Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 38 of 129
Found at i:7858262 original size:90 final size:90
Alignment explanation
Indices: 7858099--7858406 Score: 363
Period size: 90 Copynumber: 3.3 Consensus size: 90
7858089 GGCTCATGTT
* *
7858099 AGCAGAGGCTCAACAACTTTAAAAATT-T-TTTGAAAAAGCTCATCTCAGCAGAGGCTCAGCAAC
1 AGCAGAGGCTCAACAACTTT-AAAATTCTCTTTG-AAAA-CTCCTCTCAGCAGAGGCTCAACAAC
*
7858162 TTTAAAATTCTCTTGAAAAAGCTCATCCC
63 TTTAAAATTCTCTTGAAAAAGCTC-TCTC
* * *
7858191 AACAGAGGCTCAACAACTTTAAAATTCTCTTTGAAAA-TCCTTTCAGCAGAGGCTCAATAACTTT
1 AGCAGAGGCTCAACAACTTTAAAATTCTCTTTGAAAACTCCTCTCAGCAGAGGCTCAACAACTTT
7858255 AAAATTCTCTTGAAAAAGCTTCTCTC
66 AAAATTCTCTTGAAAAAGC-TCTCTC
* * * * *
7858281 AGCATAGGCTCAACAACTTTAAAATCTCATCTTGGAAAGGACTTCTCTCAGTAAAGGCTCAACAA
1 AGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTTGAAA--ACTCCTCTCAGCAGAGGCTCAACAA
7858346 CTTTAAAATTCTTATCTTGGAAAAA-CTCCTCTC
62 CTTTAAAATTC---TCTT-GAAAAAGCT-CTCTC
7858379 AGCAGAGGCTCAACAACTTTAAAATTCT
1 AGCAGAGGCTCAACAACTTTAAAATTCT
7858407 TATCTGTTTT
Statistics
Matches: 188, Mismatches: 15, Indels: 22
0.84 0.07 0.10
Matches are distributed among these distances:
90 68 0.36
91 10 0.05
92 32 0.17
93 4 0.02
94 1 0.01
95 29 0.15
96 1 0.01
97 3 0.02
98 34 0.18
99 6 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (90 bp):
AGCAGAGGCTCAACAACTTTAAAATTCTCTTTGAAAACTCCTCTCAGCAGAGGCTCAACAACTTT
AAAATTCTCTTGAAAAAGCTCTCTC
Found at i:7858411 original size:49 final size:47
Alignment explanation
Indices: 7858099--7858407 Score: 357
Period size: 46 Copynumber: 6.6 Consensus size: 47
7858089 GGCTCATGTT
*
7858099 AGCAGAGGCTCAACAACTTTAAAAATT-TT-TTGAAAAAGCTCATCTC
1 AGCAGAGGCTCAACAACTTT-AAAATTCTTCTTGAAAAAGCTCCTCTC
* * *
7858145 AGCAGAGGCTCAGCAACTTTAAAATTC-TCTTGAAAAAGCTCATCCC
1 AGCAGAGGCTCAACAACTTTAAAATTCTTCTTGAAAAAGCTCCTCTC
* *
7858191 AACAGAGGCTCAACAACTTTAAAATTC-TCTTTG-AAAA--TCCTTTC
1 AGCAGAGGCTCAACAACTTTAAAATTCTTC-TTGAAAAAGCTCCTCTC
* *
7858235 AGCAGAGGCTCAATAACTTTAAAATTC-TCTTGAAAAAGCTTCTCTC
1 AGCAGAGGCTCAACAACTTTAAAATTCTTCTTGAAAAAGCTCCTCTC
* * * * *
7858281 AGCATAGGCTCAACAACTTTAAAATCTCATCTTGGAAAGGACTTCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAT-TCTTCTTGAAAAAG-CTCCTCTC
* *
7858330 AGTAAAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAAA-CTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAATTC-T-TCTT-GAAAAAGCTCCTCTC
7858379 AGCAGAGGCTCAACAACTTTAAAATTCTT
1 AGCAGAGGCTCAACAACTTTAAAATTCTT
7858408 ATCTGTTTTC
Statistics
Matches: 228, Mismatches: 23, Indels: 23
0.83 0.08 0.08
Matches are distributed among these distances:
43 3 0.01
44 35 0.15
45 7 0.03
46 94 0.41
47 6 0.03
48 12 0.05
49 63 0.28
50 4 0.02
51 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (47 bp):
AGCAGAGGCTCAACAACTTTAAAATTCTTCTTGAAAAAGCTCCTCTC
Found at i:7871751 original size:3 final size:3
Alignment explanation
Indices: 7871740--7871776 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
7871730 AAATTAAATA
7871740 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7871777 GGTGTTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:7872684 original size:2 final size:2
Alignment explanation
Indices: 7872677--7872706 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7872667 CAGGTGCTTT
7872677 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
7872707 ACTATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7872776 original size:22 final size:20
Alignment explanation
Indices: 7872743--7872784 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7872733 TAATTGATTC
*
7872743 ATTTTTTCTTCTTAAAGAAAA
1 ATTTTCTCTTCTTAAA-AAAA
7872764 ATTTTCTCATTCTTAAAAAAA
1 ATTTTCTC-TTCTTAAAAAAA
7872785 GTCAGACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTCTCTTCTTAAAAAAA
Found at i:7875560 original size:23 final size:23
Alignment explanation
Indices: 7875525--7875585 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
7875515 TTCGTACTAG
*
7875525 TTAATTTAGGTTTAAAATGTCAA
1 TTAATCTAGGTTTAAAATGTCAA
* *
7875548 TTAATCT-GAGTTTAAAGTGTCAG
1 TTAATCTAG-GTTTAAAATGTCAA
7875571 TTAATCTAGGTTTAA
1 TTAATCTAGGTTTAA
7875586 TCTTATCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (23 bp):
TTAATCTAGGTTTAAAATGTCAA
Found at i:7875675 original size:23 final size:22
Alignment explanation
Indices: 7875649--7875695 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7875639 AAATATTAGC
7875649 TAATATGGACTTAAAGTACCAGT
1 TAATATGGACTT-AAGTACCAGT
* * *
7875672 TAATTTGGGCTTAGGTACCAGT
1 TAATATGGACTTAAGTACCAGT
7875694 TA
1 TA
7875696 GTCTAGGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (22 bp):
TAATATGGACTTAAGTACCAGT
Found at i:7875704 original size:22 final size:22
Alignment explanation
Indices: 7875664--7875706 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7875654 TGGACTTAAA
* *
7875664 GTACCAGTTAATTTGGGCTTAG
1 GTACCAGTTAATCTAGGCTTAG
*
7875686 GTACCAGTTAGTCTAGGCTTA
1 GTACCAGTTAATCTAGGCTTA
7875707 AAATGCCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (22 bp):
GTACCAGTTAATCTAGGCTTAG
Found at i:7887296 original size:53 final size:53
Alignment explanation
Indices: 7887238--7887350 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 53
7887228 AATACACTTT
* *
7887238 AGTGCCCT-ATGCACTTCTTTTATTACGTTAA-GCTCCCACACCAATATGCCCAA
1 AGTGCCCTCATGC-C-TCTCTTATTACGTTAAGGCTCCAACACCAATATGCCCAA
* * * **
7887291 CGTGCCCTGCGTGCCTCTCTTATTATGTTAAGGCTCCAATGCCAATATGCCCAA
1 AGTGCCCT-CATGCCTCTCTTATTACGTTAAGGCTCCAACACCAATATGCCCAA
7887345 AGTGCC
1 AGTGCC
7887351 TTACGTGTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
53 21 0.43
54 25 0.51
55 3 0.06
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (53 bp):
AGTGCCCTCATGCCTCTCTTATTACGTTAAGGCTCCAACACCAATATGCCCAA
Found at i:7889589 original size:18 final size:18
Alignment explanation
Indices: 7889566--7889601 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7889556 CAACAACATC
7889566 ACAATATCACAATTCACT
1 ACAATATCACAATTCACT
*
7889584 ACAATATCACAGTTCACT
1 ACAATATCACAATTCACT
7889602 CAAAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.28
Consensus pattern (18 bp):
ACAATATCACAATTCACT
Found at i:7892955 original size:27 final size:29
Alignment explanation
Indices: 7892896--7892963 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
7892886 AGTTTTAAAC
* **
7892896 TTTTCATATTTTTTTGAATTTTTATTAAA
1 TTTTCATATTTTTTTGAATTTTAAAGAAA
7892925 TTTTCAT-TTTTTTT-AATTTTAAAG-AA
1 TTTTCATATTTTTTTGAATTTTAAAGAAA
* *
7892951 TTTTTATAATTTT
1 TTTTCATATTTTT
7892964 CTTTAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 8 0.24
27 11 0.33
28 7 0.21
29 7 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTCATATTTTTTTGAATTTTAAAGAAA
Found at i:7893240 original size:26 final size:26
Alignment explanation
Indices: 7893191--7893240 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7893181 TGGAATTTTT
* *
7893191 AATTTTTAATTTTTTACTATATTTCA
1 AATTTTTAATTTTTTACCAAATTTCA
7893217 AATTTTTAA-TTTTTATCCAAATTT
1 AATTTTTAATTTTTTA-CCAAATTT
7893241 TAAAATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (26 bp):
AATTTTTAATTTTTTACCAAATTTCA
Found at i:7896728 original size:100 final size:100
Alignment explanation
Indices: 7896555--7896734 Score: 333
Period size: 100 Copynumber: 1.8 Consensus size: 100
7896545 AATTAAACCC
* *
7896555 AATTACGACTTGCTAATCAAGCTCTTAAAATAGGATTTCCGCCTTTGACTTATTTTTCTTAGTTA
1 AATTACGACTTGCTAACCAAGCTCTTAAAATAGGATTTCCGCCTTTGACTTATTTTACTTAGTTA
7896620 TCTACCTCACTTTATCACTTTATGCAATATGTTAT
66 TCTACCTCACTTTATCACTTTATGCAATATGTTAT
*
7896655 AATTACGAGTTGCTAACCAAGCTCTTAAAATAGGATTTCCGCCTTTGACTTATTTTACTTAGTTA
1 AATTACGACTTGCTAACCAAGCTCTTAAAATAGGATTTCCGCCTTTGACTTATTTTACTTAGTTA
7896720 TCTACCTCACTTTAT
66 TCTACCTCACTTTAT
7896735 GCAATATGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (100 bp):
AATTACGACTTGCTAACCAAGCTCTTAAAATAGGATTTCCGCCTTTGACTTATTTTACTTAGTTA
TCTACCTCACTTTATCACTTTATGCAATATGTTAT
Found at i:7898761 original size:59 final size:59
Alignment explanation
Indices: 7898669--7898787 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
7898659 GAGACATAGC
*
7898669 TTCTATTCCTTTGAGCATGTCTTTTGTAATAGGTGGTTTAGAGATGTTACCATATGTAT
1 TTCTATTCCTTTGAGCACGTCTTTTGTAATAGGTGGTTTAGAGATGTTACCATATGTAT
7898728 TTCTATTCCTTTGAGCACGTCTTTTGTAATAGGTGGTTTAGAGATGTTACCATATGTAT
1 TTCTATTCCTTTGAGCACGTCTTTTGTAATAGGTGGTTTAGAGATGTTACCATATGTAT
