACTTTAAAAA
14047544 TCCCAATTTT
Statistics
Matches: 136, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
47 1 0.01
48 30 0.22
49 25 0.18
50 37 0.27
53 22 0.16
54 21 0.15
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (49 bp):
TTAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGC
Found at i:14047442 original size:53 final size:50
Alignment explanation
Indices: 14047328--14047520 Score: 151
Period size: 48 Copynumber: 3.8 Consensus size: 50
14047318 TCAGAAGTTT
*
14047328 TAAAAACTTTAAAAACTTGAACTTTAAAAAATTCTTTTAAATAAAGGCTC
1 TAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGCTC
* * *
14047378 TAAAAACTTTAAAAACAATTTTAACTTTCGAAAAACTCTTTTAAATAGAGGCT-
1 TAAAAACTTTAAAAAC---TTGAACTTT-AAAAAACTCTTTTAAATAAAGGCTC
* * * * * * * * *
14047431 TTAAAACTTTAAAATCTT-AAATTTGAAAAACTCCTCTAAAGAGAGGCTA
1 TAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGCTC
* * **
14047480 TGAAAA-TTTAAAAA-TCTCAACTTTGGAAAACTTCTTTTAAA
1 TAAAAACTTTAAAAACT-TGAACTTTAAAAAAC-TCTTTTAAA
14047521 AAAATGCTAG
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
47 1 0.01
48 29 0.24
49 21 0.18
50 25 0.21
53 22 0.18
54 21 0.18
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.34
Consensus pattern (50 bp):
TAAAAACTTTAAAAACTTGAACTTTAAAAAACTCTTTTAAATAAAGGCTC
Found at i:14047565 original size:49 final size:49
Alignment explanation
Indices: 14047407--14047853 Score: 348
Period size: 49 Copynumber: 9.1 Consensus size: 49
14047397 TTTAACTTTC
* * * *** * *
14047407 GAAAAACTCTTTTAAATAGAGGCTTTAAAACTTT-AAAATCTTAAATTT
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
* * * * * * *
14047455 GAAAAACTCCTCTAAAGAGAGGCTATGAAAATTTAAAAATCTCAACTTTG
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAA-TTTT
* * *
14047505 GAAAA-CTTCTTTTAAAAAAATGCTAGGAAACTTTAAAAATCCCAATTTT
1 GAAAAGC-TCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
** ** * *
14047554 GAAAAGCTCTTTTCTAGAAAGTTTAGAAAACTTTAAAAATCTAAATTTT
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
* * * * * * *
14047603 GAAAAACTCATTTGAAA-AAAGACTAGG-AATTTTGAAAATCCCAAATTT
1 GAAAAGCTC-TTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
** *
14047651 GAAAAGCTCATTTT-AAGAAAGGCTAAAAAACTTTCAAAAATCTTAATTTT
1 GAAAAGCTC-TTTTAAAGAAAGGCTAGGAAACTTT-AAAAATCTCAATTTT
* * * * * *
14047701 AAAAAGCCCTTGTAAATAAAGGCTAGGAAACTTTAAAAAAC-CAAAATTT
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTC-AATTTT
* * * * * *
14047750 GAAAAACTCATTCAAGGAAAGGCTAGGAAACTTTAAAAATATCAGTTTT
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
* * *
14047799 GAAAAGCTCTTTTAAAGTAAGGTTAGGAAACTTTAAAAATCTCATTTTT
1 GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
*
14047848 GGAAAG
1 GAAAAG
14047854 TTTGGTTGTA
Statistics
Matches: 309, Mismatches: 79, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
47 2 0.01
48 63 0.20
49 166 0.54
50 78 0.25
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (49 bp):
GAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTT
Found at i:14047641 original size:147 final size:144
Alignment explanation
Indices: 14047433--14047853 Score: 398
Period size: 147 Copynumber: 2.9 Consensus size: 144
14047423 TAGAGGCTTT
* * * *
14047433 AAAACTTT-AAAATCTTAAATTTGAAAAACTCCTCTAAAGAGAGGCTATGAAAATTTAAAAATCT
1 AAAACTTTAAAAATC-TAAATTTGAAAAACTCATTTAAA-AAAGGCTA-GGAAATTTAAAAATCT
