Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 12 of 59
Found at i:4498358 original size:2 final size:2
Alignment explanation
Indices: 4498353--4498394 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4498343 ATTTTTTTGA
4498353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4498395 TTAAGTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4501344 original size:74 final size:74
Alignment explanation
Indices: 4501256--4501403 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
4501246 TTAAAGCCAA
4501256 AGACTAATTAAAGAACCTATGAACATGATAATACTTTTGAAGTACTAACTCAATTAGATAATTTC
1 AGACTAATTAAAGAACCTATGAACATGATAATACTTTTGAAGTACTAACTCAATTAGATAATTTC
4501321 ACTAACCTT
66 ACTAACCTT
4501330 AGACTAATTAAAGAACCTATGAACATGATAATACTTTTGAAGTACTAACTCAATTAGATAATTTC
1 AGACTAATTAAAGAACCTATGAACATGATAATACTTTTGAAGTACTAACTCAATTAGATAATTTC
4501395 ACTAACCTT
66 ACTAACCTT
4501404 TTCCGAGGTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (74 bp):
AGACTAATTAAAGAACCTATGAACATGATAATACTTTTGAAGTACTAACTCAATTAGATAATTTC
ACTAACCTT
Found at i:4503075 original size:2 final size:2
Alignment explanation
Indices: 4503068--4503092 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4503058 CAGTCCACTA
4503068 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 A
4503093 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4505091 original size:22 final size:22
Alignment explanation
Indices: 4505063--4505108 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4505053 GAACACCATC
* * *
4505063 ATCTCCCACAGATCAGCAATAA
1 ATCTCCCACAAAACAGAAATAA
4505085 ATCTCCCACAAAACAGAAATAA
1 ATCTCCCACAAAACAGAAATAA
4505107 AT
1 AT
4505109 TACTCACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (22 bp):
ATCTCCCACAAAACAGAAATAA
Found at i:4505588 original size:25 final size:25
Alignment explanation
Indices: 4505534--4505589 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
4505524 CCGATTTCTT
* *
4505534 TTTCCTCTGCCTTGTGCACTTCTAA
1 TTTCTTCTGCCTTATGCACTTCTAA
* *
4505559 TTTCTTCTGCCTTATTCACTTTTAA
1 TTTCTTCTGCCTTATGCACTTCTAA
4505584 TTTCTT
1 TTTCTT
4505590 TTTCTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.12, C:0.27, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTCTTCTGCCTTATGCACTTCTAA
Found at i:4509850 original size:2 final size:2
Alignment explanation
Indices: 4509841--4509889 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4509831 AAAAAAAACT
4509841 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4509882 TA TA TA TA
1 TA TA TA TA
4509890 AANGAAGGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4510102 original size:268 final size:265
Alignment explanation
Indices: 4509625--4510161 Score: 995
Period size: 268 Copynumber: 2.0 Consensus size: 265
4509615 GTAGTTCCGT
4509625 GAAGGAGAGTTAGTTCTCAAAAGAATACTCCCTAATCAAAACGATTTTCGGAGAAAATGGATGCC
1 GAAGGAGAGTTAGTTCTCAAAAGAATACTCCCTAATCAAAACGATTTTCGGAGAAAATGGATGCC
*
4509690 AAATTGGGAAGCACTATATCTGGTAAAAAAGGTTTTTTCAAAAGGAGCTTTAATTTTGGCTGACA
66 AAATTGGGAAGCACTATATCTGGTAAAAAAGGCTTTTTCAAAAGGAGCTTTAATTTTGGCTGACA
4509755 TGGATGGGGAGGATTTATCTAATCCAATTATGTGGATACGGTAAAGAAGTACTATACTTGAAAAA
131 TGGATGGGGAGGATTTATCTAATCCAATTATGTGGATACGGTAAAGAAGTACTATACTTGAAAAA
4509820 AAACAACAACAAAAAAAAACTTATAATATATATATATATATATATATATATATATATATATATAT
196 AAACAACAACAAAAAAAAACTTATAATATATATATATATA-ATATATAT-TATATATATATATAT
4509885 ATATAAA
259 ATATAAA
4509892 NGAAGGAGAGTTAGTTCTCAAAAGAATACTCCCTAATCAAAACGATTTTCGGAGAAAATGGATGC
1 -GAAGGAGAGTTAGTTCTCAAAAGAATACTCCCTAATCAAAACGATTTTCGGAGAAAATGGATGC
* ** *
4509957 CAAATTGGGAAGCACTATATCTGGTAAATAAGGCTTTTTCAGGAGGAGCTTTTATTTTGGCTGAC
65 CAAATTGGGAAGCACTATATCTGGTAAAAAAGGCTTTTTCAAAAGGAGCTTTAATTTTGGCTGAC
4510022 ATGGATGGGGAGGATTTATCTAATCCAATTATGTGGATACGGTAAAGAAGTACTATACTTGAAAA
130 ATGGATGGGGAGGATTTATCTAATCCAATTATGTGGATACGGTAAAGAAGTACTATACTTGAAAA
4510087 AAAACAACAACAAAAAAAAACTTATAATATATATATATATAATATATATTATATATATATATATA
195 AAAACAACAACAAAAAAAAACTTATAATATATATATATATAATATATATTATATATATATATATA
4510152 TATAAA
260 TATAAA
4510158 -AAGG
1 GAAGG
4510162 TTTGTGTTGA
Statistics
Matches: 264, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
264 4 0.02
266 22 0.08
267 8 0.03
268 230 0.87
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (265 bp):
GAAGGAGAGTTAGTTCTCAAAAGAATACTCCCTAATCAAAACGATTTTCGGAGAAAATGGATGCC
AAATTGGGAAGCACTATATCTGGTAAAAAAGGCTTTTTCAAAAGGAGCTTTAATTTTGGCTGACA
TGGATGGGGAGGATTTATCTAATCCAATTATGTGGATACGGTAAAGAAGTACTATACTTGAAAAA
AAACAACAACAAAAAAAAACTTATAATATATATATATATAATATATATTATATATATATATATAT
ATAAA
Found at i:4510118 original size:2 final size:2
Alignment explanation
Indices: 4510109--4510155 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
4510099 AAAAAAAACT
4510109 TA TA -A TA TA TA TA TA TA TA -A TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4510148 TA TA TA TA
1 TA TA TA TA
4510156 AAAAGGTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4511157 original size:59 final size:59
Alignment explanation
Indices: 4511085--4511671 Score: 701
Period size: 59 Copynumber: 9.9 Consensus size: 59
4511075 TGCATTAGAG
* * * *
4511085 TTTTTAAATCGAACCTGTTGTGACATAGGTCGAGCCTAGATTAAGTCTAAAAATTTTAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* *
4511144 TTTTTAAATCGAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA-AGAATTTTAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGA-AATTTCAA
* * * * *
4511203 TTTTTAAATCAAACCTATTTTGAGATAGGTCAAGCCTAGATTAAGTTTAGGAATTTC-A
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* * * * * * *
4511261 GTTTTAAGTCGAACCTATTGTGAGATAGGTCGAGCCTAGATAAAGTTTAGGAATTTCAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* * * * * * *
4511320 TTTTTAAATCGAACATGTTTTAAGATAGGTCGAGCCCAAATTTAGTCTAGGAATTTCAG
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* * * * *
4511379 TTTTTAAATTGAACCTGTTGTGAGATAAGTTGAGCCTAGATCAAGTCTAGAAATTTCAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* * * * *
4511438 TTTTTAAGTAGAACCTGTTATGAGATAGGTCAAGCCTAGATCAAGTCTAGAAATTTCAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* *
4511497 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTATATTAAGTTTAGAAATTTTCAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAA-TTTCAA
* * * * * * *
4511557 TTTTTAAGTCAAATCTGTTCTGATATAGGTTGAGCCTAGATCAAGTCTAGAAATTTCAA
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
* ** * *
4511616 TTTTTAAATCGAACCTATTTTGAGATAGGTTAAACTTAGATTAAGTCTAGAAATTT
1 TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTT
4511672 TTTTTTTGAA
Statistics
Matches: 454, Mismatches: 70, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
58 53 0.12
59 351 0.77
60 50 0.11
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (59 bp):
TTTTTAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTCAA
Found at i:4511897 original size:28 final size:28
Alignment explanation
Indices: 4511862--4511922 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4511852 AAGCAAAAAT
4511862 AAAAATAA-ACAAT-AATGTAATATAATAA
1 AAAAATAAGA-AATAAATGTAA-ATAATAA
*
4511890 AAAAATAAGAAATAAATTTAAATAATAA
1 AAAAATAAGAAATAAATGTAAATAATAA
4511918 AAAAA
1 AAAAA
4511923 AGGGAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (28 bp):
AAAAATAAGAAATAAATGTAAATAATAA
Found at i:4512634 original size:4 final size:4
Alignment explanation
Indices: 4512627--4512699 Score: 57
Period size: 4 Copynumber: 19.0 Consensus size: 4
4512617 GAAGAGAGAG
* * *
4512627 AAGA AAGA AAGA AA-A AAGA AA-A AGAAA AAGA AAGA GAGA AGGA AAGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA AAGA AAGA AA-GA
*
4512675 AAG- AA-A AAGA AA-A AAAA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA
4512700 GAAAGAGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
3 12 0.21
4 38 0.68
5 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:4512650 original size:6 final size:6
Alignment explanation
Indices: 4512625--4512708 Score: 66
Period size: 6 Copynumber: 13.7 Consensus size: 6
4512615 AGGAAGAGAG
* *
4512625 AGAAGAA AGAAAG A-AAAA AGAAAA AGAAAA AGAAAGA GAGAAGGAA AG-GAA
1 AGAA-AA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA-A -AGAA--AA AGAAAA
* *
4512676 AGAAAA AGAAAA A-AAAA AGAAAG AGAAAG AGAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAA
4512709 GAGCAGAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
5 13 0.20
6 39 0.60
7 5 0.08
8 6 0.09
9 1 0.02
10 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:4512661 original size:27 final size:27
Alignment explanation
Indices: 4512627--4512705 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
4512617 GAAGAGAGAG
*
4512627 AAGAAAGAAAGAAAAAAGAAAAAGAAA
1 AAGAAAGAAAGAAAAAAGAGAAAGAAA
* *
4512654 AAGAAAGAGAGAAGGAAAG-GAAAGAAA
1 AAGAAAGAAAGAA-AAAAGAGAAAGAAA
*
4512681 AAGAAA-AAAAAAAGAAAGAGAAAGA
1 AAGAAAGAAAGAAA-AAAGAGAAAGA
4512706 GAAGAGCAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 8 0.19
27 31 0.72
28 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (27 bp):
AAGAAAGAAAGAAAAAAGAGAAAGAAA
Found at i:4512663 original size:38 final size:36
Alignment explanation
Indices: 4512621--4512710 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 36
4512611 GATCAGGAAG
4512621 AGAGAGAAGAAAGAAAGAAAAAAGAAAAAGAAAAAGAA
1 AGAGAGAAGAAAGAAAG-AAAAAGAAAAA-AAAAAGAA
4512659 AGAGAGAAGGAAAGGAAAGAAAAAGAAAAAAAAAAGAA
1 AGAGAGAA-GAAA-GAAAGAAAAAGAAAAAAAAAAGAA
4512697 AGAGA-AAGAGAAGA
1 AGAGAGAAGA-AAGA
4512711 GCAGAAGAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
36 4 0.08
37 4 0.08
38 21 0.43
39 15 0.31
40 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (36 bp):
AGAGAGAAGAAAGAAAGAAAAAGAAAAAAAAAAGAA
Found at i:4513047 original size:2 final size:2
Alignment explanation
Indices: 4513040--4513084 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4513030 TATAATAGTA
4513040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4513082 AT A
1 AT A
4513085 ATTTGGATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4515280 original size:25 final size:25
Alignment explanation
Indices: 4515234--4515281 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4515224 CTGACAAAAC
* **
4515234 ATTAAGTTAATTTTCTTTCTTAAAT
1 ATTAAGTTAATTTGCTGGCTTAAAT
4515259 ATTAAGTTAATTTGCTGGCTTAA
1 ATTAAGTTAATTTGCTGGCTTAA
4515282 TCATTTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (25 bp):
ATTAAGTTAATTTGCTGGCTTAAAT
Found at i:4526734 original size:343 final size:337
Alignment explanation
Indices: 4526106--4527202 Score: 1240