7898787 T
1 T
7898788 AATTGATGTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (59 bp):
TTCTATTCCTTTGAGCACGTCTTTTGTAATAGGTGGTTTAGAGATGTTACCATATGTAT
Found at i:7900653 original size:13 final size:14
Alignment explanation
Indices: 7900637--7900673 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
7900627 GTCTTTAATT
7900637 AATTTATATTTT-A
1 AATTTATATTTTAA
*
7900650 AATTTAAATTTTAA
1 AATTTATATTTTAA
7900664 AATTTATATT
1 AATTTATATT
7900674 AGTTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTATATTTTAA
Found at i:7903532 original size:613 final size:615
Alignment explanation
Indices: 7901297--7903766 Score: 3983
Period size: 613 Copynumber: 4.0 Consensus size: 615
7901287 TTCAAACTTC
*
7901297 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGATTGAAAG
1 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
7901362 TAATTACTT-AAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCAT
66 TAATTACTTAAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCAT
* *
7901426 TTACTATTATGTCAAACACGTTAAAGAAAGAAAACAATAAAATTTTATTTATTTTATTATTTTCA
131 TTAATATTATGTCAAACACGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTCA
* *
7901491 AATTACAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGTTTTTTCTTTTTCTTTTTT
196 AATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAG-------------GTTTTT
* * * * *
7901556 TTTATAATATATCATGCTAATCAGATAGTGAATAGGTAATAAATCA-GTTTAAATATAATTTTTT
248 TTT-T--TATAGCATGCTAATCAAATAGTGAATAGGCAATAAAT-ATATTTAAGTATAATTTTTT
*
7901620 TAAAATTAATGGTAATTGATATGTATCATTTAATCAA-TTCACATGTTCAAAAATTATGTATCTT
309 T-TAATTAATGGTAATTGATATGTATCATTTAAT-AAGTTCACATGTTCAAAAATTATGTATCTT
*
7901684 TCACATTTTTACTTGAAATTCAAATATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATT
372 TCACATTTTTACTTGAAATTCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATT
* *
7901749 CAATTGGATATACTAATATGAAAAGAAAATATTTGAAATTAATTTGTTTTGTAATATAAATTTTA
437 CAATTGGATATACAAATATGAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTA
* *
7901814 AATTTTAAAATTTAAATATAAATTAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGT
502 AAATTTAAAATTAAAATATAAATTAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGT
*
7901879 CAAAATATTAAATTATCC-AGTTAGAACGATTGCCTTTTTTGCTAAAGAT
567 CAAAATATTAAATTATCCAAG-TAGAACGATTGCCTCTTTTGCTAAAGAT
7901928 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
1 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
*
7901993 TAATTGCTTAAAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCA
66 TAATTACTT-AAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCA
*
7902058 TTTAATATTATGTCAAACATGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTC
130 TTTAATATTATGTCAAACACGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTC
*
7902123 AAATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATTGGTTTTTTTTTTTTTATAG
195 AAATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGG---TTTTTTTTTTATAG
* *
7902188 CATGCTAATCAAATAGTGAATAGGTAATAAATCTATTTAAGTATAATTTTTTTTTAATTAATGGT
257 CATGCTAATCAAATAGTGAATAGGCAATAAATATATTTAAGTATAA-TTTTTTTTAATTAATGGT
*
7902253 AATAGATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTT
321 AATTGATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTT
7902318 GAAATTCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATTCAATTGGATATACA
386 GAAATTCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATTCAATTGGATATACA
*
7902383 AATATGAAAATAAAATATTTGAAATTAAATTGTTTTGT-A-AT--A---TAAAATTTAAAA-T--
451 AATATGAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAAAATTAA
7902438 -ATA-AAA-TAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGTCAAAATATTAAATT
516 AATATAAATTAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGTCAAAATATTAAATT
7902500 ATCCAAGTAGAACGATTGCCTCTTTTGCTAAAGATT
581 ATCCAAGTAGAACGATTGCCTCTTTTGCTAAAGA-T
* *
7902536 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTACTATTGACAATGAAAG
1 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
* * *
7902601 TAATTACTTAAAAGATAAAATGTAAATTAAAATAATTGACATAAATAAATTGGAAATAATGGCCA
66 TAATTACTT-AAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCA
*
7902666 TTTAATATTATGTCAAACATGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTC
130 TTTAATATTATGTCAAACACGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTC
*
7902731 AAATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAAT-TGTTTTTTTTTTATAGCAT
195 AAATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGGTTTTTTTTTTATAGCAT
* **
7902795 GCTAATCAATTAGTGAATAGGCAATAAATCCATTTAAGTATAA-TTTTTTTAATTAATGGTAATT
260 GCTAATCAAATAGTGAATAGGCAATAAATATATTTAAGTATAATTTTTTTTAATTAATGGTAATT
7902859 GATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTTGAAA
325 GATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTTGAAA
* * * *
7902924 TTCAAAAGTATTATGGAAAGAAGATATTTGGTTTAAAAAGAACCATTCAATTGGATATGCAAATT
390 TTCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATTCAATTGGATATACAAATA
*
7902989 TGAAAAGAAGATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAAAATTAAAATA
455 TGAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAAAATTAAAATA
* *
7903054 TAAATTAATTAAAGTTACATTTCAATTTTTTTAAAAT-TTTACATGTCAAAATATTAAATTATCC
520 TAAATTAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGTCAAAATATTAAATTATCC
* *
7903118 AAGTAGAATGATTGCCTTTTTTGCTAAAGAT
585 AAGTAGAACGATTGCCTCTTTTGCTAAAGAT
* * *
7903149 TTTATTTATGATAATGTTATTTGATTCTAAATTCCTTAATGCCATAGTCCTATTGAGATTGAAAG
1 TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
7903214 TAATTACTT-AAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCAT
66 TAATTACTTAAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCAT
* * *
7903278 TTAATATTATGTCAAACACCTTAAAGAAAGATAACTATAAAATTTTATTTATTTTATTATTTTCA
131 TTAATATTATGTCAAACACGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTCA
* *
7903343 AATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGGTTTTTTTTTTATTGTATG
196 AATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGGTTTTTTTTTTATAGCATG
*
7903408 CTAATCAAATAGTGAATAGGCAATAAATATGTTTAAGTATAATTTTTTTTAATTAATGGTAATTG
261 CTAATCAAATAGTGAATAGGCAATAAATATATTTAAGTATAATTTTTTTTAATTAATGGTAATTG
*
7903473 ATGTGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTTGAAAT
326 ATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTTGAAAT
* * *
7903538 TCAAAAATATTATGGAAAGAAGATATTTGGTTTAAAAAGAACCATTCAATTGGATATGCAAATTT
391 TCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATTCAATTGGATATACAAATAT
*
7903603 GAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAATATTAAAATAT
456 GAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAAAATTAAAATAT
* * *
7903668 AAATTAATTAAAGATACGTTTTAATTTTTTTTAGAATATTTACATGTCAAAATATTAGATTATCC
521 AAATTAATTAAAGATACATTTCAA-TTTTTTTAGAATATTTACATGTCAAAATATTAAATTATCC
* *
7903733 AAGCAGTACGATTGCCTCTTTTGCTAAAGAT
585 AAGTAGAACGATTGCCTCTTTTGCTAAAGAT
7903764 TTT
1 TTT
7903767 GGTTTTTATA
Statistics
Matches: 1738, Mismatches: 74, Indels: 70
0.92 0.04 0.04
Matches are distributed among these distances:
602 178 0.10
603 1 0.00
604 59 0.03
606 1 0.00
607 87 0.05
608 240 0.14
609 15 0.01
610 1 0.00
611 157 0.09
612 56 0.03
613 318 0.18
614 69 0.04
615 86 0.05
616 1 0.00
618 2 0.00
619 3 0.00
620 215 0.12
621 7 0.00
622 1 0.00
623 8 0.00
631 72 0.04
633 161 0.09
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (615 bp):
TTTATTTATCATAATGTTATTTGATTCTAAATGCCTTAATGCCATAGTCCTATTGAGAATGAAAG
TAATTACTTAAAGATAAAATGTAAATTGAAATAGTTGACATAAATAAATTGGAAATAATGGTCAT
TTAATATTATGTCAAACACGTTAAAGAAAGACAACAATAAAATTTTATTTATTTTATTATTTTCA
AATTATAAAATTTTTGTTTGAATAATATATCATGCTAATCAAATAGGTTTTTTTTTTATAGCATG
CTAATCAAATAGTGAATAGGCAATAAATATATTTAAGTATAATTTTTTTTAATTAATGGTAATTG
ATATGTATCATTTAATAAGTTCACATGTTCAAAAATTATGTATCTTTCACATTTTTACTTGAAAT
TCAAAAATATTATGGAAAGAAGATATTTGATTTAAAAAGAACCATTCAATTGGATATACAAATAT
GAAAAGAAAATATTTGAAATTAAATTGTTTTGTAATATAAATTTTAAAATTTAAAATTAAAATAT
AAATTAATTAAAGATACATTTCAATTTTTTTAGAATATTTACATGTCAAAATATTAAATTATCCA
AGTAGAACGATTGCCTCTTTTGCTAAAGAT
Found at i:7907476 original size:22 final size:22
Alignment explanation
Indices: 7907433--7907477 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
7907423 TCTAAGGTCT
*
7907433 TAAGTTTAAGTTTTATTATATG
1 TAAGTTTAAGTTTTAGTATATG
*
7907455 TAAGTTTAATTATTTAGT-TATG
1 TAAGTTTAAGT-TTTAGTATATG
7907477 T
1 T