* * * *
14047497 CAACTTTGGAAAA-CTTCTTTTAAAAAAATGCTAGGAAACTTTAAAAATCCCAATTTTGAAAAGC
63 CAAATTT-GAAAAGC-TCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGC
* * ** **
14047561 TCTTTTCTAGAAAGTTTAG
126 CCTTGTAAAGAAAGGCTAG
* * * *
14047580 AAAACTTTAAAAATCTAAATTTTGAAAAACTCATTTGAAAAAAGACTAGGAATTTTGAAAATCCC
1 AAAACTTTAAAAATCTAAA-TTTGAAAAACTCATTT-AAAAAAGGCTAGGAAATTTAAAAATCTC
** * *
14047645 AAATTTGAAAAGCTCATTTT-AAGAAAGGCTAAAAAACTTTCAAAAATCTTAATTTTAAAAAGCC
64 AAATTTGAAAAGCTC-TTTTAAAGAAAGGCTAGGAAACTTT-AAAAATCTCAATTTTGAAAAGCC
*
14047709 CTTGTAAATAAAGGCTAG
127 CTTGTAAAGAAAGGCTAG
* * * * * *
14047727 GAAACTTTAAAAAACCAAAATTTGAAAAACTCATTCAAGGAAAGGCTAGGAAACTTTAAAAATAT
1 AAAACTTT-AAAAATCTAAATTTGAAAAACTCATTTAA-AAAAGGCTAGGAAA-TTTAAAAATCT
** * * * *
14047792 CAGTTTTGAAAAGCTCTTTTAAAGTAAGGTTAGGAAACTTTAAAAATCTCATTTTTGGAAAG
63 CAAATTTGAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAG
14047854 TTTGGTTGTA
Statistics
Matches: 221, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
146 25 0.11
147 120 0.54
148 73 0.33
149 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (144 bp):
AAAACTTTAAAAATCTAAATTTGAAAAACTCATTTAAAAAAGGCTAGGAAATTTAAAAATCTCAA
ATTTGAAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCCCTTG
TAAAGAAAGGCTAG
Found at i:14048636 original size:31 final size:31
Alignment explanation
Indices: 14048535--14048664 Score: 99
Period size: 31 Copynumber: 4.3 Consensus size: 31
14048525 TCATAGTTTT
* * * *
14048535 TAGCTAAATTAGGCTTAATTTTCCTCGATGC
1 TAGCTAAACTAGGCTTAATTCTACTTGATGC
* * *
14048566 CAACTAAACT-GAGCTTAAATCTA--TG-TGC
1 TAGCTAAACTAG-GCTTAATTCTACTTGATGC
* *
14048594 TAGTTAGACTAGGCTTAATTCTACTTGATGC
1 TAGCTAAACTAGGCTTAATTCTACTTGATGC
*
14048625 TAGCTAAACTAGGCTTAAGTT-TCCTTGATGC
1 TAGCTAAACTAGGCTTAA-TTCTACTTGATGC
* *
14048656 CAACTAAAC
1 TAGCTAAAC
14048665 AAATTTTGAT
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
28 19 0.25
29 2 0.03
30 3 0.04
31 50 0.66
32 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (31 bp):
TAGCTAAACTAGGCTTAATTCTACTTGATGC
Found at i:14048973 original size:21 final size:22
Alignment explanation
Indices: 14048949--14048994 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
14048939 CTTTTGTCCC
14048949 TTTCTTTATTCT-TTTTCTATT
1 TTTCTTTATTCTCTTTTCTATT
* *
14048970 TTTCTTTATTTTCTTTTCTCTT
1 TTTCTTTATTCTCTTTTCTATT
14048992 TTT
1 TTT
14048995 TTCTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTATTCTCTTTTCTATT
Found at i:14049125 original size:15 final size:13
Alignment explanation
Indices: 14049102--14049135 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
14049092 AGACTCTCCC
14049102 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
14049115 ATTTTTGTTGTTTTT
1 -TTTTT-TTGTTTTT
14049130 TTTTTT
1 TTTTTT
14049136 CTTTCAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 10 0.53
15 8 0.42
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:14049591 original size:8 final size:8
Alignment explanation
Indices: 14049578--14049606 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14049568 AACATTTAAA
14049578 TTTTTTTC
1 TTTTTTTC
14049586 TTTTTTTC
1 TTTTTTTC
14049594 TTTTTTT-
1 TTTTTTTC
14049601 TTTTTT
1 TTTTTT
14049607 GTAGTACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:14050077 original size:14 final size:14