Period size: 332 Copynumber: 3.2 Consensus size: 337
4526096 TAATTACTAT
* * * * * *
4526106 TATATATATACTTTTAATATAAATATATTTACTTTTTATTTGTGTTAATATTACCAAAATTACAA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTGTGTTAACATTACAAAAATTATAA
* * * * *
4526171 TTTATAAAATTATTAATTATAATATATATATCATTGTTTATATAAACTTATAATATATATACTTA
66 CTTATAAAATTATTAATTATAATATATATACCTTTGTTTATATAAACTTATAATATATAAACCTA
* * * *
4526236 AAGA-AAGTCT-TCGAAATTAGAATAGTTTTGGGATCTAACTATT-TCTTTTTAATTTCATGTAA
131 AAGAGAAGT-TAT-GAGATTAGAATAGTTTT--GAT-TACCTATTATTTTTTTAATTTCATATAA
* * * * *
4526298 TTAAAGACAAACCCATATAGTAAAGTAAATTAATTCATAAAACTATGATTATTTATTAACTCGTA
191 TTAAAGACAAACCCATATAGTTAATTAAATTAATTAATAAAACTATGATTATTAATTAACTTGTA
* * * * *
4526363 ATGTCTTGTAATATAAATAGTTTATATATTGTGTTAATTAATAAGAAATATAATTACTATTTATA
256 ATGTCTTTTAATATATATACTTTATATATTG-GTTCATTTATAAG-AATATAATTACTATTTATA
4526428 TATATTTGTTAAAATACTTTTAG
319 TATA----TTAAAATACTTTTAG
* * *
4526451 TATATATATTCTTTAAATAAAAACATATTTACTTTCTATTTGTATTAACATTACAAAAATTATAA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTGTGTTAACATTACAAAAATTATAA
*
4526516 CTTAT-AAATTATTAATTATAAATATATATACCTTTATTTATATAAACTTATAATATATAAACCT
66 CTTATAAAATTATTAATTAT-AATATATATACCTTTGTTTATATAAACTTATAATATATAAACCT
*
4526580 AAAGAGAAGTTATGAGATTATAATAGTTTT-ATTACCTACTTATTTTTTTAATTTCATATAATTA
130 AAAGAGAAGTTATGAGATTAGAATAGTTTTGATTACCTA-TTATTTTTTTAATTTCATATAATTA
* * * * *
4526644 AGGACAAACTCATATAGTTAATTAAATTAATTTATAAAAATATAATTATTAATTAACTTGTAATG
194 AAGACAAACCCATATAGTTAATTAAATTAATTAATAAAACTATGATTATTAATTAACTTGTAATG
* * * *
4526709 TCTTTTAACT-TCTATACTTTATATATATTGAGTTCATTTATAAGGANA-AA-TACT-TTTAGTG
259 TCTTTTAA-TATATATAC-TT-TATATATTG-GTTCATTTATAAGAATATAATTACTATTTA-TA
*
4526770 TATA-T---ATA--TATA-
319 TATATTAAAATACTTTTAG
* * * * * *
4526782 TATACACACACTTTAAATATAAATATATTTACTTTCTCCTTTGTGTTAACATTATAAAAATTATA
1 TATATATATACTTTAAATATAAACATATTTACTTTCT-ATTTGTGTTAACATTACAAAAATTATA
* * * * *
4526847 ACTTATAGAATTACTAATTATAATATATAT-CCTTTTGTTTATAAAAATTTATAATATATAAATC
65 ACTTATAAAATTATTAATTATAATATATATACC-TTTGTTTATATAAACTTATAATATATAAACC
* *
4526911 TAAAGAGAAGTTATGAGATTAGAATAGTTTTGA-AACTTAGTTATTTTTTTAATTTCATATAATT
129 TAAAGAGAAGTTATGAGATTAGAATAGTTTTGATTACCTA-TTATTTTTTTAATTTCATATAATT
* * * * *
4526975 AAAGACAAACCCATGTAGTTAATTAAATTAGTAAATGAAACTATGATTATTACTTAACTTGTAAT
193 AAAGACAAACCCATATAGTTAATTAAATTAATTAATAAAACTATGATTATTAATTAACTTGTAAT
* * * *
4527040 GTCTTTTAATGTATATACTTTTTATATTGGATTCATTTATATGGAATATAATTGCTATTATATAT
258 GTCTTTTAATATATATACTTTATATATTGG-TTCATTTATA-AGAATATAATTACTATT-TATAT
*
4527105 ATACTAAAATACTTTTAG
320 ATATTAAAATACTTTTAG
* * *
4527123 TATATACATATAGTTTAAATATAAACATATTTACTTTCTATTTGGGTTAACATTATAAAAATTAT
1 TATAT--ATATACTTTAAATATAAACATATTTACTTTCTATTTGTGTTAACATTACAAAAATTAT
4527188 AACTTATAAAATTAT
64 AACTTATAAAATTAT
4527203 GAATATGTTT
Statistics
Matches: 637, Mismatches: 86, Indels: 61
0.81 0.11 0.08
Matches are distributed among these distances:
329 1 0.00
330 18 0.03
331 39 0.06
332 199 0.31
333 16 0.03
334 10 0.02
335 3 0.00
337 1 0.00
338 3 0.00
340 3 0.00
341 13 0.02
342 50 0.08
343 117 0.18
344 19 0.03
345 140 0.22
346 5 0.01
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (337 bp):
TATATATATACTTTAAATATAAACATATTTACTTTCTATTTGTGTTAACATTACAAAAATTATAA
CTTATAAAATTATTAATTATAATATATATACCTTTGTTTATATAAACTTATAATATATAAACCTA
AAGAGAAGTTATGAGATTAGAATAGTTTTGATTACCTATTATTTTTTTAATTTCATATAATTAAA
GACAAACCCATATAGTTAATTAAATTAATTAATAAAACTATGATTATTAATTAACTTGTAATGTC
TTTTAATATATATACTTTATATATTGGTTCATTTATAAGAATATAATTACTATTTATATATATTA
AAATACTTTTAG
Found at i:4527200 original size:15 final size:17
Alignment explanation
Indices: 4527170--4527202 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
4527160 CTATTTGGGT
4527170 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
4527187 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
4527202 T
1 T
4527203 GAATATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:4530967 original size:2 final size:2
Alignment explanation
Indices: 4530960--4530989 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4530950 ACATCAAAAT
*
4530960 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4530990 CTTTACTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4532761 original size:4 final size:4
Alignment explanation
Indices: 4532752--4532842 Score: 101
Period size: 4 Copynumber: 22.8 Consensus size: 4
4532742 TTTTAGATTT
* *
4532752 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * *
4532800 TATG TATG TATG TATG TATG TATG TATG TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
4532843 GTATGTATTT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 85 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:4532847 original size:4 final size:4
Alignment explanation
Indices: 4532792--4532860 Score: 93
Period size: 4 Copynumber: 17.0 Consensus size: 4
4532782 TATATATATA
* * *
4532792 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA TATA TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
4532840 TATG TATG TATT TATGG TATG
1 TATG TATG TATG TAT-G TATG
4532861 GGCTATGGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
4 57 0.95
5 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:4539034 original size:40 final size:40
Alignment explanation
Indices: 4538979--4539058 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
4538969 GGATGTTAAC
4538979 ATTGCATGGTTTCCACCAGATTTAGAAGTTGTTCTTTGCT
1 ATTGCATGGTTTCCACCAGATTTAGAAGTTGTTCTTTGCT
*
4539019 ATTGCATTGTTTCCACCAGATTTAGAAGTTGTTCTTTGCT
1 ATTGCATGGTTTCCACCAGATTTAGAAGTTGTTCTTTGCT
4539059 TGTGGGTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (40 bp):
ATTGCATGGTTTCCACCAGATTTAGAAGTTGTTCTTTGCT
Found at i:4548051 original size:29 final size:31
Alignment explanation
Indices: 4548014--4548071 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
4548004 CACTCCTATA
* *
4548014 TGTAATGACTATACT-ATTCTC-CAAAAAAC
1 TGTAATGACTAAACTCATCCTCACAAAAAAC
*
4548043 TGTAGTGACTAAACTCATCCTCACAAAAA
1 TGTAATGACTAAACTCATCCTCACAAAAA
4548072 TGAAGAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.54
30 5 0.21
31 6 0.25
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (31 bp):
TGTAATGACTAAACTCATCCTCACAAAAAAC
Found at i:4550049 original size:218 final size:218
Alignment explanation
Indices: 4549666--4550213 Score: 751
Period size: 217 Copynumber: 2.5 Consensus size: 218
4549656 AGATGTTGTT
* * * * *
4549666 CATAAGTATTCATTGAAATAGACATTTTGCATTGTCATATTATATCATCACTGGGTGATTTTCAG
1 CATAAGTTTTCATTGAAGTAGACATTTTGCACTGTCATATTATATCATCACTAGGTGATTTTCAT
** * * *
4549731 TATTTTCCCTTTCAACGGTGACTCTGAATTGCTTAGTTCTCTTTAATATTGTGGCTTCTAGAGTG
66 TATTTTCCCTTTCAACGGTGACTCTGAATTGCTTAGTTCTCTTTAATATCATGGCATCAAGAGGG
* * * * * *
4549796 AGAGTGGCAAACTTCACCCAGTTCTCTGGAAAATTTAGAGCCTTGTGATCAGATGACTAGAGTTG
131 AGAGTGGCAAACTTCACCCAATTCTCTGGAAAATTTACAACCTTGTGAGCAAATGACTAAAGTTG
*
4549861 GACAGGTCCTTGTTCCTTGTCTC
196 GACAGGTCATTGTTCCTTGTCTC
** *
4549884 CATAAGTTTTCATTGAAGTAGGGATTTTGCACTGTCATATTATAT-ATCACTAGGTGATTTTTAT
1 CATAAGTTTTCATTGAAGTAGACATTTTGCACTGTCATATTATATCATCACTAGGTGATTTTCAT
* * * *
4549948 TATTTTCCCTTTCAACAGTGACTATGAATTGCTTAGCTCTCCTTAATATCATGGCATCAAGAGGG
66 TATTTTCCCTTTCAACGGTGACTCTGAATTGCTTAGTTCTCTTTAATATCATGGCATCAAGAGGG
* *
4550013 AGAGTGGCAAGATTTCACCCAATTCTCTGTAAAATTTACAACCTTGTGAGCAAATGACTAAAGTT
131 AGAGTGGCAA-ACTTCACCCAATTCTCTGGAAAATTTACAACCTTGTGAGCAAATGACTAAAGTT
* *
4550078 GGCCAGGTCATTGTTCCTTGTCTT
195 GGACAGGTCATTGTTCCTTGTCTC
* * * * *
4550102 CATAAGTTTTCATTGAGGTAGACATTTTTCACTG--ATATTAAATCATCACTTGGTGATTTCCAT
1 CATAAGTTTTCATTGAAGTAGACATTTTGCACTGTCATATTATATCATCACTAGGTGATTTTCAT
* *
4550165 CATTTTCCCTTTCAATGGTGACTCTGAATTGCTTAGTTCTCTTTAATAT
66 TATTTTCCCTTTCAACGGTGACTCTGAATTGCTTAGTTCTCTTTAATAT
4550214 TGTTTCATTT
Statistics
Matches: 286, Mismatches: 42, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
216 8 0.03
217 141 0.49
218 137 0.48
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (218 bp):
CATAAGTTTTCATTGAAGTAGACATTTTGCACTGTCATATTATATCATCACTAGGTGATTTTCAT
TATTTTCCCTTTCAACGGTGACTCTGAATTGCTTAGTTCTCTTTAATATCATGGCATCAAGAGGG
AGAGTGGCAAACTTCACCCAATTCTCTGGAAAATTTACAACCTTGTGAGCAAATGACTAAAGTTG
GACAGGTCATTGTTCCTTGTCTC
Found at i:4554574 original size:28 final size:27
Alignment explanation
Indices: 4554542--4554608 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
4554532 TATTTTTTTG
4554542 CAAAATAAATATGT-ATTAATATCACCAA
1 CAAAA-AAATAT-TAATTAATATCACCAA
4554570 CAAAAAGAATATTAATTAATATCACCAA
1 CAAAAA-AATATTAATTAATATCACCAA
*
4554598 CTAAAGAAATA
1 C-AAAAAAATA
4554609 AAAAACATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 2 0.06
28 29 0.83
29 4 0.11
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.25
Consensus pattern (27 bp):
CAAAAAAATATTAATTAATATCACCAA
Found at i:4555455 original size:20 final size:19
Alignment explanation
Indices: 4555422--4555468 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
4555412 TTCCTCTTTC
* *
4555422 TTTTTT-TTCTTTTTTTCA
1 TTTTTTATTCATTTTCTCA
4555440 TTGTTTTATTCATTTTCTCA
1 TT-TTTTATTCATTTTCTCA
4555460 TTTTTTATT
1 TTTTTTATT
4555469 TTTTAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 11 0.44
20 12 0.48
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTATTCATTTTCTCA
Found at i:4556098 original size:28 final size:28
Alignment explanation
Indices: 4556058--4556124 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
4556048 CTTTAGGGAT
4556058 TTTCATATAAATATCTTTATCAAATGAG
1 TTTCATATAAATATCTTTATCAAATGAG
*
4556086 TTTCATATAAATATCTTTATCAAGTGAG
1 TTTCATATAAATATCTTTATCAAATGAG
4556114 --TCATATAAATA
1 TTTCATATAAATA
4556125 GATTATAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 11 0.29
28 27 0.71
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (28 bp):
TTTCATATAAATATCTTTATCAAATGAG
Found at i:4557719 original size:34 final size:34
Alignment explanation
Indices: 4557680--4557790 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 34
4557670 GGTATCACAT
*
4557680 TCATCATCTAGATTAATCTCTCAACAGATGGCAA
1 TCATCATCTAGAGTAATCTCTCAACAGATGGCAA
* * * *
4557714 TCATCACCTGGAGTAGTCTC-GAAC-GAGTGGTATCACA
1 TCATCATCTAGAGTAATCTCTCAACAGA-TGG---CA-A
4557751 TTCATCATCTAGAGTAATCTCTCAACAGATGGCAA
1 -TCATCATCTAGAGTAATCTCTCAACAGATGGCAA
4557786 TCATC
1 TCATC
4557791 CCCTGAAGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
32 2 0.03
33 6 0.10
34 21 0.35
35 1 0.02
36 4 0.07
37 1 0.02
38 17 0.28
39 6 0.10
40 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (34 bp):