7907478 TCTAGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TAAGTTTAAGTTTTAGTATATG
Found at i:7924242 original size:10 final size:10
Alignment explanation
Indices: 7924229--7924258 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7924219 ATCGAGCTTT
7924229 TATATTTTAA
1 TATATTTTAA
7924239 TATATTTTAA
1 TATATTTTAA
7924249 T-TATTTTAA
1 TATATTTTAA
7924258 T
1 T
7924259 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:7930348 original size:30 final size:30
Alignment explanation
Indices: 7930296--7930356 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7930286 TTAACAAAAA
* *
7930296 TAAAATAAAATAATTTAGTTAATTCAATTT
1 TAAAATAAAATAATTCAATTAATTCAATTT
* *
7930326 TAAAGTAATATAATTCAATTAATTCAATTT
1 TAAAATAAAATAATTCAATTAATTCAATTT
7930356 T
1 T
7930357 GGATAATTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (30 bp):
TAAAATAAAATAATTCAATTAATTCAATTT
Found at i:7942393 original size:35 final size:35
Alignment explanation
Indices: 7942347--7942417 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
7942337 TTATTTTTCA
7942347 AAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTGTTT
1 AAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTGTTT
*
7942382 AAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTT
1 AAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTGTTT
7942417 A
1 A
7942418 TTTTTCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (35 bp):
AAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTGTTT
Found at i:7942445 original size:44 final size:44
Alignment explanation
Indices: 7942382--7942741 Score: 307
Period size: 44 Copynumber: 8.4 Consensus size: 44
7942372 AGCTTTGTTT
*
7942382 AAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAA
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
* * * *
7942426 AAGTCATCGAGCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAA
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
* * *
7942470 AAATCGTTGAACCTCTGTTTAAAAGAGCTTTGTTTATTGTTT---
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATT-TTTCAA
* * * *
7942512 TAGTCGTTGAGCCTTTGTTTAGAAGAGCTTCGTTTATTTTTCAG
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
* * **
7942556 AAGTTGTTGAGCCTCTGATTAGAAGAGC--CATTTA-TTTTC-A
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
* ** * *
7942596 AGGTCG-TGAAATCTCTGTTTAGAGGAGCTTTGTTTTTTTTTTTC-A
1 AAGTCGTTG-AGCCTCTGTTTAGAAGAGCTTTG--TTTATTTTTCAA
* * **
7942641 AAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTTA-TTTTC-A
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
* * * *
7942681 AGGTTGTGGAGTCTCTGTTTAGAAGAGCTTTGTTTATTTTTTTCAA
1 AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTA--TTTTTCAA
7942727 AA-TCGTTGAGCCTCT
1 AAGTCGTTGAGCCTCT
7942742 ACTTATAGAG
Statistics
Matches: 249, Mismatches: 50, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 47 0.19
41 11 0.04
42 41 0.16
44 99 0.40
45 45 0.18
46 4 0.02
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (44 bp):
AAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCAA
Found at i:7942547 original size:130 final size:122
Alignment explanation
Indices: 7942314--7942559 Score: 323
Period size: 130 Copynumber: 2.0 Consensus size: 122
7942304 AAGTTGTGAT
* * *
7942314 GCCTCTGTTTAAAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTG
1 GCCTCTGTTTAAAGGAGCTTTGTTTATTTTTCAAAATCGTTGAACCTCTGTTTAAAGAAGCTTTG
* *
7942379 TTTAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATCGA
66 TTTAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTCGTTTATTTTTCAAAAGTCATCGA
* *
7942436 GCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAATCGTTGAACCTCTGTTTAAA-AGAGCTT
1 GCCTCTGTTTAAAGGAGCTTTGTTTATTTTTC-AAAATCGTTGAACCTCTGTTTAAAGA-AGCTT
* *
7942500 TGTTTATTGTTTTAGTCGTTGAGCCTTTGTTTAGAAGAGCTTCGTTTATTTTTCAGAAGT
64 TGTTTA-------AGTCGTTGAGCCTCTGTTTAGAAGAGCTTCGTTTATTTTTCAAAAGT
7942560 TGTTGAGCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
122 31 0.29
123 32 0.30
130 43 0.41
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (122 bp):
GCCTCTGTTTAAAGGAGCTTTGTTTATTTTTCAAAATCGTTGAACCTCTGTTTAAAGAAGCTTTG
TTTAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTCGTTTATTTTTCAAAAGTCATCGA
Found at i:7942552 original size:86 final size:86
Alignment explanation
Indices: 7942385--7942741 Score: 262
Period size: 85 Copynumber: 4.2 Consensus size: 86
7942375 TTTGTTTAAG
* *
7942385 TCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATCGAGCCTTTGTTTAGAG
1 TCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTT--AAAGTCATCGAGCCTTTGTTTAGAA
*
7942450 GAGCTTTGTTTATTTTTCAAAAA
64 GAGCTTCGTTTATTTTTCAAAAA
* * * * *
7942473 TCGTTGAACCTCTGTTTAAAAGAGCTTTGTTTATTGTTT-TAGTCGTTGAGCCTTTGTTTAGAAG
1 TCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATT-TTTAAAGTCATCGAGCCTTTGTTTAGAAG
* *
7942537 AGCTTCGTTTATTTTTCAGAAG
65 AGCTTCGTTTATTTTTCAAAAA
* * ** * * * ** * *
7942559 TTGTTGAGCCTCTGATTAGAAGAGC--CATTTATTTTCAAGGTCGT-GAAATCTCTGTTTAGAGG
1 TCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTAAAGTCATCG-AGCCTTTGTTTAGAAG
* * *
7942621 AGCTTTGTTTTTTTTTTTC-AAAG
65 AGCTTCG--TTTATTTTTCAAAAA
* * ** * * ** * * *
7942644 TCGTTGAGCCTCTGATTAGAGGAGC--CATTTATTTTCAAGGTTGTGGAGTCTCTGTTTAGAAGA
1 TCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTAAAGTCATCGAGCCTTTGTTTAGAAGA
*
7942707 GCTTTGTTTATTTTTTTC-AAAA
66 GCTTCGTTTA--TTTTTCAAAAA
7942729 TCGTTGAGCCTCT
1 TCGTTGAGCCTCT
7942742 ACTTATAGAG
Statistics
Matches: 228, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
83 6 0.03
84 29 0.13
85 87 0.38
86 71 0.31
88 32 0.14
89 3 0.01
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (86 bp):
TCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTAAAGTCATCGAGCCTTTGTTTAGAAGA
GCTTCGTTTATTTTTCAAAAA
Found at i:7942618 original size:40 final size:39
Alignment explanation
Indices: 7942563--7942708 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 39
7942553 CAGAAGTTGT
*
7942563 TGAGCCTCTGATTAGAAGAGCCATTTATTTTCAAGGTCG
1 TGAGTCTCTGATTAGAAGAGCCATTTATTTTCAAGGTCG
* * * ** * *
7942602 TGAAATCTCTGTTTAGAGGAGCTTTGTTTTTTTTTTTCAAAGTCG
1 TG-AGTCTCTGATTAGAAGAGC-----CATTTATTTTCAAGGTCG
* * *
7942647 TTGAGCCTCTGATTAGAGGAGCCATTTATTTTCAAGGTTG
1 -TGAGTCTCTGATTAGAAGAGCCATTTATTTTCAAGGTCG
*
7942687 TGGAGTCTCTGTTTAGAAGAGC
1 T-GAGTCTCTGATTAGAAGAGC
7942709 TTTGTTTATT
Statistics
Matches: 80, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
39 3 0.04
40 45 0.56
45 30 0.38
46 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (39 bp):
TGAGTCTCTGATTAGAAGAGCCATTTATTTTCAAGGTCG
Found at i:7942671 original size:85 final size:85
Alignment explanation
Indices: 7942527--7942741 Score: 317
Period size: 85 Copynumber: 2.5 Consensus size: 85
7942517 GTTGAGCCTT
* * *
7942527 TGTTTAGAAGAGCTTCG--TTTATTTTTCAGAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTTA
1 TGTTTAGAAGAGCTTTGTTTTTTTTTTTCA-AAGTCGTTGAGCCTCTGATTAGAAGAGCCATTTA
7942590 TTTTCAAGGTCGTGAAATCTC
65 TTTTCAAGGTCGTGAAATCTC
* *
7942611 TGTTTAGAGGAGCTTTGTTTTTTTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
1 TGTTTAGAAGAGCTTTGTTTTTTTTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCCATTTAT
* * *
7942676 TTTCAAGGTTGTGGAGTCTC
66 TTTCAAGGTCGTGAAATCTC
* *
7942696 TGTTTAGAAGAGCTTTGTTTATTTTTTTCAAAATCGTTGAGCCTCT
1 TGTTTAGAAGAGCTTTGTTTTTTTTTTTCAAAGTCGTTGAGCCTCT
7942742 ACTTATAGAG
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
84 15 0.13
85 93 0.79
86 10 0.08
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (85 bp):
TGTTTAGAAGAGCTTTGTTTTTTTTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCCATTTAT
TTTCAAGGTCGTGAAATCTC
Found at i:7943556 original size:61 final size:61
Alignment explanation
Indices: 7943428--7943771 Score: 300
Period size: 60 Copynumber: 5.7 Consensus size: 61
7943418 TTGTGCAAGA
* * **
7943428 AAAATTGATACTTTCAACTTTTCC-C--CAAAA--TATTTTTTGAAAACTTTAATT-TCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAAA-TTT-ATTCTTAAGG
** *
7943485 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTTTAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAAATTTATTCTTAAGG
* * * * * **
7943546 AAAATTGATACTTTCAACTTTT-CTC-CAAAAA-TATTTTTTGGAAACTTCAATTC-CGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAAATT-TATTCTTAAGG
* * * *
7943604 AAAATTGATATTTTCAACTTTTCCTCAAAAAAAAC--CTTTTTTGAAAATTTCTTCTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAAACTTTTTTTTTGAAAATTTATTCTTAAGG