Alignment explanation
Indices: 14050058--14050087 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14050048 AAACACATTT
14050058 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
14050072 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
14050086 TT
1 TT
14050088 AAATCTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:14052072 original size:36 final size:36
Alignment explanation
Indices: 14052024--14052095 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
14052014 CATTACCAAA
* * *
14052024 GCTTCTTATGTTTGCGACAATTTTTTATTATCATTG
1 GCTTATTATGTTTGCAACAATATTTTATTATCATTG
*
14052060 GCTTATTATGTTTGCAACGATATTTTATTATCATTG
1 GCTTATTATGTTTGCAACAATATTTTATTATCATTG
14052096 ACTAATTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.51
Consensus pattern (36 bp):
GCTTATTATGTTTGCAACAATATTTTATTATCATTG
Found at i:14058160 original size:137 final size:138
Alignment explanation
Indices: 14057913--14058187 Score: 525
Period size: 137 Copynumber: 2.0 Consensus size: 138
14057903 CACCAAATGA
14057913 TATGTAGATTAATGATAAAAACAGTTACTTACAAATGAAATCTAACAATCAAATAGTCACAAACT
1 TATGTAGATTAATGATAAAAACAGTTACTTACAAATGAAATCTAACAATCAAATAGTCACAAACT
14057978 CATAAATTCATCTCATGTTTTGCATAACATTTATTCTTTTCCTAAGGCTATAATCCAAGTCATTC
66 CATAAATTCATCTCATGTTTTGCATAACATTTATTCTTTTCCTAAGGCTATAATCCAAGTCATTC
*
14058043 ATGGGATC
131 ATGAGATC
14058051 TATGTAGATTAATGAT-AAAACAGTTACTTACAAATGAAATCTAACAATCAAATAGTCACAAACT
1 TATGTAGATTAATGATAAAAACAGTTACTTACAAATGAAATCTAACAATCAAATAGTCACAAACT
*
14058115 CATAAATTCATCTCATGTTTTGCATAACATTTATTCTTTTCCTAAGGCTATAATCTAAGTCATTC
66 CATAAATTCATCTCATGTTTTGCATAACATTTATTCTTTTCCTAAGGCTATAATCCAAGTCATTC
14058180 ATGAGATC
131 ATGAGATC
14058188 ATAGAAAATC
Statistics
Matches: 135, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
137 119 0.88
138 16 0.12
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (138 bp):
TATGTAGATTAATGATAAAAACAGTTACTTACAAATGAAATCTAACAATCAAATAGTCACAAACT
CATAAATTCATCTCATGTTTTGCATAACATTTATTCTTTTCCTAAGGCTATAATCCAAGTCATTC
ATGAGATC
Found at i:14068293 original size:15 final size:16
Alignment explanation
Indices: 14068265--14068312 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
14068255 AAGATATATA
14068265 AAAATTAAATATTT-TTT
1 AAAA-TAAA-ATTTATTT
14068282 AAAATAAAATTTATTT
1 AAAATAAAATTTATTT
*
14068298 AAATAAAAAATTTAT
1 AAA-ATAAAATTTAT
14068313 GCTCATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 4 0.14
16 10 0.36
17 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATAAAATTTATTT
Found at i:14068420 original size:17 final size:17
Alignment explanation
Indices: 14068367--14068420 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
14068357 AAAATAATTA
*
14068367 TCTTTGATTTATTATTACT
1 TCTTTTATTTATT-TTA-T
* **
14068386 ACTTTTATTTATAATAT
1 TCTTTTATTTATTTTAT
14068403 TCTTTTATTTATTTTAT
1 TCTTTTATTTATTTTAT
14068420 T
1 T
14068421 ATTAATTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 16 0.57
18 2 0.07
19 10 0.36
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (17 bp):
TCTTTTATTTATTTTAT
Found at i:14068854 original size:22 final size:21
Alignment explanation
Indices: 14068829--14068925 Score: 59
Period size: 22 Copynumber: 4.1 Consensus size: 21
14068819 AATTAATTGA
14068829 TAATTTTAATTTAATATAATAT
1 TAATTTTAATTTAATATAA-AT