TCATCATCTAGAGTAATCTCTCAACAGATGGCAA
Found at i:4557760 original size:72 final size:72
Alignment explanation
Indices: 4557643--4557808 Score: 269
Period size: 72 Copynumber: 2.3 Consensus size: 72
4557633 TAGTCATAAA
* *
4557643 CATCACCGGGAGTAGTCTCAAACAAGTGGTATCACATTCATCATCTAGATTAATCTCTCAACAGA
1 CATCACCTGGAGTAGTCTCAAACAAGTGGTATCACATTCATCATCTAGAGTAATCTCTCAACAGA
4557708 TGGCAAT
66 TGGCAAT
* *
4557715 CATCACCTGGAGTAGTCTCGAACGAGTGGTATCACATTCATCATCTAGAGTAATCTCTCAACAGA
1 CATCACCTGGAGTAGTCTCAAACAAGTGGTATCACATTCATCATCTAGAGTAATCTCTCAACAGA
4557780 TGGCAAT
66 TGGCAAT
* * *
4557787 CATCCCCTGAAGTAATCTCAAA
1 CATCACCTGGAGTAGTCTCAAA
4557809 TGGGTGGCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (72 bp):
CATCACCTGGAGTAGTCTCAAACAAGTGGTATCACATTCATCATCTAGAGTAATCTCTCAACAGA
TGGCAAT
Found at i:4557766 original size:38 final size:37
Alignment explanation
Indices: 4557652--4557771 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 37
4557642 ACATCACCGG
*
4557652 GAGTAGTCTCAAACAAGTGGTATCACATTCATCATCTA
1 GAGTAATCTCAAAC-AGTGGTATCACATTCATCATCTA
* * * *
4557690 GATTAATCTCTCAACAGATGG---CA-A-TCATCACCTG
1 GAGTAATCTC-AAACAG-TGGTATCACATTCATCATCTA
* *
4557724 GAGTAGTCTCGAACGAGTGGTATCACATTCATCATCTA
1 GAGTAATCTCAAAC-AGTGGTATCACATTCATCATCTA
4557762 GAGTAATCTC
1 GAGTAATCTC
4557772 TCAACAGATG
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
33 6 0.10
34 18 0.29
35 1 0.02
36 4 0.06
37 1 0.02
38 27 0.43
39 6 0.10
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (37 bp):
GAGTAATCTCAAACAGTGGTATCACATTCATCATCTA
Found at i:4557801 original size:34 final size:34
Alignment explanation
Indices: 4557693--4557805 Score: 97
Period size: 34 Copynumber: 3.2 Consensus size: 34
4557683 TCATCTAGAT
*
4557693 TAATCTCTCAACAGATGGCAATCATCACCTGGAG
1 TAATCTCTCAACAGATGGCAATCATCACCTGAAG
* * *
4557727 TAGTCTC-GAAC-GAGTGGTATCACATTCATCATCT-AGAG
1 TAATCTCTCAACAGA-TGG---CA-A-TCATCACCTGA-AG
*
4557765 TAATCTCTCAACAGATGGCAATCATCCCCTGAAG
1 TAATCTCTCAACAGATGGCAATCATCACCTGAAG
4557799 TAATCTC
1 TAATCTC
4557806 AAATGGGTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
32 2 0.03
33 6 0.10
34 22 0.36
35 2 0.03
36 4 0.07
37 1 0.02
38 16 0.26
39 6 0.10
40 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (34 bp):
TAATCTCTCAACAGATGGCAATCATCACCTGAAG
Found at i:4568264 original size:14 final size:14
Alignment explanation
Indices: 4568245--4568276 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4568235 AGTGTCTTCA
4568245 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
4568259 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
4568273 TTTT
1 TTTT
4568277 GTGTTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:4572156 original size:218 final size:219
Alignment explanation
Indices: 4571772--4572219 Score: 650
Period size: 218 Copynumber: 2.1 Consensus size: 219
4571762 AGATGTTGTT
*
4571772 CATAAGTATTCATTGAAATAGACATTTTGCATGTTCATATTATATCATCACTGTGTGATTTTCAG
1 CATAAGTTTTCATTGAAATAGACATTTTGCATGTTCATATTATATCATCACTGTGTGATTTTCAG
* * ** * * *
4571837 TATTTTCCCTTTCAACAGTGACTCTGAATTGCATAGTTCTCTTTAATATTGTGGCTTCTAGAGTG
66 TATTTTCCCTTTCAACAGTGACTATGAATTGCATAGTTCTCCTTAATATCATGGCATCAAGAGGG
* * *
4571902 AGAGTGGCAAGACTTCACCCAATTCTCTGAAAAATTTAGAGCCTTGTGATCAAATGACTAAAGTT
131 AGAGTGGCAAGACTTCACCCAATTCTCTGAAAAATTTACAACCTTGTGAGCAAATGACTAAAGTT
* *
4571967 GGACTGGTCCTTGTTCCTTGTCTC
196 GGACAGGTCATTGTTCCTTGTCTC
* * *
4571991 CATAAGTTTTCATTGAAGTAGGCATTTTGCACTG-TCATATTATAT-ATCACTAG-GTGATTTTT
1 CATAAGTTTTCATTGAAATAGACATTTTGCA-TGTTCATATTATATCATCACT-GTGTGATTTTC
* * *
4572053 ATTATTTTCTCTTTCAACAGTGACTATGAATTGCTTAGTTCTCCTTAATATCATGGCATCAAGAG
64 AGTATTTTCCCTTTCAACAGTGACTATGAATTGCATAGTTCTCCTTAATATCATGGCATCAAGAG
* *
4572118 GGAGAGTGGCAAGATTTCACCCAATTCTCTGTAAAATTTACAACCTTGTGAGCAAATGACTAAAG
129 GGAGAGTGGCAAGACTTCACCCAATTCTCTGAAAAATTTACAACCTTGTGAGCAAATGACTAAAG
*
4572183 TTGGACAGGTCATTGTTCCTTGTCTT
194 TTGGACAGGTCATTGTTCCTTGTCTC
*
4572209 TATAAGTTTTC
1 CATAAGTTTTC
4572220 GTTGTGGTAG
Statistics
Matches: 204, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
218 162 0.79
219 40 0.20
220 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (219 bp):
CATAAGTTTTCATTGAAATAGACATTTTGCATGTTCATATTATATCATCACTGTGTGATTTTCAG
TATTTTCCCTTTCAACAGTGACTATGAATTGCATAGTTCTCCTTAATATCATGGCATCAAGAGGG
AGAGTGGCAAGACTTCACCCAATTCTCTGAAAAATTTACAACCTTGTGAGCAAATGACTAAAGTT
GGACAGGTCATTGTTCCTTGTCTC
Found at i:4580204 original size:3 final size:3
Alignment explanation
Indices: 4580196--4580233 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4580186 AAGAGTGTAG
4580196 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
4580234 ATGTCAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:4584756 original size:2 final size:2
Alignment explanation
Indices: 4584744--4584803 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
4584734 AATCATGTGA
* * *
4584744 AT AT A- AT AT AT AT AT AT AT AT AT AT AA AT AG AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
4584785 AT TT AT AT TT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT
4584804 GTCTTAGGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4586898 original size:2 final size:2
Alignment explanation
Indices: 4586891--4586920 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4586881 CAACTGATAC
*
4586891 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4586921 TGAAAGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4589618 original size:18 final size:17
Alignment explanation
Indices: 4589595--4589632 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4589585 CATTGATTCC
4589595 AATTTTTAATAAAATATT
1 AATTTTT-ATAAAATATT
*
4589613 AATTTTTTTAAAATATT
1 AATTTTTATAAAATATT
4589630 AAT
1 AAT
4589633 ATTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTATAAAATATT
Found at i:4589649 original size:11 final size:12
Alignment explanation
Indices: 4589621--4589681 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
4589611 TTAATTTTTT
4589621 TAAAATATTAATA
1 TAAAATATTAA-A
*
4589634 TTAAAT-TATAAA
1 TAAAATAT-TAAA
4589646 TAAAATATTAAA
1 TAAAATATTAAA
*
4589658 TATTTAA-ATTAAA
1 TA--AAATATTAAA
4589671 TAAAATATTAA
1 TAAAATATTAA
4589682 TATTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 2 0.05
12 18 0.46
13 17 0.44
14 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAAATATTAAA
Found at i:4589654 original size:19 final size:20
Alignment explanation
Indices: 4589630--4589672 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4589620 TTAAAATATT
4589630 AATATTAAAT-TATAAATAA
1 AATATTAAATATATAAATAA
* *
4589649 AATATTAAATATTTAAATTA
1 AATATTAAATATATAAATAA
4589669 AATA
1 AATA
4589673 AAATATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTAAATATATAAATAA
Found at i:4589655 original size:25 final size:26
Alignment explanation
Indices: 4589621--4589693 Score: 116
Period size: 25 Copynumber: 2.9 Consensus size: 26
4589611 TTAATTTTTT
4589621 TAAAATATTAATA-TTAAATTATAAA
1 TAAAATATTAATATTTAAATTATAAA
4589646 TAAAATATTAAATATTTAAA-T-TAAA
1 TAAAATATT-AATATTTAAATTATAAA
4589671 TAAAATATTAATATTTAAATTAT
1 TAAAATATTAATATTTAAATTAT
4589694 TAATTATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.23
25 23 0.52
26 6 0.14
27 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATATTAATATTTAAATTATAAA
Found at i:4589661 original size:32 final size:32
Alignment explanation
Indices: 4589623--4589703 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
4589613 AATTTTTTTA
4589623 AAATATTAATATTAAATTATAAATA-AAATA-TT
1 AAATATTAATATTAAA-TA-AAATATAAATATTT
*
4589655 AAATATTTAA-ATTAAATAAAATATTAATATTT
1 AAATA-TTAATATTAAATAAAATATAAATATTT
4589687 AAATTATTAATTATTAA
1 AAA-TATTAA-TATTAA
4589704 TATTTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
30 5 0.12
31 6 0.14
32 20 0.48
33 6 0.14
34 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATATTAATATTAAATAAAATATAAATATTT
Found at i:4589664 original size:8 final size:7
Alignment explanation
Indices: 4589623--4589707 Score: 62
Period size: 7 Copynumber: 13.0 Consensus size: 7
4589613 AATTTTTTTA
4589623 AAATATT
1 AAATATT
4589630 -AATATT
1 AAATATT
4589636 AAAT-TAT
1 AAATAT-T
4589643 AAATA--
1 AAATATT
4589648 AAATATT
1 AAATATT
4589655 AAATATT
1 AAATATT
*
4589662 TAA-ATT
1 AAATATT
4589668 AAATA--
1 AAATATT
4589673 AAATATT
1 AAATATT
4589680 -AATATTT
1 AAATA-TT
4589687 AAATTATT
1 AAA-TATT
*
4589695 AATTATT
1 AAATATT
4589702 -AATATT
1 AAATATT
4589708 TTATTTAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
5 10 0.16
6 21 0.33
7 24 0.38
8 6 0.10
9 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AAATATT
Found at i:4589712 original size:27 final size:27
Alignment explanation
Indices: 4589682--4589735 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4589672 AAAATATTAA
*
4589682 TATTTAAATTATTA-ATTATTAATATTT
1 TATTTAAATT-CTAGATTATTAATATTT
4589709 TATTTAAATTCTAGATTATTAATATTT
1 TATTTAAATTCTAGATTATTAATATTT
4589736 AAAAAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
TATTTAAATTCTAGATTATTAATATTT
Found at i:4589761 original size:18 final size:19
Alignment explanation
Indices: 4589735--4589776 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4589725 TATTAATATT
4589735 TAAAAAATC-TAATAAA-AA
1 TAAAAAATCAT-ATAAATAA
*
4589753 TAAATAATCATATAAATAA
1 TAAAAAATCATATAAATAA
4589772 TAAAA
1 TAAAA
4589777 GATGTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAAATCATATAAATAA
Found at i:4604955 original size:17 final size:17
Alignment explanation
Indices: 4604933--4604965 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4604923 CTGAGAGAGC
4604933 TTTGGT-TTTGTCTTGTG
1 TTTGGTGTTTGT-TTGTG
4604950 TTTGGTGTTTGTTTGT
1 TTTGGTGTTTGTTTGT
4604966 TTGTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.03, G:0.30, T:0.67
Consensus pattern (17 bp):
TTTGGTGTTTGTTTGTG
Found at i:4611628 original size:38 final size:38
Alignment explanation
Indices: 4611577--4611653 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
4611567 TTTATGTGTC
* * *
4611577 TTATTCGAGTTTTAATAAGACTCGGGTATCTTTTTAAT
1 TTATTCGAATTTTAATAAGACTCAGGTATCTTCTTAAT
* *
4611615 TTATTCGAATTTTAATAGGATTCAGGTATCTTCTTAAT
1 TTATTCGAATTTTAATAAGACTCAGGTATCTTCTTAAT
4611653 T
1 T
4611654 AAACGGATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (38 bp):
TTATTCGAATTTTAATAAGACTCAGGTATCTTCTTAAT
Found at i:4612290 original size:63 final size:63
Alignment explanation
Indices: 4612197--4612495 Score: 496