* * *
7943664 AAAATTGTTACTTTCAACTTTTTCTAAAAAATAAAACTCTTTTTTTTTGAAAATTTATTCTTAAG
1 AAAATTGATACTTTCAACTTTTCCT--CAAA-AAAA--CTTTTTTTTTGAAAATTTATTCTTAAG
*
7943729 A
61 G
* *
7943730 AAAATTGATACTTTCAACTTTTCCTCCAAAATA-TTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTT
7943772 AATTTTATTT
Statistics
Matches: 231, Mismatches: 37, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
57 24 0.10
58 36 0.16
59 14 0.06
60 54 0.23
61 37 0.16
62 14 0.06
63 3 0.01
64 3 0.01
66 46 0.20
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.44
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAAATTTATTCTTAAGG
Found at i:7943608 original size:119 final size:118
Alignment explanation
Indices: 7943424--7943693 Score: 384
Period size: 118 Copynumber: 2.3 Consensus size: 118
7943414 GCTTTTGTGC
* * *
7943424 AAGAAAAATTGATACTTTCAACTTTTC-CCCAAAATATTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTCAATTCCGAGGAAA
* ** *
7943488 ATTGATACTTTCAACTTTTCCTC-AAAAAAACTTTTTTTTTTTAAATTTATTTTT
66 ATTGATACTTTCAACTTTTCCTCAAAAAAAAC--CTTTTTTGAAAATTTATTCTT
* *
7943542 AAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTCAATTCCGAGGAAA
1 AAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTCAATTCCGAGGAAA
* *
7943607 ATTGATATTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTCTTCTT
66 ATTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTCTT
* *
7943660 AAGAAAAATTGTTACTTTCAACTTTT-TCTAAAAA
1 AAGAAAAATTGATACTTTCAACTTTTCTCCAAAAA
7943694 ATAAAACTCT
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
117 7 0.05
118 66 0.49
119 55 0.40
120 8 0.06
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (118 bp):
AAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTCAATTCCGAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTCTT
Found at i:7943761 original size:66 final size:61
Alignment explanation
Indices: 7943424--7943762 Score: 283
Period size: 66 Copynumber: 5.6 Consensus size: 61
7943414 GCTTTTGTGC
* *
7943424 AAGAAAAATTGATACTTTCAACTTTTCCCCAAAAT---A--TTTTTTGAAAACTTTAATT-TC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATAAAACCTTTTTTGAAAA-TTT-ATTCTT
* * * ** *
7943481 GAGGAAAATTGATACTTTCAACTTTTCCTC-AAA-AAAACTTTTTTTTTTTAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATAAAAC--CTTTTTTGAAAATTTATTCTT
* * * * * *
7943542 AAGGAAAATTGATACTTTCAACTTTT-CTCCAAA-AATA--TTTTTTGGAAACTTCAATTC-C
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATAAAACCTTTTTT-GAAAATT-TATTCTT
* * * *
7943600 GAGGAAAATTGATATTTTCAACTTTTCCTCAAAA-AAAACCTTTTTTGAAAATTTCTTCTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATAAAACCTTTTTTGAAAATTTATTCTT
* * *
7943660 AAGAAAAATTGTTACTTTCAACTTTTTCTAAAAAATAAAACTCTTTTTTTTTGAAAATTTATTCT
1 AAGAAAAATTGATACTTTCAACTTTTCCT-CAAAATAAAAC-C---TTTTTTGAAAATTTATTCT
7943725 T
61 T
7943726 AAGAAAAATTGATACTTTCAACTTTTCCTCCAAAATA
1 AAGAAAAATTGATACTTTCAACTTTTCCT-CAAAATA
7943763 TTTTTTTTTA
Statistics
Matches: 228, Mismatches: 33, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
56 3 0.01
57 33 0.14
58 29 0.13
59 15 0.07
60 36 0.16
61 45 0.20
62 14 0.06
63 1 0.00
66 52 0.23
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.42
Consensus pattern (61 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATAAAACCTTTTTTGAAAATTTATTCTT
Found at i:7943819 original size:8 final size:8
Alignment explanation
Indices: 7943786--7943889 Score: 79
Period size: 8 Copynumber: 12.5 Consensus size: 8
7943776 TTATTTCAAG
7943786 AAAATAAA
1 AAAATAAA
7943794 ATAAATAAGA
1 A-AAATAA-A
7943804 AAAATAAA
1 AAAATAAA
*
7943812 AGAATAAA
1 AAAATAAA
7943820 AAAATAAA
1 AAAATAAA
7943828 AAAA-AAA
1 AAAATAAA
* *
7943835 ATCCTAATATA
1 A---AAATAAA
*
7943846 ATAATAAA
1 AAAATAAA
*
7943854 TAAAT-AA
1 AAAATAAA
7943861 AAAATAAA
1 AAAATAAA
7943869 AATAA-AAA
1 AA-AATAAA
7943877 AAAATGAAA
1 AAAAT-AAA
7943886 AAAA
1 AAAA
7943890 AACCTGCGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
7 12 0.15
8 38 0.49
9 21 0.27
10 4 0.05
11 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:7943830 original size:18 final size:18
Alignment explanation
Indices: 7943786--7943832 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
7943776 TTATTTCAAG
*
7943786 AAAATAAAATAAATAAGA
1 AAAATAAAAAAAATAAGA
*
7943804 AAAAT-AAAAGAATAA-A
1 AAAATAAAAAAAATAAGA
7943820 AAAATAAAAAAAA
1 AAAATAAAAAAAA
7943833 AAATCCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAAATAAGA
Found at i:7943834 original size:11 final size:11
Alignment explanation
Indices: 7943786--7943891 Score: 52
Period size: 11 Copynumber: 9.3 Consensus size: 11
7943776 TTATTTCAAG
7943786 AAAATAAAATAA
1 AAAATAAAA-AA
* * *
7943798 ATAAGAAAAAT
1 AAAATAAAAAA
* *
7943809 AAAAGAATAAA
1 AAAATAAAAAA
7943820 AAAATAAAAAAA
1 AAAAT-AAAAAA
*** *
7943832 AAAATCCTAAT
1 AAAATAAAAAA
* *
7943843 ATAATAATAAA
1 AAAATAAAAAA
*
7943854 TAAATAAAAAA
1 AAAATAAAAAA
7943865 TAAAA-ATAAAAA
1 -AAAATA-AAAAA
7943877 AAAATGAAAAAA
1 AAAAT-AAAAAA
7943889 AAA
1 AAA
7943892 CCTGCGAACG
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
11 35 0.51
12 33 0.48
13 1 0.01
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:7943916 original size:12 final size:12
Alignment explanation
Indices: 7943899--7943931 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7943889 AAACCTGCGA
7943899 ACGGCTCGGCTT
1 ACGGCTCGGCTT
7943911 ACGGCTCGGC-T
1 ACGGCTCGGCTT
7943922 -CGGCTCGGCT
1 ACGGCTCGGCT
7943932 AATGGCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.06, C:0.36, G:0.36, T:0.21
Consensus pattern (12 bp):
ACGGCTCGGCTT
Found at i:7944868 original size:14 final size:14
Alignment explanation
Indices: 7944838--7944886 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
7944828 GATAAAGAAA
* *
7944838 AAAATAT-ATATAT
1 AAAATATAAAATAC
7944851 AAAATATAAAATAC
1 AAAATATAAAATAC
*
7944865 AAAATACAAAATAC
1 AAAATATAAAATAC
7944879 AAAA-ATAA
1 AAAATATAA
7944887 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATATAAAATAC
Found at i:7944885 original size:8 final size:7
Alignment explanation
Indices: 7944851--7944882 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7944841 ATATATATAT
*
7944851 AAAATAT
1 AAAATAC
7944858 AAAATAC
1 AAAATAC
7944865 AAAATAC
1 AAAATAC
7944872 AAAATAC
1 AAAATAC
7944879 AAAA
1 AAAA
7944883 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAC
Found at i:7945135 original size:46 final size:45
Alignment explanation
Indices: 7945065--7945264 Score: 239
Period size: 46 Copynumber: 4.5 Consensus size: 45
7945055 AAGACTTGAT
* *
7945065 CAAGGCTCCTCTAAGCAGAAGCTCAACGACTTTGCAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAATGAATAAA
*
7945111 CAAGGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAATGAATAAA
* * *
7945157 CAATGCTCCTCTAATCAAAGGCTCGACGACTTTGGAAA--AAT-AA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAATGAATAAA
* *
7945200 -ATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAG-ATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAATGAATAAA
* * *
7945243 CAAAGCTCTTTTAATCAGAGGC
1 CAAGGCTCCTCTAATCAGAGGC
7945265 ATTTTTTTGT
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.03
42 30 0.23
43 4 0.03
44 20 0.15
46 74 0.56
47 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (45 bp):
CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAATGAATAAA
Found at i:7945222 original size:88 final size:89
Alignment explanation
Indices: 7945069--7945264 Score: 247
Period size: 88 Copynumber: 2.2 Consensus size: 89
7945059 CTTGATCAAG
*
7945069 GCTCCTCTAAGCAGAA-GCTCAACGACTTTGCAAATGAATAAACAAGGCTCCTCTAATCAGAGGC
1 GCTCCTCTAATCA-AAGGCTCAACGACTTTGCAAA-GAATAAACAAGGCTCCTCTAATCAGAGGC
* *
7945133 TCAACGATTTTGAAAATGAATAAACAAT
64 TCAACGACTTTGAAAA-G-ATAAACAAA
* * *
7945161 GCTCCTCTAATCAAAGGCTCGACGACTTTGGAAA-AAT-AA-ATGGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAAAGGCTCAACGACTTTGCAAAGAATAAACAAGGCTCCTCTAATCAGAGGCTC
7945223 AACGACTTTGAAAAGATAAACAAA
66 AACGACTTTGAAAAGATAAACAAA
* * *
7945247 GCTCTTTTAATCAGAGGC
1 GCTCCTCTAATCAAAGGC
7945265 ATTTTTTTGT
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
86 23 0.24
87 1 0.01
88 35 0.37
89 2 0.02
90 3 0.03
91 2 0.02
92 28 0.30
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (89 bp):
GCTCCTCTAATCAAAGGCTCAACGACTTTGCAAAGAATAAACAAGGCTCCTCTAATCAGAGGCTC