* *
14068851 TAATAAAAATATTATTTTTATATAAAT
1 TAAT-----T-TTAATTTAATATAAAT
*
14068878 TATATTTTAATTTTATATAAAT
1 TA-ATTTTAATTTAATATAAAT
* *
14068900 ATAATTTTTATTAAATATAATAT
1 -TAATTTTAATTTAATATAA-AT
14068923 TAA
1 TAA
14068926 AAAATAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
22 36 0.60
23 5 0.08
27 5 0.08
28 14 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTTAATTTAATATAAAT
Found at i:14068904 original size:16 final size:16
Alignment explanation
Indices: 14068885--14068938 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
14068875 AATTATATTT
14068885 TAATTTTATATAAATA
1 TAATTTTATATAAATA
14068901 TAATTTT-TATTAAATA
1 TAATTTTATA-TAAATA
*
14068917 TAATATTA-A-AAA-A
1 TAATTTTATATAAATA
14068930 TAATTTTAT
1 TAATTTTAT
14068939 TAATAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
15 2 0.06
16 20 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTATATAAATA
Found at i:14068947 original size:28 final size:31
Alignment explanation
Indices: 14068891--14068962 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 31
14068881 ATTTTAATTT
* *
14068891 TATATAAATATAATTTTTATTAAATATAATA
1 TATATAAAAATAATTTTTATTAAATATAAAA
14068922 T-TA-AAAAATAA-TTTTATT-AATAATAAAA
1 TATATAAAAATAATTTTTATTAAAT-ATAAAA
14068950 TATATAAAAATAA
1 TATATAAAAATAA
14068963 AAAATAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 3 0.08
28 13 0.36
29 9 0.25
30 10 0.28
31 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TATATAAAAATAATTTTTATTAAATATAAAA
Found at i:14068959 original size:30 final size:29
Alignment explanation
Indices: 14068891--14068962 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
14068881 ATTTTAATTT
* *
14068891 TATATAAATATAATTTTTATTAAATATAA
1 TATATAAAAATAATTTTTATTAAATAAAA
14068920 TAT-TAAAAAATAA-TTTTATTAATAATAAAA
1 TATAT-AAAAATAATTTTTATT-A-AATAAAA
14068950 TATATAAAAATAA
1 TATATAAAAATAA
14068963 AAAATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 8 0.22
29 11 0.30
30 17 0.46
31 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TATATAAAAATAATTTTTATTAAATAAAA
Found at i:14068968 original size:17 final size:17
Alignment explanation
Indices: 14068940--14068977 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
14068930 TAATTTTATT
14068940 AATAATAAAATATATAAA
1 AATAATAAAATA-ATAAA
*
14068958 AATAA-AAAATAATTAA
1 AATAATAAAATAATAAA
14068974 AATA
1 AATA
14068978 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAATAAAATAATAAA
Found at i:14069406 original size:17 final size:17
Alignment explanation
Indices: 14069364--14069406 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14069354 TATAAAATTT
* *
14069364 ATTTTATAAATTTAAAAG
1 ATTTTA-AAATTAAAAAA
14069382 A-TTTAAAATTAAAAAA
1 ATTTTAAAATTAAAAAA
14069398 ATTTTAAAA
1 ATTTTAAAA
14069407 AATTAAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 10 0.45
17 11 0.50
18 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTTAAAATTAAAAAA
Found at i:14070722 original size:6 final size:6
Alignment explanation
Indices: 14070702--14070746 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
14070692 CACAACCACC
*
14070702 AGGTGG -GGTTGG AGGTGG AGGTGG AGGTGG AGGTGG AGGCGG AGG
1 AGGTGG AGG-TGG AGGTGG AGGTGG AGGTGG AGGTGG AGGTGG AGG
14070747 ATTCGATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 2 0.06