Period size: 63 Copynumber: 4.8 Consensus size: 63
4612187 TGATTATGTT
* * * * ** *
4612197 GAAGAAAACGACAACGAATCAAACGAAGAAGATGTCAAGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
*
4612260 GAAGAAAACAACAATGGATCAGACGCAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
4612323 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
4612386 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
*
4612449 GAAGAAAACAAC---GGATCAGACGAAGAAGAAATCAAGAATTGGGAGTC
1 GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTC
4612496 GGAAGAAAAC
Statistics
Matches: 226, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
60 34 0.15
63 192 0.85
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.14
Consensus pattern (63 bp):
GAAGAAAACAACAATGGATCAGACGAAGAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
Found at i:4612327 original size:36 final size:36
Alignment explanation
Indices: 4612287--4612455 Score: 122
Period size: 36 Copynumber: 5.2 Consensus size: 36
4612277 ATCAGACGCA
4612287 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
* ** * *
4612323 GAAGAAAACAACAA-T-GGA-TCAG----A--CGAA
1 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
4612350 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
* ** * *
4612386 GAAGAAAACAACAA-T-GGA-TCAG----A--CGAA
1 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
4612413 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
1 GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
4612449 GAAGAAA
1 GAAGAAA
4612456 ACAACGGATC
Statistics
Matches: 95, Mismatches: 20, Indels: 36
0.63 0.13 0.24
Matches are distributed among these distances:
27 26 0.27
28 2 0.02
29 8 0.08
30 8 0.08
33 8 0.08
34 8 0.08
35 2 0.02
36 33 0.35
ACGTcount: A:0.47, C:0.08, G:0.30, T:0.15
Consensus pattern (36 bp):
GAAGAAATCAGGAATTGGGAGTCAGAAATATGTGAG
Found at i:4612527 original size:51 final size:50
Alignment explanation
Indices: 4612448--4612598 Score: 200
Period size: 51 Copynumber: 3.0 Consensus size: 50
4612438 AAATATGTGA
*
4612448 GGAAGAAAAC-A-ACGGATCAGACGAAGAAGAAATCAAGAATTGGGAGTC
1 GGAAGAAAACAAGACGGATCAGACAAAGAAGAAATCAAGAATTGGGAGTC
*
4612496 GGAAGAAAACAATGACGGATCAGACAAAGAAGAAGTCAAGAATTGGGAGTC
1 GGAAGAAAACAA-GACGGATCAGACAAAGAAGAAATCAAGAATTGGGAGTC
* * * *
4612547 GGAAGACAACAACG-CTGGATCAGACAACGACGAACTCAAGAATTGGGAGTC
1 GGAAGAAAACAA-GAC-GGATCAGACAAAGAAGAAATCAAGAATTGGGAGTC
4612598 G
1 G
4612599 AAATTTGTGG
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
48 10 0.11
49 1 0.01
50 1 0.01
51 80 0.87
ACGTcount: A:0.44, C:0.15, G:0.29, T:0.11
Consensus pattern (50 bp):
GGAAGAAAACAAGACGGATCAGACAAAGAAGAAATCAAGAATTGGGAGTC
Found at i:4616586 original size:29 final size:29
Alignment explanation
Indices: 4616554--4616613 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4616544 GGAAAAAAGA
4616554 TAGAAATATTTCCATGCAACTGAGCTTAT
1 TAGAAATATTTCCATGCAACTGAGCTTAT
4616583 TAGAAATATTTCCATGCAACTGAGCTTAT
1 TAGAAATATTTCCATGCAACTGAGCTTAT
4616612 TA
1 TA
4616614 ACATTTGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (29 bp):
TAGAAATATTTCCATGCAACTGAGCTTAT
Found at i:4638348 original size:18 final size:18
Alignment explanation
Indices: 4638308--4638351 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4638298 TCATATCATA
4638308 TATGTCATATAAACAAAT
1 TATGTCATATAAACAAAT
* * *
4638326 CATGTCATATAAATAAGT
1 TATGTCATATAAACAAAT
4638344 TATGTCAT
1 TATGTCAT
4638352 CCATTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
TATGTCATATAAACAAAT
Found at i:4638580 original size:2 final size:2
Alignment explanation
Indices: 4638575--4638614 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4638565 TAAAAAAAAA
4638575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4638615 TAAGAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4638705 original size:18 final size:18
Alignment explanation
Indices: 4638682--4638729 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
4638672 AAGTGATATT
4638682 TTAATTAATAATAATTAA
1 TTAATTAATAATAATTAA
*
4638700 TTAATTTATAATAATTAA
1 TTAATTAATAATAATTAA
* *
4638718 TAAATTATTAAT
1 TTAATTAATAAT
4638730 TATAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAATTAATAATAATTAA
Found at i:4646519 original size:11 final size:11
Alignment explanation
Indices: 4646503--4646527 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4646493 AATTATTTTT
4646503 TTAAATTATAG
1 TTAAATTATAG
4646514 TTAAATTATAG
1 TTAAATTATAG
4646525 TTA
1 TTA
4646528 TGTATAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TTAAATTATAG
Found at i:4649499 original size:5 final size:5
Alignment explanation
Indices: 4649489--4649523 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
4649479 GGTGGCACTT
*
4649489 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG TGTTG
1 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG
4649524 ATCATTTCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.57, T:0.43
Consensus pattern (5 bp):
GGTTG
Found at i:4666323 original size:152 final size:150
Alignment explanation
Indices: 4666027--4666329 Score: 556
Period size: 152 Copynumber: 2.0 Consensus size: 150
4666017 TTAGTTAACG
4666027 TATTACTATTTTTTAATTATTGTTTTATAGAATAAGAACAAATTTAAATCTGTTTTTTTTCAATG
1 TATTACTATTTTTTAATTATTGTTTTATAGAATAAGAACAAATTTAAATCTGTTTTTTTTCAATG
4666092 AAATTGTCAAAACGTAGAAGATTTTTTTTTATAGAAAAAAAATAAATGTTGCCACAAGAGTAAAA
66 AAATTGTCAAAACGTAGAAGATTTTTTTTTATAGAAAAAAAATAAATGTTGCCACAAGAGTAAAA
4666157 GAGATAAGCATATTTTGGAA
131 GAGATAAGCATATTTTGGAA
4666177 TATTACTATTTTTTTAATTATTGTTTTATAGAATAAGAACAAATTTAAATCTG-TTTTTTTCAAT
1 TATTACTA-TTTTTTAATTATTGTTTTATAGAATAAGAACAAATTTAAATCTGTTTTTTTTCAAT
4666241 GAAATTGTCAAAACGTAGAAGATTTTTTTTTTTTATAG-AAAAAAATAAATGTTGCCACAAGAGT
65 GAAATTGTCAAAACGTAGAAGA---TTTTTTTTTATAGAAAAAAAATAAATGTTGCCACAAGAGT
4666305 AAAAGAGATAAGCATATTTTGGAA
127 AAAAGAGATAAGCATATTTTGGAA
4666329 T
1 T
4666330 GTTAATTGTG
Statistics
Matches: 149, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
150 41 0.28
151 44 0.30
152 51 0.34
153 13 0.09
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.40
Consensus pattern (150 bp):
TATTACTATTTTTTAATTATTGTTTTATAGAATAAGAACAAATTTAAATCTGTTTTTTTTCAATG
AAATTGTCAAAACGTAGAAGATTTTTTTTTATAGAAAAAAAATAAATGTTGCCACAAGAGTAAAA
GAGATAAGCATATTTTGGAA
Found at i:4666389 original size:2 final size:2
Alignment explanation
Indices: 4666382--4666447 Score: 90
Period size: 2 Copynumber: 36.0 Consensus size: 2
4666372 AAAGGGTTTT
4666382 TA TA TA TA T- TA TA TA -A TA TA TA -A TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4666420 TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4666448 ATAAATAGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
1 6 0.10
2 52 0.90
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4666412 original size:23 final size:22
Alignment explanation
Indices: 4666382--4666450 Score: 104
Period size: 21 Copynumber: 3.1 Consensus size: 22
4666372 AAAGGGTTTT
4666382 TATATATATTATATAATATATAA
1 TATATATA-TATATAATATATAA
*
4666405 TATATATATATATAATA-ATAT
1 TATATATATATATAATATATAA
4666426 TATATATATATATATATATATAA
1 TATATATATATATA-ATATATAA
4666449 TA
1 TA
4666451 AATAGAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.40
22 12 0.29
23 13 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATATATATAATATATAA
Found at i:4666415 original size:25 final size:25
Alignment explanation
Indices: 4666382--4666450 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 25
4666372 AAAGGGTTTT
4666382 TATATATATTATATAATA-TATA-A
1 TATATATATTATATAATATTATATA
4666405 TATATATATATATAATAATATTATATA
1 TATATATAT-TAT-ATAATATTATATA
4666432 TATATATATATATATAATA
1 TATATATAT-TATATAATA
4666451 AATAGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.21
24 3 0.07
25 6 0.14
26 10 0.24
27 14 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATATATTATATAATATTATATA
Found at i:4666436 original size:29 final size:28
Alignment explanation
Indices: 4666382--4666451 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
4666372 AAAGGGTTTT
*
4666382 TATATATATTAT-ATAATATATAATATA
1 TATATATATAATAATAATATATAATATA
*
4666409 TATATATATAATAATATTATATATATATA
1 TATATATATAATAATAATATATA-ATATA
4666438 TATATATATAATAA
1 TATATATATAATAA
4666452 ATAGAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 11 0.28
28 9 0.23
29 19 0.49
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TATATATATAATAATAATATATAATATA
Found at i:4667136 original size:2 final size:2
Alignment explanation
Indices: 4667131--4667169 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4667121 CACACACACT
4667131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4667170 TGATAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4667760 original size:9 final size:9
Alignment explanation
Indices: 4667746--4667770 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4667736 CTCCCCATTT
4667746 TTTTTTTTA
1 TTTTTTTTA
4667755 TTTTTTTTA
1 TTTTTTTTA
4667764 TTTTTTT
1 TTTTTTT
4667771 ACTTATGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4684001 original size:29 final size:29
Alignment explanation
Indices: 4683955--4684039 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
4683945 TTTTATTTTG
*
4683955 TTCTCTTTTACCTATTCATGTACAACTTT
1 TTCTCTTGTACCTATTCATGTACAACTTT
* * * **
4683984 TTCTCTTGTACTTGTTCACGTACAGTTTT
1 TTCTCTTGTACCTATTCATGTACAACTTT
4684013 TTCTCTTGTACCTATTCATGTACAACT
1 TTCTCTTGTACCTATTCATGTACAACT
4684040 CTTCTTTGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.49
Consensus pattern (29 bp):
TTCTCTTGTACCTATTCATGTACAACTTT
Found at i:4685050 original size:244 final size:242
Alignment explanation
Indices: 4684543--4685469 Score: 1102
Period size: 244 Copynumber: 3.8 Consensus size: 242
4684533 AGTTTTGAAA
* * *
4684543 TTGGAAATGTCGAGGAGAGCTTTGAGTTTGCTAT-AGATTTTAGCGCCCGAAATGACTGAAAA--
1 TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCA-ATTTTGGCGCCCGGAATGACTGAAAATC
* * * *
4684605 TCATCCACCCAACCATCCAGAAAACCCAA-AATGTCCCTCAAGAACTTAAAAGTGAAAAGAAATG
65 TCATCCACCCAACCATCTAAAAAACCCAATAATGT-CCTCAAGAACTTAAAAGAGAAAAAAAATG
* * * * *
4684669 AAAAATAAAAAATACCCTTTTAAATTGATAAAATACCATGAATAGGTGTTAGATGTAGAGAATGT
129 AAAAATAAAAAATACCCTTTTAAATTGATAAAATACCATAAACAGGTATTAGATGTAAAGAAGGT
* * * *
4684734 GTCT-AGGTAGAAATCAATTTTTGGTTTCGAACAGTTAGGAGGGGGAGCC
194 ATGTAAGG-AGAAATCAATTTTTGGTTTCGAACAGTTGGGAGGGGGAGCT
* * *
4684783 TTGGAAATGTCGAGGAGAGCTTTGAGTTTGTTATCAATTTTGGCGCTCGGAATGACTGAAAATCT