AACGACTTTGAAAAGATAAACAAA
Found at i:7945280 original size:9 final size:9
Alignment explanation
Indices: 7945266--7945323 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
7945256 ATCAGAGGCA
7945266 TTTTTTTGT
1 TTTTTTTGT
*
7945275 TTTTTTTAT
1 TTTTTTTGT
7945284 TTTATTTT-T
1 TTT-TTTTGT
*
7945293 TTGTTGTT-T
1 TT-TTTTTGT
*
7945302 TTTTTGTGT
1 TTTTTTTGT
7945311 TTTTTTTGT
1 TTTTTTTGT
7945320 TTTT
1 TTTT
7945324 ATCAAAGCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
8 3 0.07
9 33 0.80
10 5 0.12
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.86
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:7945317 original size:11 final size:10
Alignment explanation
Indices: 7945266--7945323 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 10
7945256 ATCAGAGGCA
7945266 TTTTTTTGTT
1 TTTTTTTGTT
*
7945276 TTTTTTATTTT
1 TTTTTT-TGTT
7945287 ATTTTTTTGTTGT
1 -TTTTTTTG-T-T
7945300 TTTTTTTGTGT
1 TTTTTTTGT-T
7945311 TTTTTTTGTT
1 TTTTTTTGTT
7945321 TTT
1 TTT
7945324 ATCAAAGCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 10 0.24
11 16 0.38
12 15 0.36
13 1 0.02
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.86
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:7945458 original size:41 final size:41
Alignment explanation
Indices: 7945400--7945937 Score: 591
Period size: 41 Copynumber: 13.3 Consensus size: 41
7945390 CCATGACTTC
7945400 AAAAATAAA-TGCTCCTCTAAACAGAGGCACCACAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
* * *
7945440 AAAAGTAAATTGCTCCTCTAATCAGAGGCAACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
* * * *
7945482 AAAAATAAATTGCTCATCTCAATAGAGGCAACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
** **
7945524 AAAAATAAATTATTCCTCTAAACAGAGGCACCGA-AACTTCA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACC-ACAACTTTG
* *
7945565 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
* * *
7945606 CAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA-AAC-TT-
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
* * * * *
7945645 -----CAAATTGCTTCTCTAAATAAAGGCACCATAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
* ** *
7945681 AAAAGTAAATTGCTTTTCTAAACAGAGGCACCACCACTTT-
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
*
7945721 AAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA-AACTTTG
1 AAAAA-TAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
*
7945763 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
* * * *
7945804 AAAAGTAAATTGCTCTTCTAAACAGAGACAACGA-AACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
*
7945845 AAAAATAAATTGCTCCTCTAAACAGAGGCAACGA-AACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTG
* *
7945886 GAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
*
7945927 AAAAGTAAATT
1 AAAAATAAATT
7945938 ACTCATTGAC
Statistics
Matches: 421, Mismatches: 58, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
33 3 0.01
34 23 0.05
35 2 0.00
40 21 0.05
41 285 0.68
42 87 0.21
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
Found at i:7945678 original size:34 final size:34
Alignment explanation
Indices: 7945612--7945678 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
7945602 TTTGCAAAGT
* *
7945612 AAATTGCTCCTCTAAACAGAGGCAACGAAACTTC
1 AAATTGCTCCTCTAAACAAAGGCAACCAAACTTC
* *
7945646 AAATTGCTTCTCTAAATAAAGGC-ACCATAACTT
1 AAATTGCTCCTCTAAACAAAGGCAACCA-AACTT
7945679 TGAAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATTGCTCCTCTAAACAAAGGCAACCAAACTTC
Found at i:7945824 original size:123 final size:124
Alignment explanation
Indices: 7945400--7945937 Score: 697
Period size: 123 Copynumber: 4.4 Consensus size: 124
7945390 CCATGACTTC
*
7945400 AAAAATAAA-TGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAATCA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACA
* * * * *
7945464 GAGGCAACCACGACTTTGAAAAATAAATTGCTCATCTCAATAGAGGCAACCACGACTTTG
66 GAGGCAACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA-AACTTTG
** ** *
7945524 AAAAATAAATTATTCCTCTAAACAGAGGCACCGA-AACTTCAAAAAATAAATTGCTCCTCTAAAC
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACC-ACAACTTTGAAAAGTAAATTGCTCCTCTAAAC
* * *
7945588 AGAGG-TACCACGACTTTGCAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAAC-TT-
65 AGAGGCAACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
* * * * * **
7945645 -----CAAATTGCTTCTCTAAATAAAGGCACCATAACTTTGAAAAGTAAATTGCTTTTCTAAACA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACA
*
7945705 GAGGC-ACCACCACTTT-AAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
66 GAGGCAACCACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
* *
7945763 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCTTCTAAACA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACA
* * *
7945828 GAGACAACGA-AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
66 GAGGCAACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
* *
7945886 GAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
7945938 ACTCATTGAC
Statistics
Matches: 361, Mismatches: 39, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
115 4 0.01
116 93 0.26
117 2 0.01
122 2 0.01
123 151 0.42
124 57 0.16
125 51 0.14
126 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (124 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACA
GAGGCAACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTG
Found at i:7946271 original size:44 final size:44
Alignment explanation
Indices: 7946210--7946314 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
7946200 TTTAAGGCTT
* * *
7946210 TTCAAAGGTTCTCATTTGGCAAACT-TGG-AATTCATATCCAAAAA
1 TTCAAAGCTTTTCATTTGG--AACTCTGGAAATTCACATCCAAAAA
*
7946254 -TCTAAAGCTTTTCATTT-GAATTCTGGAAATTCACATCCAAAAA
1 TTC-AAAGCTTTTCATTTGGAACTCTGGAAATTCACATCCAAAAA
7946297 TTCAAAGCTTTTCATTTG
1 TTCAAAGCTTTTCATTTG
7946315 AGTTCAAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
41 3 0.06
42 3 0.06
43 32 0.62
44 14 0.27
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (44 bp):
TTCAAAGCTTTTCATTTGGAACTCTGGAAATTCACATCCAAAAA
Found at i:7946546 original size:22 final size:21
Alignment explanation
Indices: 7946499--7946557 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
7946489 GGTTTCACTC
7946499 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
**
7946521 CTCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
7946543 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
7946558 CAAAATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:7947811 original size:8 final size:8
Alignment explanation
Indices: 7947781--7947831 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
7947771 TCAATTTGAA
7947781 TCTTTTTT
1 TCTTTTTT
* *
7947789 TCATTTTC
1 TCTTTTTT
7947797 TCATTTTTT
1 TC-TTTTTT
7947806 TCTTTTTTT
1 TC-TTTTTT
7947815 TCTTTTTT
1 TCTTTTTT
7947823 T-TTTTTT
1 TCTTTTTT
7947830 TC
1 TC
7947832 ATCATCTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 7 0.19
8 15 0.42
9 14 0.39
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (8 bp):
TCTTTTTT
Found at i:7947812 original size:9 final size:9
Alignment explanation
Indices: 7947800--7947830 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7947790 CATTTTCTCA
7947800 TTTTTTTCT
1 TTTTTTTCT
7947809 TTTTTTTCT
1 TTTTTTTCT
7947818 TTTTTTT-T
1 TTTTTTTCT
7947826 TTTTT
1 TTTTT
7947831 CATCATCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:7947820 original size:15 final size:15
Alignment explanation
Indices: 7947802--7947831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7947792 TTTTCTCATT
7947802 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
*
7947817 TTTTTTTTTTTTTTC
1 TTTTTCTTTTTTTTC
7947832 ATCATCTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:7947844 original size:22 final size:21
Alignment explanation
Indices: 7947815--7947855 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7947805 TTCTTTTTTT
*
7947815 TCTTTTTTTTTTTTTTCATCA
1 TCTTTTTTTTTTTTCTCATCA
7947836 TCTTCTTTTTTTTTTCTCAT
1 TCTT-TTTTTTTTTTCTCAT
7947856 TTTTCATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
TCTTTTTTTTTTTTCTCATCA
Found at i:7951735 original size:55 final size:55
Alignment explanation
Indices: 7951651--7952032 Score: 228
Period size: 56 Copynumber: 6.7 Consensus size: 55
7951641 TTGTGCAGGA
* *