6 32 0.89
7 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.67, T:0.16
Consensus pattern (6 bp):
AGGTGG
Found at i:14079197 original size:24 final size:24
Alignment explanation
Indices: 14079165--14079214 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14079155 TGAATGGCTT
14079165 TACTAATAAGTATTTTGATGAATG
1 TACTAATAAGTATTTTGATGAATG
14079189 TACTAATAAGTATTTTGATGAATG
1 TACTAATAAGTATTTTGATGAATG
14079213 TA
1 TA
14079215 AAAATTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (24 bp):
TACTAATAAGTATTTTGATGAATG
Found at i:14079229 original size:25 final size:24
Alignment explanation
Indices: 14079169--14079228 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
14079159 TGGCTTTACT
**
14079169 AATAAGTATTTTGATGAATGTACT
1 AATAAGTATTTTGATGAATGTAAA
14079193 AATAAGTATTTTGATGAATGTAAA
1 AATAAGTATTTTGATGAATGTAAA
14079217 AATTAAG-ATTTT
1 AA-TAAGTATTTT
14079229 TTTAAAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (24 bp):
AATAAGTATTTTGATGAATGTAAA
Found at i:14089627 original size:8 final size:9
Alignment explanation
Indices: 14089597--14089630 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
14089587 GTTTCCTTTC
14089597 TTTTTCAATT
1 TTTTTC-ATT
14089607 TCTTTTCATT
1 T-TTTTCATT
14089617 TTTTTCATT
1 TTTTTCATT
14089626 TTTTT
1 TTTTT
14089631 TTAAGCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 5 0.22
11 5 0.22
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:14091959 original size:20 final size:19
Alignment explanation
Indices: 14091936--14091975 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14091926 TTTTTCTTCC
14091936 TTTCTTCTAGCTTTTTTTTA
1 TTTCTT-TAGCTTTTTTTTA
**
14091956 TTTCTTTTTCTTTTTTTTA
1 TTTCTTTAGCTTTTTTTTA
14091975 T
1 T
14091976 GTGTTTAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.07, C:0.12, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTCTTTAGCTTTTTTTTA
Found at i:14092639 original size:112 final size:112
Alignment explanation
Indices: 14092511--14092739 Score: 395
Period size: 112 Copynumber: 2.0 Consensus size: 112
14092501 ATTAAGATCT
*
14092511 AAAAAGTTTCATGAAAATACAAGTTTGAGAAGGTCAAATTATGAAAATAACCTTATAAAGGTAAT
1 AAAAAGTTTCATGAAAATACAAGTTCGAGAAGGTCAAATTATGAAAATAACCTTATAAAGGTAAT
* *
14092576 TTGATTTTTTCACACTTTTCGGGGTGCTGCTATGATTTCAAATGCAC
66 TTGATTTTTTCACACTTTTCAGGGTACTGCTATGATTTCAAATGCAC
* * *
14092623 TAAAAGTTTCATGAAAATACAAGTTCGAGAAGGTCAAATTATGAAAATACCCTTATAAGGGTAAT
1 AAAAAGTTTCATGAAAATACAAGTTCGAGAAGGTCAAATTATGAAAATAACCTTATAAAGGTAAT
*
14092688 TTGGTTTTTTCACACTTTTCAGGGTACTGCTATGATTTCAAATGCAC
66 TTGATTTTTTCACACTTTTCAGGGTACTGCTATGATTTCAAATGCAC
14092735 AAAAA
1 AAAAA
14092740 ATCGTAAAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (112 bp):
AAAAAGTTTCATGAAAATACAAGTTCGAGAAGGTCAAATTATGAAAATAACCTTATAAAGGTAAT
TTGATTTTTTCACACTTTTCAGGGTACTGCTATGATTTCAAATGCAC
Found at i:14093689 original size:19 final size:19
Alignment explanation
Indices: 14093662--14093699 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14093652 ATAAGCCATG
* *
14093662 CTAATGCTATGTAAACTAA
1 CTAAGGCTATATAAACTAA
14093681 CTAAGGCTATATAAACTAA
1 CTAAGGCTATATAAACTAA
14093700 ATAGCTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (19 bp):
CTAAGGCTATATAAACTAA
Found at i:14111740 original size:19 final size:19
Alignment explanation