1 TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCAATTTTGGCGCCCGGAATGACTGAAAATCT
**
4684848 CATCCACCCAACCATAAAAAAAAAAACCCAATAATGT-C-CAAGAACTTAAAAGAGAAAAAAAAT
66 CATCCACCCAACCAT---CTAAAAAACCCAATAATGTCCTCAAGAACTTAAAAGAGAAAAAAAAT
* * *
4684911 GAAAAACT-GAAAATACCCTTTTAAATTGATAAAATACCATGAACAGGTATTCA-ATGTAAAAAA
128 GAAAAA-TAAAAAATACCCTTTTAAATTGATAAAATACCATAAACAGGTATT-AGATGT-AAAGA
* *
4684974 AGGTATGTAAAGAGAAATCAATTTTTGGTTTTGAACAGTTGGGAGGGGGAGCT
190 AGGTATGTAAGGAGAAATCAATTTTTGGTTTCGAACAGTTGGGAGGGGGAGCT
* * * * * *
4685027 TTGGAAATGTCGAGAAAAGCTTTGGGTTTGTTGTCAGTTTTGGTGCCCGGAATGACTGAAAATCT
1 TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCAATTTTGGCGCCCGGAATGACTGAAAATCT
* *
4685092 CATCCACCCAGCCATCTAAAAAACCCAATAATGTCCTTCAAGAACTTAAAAGAGAAAAGAAATGA
66 CATCCACCCAACCATCTAAAAAACCCAATAATGTCC-TCAAGAACTTAAAAGAGAAAAAAAATGA
* ** * * *
4685157 AAAGTTGAAAATACCCTTTTAAATTGGTAAAATACCATAAACAGGTTTTAGATGTAAAGAAGGAA
130 AAAATAAAAAATACCCTTTTAAATTGATAAAATACCATAAACAGGTATTAGATGTAAAGAAGGTA
* * * *
4685222 TGTAGGGAGAAATCAATATAGGTTTTTTGGTTTCAAACAGTAGGGA-GGGTAGCT
195 TGTAAGGAGAAATC---A-A---TTTTTGGTTTCGAACAGTTGGGAGGGGGAGCT
* * ** *
4685276 TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCAGTTTTGGTGCCTAGAATGACTGAAAGTCT
1 TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCAATTTTGGCGCCCGGAATGACTGAAAATCT
* * *
4685341 CATCCACCCAACCATCTAGAAAACCCAATAAGGTCCTCAAGAACTTAAAAGGGAAAAAAAAT-AA
66 CATCCACCCAACCATCTAAAAAACCCAATAATGTCCTCAAGAACTTAAAAGAGAAAAAAAATGAA
* * * * *
4685405 AAAGTCAAAAATATCTTTTTCAATTGATAAAATATCATAAACAGGTATTAGATGTAAAGAAGGTA
131 AAA-TAAAAAATACCCTTTTAAATTGATAAAATACCATAAACAGGTATTAGATGTAAAGAAGGTA
4685470 CGCAAGTAAA
Statistics
Matches: 597, Mismatches: 66, Indels: 40
0.85 0.09 0.06
Matches are distributed among these distances:
240 56 0.09
241 18 0.03
242 17 0.03
243 95 0.16
244 194 0.32
245 12 0.02
246 6 0.01
247 5 0.01
248 76 0.13
249 98 0.16
250 20 0.03
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (242 bp):
TTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATCAATTTTGGCGCCCGGAATGACTGAAAATCT
CATCCACCCAACCATCTAAAAAACCCAATAATGTCCTCAAGAACTTAAAAGAGAAAAAAAATGAA
AAATAAAAAATACCCTTTTAAATTGATAAAATACCATAAACAGGTATTAGATGTAAAGAAGGTAT
GTAAGGAGAAATCAATTTTTGGTTTCGAACAGTTGGGAGGGGGAGCT
Found at i:4688604 original size:29 final size:28
Alignment explanation
Indices: 4688561--4688628 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
4688551 GTAAATTTTT
* * **
4688561 AAAAATTATACTTTTGCCCCTGTAAAGTG
1 AAAAATTACACTTTTACCCC-AAAAAGTG
* *
4688590 AAAAATTACATTTTTACCCCAAAAATTG
1 AAAAATTACACTTTTACCCCAAAAAGTG
4688618 AAAAATTACAC
1 AAAAATTACAC
4688629 ATAGACATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAAATTACACTTTTACCCCAAAAAGTG
Found at i:4691321 original size:19 final size:20
Alignment explanation
Indices: 4691275--4691321 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
4691265 GTACTATTTT
* **
4691275 TTCTTTTTTTTGTTTTATTT
1 TTCTTTTTATTGTTTTATCA
*
4691295 TTCATTTTATT-TTTTATCA
1 TTCTTTTTATTGTTTTATCA
4691314 TTCTTTTT
1 TTCTTTTT
4691322 GCTTGGGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (20 bp):
TTCTTTTTATTGTTTTATCA
Found at i:4695421 original size:13 final size:13
Alignment explanation
Indices: 4695403--4695431 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4695393 TGCAACAACG
4695403 ACACTTCATAACT
1 ACACTTCATAACT
4695416 ACACTTCATAACT
1 ACACTTCATAACT
4695429 ACA
1 ACA
4695432 TTATACATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (13 bp):
ACACTTCATAACT
Found at i:4696336 original size:18 final size:18
Alignment explanation
Indices: 4696311--4696352 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4696301 GAAAAAGAAG
4696311 AATATTTTA-GAATAAAAT
1 AATATTTTATGAA-AAAAT
*
4696329 ATTATTTTATGAAAAAAT
1 AATATTTTATGAAAAAAT
4696347 AATATT
1 AATATT
4696353 AAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
AATATTTTATGAAAAAAT
Found at i:4697572 original size:2 final size:2
Alignment explanation
Indices: 4697565--4697603 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4697555 ATCATCTCGA
*
4697565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4697604 AATTATATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4700243 original size:249 final size:249
Alignment explanation
Indices: 4699760--4701205 Score: 1500
Period size: 249 Copynumber: 5.9 Consensus size: 249
4699750 GAAGATGAAG
* * * * ***
4699760 TTTTGGTTTTGAACAGTTGGAAGGGGGAGATTTGGAAATGTCGAGGAGAGTTTTGAGTTTACAAT
1 TTTTGGTTTCGAACAGTTGGAA-GGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTAT
* * * * * * * * *
4699825 CAGTATTAGTG-CTCGAAATGACTGAAAATCTCATCCACCCAACTATCCAGAAAACTCAATAATA
65 CAGTTTTGGCGCCT-AAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATG
* * *
4699889 TCCCTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAGATACCATTTTAAATTGATAAAAT
129 TCCTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAAAAT
* * * **
4699954 ACCATGAACAGGTGTTAAATGTAGAGAAGGTATATAGGTAGAAATCAATATAAGTT
194 ACCATGAACAGGTGTTAGATGTAGAAAAGATACGTAGGTAGAAATCAATATAAGTT
* * * * *
4700010 TTTTGGTTTCAAATAGTTGGAAGGGGAGCTTTGGAAATATCGAGGAGAGATTTGAGTTTGTTATC
1 TTTTGGTTTCGAACAGTTGGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTATC
* * * * * *
4700075 AATTTTGGCGCCTAAAATGATTGAAAATCTCATCCATCCAGCCATCTAGAAAGCCCAATAATGTC
66 AGTTTTGGCGCCTAAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATGTC
* *
4700140 CTTTAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAATATAC
131 CTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAAAATAC
*
4700205 CATGAACAAGTGTTAGATGTAGAAAAGATACGTAGGTAGAAATCAATATAAGTT
196 CATGAACAGGTGTTAGATGTAGAAAAGATACGTAGGTAGAAATCAATATAAGTT
* * * *
4700259 TTTTGGTTTTGAAC-G--GG-AGGGGAGCTTTAGAAATGTCGAGAAGAGCTTTGAGTTTGTTGTT
1 TTTTGGTTTCGAACAGTTGGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTATC
* * * * * * *
4700320 GGTTTTGGCACCCAAAATGATTGAAAATTTCATCCACCCAACCATCCAAAAAACCTAATAATGT-
66 AGTTTTGGCGCCTAAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATGTC
* * * *
4700384 CTCTCAAGAACTTAAAAAAGAAAAGAAATGAAAAA-CTGAAAAGACCTTTTTAAATTGATAAAAT
131 CT-TCAAGAACTTAAAAGAGAAAAGAAATAAAAAATC-AAAAATACCTTTTTAAATTGATAAAAT
* * *
4700448 ACCATGAATAGGTGTTAGATGTAGAGAATG-TGTC-TAGGTAGAAATC-----AA--T
194 ACCATGAACAGGTGTTAGATGTAGA-AAAGAT-ACGTAGGTAGAAATCAATATAAGTT
* * *
4700497 TTTTGGTTTCGAACAGTTAGGAGGGGGAGCCTTGGAAATGTCGAGGAGAGCTTTGAGTTTGTTAT
1 TTTTGGTTTCGAACAGTT-GGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTAT
* ** **
4700562 CAATTTTGGCG-CTCGGAATGACTGAAAATCTCATCCACCCAACCATAAAAAAAAAAACCCAATA
65 CAGTTTTGGCGCCT-AAAATGACTGAAAATCTCATCCACCCAACCAT---CTAAAAAACCCAATA
* * * *
4700626 ATGT-C--CAAGAACTTAAAAGAGAAAAAAAATGAAAAA-CTGAAAATACCCTTTTAAATTGATA
126 ATGTCCTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATC-AAAAATACCTTTTTAAATTGATA
* * * *
4700687 AAATACCATGAACAGGTATTCA-ATGTA-AAAA-A-AGGTATGTA-AAGA-GAA-ATCAA--T
190 AAATACCATGAACAGGTGTT-AGATGTAGAAAAGATACGTAGGTAGAA-ATCAATAT-AAGTT
* * * * *
4700741 TTTTGGTTTTGAACAGTTGGGAGGGGGAGCTTTGGAAATGTCGAGAAAAGCTTTGGGTTTGTTGT
1 TTTTGGTTTCGAACAGTT-GGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTAT
* *** *
4700806 CAGTTTTGGTGCCCGGAATGACTGAAAATCTCATCCACCCAGCCATCTAAAAAACCCAATAATGT
65 CAGTTTTGGCGCCTAAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATGT
* * ** * *
4700871 CCTTCAAGAACTTAAAAGAGAAAAGAAATGAAAAGTTGAAAATACCCTTTTAAATTGGTAAAATA
130 CCTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAAAATA
* * * * *
4700936 CCATAAACAGGTTTTAGATGTA-AAGAAGGA-ATGTAGGGAGAAATCAATATAGGTT
195 CCATGAACAGGTGTTAGATGTAGAA-AA-GATACGTAGGTAGAAATCAATATAAGTT
* * * * *
4700991 TTTTGGTTTCAAACAGTAGGGAGGGTAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGCTATC
1 TTTTGGTTTCGAACAGTTGGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTATC
* * * * *
4701056 AGTTTTGGTGCCTAGAATGACTGAAAGTCTCATCCACCCAACCATCTAGAAAACCCAATAAGGTC
66 AGTTTTGGCGCCTAAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATGTC
* * * * * *
4701121 C-TCAAGAACTTAAAAGGGAAAAAAAATAAAAAGTCAAAAATATCTTTTTCAATTGATAAAATAT
131 CTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAAAATAC
* *
4701185 CATAAACAGGTATTAGATGTA
196 CATGAACAGGTGTTAGATGTA
4701206 AAGAAGGTAC
Statistics
Matches: 1016, Mismatches: 143, Indels: 76
0.82 0.12 0.06
Matches are distributed among these distances:
238 14 0.01
239 3 0.00
240 8 0.01
241 19 0.02
242 5 0.00
243 149 0.15
244 181 0.18
245 183 0.18
246 23 0.02
247 8 0.01
248 79 0.08
249 307 0.30
250 37 0.04
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (249 bp):
TTTTGGTTTCGAACAGTTGGAAGGGGAGCTTTGGAAATGTCGAGAAGAGCTTTGAGTTTGTTATC
AGTTTTGGCGCCTAAAATGACTGAAAATCTCATCCACCCAACCATCTAAAAAACCCAATAATGTC
CTTCAAGAACTTAAAAGAGAAAAGAAATAAAAAATCAAAAATACCTTTTTAAATTGATAAAATAC
CATGAACAGGTGTTAGATGTAGAAAAGATACGTAGGTAGAAATCAATATAAGTT
Found at i:4713109 original size:21 final size:21
Alignment explanation
Indices: 4713062--4713104 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
4713052 AAATTTTAAA
4713062 TAAATTTTTTATTTTATTTAAT
1 TAAATTTTTTATTTTATTT-AT
4713084 TAAATTTTTATATTTTTATTT
1 TAAATTTTT-TA-TTTTATTT
4713105 TAAATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TAAATTTTTTATTTTATTTAT
Found at i:4716140 original size:2 final size:2
Alignment explanation
Indices: 4716135--4716176 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
4716125 TCACGAGATA
* * *
4716135 AT AT AT AC AT GT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4716177 TTGGTGCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4740404 original size:17 final size:17
Alignment explanation
Indices: 4740382--4740423 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4740372 ATCGGATTTT
*
4740382 AACCCATTTAGG-TTATG
1 AACCCATTT-GGATTATA
4740399 AACCCATTTGGATTATA
1 AACCCATTTGGATTATA
4740416 AACCCATT
1 AACCCATT
4740424 AATCTAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (17 bp):
AACCCATTTGGATTATA
Found at i:4740662 original size:22 final size:21
Alignment explanation
Indices: 4740637--4740684 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
4740627 ATCTTTTATT
4740637 TTTTC-TTATTTAATTTTTCTC
1 TTTTCTTTATTT-ATTTTTCTC
4740658 ATTTTCTTTATTTATTTTTCTC
1 -TTTTCTTTATTTATTTTTCTC
4740680 TTTTC
1 TTTTC
4740685 CCTCTCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTTATTTATTTTTCTC
Found at i:4741986 original size:20 final size:21
Alignment explanation
Indices: 4741949--4741989 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4741939 CTTATCATTT
*
4741949 TTCATTTTTGACTATTTATTA