7951651 AAAATTGATACTTTCAACTTTT-CTCCAAAATATTTTTTGAAACTTTAATTTCGAG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAATATTTTTTGAAAATTTAATTTCAAG
* * * *
7951706 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTAAAATTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATA-TTTTTTGAAAATTTAATTTCAAG
* * * **** * *
7951762 AAAATTGATACTTTCAA-TTTACTTTC-AACT-TTTCCCAAAAATATT-TTTTGAA-
1 AAAATTGATACTTTCAACTTTTC-CTCAAAATATTTTTTGAAAAT-TTAATTTCAAG
* * ** *
7951814 AACTTTAATTTCGAGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGAAAATTT-ATT
1 AA----AA-TT---GATACTT--T-C-AA---CTTTTCCTCAAAATATTTTTTGAAAATTTAATT
*
7951878 TTAAGG
51 TCAA-G
* * *
7951884 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTTTTAATTTCGAG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAATA--TTTTTTGAAA-ATTTAATTTCAAG
* *
7951943 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTT--AAATTT-ATTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAAATTTAATTTCAAG
7951995 AAAAATTGATACTTTCAACTTTT-CTCAAAATATTTTTT
1 -AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTT
7952033 TAATTTTATT
Statistics
Matches: 253, Mismatches: 44, Indels: 63
0.70 0.12 0.17
Matches are distributed among these distances:
52 22 0.09
53 39 0.15
54 4 0.02
55 35 0.14
56 59 0.23
57 2 0.01
58 22 0.09
59 23 0.09
60 11 0.04
62 6 0.02
63 1 0.00
65 2 0.01
66 2 0.01
67 2 0.01
68 13 0.05
69 8 0.03
70 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (55 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAAATTTAATTTCAAG
Found at i:7951788 original size:67 final size:67
Alignment explanation
Indices: 7951714--7951845 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 67
7951704 AGAAAATTGA
* * *
7951714 TACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTAAAA-TTTATTTTTAAGAAAATTGATACTTTC
1 TACTTTCAACTTTTCC-CAAAAATA-TTTTTTGAAAACTTTAATTTCAAGAAAATTGATACTTTC
7951777 AATT
64 AATT
*
7951781 TACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAATTGATACTTTCAA
1 TACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCAAGAAAATTGATACTTTCAA
7951846 CTTTTCCTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 16 0.27
67 43 0.73
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (67 bp):
TACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCAAGAAAATTGATACTTTCAA
TT
Found at i:7952007 original size:112 final size:112
Alignment explanation
Indices: 7951781--7952033 Score: 415
Period size: 114 Copynumber: 2.3 Consensus size: 112
7951771 ACTTTCAATT
*
7951781 TACTTTCAACTTTTCCCAAAAATA--TTTTTTGAAAACTTTAATTTCGAGAAAATTGATACTTTC
1 TACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAAACTTTAATTTCGAGAAAATTGATACTTTC
*
7951844 AACTTTTCCTCAAAAAATTTTTTGAAAATTTATTTTAAGGAAAATTGA
66 AACTTTTCCTCAAAAAATTTTTT-AAAATTTATTTTAAGAAAAATTGA
**
7951892 TACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTTTTAATTTCGAGAAAATTGATACTTT
1 TACTTTCAAC-TTTTCCTAAAAATATTTTTTTTGAAAACTTTAATTTCGAGAAAATTGATACTTT
7951957 CAACTTTTCCTCAAAAAATTTTTT-AAATTTATTTTAAGAAAAATTGA
65 CAACTTTTCCTCAAAAAATTTTTTAAAATTTATTTTAAGAAAAATTGA
*
7952004 TACTTTCAACTTTT-CTCAAAATATTTTTTT
1 TACTTTCAACTTTTCCTAAAAATATTTTTTT
7952034 AATTTTATTT
Statistics
Matches: 134, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
110 15 0.11
111 14 0.10
112 45 0.34
114 60 0.45
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (112 bp):
TACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAAACTTTAATTTCGAGAAAATTGATACTTTC
AACTTTTCCTCAAAAAATTTTTTAAAATTTATTTTAAGAAAAATTGA
Found at i:7952055 original size:7 final size:7
Alignment explanation
Indices: 7952045--7952111 Score: 79
Period size: 7 Copynumber: 9.9 Consensus size: 7
7952035 ATTTTATTTA
7952045 AAAAAAT
1 AAAAAAT
7952052 AAAAAAT
1 AAAAAAT
7952059 AAAAAAAT
1 -AAAAAAT
7952067 AAAAAAT
1 AAAAAAT
7952074 -AAAAAT
1 AAAAAAT
7952080 --AAAAT
1 AAAAAAT
7952085 AAATAAA-
1 AAA-AAAT
*
7952092 AATAAAT
1 AAAAAAT
7952099 AAAAAAT
1 AAAAAAT
7952106 AAAAAA
1 AAAAAA
7952112 ACTTAAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.09
6 9 0.17
7 29 0.55
8 10 0.19
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:7952063 original size:15 final size:15
Alignment explanation
Indices: 7952043--7952112 Score: 97
Period size: 15 Copynumber: 4.5 Consensus size: 15
7952033 TAATTTTATT
7952043 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
7952058 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
*
7952073 TAAAAATAA-AATAAA
1 TAAAAA-AATAAAAAA
7952088 TAAAAATAAATAAAAAA
1 T-AAAA-AAATAAAAAA
7952105 TAAAAAAA
1 TAAAAAAA
7952113 CTTAAACAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
15 30 0.61
16 12 0.24
17 7 0.14
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:7952070 original size:21 final size:22
Alignment explanation
Indices: 7952046--7952158 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 22
7952036 TTTTATTTAA
7952046 AAAAATAAAAAATAAAA-AAAT
1 AAAAATAAAAAATAAAATAAAT
7952067 AAAAA-ATAAAAATAAAATAAAT
1 AAAAATA-AAAAATAAAATAAAT
*
7952089 AAAAATAAATAA-AAAATAAA-
1 AAAAATAAAAAATAAAATAAAT
* * **
7952109 AAAACTTAAACAATCCTAATATAAT
1 AAAA-ATAAAAAAT-AAAATA-AAT
*
7952134 AATAATAAATAAAT-AAATAAAT
1 AAAAATAAA-AAATAAAATAAAT
7952156 AAA
1 AAA
7952159 TAATCTGAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
20 5 0.07
21 29 0.40
22 18 0.25
23 9 0.12
24 6 0.08
25 6 0.08
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAATAAAAAATAAAATAAAT
Found at i:7952090 original size:4 final size:4
Alignment explanation
Indices: 7952043--7952161 Score: 69
Period size: 4 Copynumber: 30.8 Consensus size: 4
7952033 TAATTTTATT
* *
7952043 TAAA AAAA TAAA -AAA TAAA AAAA TAAA -AAA T-AA -AAA TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA
* * *
7952088 T-AA -AAA TAAA TAAA -AAA TAAA AAAA CTTAAA -CAA TCCTAA TATAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA --TAAA TAAA T--AAA TA-AA
7952133 T-AA T-AA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
7952162 TCTGAGAACG
Statistics
Matches: 91, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
3 25 0.27
4 53 0.58
5 7 0.08
6 6 0.07
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:7952152 original size:15 final size:15
Alignment explanation
Indices: 7952048--7952161 Score: 76
Period size: 15 Copynumber: 7.4 Consensus size: 15
7952038 TTATTTAAAA
*
7952048 AAATAAA-AAATAAAA
1 AAATAAATAAAT-AAT
7952063 AAATAAA-AAATAA-
1 AAATAAATAAATAAT
7952076 AAATAAAATAAATAA-
1 AAAT-AAATAAATAAT
*
7952091 AAATAAATAAAAAAT
1 AAATAAATAAATAAT
* *
7952106 AAAAAAACTTAAACAAT
1 AAATAAA--TAAATAAT
*
7952123 CCTAATATAAT-AATAAT
1 --AAATA-AATAAATAAT
7952140 AAATAAATAAATAAAT
1 AAATAAATAAAT-AAT
7952156 AAATAA
1 AAATAA
7952162 TCTGAGAACG
Statistics
Matches: 82, Mismatches: 7, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.05
14 17 0.21
15 34 0.41
16 9 0.11
17 12 0.15
18 1 0.01
19 3 0.04
20 2 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:7952997 original size:12 final size:11
Alignment explanation
Indices: 7952976--7953073 Score: 57
Period size: 11 Copynumber: 9.2 Consensus size: 11
7952966 AAATATATAT
7952976 TAATAGATAAA
1 TAATAGATAAA
7952987 TAATCAGATAAA
1 TAAT-AGATAAA
* *
7952999 CCAA-A-A-AAT
1 -TAATAGATAAA
*
7953008 TAACAGATAAA
1 TAATAGATAAA
*
7953019 TTAA-AAAT-AA
1 -TAATAGATAAA
7953029 TAATAGATAAA
1 TAATAGATAAA
* *
7953040 TTATAGCATATA
1 TAATAG-ATAAA
7953052 -AATAGATAAA
1 TAATAGATAAA
7953062 TAATAG-TAAA
1 TAATAGATAAA
7953072 TA
1 TA
7953074 TATAAAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 21
0.68 0.10 0.21
Matches are distributed among these distances:
8 2 0.03
9 6 0.09
10 17 0.25
11 26 0.39
12 14 0.21
13 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (11 bp):
TAATAGATAAA
Found at i:7953024 original size:20 final size:21
Alignment explanation
Indices: 7952950--7953042 Score: 64
Period size: 20 Copynumber: 4.4 Consensus size: 21
7952940 AAAAAAAGAA
* * *
7952950 ATAAAATAATAATAATAA-AT
1 ATAAATTAAAAATAATAACAG
* *
7952970 ATATATTAATAGATAAATAATCAG
1 ATAAATTAA-AAAT-AATAA-CAG
** *
7952994 ATAAACCAAAAA-ATTAACAG
1 ATAAATTAAAAATAATAACAG
*
7953014 ATAAATTAAAAATAATAATAG
1 ATAAATTAAAAATAATAACAG
7953035 ATAAATTA
1 ATAAATTA
7953043 TAGCATATAA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
20 20 0.37
21 20 0.37
22 5 0.09
23 2 0.04
24 7 0.13
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAATTAAAAATAATAACAG
Found at i:7953073 original size:18 final size:18
Alignment explanation
Indices: 7953050--7953099 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
7953040 TTATAGCATA
*
7953050 TAAATAGATAAATAATAG
1 TAAATATATAAATAATAG
*
7953068 TAAATATATAAAAAATAG
1 TAAATATATAAATAATAG
*
7953086 TATATATATAAATA
1 TAAATATATAAATA
7953100 TTAACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
TAAATATATAAATAATAG
Found at i:7953234 original size:25 final size:24
Alignment explanation
Indices: 7953188--7953251 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
7953178 AAAGATAAAG
* * *
7953188 AAAATATATATATAATATAAAATA
1 AAAATAAATATAAAATACAAAATA
7953212 AAAATAAATCATAAAATACAAAAATA
1 AAAATAAAT-ATAAAATAC-AAAATA
*
7953238 ATAAA-AAAAATAAA
1 A-AAATAAATATAAA
7953252 GCAGACCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 8 0.24
25 12 0.36
26 10 0.30
27 3 0.09
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAATAAATATAAAATACAAAATA
Found at i:7953354 original size:23 final size:23
Alignment explanation
Indices: 7953323--7953470 Score: 126
Period size: 23 Copynumber: 6.3 Consensus size: 23
7953313 CAATTGTTAT
*
7953323 TATTA-TTATTTATTAATATATA
1 TATTATTTATCTATTAATATATA
*
7953345 TATTTTTTATCTATT-ATATATA
1 TATTATTTATCTATTAATATATA
7953367 TTATTATTTATCTATTAATGTATATA
1 -TATTATTTATCTATTAA--TATATA
* *
7953393 AATT-TTTAT-TATTAACTATTATC
1 TATTATTTATCTATTAA-TA-TATA
7953416 TATTATTTATCTATTAGTATATATA
1 TATTATTTATCTATTA--ATATATA
* * *
7953441 TATATATTTATTTATT-ATTTATC
1 TAT-TATTTATCTATTAATATATA
7953464 TATTATT
1 TATTATT
7953471 ATTATTTTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
22 17 0.16
23 42 0.40
24 11 0.11
25 14 0.13
26 19 0.18
27 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (23 bp):
TATTATTTATCTATTAATATATA
Found at i:7953391 original size:48 final size:46
Alignment explanation
Indices: 7953320--7953473 Score: 147
Period size: 48 Copynumber: 3.2 Consensus size: 46
7953310 CTACAATTGT
*
7953320 TATTATTA-TTATTTATTAA-TATATATATTTTTTATCTATTATATA
1 TATTATTATTTATCTATTAATTATATATATTTTTTAT-TATTATATA
*
7953365 TATTATTATTTATCTATTAATGTATATA-AATTTTTATTATTA-ACTA
1 TATTATTATTTATCTATTAAT-TATATATATTTTTTATTATTATA-TA
*
7953411 TTATCTATTATTTATCTATTAGTATATATATATATATTTATTTATTATT-TATC
1 -TAT-TATTATTTATCTA-T--TA-AT-TATATATATTT-TTTATTATTATATA
7953464 TATTATTATT
1 TATTATTATT
7953474 ATTTTTTTTT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
45 9 0.10
46 17 0.19
47 11 0.12
48 19 0.21
49 1 0.01
51 9 0.10
52 11 0.12
53 4 0.04
54 10 0.11
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (46 bp):
TATTATTATTTATCTATTAATTATATATATTTTTTATTATTATATA
Found at i:7961596 original size:15 final size:16
Alignment explanation
Indices: 7961576--7961607 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7961566 TATTAAGTGT
7961576 AATGAAT-AAAAATGC
1 AATGAATGAAAAATGC
7961591 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
7961607 A
1 A
7961608 TGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:7964885 original size:60 final size:59
Alignment explanation
Indices: 7964756--7965033 Score: 400
Period size: 60 Copynumber: 4.7 Consensus size: 59
7964746 TTGTGTAGGA
* * * *
7964756 AAAATTGATACTTTCAACTTTTCCT-AAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTCAAGG
* *
7964814 AAAATTGATACTTTCAACTTTTCCTCAAAAATTAATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-ATTTTTTTGAAAATTTATTTTCAAGG
* *
7964874 AAAATTGATACTTTCAACTTTTCC-CTAAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAATA-TTTTTTTGAAAATTTATTTTCAAGG
* *
7964934 -AAATTGATACTTTCAACTTTTCCTCAAAAAATCTTTTTTTGAAACTTTAATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTT-ATTTTCAAGG
*
7964993 AAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT
7965034 ATTTTTATTT
Statistics
Matches: 199, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
58 39 0.20
59 46 0.23
60 114 0.57
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTCAAGG
Found at i:7964951 original size:119 final size:119
Alignment explanation
Indices: 7964756--7965033 Score: 418
Period size: 119 Copynumber: 2.3 Consensus size: 119
7964746 TTGTGTAGGA
* * *
7964756 AAAATTGATACTTTCAACTTTT-CCTAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATATTTTTTTGAAAATTTAATTTCAAGGAAAATT
* *
7964820 GATACTTTCAACTTTTCCTCAAAAATTAATTTTTTTGAAAATTT-ATTTTTAAGG
66 GATACTTTCAACTTTTCCTCAAAAAAT-ATTTTTTTGAAAATTTAATTTTCAAGG
* * *
7964874 AAAATTGATACTTTCAACTTTTCCCTAAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG-AAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATA-TTTTTTTGAAAATTTAATTTCAAGGAAAAT
* *
7964938 TGATACTTTCAACTTTTCCTCAAAAAATCTTTTTTTGAAACTTTAATTTTCAAGG
65 TGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTAATTTTCAAGG
*
7964993 AAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATATTTTTTT
7965034 ATTTTTATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
118 43 0.30
119 82 0.57
120 20 0.14
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAAATATTTTTTTGAAAATTTAATTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTAATTTTCAAGG
Found at i:7965091 original size:10 final size:10
Alignment explanation
Indices: 7965078--7965148 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 10
7965068 AATAAAAGTG
*
7965078 AAAATAGATAA
1 AAAATAAAT-A
7965089 AAAATAAATA
1 AAAATAAATA
7965099 AAAATAAATA
1 AAAATAAATA
*
7965109 AAGAA-AAGTA
1 AA-AATAAATA
7965119 AAACA-AAATCA
1 AAA-ATAAAT-A
7965130 AAAATAAAATA
1 AAAAT-AAATA
*
7965141 AAGATAAA
1 AAAATAAA
7965149 AGAATATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 1 0.02
10 27 0.53
11 19 0.37
12 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (10 bp):
AAAATAAATA
Found at i:7965147 original size:11 final size:11
Alignment explanation
Indices: 7965048--7965149 Score: 54
Period size: 10 Copynumber: 9.4 Consensus size: 11
7965038 TTATTTAAAG
7965048 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
7965061 AAAA-CAAAAT
1 AAAATAAAAAT
*
7965071 AAAAGTGAAAAT
1 AAAA-TAAAAAT
*
7965083 -AGATAAAAA-
1 AAAATAAAAAT
7965092 ATAAATAAAAAT
1 A-AAATAAAAAT
*
7965104 -AAATAAAGA-
1 AAAATAAAAAT
* *
7965113 AAAGT-AAAAC
1 AAAATAAAAAT
7965123 AAAATCAAAAAT
1 AAAAT-AAAAAT
*
7965135 AAAATAAAGAT
1 AAAATAAAAAT
7965146 AAAA
1 AAAA
7965150 GAATATTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
9 3 0.04
10 27 0.39
11 21 0.30
12 14 0.20
13 4 0.06
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:7966040 original size:15 final size:15
Alignment explanation
Indices: 7965997--7966042 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
7965987 ATAAATCAAA
* **
7965997 AAAATAAAATAAAAG
1 AAAAGAAAATAAATC
7966012 AAAAGAAAATAAATC
1 AAAAGAAAATAAATC
*
7966027 AAACGAAAATAAATC
1 AAAAGAAAATAAATC
7966042 A
1 A
7966043 GATAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAGAAAATAAATC
Found at i:7966217 original size:6 final size:6
Alignment explanation
Indices: 7966206--7966230 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7966196 TATCTAAAAT
7966206 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
7966231 TGAAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:7966247 original size:2 final size:2
Alignment explanation
Indices: 7966240--7966272 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7966230 ATGAAGAGAA
7966240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7966273 CTTACCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7968923 original size:12 final size:12
Alignment explanation
Indices: 7968893--7968943 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
7968883 GAACTGATGT
* *
7968893 AAAAAAAATAGA
1 AAAAAAAAGAAA
*
7968905 AAGAAAAAGAATA
1 AAAAAAAAGAA-A
7968918 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
7968930 AAAGAAAAGAAA
1 AAAAAAAAGAAA
7968942 AA
1 AA
7968944 TGTGAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:7970383 original size:11 final size:11
Alignment explanation
Indices: 7970345--7970383 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
7970335 TTGATTAATC
*
7970345 AAAAATTATAA
1 AAAAATTAAAA
7970356 AAAAATTAAAAA
1 AAAAATT-AAAA
7970368 AAAAATTAAAA
1 AAAAATTAAAA
7970379 AAAAA
1 AAAAA
7970384 AAGCAAACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATTAAAA
Found at i:7970385 original size:13 final size:12
Alignment explanation
Indices: 7970345--7970384 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