Indices: 14111701--14111761 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
14111691 TTTTTTTCCT
14111701 TTTTAAT-T-TTTCA-AAA
1 TTTTAATATATTTCATAAA
14111717 TTTTTAATATATTTCATAAA
1 -TTTTAATATATTTCATAAA
* * *
14111737 TTTTAAAATATTTTATAAT
1 TTTTAATATATTTCATAAA
14111756 TTTTAA
1 TTTTAA
14111762 AGAAATGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 7 0.18
18 1 0.03
19 27 0.71
20 3 0.08
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATATATTTCATAAA
Found at i:14111762 original size:19 final size:19
Alignment explanation
Indices: 14111709--14111762 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
14111699 CTTTTTAATT
* *
14111709 TTTCAAAATTTTTAATATA
1 TTTCATAATTTTTAAAATA
*
14111728 TTTCATAAATTTTAAAATA
1 TTTCATAATTTTTAAAATA
*
14111747 TTTTATAATTTTTAAA
1 TTTCATAATTTTTAAA
14111763 GAAATGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCATAATTTTTAAAATA
Found at i:14112027 original size:19 final size:19
Alignment explanation
Indices: 14111986--14112040 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
14111976 ATTTAATAAA
*
14111986 TTTATTTTTTATTTTCTTATT
1 TTTA-TTTTTATTTT-TGATT
*
14112007 TTTATTTTTATTTTTGGTT
1 TTTATTTTTATTTTTGATT
**
14112026 TTGGTTTTTATTTTT
1 TTTATTTTTATTTTT
14112041 TATTAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 10 0.33
21 4 0.13
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTATTTTTATTTTTGATT
Found at i:14112157 original size:33 final size:36
Alignment explanation
Indices: 14112096--14112161 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
14112086 ATATTGCAAC
*
14112096 TCCATTTAGCTTTTTTTCTTTTACTTTTTAATTTTT
1 TCCATTTAGCTTTTTTTCTATTACTTTTTAATTTTT
*
14112132 TCCATTT-GC-TTTTTT-TATTATTTTTTAATT
1 TCCATTTAGCTTTTTTTCTATTACTTTTTAATT
14112162 AGATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 13 0.46
34 6 0.21
35 2 0.07
36 7 0.25
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (36 bp):
TCCATTTAGCTTTTTTTCTATTACTTTTTAATTTTT
Found at i:14112525 original size:9 final size:8
Alignment explanation
Indices: 14112508--14112575 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 8
14112498 CTATCAACTT
14112508 TTTTTTTA
1 TTTTTTTA
14112516 TTTCTTTTA
1 TTT-TTTTA
14112525 TTTCTTTTTCA
1 -TT-TTTTT-A
14112536 TTTTTTTAA
1 TTTTTTT-A
14112545 TTTTTTTA
1 TTTTTTTA
* *
14112553 TCTTTTCA
1 TTTTTTTA
*
14112561 CTTATTTTA
1 -TTTTTTTA
14112570 TTTTTT
1 TTTTTT
14112576 AAAATTAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 15 0.31
9 23 0.48
10 8 0.17
11 2 0.04
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14112547 original size:20 final size:19
Alignment explanation
Indices: 14112506--14112551 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
14112496 CTCTATCAAC
*
14112506 TTTTTTTTTATTTCTTTTA
1 TTTTTTTTCATTTCTTTTA
14112525 TTTCTTTTTCATTT-TTTTAA
1 TTT-TTTTTCATTTCTTTT-A
14112545 TTTTTTT
1 TTTTTTT
14112552 ATCTTTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTTTCATTTCTTTTA
Found at i:14112549 original size:26 final size:27
Alignment explanation
Indices: 14112520--14112576 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
14112510 TTTTTATTTC
*
14112520 TTTTATT-TCTTTTTCA-TTTTTTTAAT
1 TTTTATTATC-TTTTCACTTATTTTAAT
*
14112546 TTTT-TTATCTTTTCACTTATTTTATT
1 TTTTATTATCTTTTCACTTATTTTAAT
14112572 TTTTA
1 TTTTA