1 TTCATTTTTAACTATTTATTA
4741970 TTCATTTTTAACT-TTTATTA
1 TTCATTTTTAACTATTTATTA
4741990 ATGAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
TTCATTTTTAACTATTTATTA
Found at i:4747875 original size:12 final size:12
Alignment explanation
Indices: 4747858--4747882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4747848 TCAATTAATT
4747858 TGTATATAACCA
1 TGTATATAACCA
4747870 TGTATATAACCA
1 TGTATATAACCA
4747882 T
1 T
4747883 TCTCTGGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TGTATATAACCA
Found at i:4757834 original size:20 final size:20
Alignment explanation
Indices: 4757806--4757858 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4757796 AATATCCAAG
*
4757806 TTTCTAGCAACTTCTTCAAA
1 TTTCCAGCAACTTCTTCAAA
*
4757826 TTTCCAGCAGA-TTCTTCAAG
1 TTTCCAGCA-ACTTCTTCAAA
*
4757846 CTTCCAGCAACTT
1 TTTCCAGCAACTT
4757859 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (20 bp):
TTTCCAGCAACTTCTTCAAA
Found at i:4757956 original size:15 final size:15
Alignment explanation
Indices: 4757928--4757961 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4757918 TTTCATGTGA
* *
4757928 TTTTTCTTTGTTTTC
1 TTTTTATTTCTTTTC
4757943 TTTTTATTTCTTTTC
1 TTTTTATTTCTTTTC
4757958 TTTT
1 TTTT
4757962 CCTAATCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTATTTCTTTTC
Found at i:4758690 original size:2 final size:2
Alignment explanation
Indices: 4758683--4758716 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4758673 CGTTATGATG
4758683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4758717 GTTGTGCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4758927 original size:40 final size:38
Alignment explanation
Indices: 4758834--4758939 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
4758824 ATAGTGCCCG
* *
4758834 TGTGCACGATGTGGGGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
* * *
4758872 TGTGCACGATGTGGGGGGATGCACATGATGGCGCCGGCT
1 TGTGCACGATGTGGGGGGATGTACATGATGGC-ACGGAT
4758911 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
4758940 GCCGGGTGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 30 0.50
39 3 0.05
40 27 0.45
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
Found at i:4771344 original size:27 final size:24
Alignment explanation
Indices: 4771285--4771340 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
4771275 AAAGAACTAA
* *
4771285 AATTATCAATAATAGGACCAGAAG
1 AATTATCAACAACAGGACCAGAAG
*
4771309 AATTATCAACAACAGGATCAGAAG
1 AATTATCAACAACAGGACCAGAAG
4771333 AATTATCA
1 AATTATCA
4771341 TCAATGGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (24 bp):
AATTATCAACAACAGGACCAGAAG
Found at i:4778795 original size:143 final size:143
Alignment explanation
Indices: 4778522--4779587 Score: 963
Period size: 143 Copynumber: 7.5 Consensus size: 143
4778512 TAGTGCAATG
* * * * **
4778522 AAAGTAACTTTTTCAAAGTTGCAATGCTAATTATCT-TAGAATAAAGGTTATTTCATCTAGTTGA
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTA-CTATAGCATAAAGGTTATTTCATCTCTTTGA
* * *** ** * **
4778586 TCTGAA-TTTCTGTGTCCA-AAAGCTCGAGGAA-ATG-ATCAAGATGGCGATGGAAAGGTTTTAT
65 TCT-AACTTTTTGTGTCCAGAAA-CTCGAGGAAGA-GAAT-AAGGTCAAGATCTAAAGGCTTCGT
* *
4778647 CAAGAAAATAATGCACAT
126 AAAGAAAATGATGCACAT
** * * *
4778665 AGCGTAAATTTCTCAAAATTCCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTTTTTGAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* * * *
4778730 CTAACTTTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTTAAGATCTTAAGGCTTTGTAAAGA
66 CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTCAAGATCTAAAGGCTTCGTAAAGA
* *
4778795 AATTAATGCACAT
131 AAATGATGCACAT
* * *
4778808 AAAGTAAATTTCTCAAAGTTTCAATACTAATTACTATAACATAAAGGTTATTTCATTTCTTTGAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* * * * * * *
4778873 CCAATTTTTTGTGTCTAGAAACTTGAGGAAAAGAATAAGATCGAA-ATCGAAAGGCTTCGTAAAG
66 CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTC-AAGATCTAAAGGCTTCGTAAAG
*
4778937 ATAATGATGCACAT
130 AAAATGATGCACAT
* ** * * *
4778951 AAAGTAAATTTCTCAAAGTTTCAATGCGAATTACTATATTATAAAAGTTATTTTACCTCTTTGAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* * * * * ** * * * *
4779016 CTGACTTTTTGTGTCTAGAAACTAGAGGAA-ACGAACAAAGTTGAGATCGATAGGCTTCGCAAAT
66 CTAACTTTTTGTGTCCAGAAACTCGAGGAAGA-GAATAAGGTCAAGATCTAAAGGCTTCGTAAAG
* **
4779080 TAAATGATGGGCAT
130 AAAATGATGCACAT
* ** *
4779094 AAAGTAAATTTCTCAGAGTTTCAATGCTAATTACTATAGCATAGTGGTTATTTCATATCTTTGAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* ** * * * * * *
4779159 AC-GACTCCTTATGTCCAGAAATTCGAGGAAGAGAAAAACGTCGAGAT-TGAAAGGCTCCGTAAA
66 -CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTCAAGATCT-AAAGGCTTCGTAAA
4779222 GAAAATGATGC-CTAT
129 GAAAATGATGCAC-AT
* * *
4779237 AAAGTAAATTTCTCAAGGTTCCAATGCTAATTACTATACCATAAAGGTTATTTCATCTCTTTGAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* * *
4779302 CTAACTCTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTCAAGAT-TGAGAA-GCTTTGTAAA
66 CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTCAAGATCT-A-AAGGCTTCGTAAA
* *
4779365 GAAATTGATGCATAT
129 GAAAATGATGCACAT
* * *
4779380 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATTTCATTAAT
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
* * * ** * * * * * *
4779445 ATGATTTTTTGTGTTTAGAAAATTGAGGAAGAGAACAAGGTCGAA-ATCGAAAGGCTTCTTGAAG
66 CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTC-AAGATCTAAAGGCTTCGTAAAG
* * *
4779509 AAAATGCTACATAT
130 AAAATGATGCACAT
* ** * ** *
4779523 AAAGTAAGTTTCTTGAAGTTCCAATGCTAATTAACT-TAATATAAAAGTTATTTCATCTCTTTGA
1 AAAGTAAATTTCTCAAAGTTTCAATGCTAATT-ACTATAGCATAAAGGTTATTTCATCTCTTTGA
4779587 T
65 T
4779588 TTATGTTCAG
Statistics
Matches: 758, Mismatches: 146, Indels: 38
0.80 0.15 0.04
Matches are distributed among these distances:
142 10 0.01
143 731 0.96
144 17 0.02
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (143 bp):
AAAGTAAATTTCTCAAAGTTTCAATGCTAATTACTATAGCATAAAGGTTATTTCATCTCTTTGAT
CTAACTTTTTGTGTCCAGAAACTCGAGGAAGAGAATAAGGTCAAGATCTAAAGGCTTCGTAAAGA
AAATGATGCACAT
Found at i:4779038 original size:286 final size:285
Alignment explanation
Indices: 4778648--4779587 Score: 1129
Period size: 286 Copynumber: 3.3 Consensus size: 285
4778638 AGGTTTTATC
* ** * * *
4778648 AAGAAAATAATGCACATAGCGTAAATTTCTCAAAATTCCAATGCTAATTACTATAGCATAAAGGT
1 AAGAAAATGATGCACATAAAGTAAATTTCTCAAAGTTCCAATGCTAATTACTATAACATAAAAGT
*
4778713 TATTTCATCTTTTTGATCTAACTTTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTTAAGATC
66 TATTTCATCTCTTTGATCTAACTTTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTTAAGATC
* * *
4778778 TTA-AGGCTTTGTAAAGAAATTAATGCACATAAAGTAAATTTCTCAAAGTTTCAATACTAATTAC
131 TGAGAGGCTTTGTAAAGAAATTGATGCACATAAAGTAAATTTCTCAAAGTTTCAATGCTAATTAC
* * * *
4778842 TATAACATAAAGGTTATTTCATTTCTTTGATCCAATTTTTTGTGTCTAGAAACTTGAGGAAAAGA
196 TATAGCATAAAGGTTATTTCATTTCTTTGATACGATTTTTTGTGTCTAGAAA-TTGAGGAAGAGA
*
4778907 ATAAGATCGAAATCGAAAGGCTTCGTA
260 AAAAG-TCGAAATCGAAAGGCTTCGTA
* * * **
4778934 AAGATAATGATGCACATAAAGTAAATTTCTCAAAGTTTCAATGCGAATTACTATATTATAAAAGT
1 AAGAAAATGATGCACATAAAGTAAATTTCTCAAAGTTCCAATGCTAATTACTATAACATAAAAGT
* * * * * * * * *
4778999 TATTTTACCTCTTTGATCTGACTTTTTGTGTCTAGAAACTAGAGGAA-ACGAACAAAGTTGAGAT
66 TATTTCATCTCTTTGATCTAACTTTTTGTATCCAGAAACTCGAGGAAGA-GAATAAGGTTAAGAT
* * * * ** *
4779063 C-GATAGGCTTCGCAAATTAAA-TGATGGGCATAAAGTAAATTTCTCAGAGTTTCAATGCTAATT
130 CTGAGAGGCTTTGTAAA-GAAATTGATGCACATAAAGTAAATTTCTCAAAGTTTCAATGCTAATT
** * * ** * *
4779126 ACTATAGCATAGTGGTTATTTCATATCTTTGATACGACTCCTTATGTCCAGAAATTCGAGGAAGA
194 ACTATAGCATAAAGGTTATTTCATTTCTTTGATACGATTTTTTGTGTCTAGAAATT-GAGGAAGA
* * *
4779191 GAAAAACGTCGAGATTGAAAGGCTCCGTA
258 GAAAAA-GTCGAAATCGAAAGGCTTCGTA
* * *
4779220 AAGAAAATGATGC-CTATAAAGTAAATTTCTCAAGGTTCCAATGCTAATTACTATACCATAAAGG
1 AAGAAAATGATGCAC-ATAAAGTAAATTTCTCAAAGTTCCAATGCTAATTACTATAACATAAAAG
* *
4779284 TTATTTCATCTCTTTGATCTAACTCTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTCAAGAT
65 TTATTTCATCTCTTTGATCTAACTTTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTTAAGAT
* *
4779349 -TGAGAAGCTTTGTAAAGAAATTGATGCATATAAAGTAAATTTCTCAAAGTTTCAATGCTAATTA
130 CTGAGAGGCTTTGTAAAGAAATTGATGCACATAAAGTAAATTTCTCAAAGTTTCAATGCTAATTA
* * * *
4779413 CTATAGCATAAAGGTTATTTCATTTCATTAATATGATTTTTTGTGTTTAGAAAATTGAGGAAGAG
195 CTATAGCATAAAGGTTATTTCATTTCTTTGATACGATTTTTTGTGTCTAG-AAATTGAGGAAGAG
* * *
4779478 AACAAGGTCGAAATCGAAAGGCTTCTTG
259 AA-AAAGTCGAAATCGAAAGGCTTCGTA
* * * * ** *
4779506 AAGAAAATGCTACATATAAAGTAAGTTTCTTGAAGTTCCAATGCTAATTAACT-TAATATAAAAG
1 AAGAAAATGATGCACATAAAGTAAATTTCTCAAAGTTCCAATGCTAATT-ACTATAACATAAAAG
4779570 TTATTTCATCTCTTTGAT
65 TTATTTCATCTCTTTGAT
4779588 TTATGTTCAG
Statistics
Matches: 541, Mismatches: 100, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
285 8 0.01
286 518 0.96
287 15 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (285 bp):
AAGAAAATGATGCACATAAAGTAAATTTCTCAAAGTTCCAATGCTAATTACTATAACATAAAAGT
TATTTCATCTCTTTGATCTAACTTTTTGTATCCAGAAACTCGAGGAAGAGAATAAGGTTAAGATC
TGAGAGGCTTTGTAAAGAAATTGATGCACATAAAGTAAATTTCTCAAAGTTTCAATGCTAATTAC
TATAGCATAAAGGTTATTTCATTTCTTTGATACGATTTTTTGTGTCTAGAAATTGAGGAAGAGAA
AAAGTCGAAATCGAAAGGCTTCGTA
Found at i:4780724 original size:14 final size:14
Alignment explanation
Indices: 4780705--4780735 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4780695 GTTCCAATTC
4780705 TAATTACTATAGCA
1 TAATTACTATAGCA
*
4780719 TAATTACTATAGTA
1 TAATTACTATAGCA
4780733 TAA
1 TAA
4780736 ATGTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (14 bp):
TAATTACTATAGCA
Found at i:4794848 original size:17 final size:17
Alignment explanation
Indices: 4794826--4794859 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4794816 TATATTTTAC
*
4794826 TTTTATATTTTTTTAAT
1 TTTTATATATTTTTAAT
4794843 TTTTATATATTTTTAAT
1 TTTTATATATTTTTAAT
4794860 ATAATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATATATTTTTAAT
Found at i:4803067 original size:3 final size:3
Alignment explanation
Indices: 4803059--4803095 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4803049 ATAAGTAACA
4803059 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4803096 TAAATTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4804235 original size:2 final size:2
Alignment explanation
Indices: 4804228--4804254 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4804218 ACTGATTGTT
4804228 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4804255 GATAAGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4806975 original size:16 final size:17
Alignment explanation
Indices: 4806951--4806998 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
4806941 TATATATACT
*
4806951 TTAAATATAAATATAT-
1 TTAATTATAAATATATA
*
4806967 TTACTTATAAA-AT-TA
1 TTAATTATAAATATATA
4806982 TTAATTAT-AATATATA
1 TTAATTATAAATATATA
4806998 T
1 T
4806999 ACCTTTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATTATAAATATATA
Found at i:4810343 original size:141 final size:142
Alignment explanation
Indices: 4810083--4810343 Score: 470
Period size: 141 Copynumber: 1.8 Consensus size: 142
4810073 TATAATATCT
*
4810083 AAATGTAATTAATTAAAAGATTCCATGTGAAAAATAATTAATAAAAGTTCACAATTAATAGAATA
1 AAATATAATTAATTAAAAGATTCCATGTGAAAAATAATTAATAAAAGTTCACAATTAATAGAATA
*
4810148 ATTATTTTAGTAAAATAATTTGTAAATTAGTATTTTTATTAAAATAATATATTCAAATAGCCCTA
66 ATTATTTTAGTAAAATAATTTGTAAATTAGTATTTTAATTAAAATAATATATTCAAATAGCCCTA
4810213 AAACATTATGCC
131 AAACATTATGCC
*
4810225 AAATATAATTAATTAAAAGATTCCATGTGAAAAATAATTAAT-AGAGTTCACAATTAATAGAATA
1 AAATATAATTAATTAAAAGATTCCATGTGAAAAATAATTAATAAAAGTTCACAATTAATAGAATA
* *
4810289 ATTATTTTAGTAAAATAGTTTGTAAATTAGTATTTTAATTAAACTAATATATTCA
66 ATTATTTTAGTAAAATAATTTGTAAATTAGTATTTTAATTAAAATAATATATTCA
4810344 CATTTGAATT
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
141 73 0.64
142 41 0.36
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (142 bp):
AAATATAATTAATTAAAAGATTCCATGTGAAAAATAATTAATAAAAGTTCACAATTAATAGAATA
ATTATTTTAGTAAAATAATTTGTAAATTAGTATTTTAATTAAAATAATATATTCAAATAGCCCTA
AAACATTATGCC
Found at i:4811818 original size:42 final size:42
Alignment explanation
Indices: 4811738--4811837 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 42
4811728 AAAAATTAAT
4811738 TAAAATTATTAATATTTTAATCAAAATAACATTCAAATTATAAA
1 TAAAA-TATTAATATTTTAA-CAAAATAACATTCAAATTATAAA
* *
4811782 TAAAATATTAATATTTTAA-AAAGTTAATGATT-AAATTATAAA
1 TAAAATATTAATATTTTAACAAA-ATAA-CATTCAAATTATAAA
4811824 TAAAATATTAATAT
1 TAAAATATTAATAT
4811838 ATAAATAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
41 3 0.06
42 27 0.52
43 17 0.33
44 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (42 bp):
TAAAATATTAATATTTTAACAAAATAACATTCAAATTATAAA
Found at i:4811840 original size:19 final size:21
Alignment explanation
Indices: 4811774--4811866 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
4811764 TAACATTCAA
4811774 ATTATAAATAA-AATATTAAT
1 ATTATAAATAATAATATTAAT
*
4811794 ATTTTAAA-AAGTTAATGATTAA-
1 ATTATAAATAA--TAAT-ATTAAT
4811816 ATTATAAATAA-AATATTAAT
1 ATTATAAATAATAATATTAAT
4811836 A-TATAAATAATCAATTATTAAT
1 ATTATAAATAAT-AA-TATTAAT
*
4811858 ATTTTAAAT
1 ATTATAAAT
4811867 TAAGAATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
19 16 0.27
20 11 0.18
21 2 0.03
22 18 0.30
23 13 0.22
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTATAAATAATAATATTAAT
Found at i:4811866 original size:42 final size:42
Alignment explanation
Indices: 4811772--4811866 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
4811762 AATAACATTC
* *
4811772 AAATTATAAATAAAATATTAATATTTTAAAAAGTTAATGATT
1 AAATTATAAATAAAATATTAATATTATAAAAAGTCAATGATT
*
4811814 AAATTATAAATAAAATATTAATA-TATAAATAA-TCAATTATT
1 AAATTATAAATAAAATATTAATATTATAAA-AAGTCAATGATT
*
4811855 AATATTTTAAAT
1 AA-ATTATAAAT
4811867 TAAGAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (42 bp):
AAATTATAAATAAAATATTAATATTATAAAAAGTCAATGATT
Found at i:4812275 original size:42 final size:41
Alignment explanation
Indices: 4812223--4812327 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 41
4812213 AAAAATTAAT
4812223 TAAAATTATTAATATTTT-AATCA-TAATAAATTAAAATTATAAA
1 TAAAA-TATTAATATTTTAAAT-ATTAA-AAATT-AAATTATAAA
*
4812266 TAAAATATTAATATTTTGAAATATTAAAGATTAAATTATAAA
1 TAAAATATTAATATTTT-AAATATTAAAAATTAAATTATAAA
*
4812308 TAAAATATTAACA-TTTAAAT
1 TAAAATATTAATATTTTAAAT
4812328 GATCAATTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
40 4 0.07
41 3 0.05
42 34 0.60
43 10 0.18
44 6 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (41 bp):
TAAAATATTAATATTTTAAATATTAAAAATTAAATTATAAA
Found at i:4813002 original size:18 final size:20
Alignment explanation
Indices: 4812979--4813025 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
4812969 TGAAAATATT
4812979 TAAATATTATTTAA-TAT-A
1 TAAATATTATTTAACTATAA
*
4812997 TTAATATT-TTTAACTATAA
1 TAAATATTATTTAACTATAA
4813016 TAAATATTAT
1 TAAATATTAT
4813026 AAAGAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 8 0.33
20 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATATTATTTAACTATAA
Found at i:4813023 original size:19 final size:18
Alignment explanation
Indices: 4812973--4813025 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
4812963 AGGAAATGAA
*
4812973 AATATTTAAATATTATTT
1 AATATATAAATATTATTT
*
4812991 AATATATTAATATT-TTT
1 AATATATAAATATTATTT
4813008 AACTATAATAAATATTAT
1 AA-TAT-ATAAATATTAT
4813026 AAAGAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 15 0.52
19 8 0.28
20 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATATAAATATTATTT
Found at i:4813060 original size:45 final size:47
Alignment explanation
Indices: 4812981--4813093 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 47
4812971 AAAATATTTA
* * *
4812981 AATATTATTTAATATATTAATATTTTTAACTATAATAAATATTATAAAG
1 AATATTATTT-A-ATATTATTATTTTGAACTATAATAAATATAATAAAG
*
4813030 AATATTATTTAATATTATTA-TTTGAA-TATAATAAATGTAATAAAG
1 AATATTATTTAATATTATTATTTTGAACTATAATAAATATAATAAAG
*
4813075 AATATTATTTAGTATTATT
1 AATATTATTTAATATTATT
4813094 TAAATTTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 35 0.59
46 5 0.08
47 8 0.14
48 1 0.02
49 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (47 bp):
AATATTATTTAATATTATTATTTTGAACTATAATAAATATAATAAAG
Found at i:4814678 original size:92 final size:93
Alignment explanation
Indices: 4814542--4814748 Score: 265
Period size: 96 Copynumber: 2.2 Consensus size: 93
4814532 TCTCCACTCT
* *
4814542 CACGGTCTCACCCTTTCTGATTTCTGCTTCTACCGATTACCG-ATCACTG-CTATCCACTAACTT
1 CACGGTCTCACCTTTTCTGATTTCTGCTTCTACCGACTACCGTATCACTGTC-ATCCACTAACTT
4814605 TCAATCTTCCATCTCCACTCTCATCGTCA
65 TCAATCTTCCATCTCCACTCTCATCGTCA
* * * * * * *
4814634 CACGGTCTCACCTTTTTTTATTTCTGCTTCTGCCGACTATCGATCTATCACTGTCGTCCCCTGAC
1 CACGGTCTCACCTTTTCTGATTTCTGCTTCTACCGACTACCG---TATCACTGTCATCCACTAAC
* *
4814699 TTTCAGTCTTCCATCTCCACTCTCATCGTCT
63 TTTCAATCTTCCATCTCCACTCTCATCGTCA
4814730 CACGGTCTCACCTTTTCTG
1 CACGGTCTCACCTTTTCTG
4814749 GTTTATACTT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
92 36 0.37
96 60 0.62
97 1 0.01
ACGTcount: A:0.16, C:0.36, G:0.11, T:0.37
Consensus pattern (93 bp):
CACGGTCTCACCTTTTCTGATTTCTGCTTCTACCGACTACCGTATCACTGTCATCCACTAACTTT
CAATCTTCCATCTCCACTCTCATCGTCA
Found at i:4816531 original size:2 final size:2
Alignment explanation
Indices: 4816524--4816548 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4816514 ACAGTAAGTA
4816524 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4816549 TGGAACTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4817659 original size:16 final size:17
Alignment explanation
Indices: 4817633--4817667 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4817623 TCTTCAAATT
4817633 ATATCAATTTTATCTCA
1 ATATCAATTTTATCTCA
*
4817650 ATAT-AATTTTATTTCA
1 ATATCAATTTTATCTCA
4817666 AT
1 AT
4817668 CTTTTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATCAATTTTATCTCA
Found at i:4817703 original size:43 final size:41
Alignment explanation
Indices: 4817650--4817733 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 41
4817640 TTTTATCTCA
* *
4817650 ATATAATTTTATTTCAATCTTTTTAGTCAATTTTCTCATTATT
1 ATATAATTTTATTGCAATCTTTTTAATCAATTTT-TC-TTATT
* *
4817693 ATATAGTTTTATTGCAATCTTTTTAATTAATTTTTCTTATT
1 ATATAATTTTATTGCAATCTTTTTAATCAATTTTTCTTATT
4817734 TAAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 5 0.14
42 2 0.05
43 30 0.81
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.60
Consensus pattern (41 bp):
ATATAATTTTATTGCAATCTTTTTAATCAATTTTTCTTATT
Found at i:4818283 original size:2 final size:2
Alignment explanation
Indices: 4818276--4818323 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
4818266 TATATTAAAA
* * *
4818276 AT AT AT AT A- AT AN AC AT AT AT AT A- AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4818316 AT AT AT AT
1 AT AT AT AT
4818324 GAAATAAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4818316 original size:154 final size:151
Alignment explanation
Indices: 4818158--4818437 Score: 341
Period size: 154 Copynumber: 1.8 Consensus size: 151
4818148 CTCTCGTTAA
* * *
4818158 ATATATATATTATAAG-T-TTATGTAA-ATAAAGATATATATATGTATAATTAATAATTTTATAA
1 ATATATATATAATAAGATCTTACGTAAGA-AAAG-TATATATAT-TATAAGTAATAATTTTATAA
4818220 ATAATAATATCTGCAACGTTAACACAAAATAGAAAGTAAATATGTTTATATTAAAAATATATATA
63 ATAATAATATCTGCAA----AACACAAAATAGAAAGTAAATATGTTTATATTAAAAATATATATA
4818285 ATANACATATATATAATATATATTTATAT
124 ATA-ACATATATATAATATATATTTATAT
* *
4818314 ATATATATATGAAATAAGATCTTACGTAAGAAATGTATATATATTATAAGTAATAATTTTATAAG
1 ATATATATAT--AATAAGATCTTACGTAAGAAAAGTATATATATTATAAGTAATAATTTTATAAA
* * * * * * *
4818379 TTATAATTTTTGTAAAATACAAAATAGAAAGTAAATATGTTTATCTTAAGAATATATAT
64 TAATAATATCTGCAAAACACAAAATAGAAAGTAAATATGTTTATATTAAAAATATATAT
4818438 TATAGTAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
154 41 0.38
156 10 0.09
158 35 0.33
159 10 0.09
160 10 0.09
161 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (151 bp):
ATATATATATAATAAGATCTTACGTAAGAAAAGTATATATATTATAAGTAATAATTTTATAAATA
ATAATATCTGCAAAACACAAAATAGAAAGTAAATATGTTTATATTAAAAATATATATAATAACAT
ATATATAATATATATTTATAT
Found at i:4818377 original size:15 final size:15
Alignment explanation
Indices: 4818357--4818388 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4818347 TGTATATATA
4818357 TTATAAGTAATAATT
1 TTATAAGTAATAATT
*
4818372 TTATAAGTTATAATT
1 TTATAAGTAATAATT
4818387 TT
1 TT
4818389 TGTAAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTATAAGTAATAATT
Found at i:4826998 original size:37 final size:37
Alignment explanation
Indices: 4826948--4827021 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
4826938 ATTTTCCTTT
4826948 TCTTCACACACACTACAAGCCGCACCACTCTAGAGAA
1 TCTTCACACACACTACAAGCCGCACCACTCTAGAGAA
4826985 TCTTCACACACACTACAAGCCGCACCACTCTAGAGAA
1 TCTTCACACACACTACAAGCCGCACCACTCTAGAGAA
4827022 ATTCATCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.38, G:0.11, T:0.16
Consensus pattern (37 bp):
TCTTCACACACACTACAAGCCGCACCACTCTAGAGAA
Found at i:4828108 original size:24 final size:25