14112577 AAATTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTATTATCTTTTCACTTATTTTAAT
Found at i:14112559 original size:25 final size:27
Alignment explanation
Indices: 14112508--14112575 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 27
14112498 CTATCAACTT
14112508 TTTTTTTATTTCTTTTATTTCTTTTTCA-
1 TTTTTTTATTT-TTTTA-TTCTTTTTCAC
14112536 TTTTTTTAATTTTTTTA-TC-TTTTCAC
1 TTTTTTT-ATTTTTTTATTCTTTTTCAC
*
14112562 TTATTTTATTTTTT
1 TTTTTTTATTTTTT
14112576 AAAATTAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 13 0.35
26 8 0.22
28 12 0.32
29 4 0.11
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTTTATTTTTTTATTCTTTTTCAC
Found at i:14121135 original size:90 final size:90
Alignment explanation
Indices: 14120982--14121161 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
14120972 TGGCATTAGG
14120982 AGTATTTGATTTCCCGTGGATGCATGAAGGGGTGGTCTCGAAATCAGAAGATCGGGATTATCTTG
1 AGTATTTGATTTCCCGTGGATGCATGAAGGGGTGGTCTCGAAATCAGAAGATCGGGATTATCTTG
14121047 AAGACACCTTCTCATCATTACTGGA
66 AAGACACCTTCTCATCATTACTGGA
14121072 AGTATTTGATTTCCCGTGGATGCATGAAGGGGTGGTCTCGAAATCAGAAGATCGGGATTATCTTG
1 AGTATTTGATTTCCCGTGGATGCATGAAGGGGTGGTCTCGAAATCAGAAGATCGGGATTATCTTG
14121137 AAGACACCTTCTCATCATTACTGGA
66 AAGACACCTTCTCATCATTACTGGA
14121162 GACTACATGC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (90 bp):
AGTATTTGATTTCCCGTGGATGCATGAAGGGGTGGTCTCGAAATCAGAAGATCGGGATTATCTTG
AAGACACCTTCTCATCATTACTGGA
Found at i:14121513 original size:14 final size:14
Alignment explanation
Indices: 14121496--14121524 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14121486 CTTATACAGA
14121496 TATACATGCATACT
1 TATACATGCATACT
14121510 TATACATGCATACT
1 TATACATGCATACT
14121524 T
1 T
14121525 TCCCTTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (14 bp):
TATACATGCATACT
Found at i:14121775 original size:16 final size:18
Alignment explanation
Indices: 14121744--14121776 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14121734 GATAATTTTA
14121744 TCTATTTGTCAAAATTAT
1 TCTATTTGTCAAAATTAT
14121762 TCTATTT-T-AAAATTA
1 TCTATTTGTCAAAATTA
14121777 ATACTGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (18 bp):
TCTATTTGTCAAAATTAT
Found at i:14145577 original size:2 final size:2
Alignment explanation
Indices: 14145570--14145597 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14145560 TAGTTAACTC
14145570 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14145598 TGTTCTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14149191 original size:10 final size:10
Alignment explanation
Indices: 14149176--14149202 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14149166 TACCGAGCTC
14149176 AAATAATAGT
1 AAATAATAGT
14149186 AAATAATAGT
1 AAATAATAGT
14149196 AAATAAT
1 AAATAAT
14149203 TATATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
AAATAATAGT
Found at i:14155387 original size:18 final size:16
Alignment explanation
Indices: 14155364--14155408 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
14155354 AGTTACTTGT
14155364 AAAAGAAAAAAAATGTGA
1 AAAAGAAAAAAAA-G-GA
14155382 AAAAGAAAAGAAAAGGA
1 AAAAGAAAA-AAAAGGA
*
14155399 AAAGGAAAAA
1 AAAAGAAAAA
14155409 CAAAAACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 10 0.40
19 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAAAAAGGA
Done.