Alignment explanation
Indices: 4828072--4828124 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
4828062 GTCAGCCCAT
** *
4828072 TTTTTATTTTTTTTTAA-AAAATCA
1 TTTTTATAATTTTATAATAAAATCA
*
4828096 TTTTTATAATTTTATAATAAAATTA
1 TTTTTATAATTTTATAATAAAATCA
4828121 TTTT
1 TTTT
4828125 ATGATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTATAATTTTATAATAAAATCA
Found at i:4828252 original size:22 final size:21
Alignment explanation
Indices: 4828210--4828267 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
4828200 ATATTATTGG
*
4828210 TAATTAAATTATTAATCTTAT
1 TAATTAAATTATAAATCTTAT
4828231 ATAATTAAATATATAAAT-TTAT
1 -TAATTAAAT-TATAAATCTTAT
4828253 TAAATT-AATTA-AAAT
1 T-AATTAAATTATAAAT
4828268 TATTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 4 0.12
22 17 0.52
23 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATTATAAATCTTAT
Found at i:4829086 original size:22 final size:23
Alignment explanation
Indices: 4829055--4829101 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4829045 ATATAGAGTT
4829055 ATTTAAGCTTAATTTTAATAGTA
1 ATTTAAGCTTAATTTTAATAGTA
**
4829078 ATTT-AGCTTAATTTTTGTAGTA
1 ATTTAAGCTTAATTTTAATAGTA
4829100 AT
1 AT
4829102 GCATAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
ATTTAAGCTTAATTTTAATAGTA
Found at i:4832329 original size:21 final size:21
Alignment explanation
Indices: 4832305--4832344 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4832295 TGTCATATTA
4832305 ATAAGAAAATGCCACATCAAC
1 ATAAGAAAATGCCACATCAAC
** *
4832326 ATAATTAAATGCCATATCA
1 ATAAGAAAATGCCACATCA
4832345 GTATAGATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (21 bp):
ATAAGAAAATGCCACATCAAC
Found at i:4832716 original size:26 final size:25
Alignment explanation
Indices: 4832664--4832716 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
4832654 ACATGTCATA
*
4832664 ATGAATGATAACATAATATATTGAT
1 ATGAATGATAACATAATATATTAAT
*
4832689 ATGACATGATAATATAAT-TATATAAT
1 ATGA-ATGATAACATAATATAT-TAAT
4832715 AT
1 AT
4832717 TATCACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (25 bp):
ATGAATGATAACATAATATATTAAT
Found at i:4832898 original size:29 final size:29
Alignment explanation
Indices: 4832845--4832900 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4832835 TTTGATTCAA
* *
4832845 AATAAAAGTATAGAGACTTAATTAAATGT
1 AATAAAAGAATAAAGACTTAATTAAATGT
* *
4832874 AATAAAAGAATAAAGATTTATTTAAAT
1 AATAAAAGAATAAAGACTTAATTAAAT
4832901 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (29 bp):
AATAAAAGAATAAAGACTTAATTAAATGT
Found at i:4839370 original size:24 final size:24
Alignment explanation
Indices: 4839320--4839372 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4839310 AAACTGCGCG
** * *
4839320 CCCT-CCTCCCCCCCCCNGCGCCG
1 CCCTCCCTCCCCCCCCCCCCCCCC
4839343 CCCTCCCTCCCCCCCCCCCCCCCC
1 CCCTCCCTCCCCCCCCCCCCCCCC
4839367 CCCTCC
1 CCCTCC
4839373 TCTCGATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.00, C:0.83, G:0.06, T:0.09
Consensus pattern (24 bp):
CCCTCCCTCCCCCCCCCCCCCCCC
Found at i:4841862 original size:2 final size:2
Alignment explanation
Indices: 4841851--4841884 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4841841 TTCAATTATT
4841851 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4841885 GCAAGTCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4844720 original size:23 final size:22
Alignment explanation
Indices: 4844677--4844720 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
4844667 GAATACAAAC
* **
4844677 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGCTAATA
4844699 ATATTTTGTATTAGAAGCTAAT
1 ATATTTT-TATTAGAAGCTAAT
4844721 TAAACATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGCTAATA
Found at i:4844845 original size:45 final size:45
Alignment explanation
Indices: 4844788--4844881 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
4844778 ATTAAATTTA
*
4844788 AATAATACTAAATAATAT-TCTTTATTACATTTATTATA-TTCAAAT
1 AATAATACTAAATAATATGT-TTTATAACATTTATTATAGTT-AAAT
* *
4844833 AATAATATTAAATAATATGTTTTATAATATTTATTATAGTTAAAT
1 AATAATACTAAATAATATGTTTTATAACATTTATTATAGTTAAAT
4844878 AATA
1 AATA
4844882 TTAACATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 41 0.93
46 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (45 bp):
AATAATACTAAATAATATGTTTTATAACATTTATTATAGTTAAAT
Found at i:4844908 original size:18 final size:18
Alignment explanation
Indices: 4844856--4844909 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
4844846 AATATGTTTT
*
4844856 ATAATATTTATTATAGTTAA
1 ATAATATTTA-AATA-TTAA
4844876 ATAATA-TTAACATATTAA
1 ATAATATTTAA-ATATTAA
4844894 ATAATATTTAAATATT
1 ATAATATTTAAATATT
4844910 TTCATTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAATATTTAAATATTAA
Found at i:4857997 original size:13 final size:13
Alignment explanation
Indices: 4857979--4858012 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4857969 TAGGGTATTT
4857979 ATGTATGCTTGCA
1 ATGTATGCTTGCA
4857992 ATGTATGCTTGCA
1 ATGTATGCTTGCA
*
4858005 ATATATGC
1 ATGTATGC
4858013 ATGTGGATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (13 bp):
ATGTATGCTTGCA
Found at i:4862392 original size:219 final size:218
Alignment explanation
Indices: 4862007--4862667 Score: 1013
Period size: 219 Copynumber: 3.0 Consensus size: 218
4861997 TACGACGAAG
* * * * * * * *
4862007 CTGCCAGGACGATGTATGGCGAAAATGCCA-TAATAAATATGCCTCATATTTC-GCGTTTTGACT
1 CTGCCTGGACGATGGATGGTGAAAATGCGACT-CTGAATATGCCTCATGTTTCAG-ATTTTGACT
* * * *
4862070 CAGTTGCAACTACTTCA-CACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
64 CAGTTACAATTACTTCACCA-GTGTTTTCGGAGGCAACCACTTGTTCTGCTTCTAACTCCATGAC
4862134 TGTGCCGAGTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGGATGA
128 TGTGCCGAGTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGT-GGATGA
4862199 ATGTTGAGTATACTGTGGATTCTGAAA
192 ATGTTGAGTATACTGTGGATTCTGAAA
4862226 CTGCCTGGACGATGGATGGTGAAAATGCGACTCTGAATATGCCTCATGTTTCAGATTTTGACTCA
1 CTGCCTGGACGATGGATGGTGAAAATGCGACTCTGAATATGCCTCATGTTTCAGATTTTGACTCA
*
4862291 GTTTCAATTACTTCACCAGTGTTTTCGGAGGCAACCACTTGTTCTGCTTCTAACTCCATGACTGT
66 GTTACAATTACTTCACCAGTGTTTTCGGAGGCAACCACTTGTTCTGCTTCTAACTCCATGACTGT
*
4862356 GCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTGGGATGAATG
131 GCCGAGTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGT-GGATGAATG
4862421 TTGAGTATACTGTGGATTCTGAAA
195 TTGAGTATACTGTGGATTCTGAAA
*
4862445 CTGCCTGGACGATGGATGGTGAAAATGCGACTCTGAATATGCCTCATGTTGCAGATTTTGACTCA
1 CTGCCTGGACGATGGATGGTGAAAATGCGACTCTGAATATGCCTCATGTTTCAGATTTTGACTCA
* * *
4862510 GTTACAATTACTTCACCAGTGTTTTCGGAGGCAACCACTTGTGCTGCTTCTAACTCCGTTACTGT
66 GTTACAATTACTTCACCAGTGTTTTCGGAGGCAACCACTTGTTCTGCTTCTAACTCCATGACTGT
* * * *
4862575 GTCGAGTAACTCTGAAATTTGTGAAAGAGATGTGGATGGTGAAGGTGAACCAAGTGAGATGAATA
131 GCCGAGTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTG-GATGAATG
* * * *
4862640 TTGAATATACCGCGGATTCTGAAG
195 TTGAGTATACTGTGGATTCTGAAA
4862664 CTGC
1 CTGC
4862668 GACGACAAGT
Statistics
Matches: 410, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
218 1 0.00
219 405 0.99
220 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (218 bp):
CTGCCTGGACGATGGATGGTGAAAATGCGACTCTGAATATGCCTCATGTTTCAGATTTTGACTCA
GTTACAATTACTTCACCAGTGTTTTCGGAGGCAACCACTTGTTCTGCTTCTAACTCCATGACTGT
GCCGAGTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTGGATGAATGT
TGAGTATACTGTGGATTCTGAAA
Found at i:4865813 original size:30 final size:30
Alignment explanation
Indices: 4865777--4865833 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
4865767 GCTATAGCAA
4865777 ATTTATTATCAACAAATAAATCTGATGTAG
1 ATTTATTATCAACAAATAAATCTGATGTAG
*
4865807 ATTTATTGTCAACAAATAAATCTGATG
1 ATTTATTATCAACAAATAAATCTGATG
4865834 CAGTTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
ATTTATTATCAACAAATAAATCTGATGTAG
Found at i:4874100 original size:219 final size:220
Alignment explanation
Indices: 4873721--4874384 Score: 973
Period size: 219 Copynumber: 3.0 Consensus size: 220
4873711 GCTTACGACG
4873721 AAGCTGCCAGGACGATGTATGGGGAAAATGCCATAATAAATATGCCTCATATTTCGCGTTTTGAC
1 AAGCTGCCAGGACGATGTATGGGGAAAATGCCATAATAAATATGCCTCATATTTCGCGTTTTGAC
4873786 TCAGTTGCAACTACTTCACACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
66 TCAGTTGCAACTACTTCACACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
4873851 TGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGGATGA
131 TGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGGATGA
* * *
4873916 ACGTTGAATATGCTGTGGATT-TTA
196 ATGTTGAATATACTGTGGATTCTGA
4873940 AAGCTGCCAGGACGATGTATGGGGAAAATGCCATAATAAATATGCCTCATATTTCGCGTTTTGAC
1 AAGCTGCCAGGACGATGTATGGGGAAAATGCCATAATAAATATGCCTCATATTTCGCGTTTTGAC
4874005 TCAGTTGCAACTACTTCACACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
66 TCAGTTGCAACTACTTCACACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
*
4874070 TGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTGGGATGA
131 TGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGGATGA
*
4874135 ATGTTGAGTATACTGTGGATTCTGA
196 ATGTTGAATATACTGTGGATTCTGA
* * * * * * * *
4874160 AA-CTGCCTGGACGATGGATGGTGAAAATGCGACT-CTGAATATGCCCCAT-GTT-GCAGATTTT
1 AAGCTGCCAGGACGATGTATGGGGAAAATGCCA-TAATAAATATGCCTCATATTTCGC-G-TTTT
* * * * * *
4874221 GACTCAGTTACAATTACTTCAC-CAGTGTTTTCGGAGGCAACCACTTGTGCTGCTTCTAACTCCG
63 GACTCAGTTGCAACTACTTCACAC-GCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCA
* * * * * * *
4874285 TTACTGTGTCGAGTAACTCTGAAATTTGTGAAAGAGATGTGGATGGTGAAGGTGAAACAAGTAAG
127 TGACTGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGG
* * * *
4874350 ATGAATATTGAATACACCGCGGATTCTG-
192 ATGAATGTTGAATATACTGTGGATTCTGA
4874378 AAGCTGC
1 AAGCTGC
4874385 GACGACAAGT
Statistics
Matches: 407, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
217 2 0.00
218 6 0.01
219 394 0.97
220 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (220 bp):
AAGCTGCCAGGACGATGTATGGGGAAAATGCCATAATAAATATGCCTCATATTTCGCGTTTTGAC
TCAGTTGCAACTACTTCACACGCGTTTTCGGAGGCAAGCACTTGTTCTGCTTCTAACTCCATGAC
TGTGCCGATTAACTATGAAATTTGTGGAAGAGATGTGGATGGTGAAGGTGAACCAAGTAGGATGA
ATGTTGAATATACTGTGGATTCTGA
Found at i:4880566 original size:20 final size:20
Alignment explanation
Indices: 4880524--4880562 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4880514 ACCCCGTACC
*
4880524 TTTAAAAAATCTTTAAATTA
1 TTTAAAAAATCTTTAAATAA
4880544 TTTAAAAAAT-TTTAAATAA
1 TTTAAAAAATCTTTAAATAA
4880563 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATCTTTAAATAA
Done.