7970335 TTGATTAATC
*
7970345 AAAAATT-ATAA
1 AAAAATTAAAAA
7970356 AAAAATTAAAAA
1 AAAAATTAAAAA
7970368 AAAAATTAAAAA
1 AAAAATTAAAAA
7970380 AAAAA
1 AAAAA
7970385 AGCAAACGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATTAAAAA
Found at i:7971082 original size:12 final size:11
Alignment explanation
Indices: 7971065--7971103 Score: 62
Period size: 10 Copynumber: 3.5 Consensus size: 11
7971055 CCAACCAACA
7971065 AAAAAATCACAC
1 AAAAAAT-ACAC
7971077 AAAAAATACA-
1 AAAAAATACAC
7971087 AAAAAATACAC
1 AAAAAATACAC
7971098 AAAAAA
1 AAAAAA
7971104 CCCTTCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 9 0.35
12 7 0.27
ACGTcount: A:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATACAC
Found at i:7974592 original size:18 final size:18
Alignment explanation
Indices: 7974571--7974621 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
7974561 TCAAAAGGGA
7974571 AAAAAAGAAAAAAAAAGC
1 AAAAAAGAAAAAAAAAGC
*
7974589 -AAAAATAAAAAAAAAGC
1 AAAAAAGAAAAAAAAAGC
7974606 ATAAAAAGAGAAAAAA
1 A-AAAAAGA-AAAAAA
7974622 GTCTATCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
19 6 0.21
20 6 0.21
ACGTcount: A:0.82, C:0.04, G:0.10, T:0.04
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAGC
Found at i:7974820 original size:22 final size:22
Alignment explanation
Indices: 7974792--7974848 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
7974782 GTTGGCATTT
* *
7974792 TAAGCCTAGATTAACTGGTACC
1 TAAGCCTAAATTAACTAGTACC
*
7974814 TAAGCCTAAATTAGCTAGTACC
1 TAAGCCTAAATTAACTAGTACC
7974836 TAAG-CTCAAATTA
1 TAAGCCT-AAATTA
7974849 GTTGATACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAGCCTAAATTAACTAGTACC
Found at i:7974871 original size:23 final size:23
Alignment explanation
Indices: 7974845--7974902 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
7974835 CTAAGCTCAA
* *
7974845 ATTAGTTGATACTTTAAGTCTAG
1 ATTAGTTGACACTTTAAGCCTAG
* * *
7974868 ATTAGCTAACATTTTAAGCCTAG
1 ATTAGTTGACACTTTAAGCCTAG
*
7974891 ATTAATTGACAC
1 ATTAGTTGACAC
7974903 CCAAGTCTAG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (23 bp):
ATTAGTTGACACTTTAAGCCTAG
Found at i:7975195 original size:23 final size:23
Alignment explanation
Indices: 7975162--7975222 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
7975152 TAAGTCCAAA
*
7975162 TTAGCTGGCACCTAAAACCCTAT
1 TTAGCTAGCACCTAAAACCCTAT
* *
7975185 TTAGCTAGCACCTAAAACCTTGT
1 TTAGCTAGCACCTAAAACCCTAT
*
7975208 TTAGTTAGCACCTAA
1 TTAGCTAGCACCTAA
7975223 GCCGAGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (23 bp):
TTAGCTAGCACCTAAAACCCTAT
Found at i:7977817 original size:2 final size:2
Alignment explanation
Indices: 7977810--7977839 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7977800 CTTTTATAGT
7977810 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
7977840 AGAGCACCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7980050 original size:13 final size:13
Alignment explanation
Indices: 7980032--7980056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7980022 TTATTTGTAA
7980032 AATCTTCGAGTTT
1 AATCTTCGAGTTT
7980045 AATCTTCGAGTT
1 AATCTTCGAGTT
7980057 CTTTAAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AATCTTCGAGTTT
Found at i:7980564 original size:21 final size:21
Alignment explanation
Indices: 7980540--7980579 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7980530 AAAAAATCAA
7980540 AAGTCAAAA-GTAAAAAAAATG
1 AAGTCAAAACG-AAAAAAAATG
7980561 AAGTCAAAACGAAAAAAAA
1 AAGTCAAAACGAAAAAAAA
7980580 GGGAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.10
Consensus pattern (21 bp):
AAGTCAAAACGAAAAAAAATG
Found at i:7981632 original size:25 final size:25
Alignment explanation
Indices: 7981577--7981624 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7981567 CTATCTTGAT
*
7981577 TTTTATTTTAGTTTTTAGTTTTTAA
1 TTTTATTTTAATTTTTAGTTTTTAA
*
7981602 TTTTATTTTAATTTTTTGTTTTT
1 TTTTATTTTAATTTTTAGTTTTT
7981625 TGTTTTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTATTTTAATTTTTAGTTTTTAA
Found at i:7982862 original size:32 final size:32
Alignment explanation
Indices: 7982821--7982885 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7982811 TAAATTATCA
*
7982821 ATTGTTATCAGTTTTTGTAACACCAACAACTG
1 ATTGTTATCAATTTTTGTAACACCAACAACTG
7982853 ATTGTTATCAATTTTTGTAACACCAACAACTG
1 ATTGTTATCAATTTTTGTAACACCAACAACTG
7982885 A
1 A
7982886 GGATTATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (32 bp):
ATTGTTATCAATTTTTGTAACACCAACAACTG
Found at i:7986235 original size:2 final size:2
Alignment explanation
Indices: 7986228--7986260 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7986218 CTTATTTTTA
*
7986228 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7986261 CACACACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7994063 original size:10 final size:10
Alignment explanation
Indices: 7994050--7994079 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7994040 ATCGAGCTTT
7994050 TATATTTTAA
1 TATATTTTAA
7994060 TATATTTTAA
1 TATATTTTAA
7994070 T-TATTTTAA
1 TATATTTTAA
7994079 T
1 T
7994080 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:8012220 original size:44 final size:44
Alignment explanation
Indices: 8012124--8012497 Score: 324
Period size: 44 Copynumber: 8.7 Consensus size: 44
8012114 AAGTTGTGAT
* *
8012124 GCCTCTATTTAAAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
* *
8012167 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATCGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
* *
8012211 GCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTCGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
* * *
8012255 ACCTCTGTTTAAAGGAGCTTTGTTTATTGTTT---TAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATT-TTTCAAAAGTCGTTGA
* * * *
8012297 GCCTTTGTTTAGAAGAGCTTGGTTTATTTTTCAGAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
* * ** *
8012341 GCCTCTGATTAGATGAGC--CATTTA-TTTTC-AAGGTCG-TGAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTG-A
** * *** *
8012381 ATCTCTGTTTAGAGGAGCTTTGTTTTTTTTTTTTTTAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTG--TTTATTTTTCAAAAGTCGTTGA
* ** * * *
8012427 GCCTCTGATTAGAGGAGC--CATTTA-TTTTC-AAGGTTGTGGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
* *
8012467 GTCTCTGTTTAGAAGAGCTTTGTTTATTTTT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTT
8012498 TTTTTAAATC
Statistics
Matches: 263, Mismatches: 52, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
39 2 0.01
40 41 0.16
41 12 0.05
42 42 0.16
43 34 0.13
44 103 0.39
45 7 0.03
46 20 0.08
47 2 0.01
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.44
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGA
Found at i:8012335 original size:86 final size:85
Alignment explanation
Indices: 8012138--8012347 Score: 296
Period size: 86 Copynumber: 2.4 Consensus size: 85
8012128 CTATTTAAAG
*
8012138 GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAA
1 GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATTTTT--AAA
*
8012203 GTCATCGAGCCTTTGTTTAGAG
64 GTCATCGAGCCTTTGTTTAGAA
* * *
8012225 GAGCTTTGTTTATTTTTCAAAAGTCGTCGAACCTCTGTTTAAAGGAGCTTTGTTTATTGTTT-TA
1 GAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATT-TTTAAA
* *
8012289 GTCGTTGAGCCTTTGTTTAGAA
64 GTCATCGAGCCTTTGTTTAGAA
*
8012311 GAGCTTGGTTTATTTTTCAGAAGTCGTTGAGCCTCTG
1 GAGCTTTGTTTATTTTTCA-AAGTCGTTGAGCCTCTG
8012348 ATTAGATGAG
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
85 1 0.01
86 52 0.47
87 18 0.16
88 36 0.33
89 3 0.03
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (85 bp):
GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATTTTTAAAGT
CATCGAGCCTTTGTTTAGAA
Found at i:8012427 original size:130 final size:130
Alignment explanation
Indices: 8012125--8012444 Score: 364
Period size: 130 Copynumber: 2.5 Consensus size: 130
8012115 AGTTGTGATG
* * *
8012125 CCTCTATTTAAAGGAGCTTTGTTTATT-TTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 CCTCTGTTTAAAGGAGCTTTGTTTATTGTTT-TAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTGG
* * **
8012189 TTTATTTTTCAAAAGTCATCGAGCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTCG
65 TTTATTTTTCAAAAGTCATCGAGCCTCTGATTAGAGGAGC-TCATTTATTTTTCAAAAGTCGTCG
8012254 AA
129 AA
* *
8012256 CCTCTGTTTAAAGGAGCTTTGTTTATTGTTTT-AGTCGTTGAGCCTTTGTTTAGAAGAGCTTGGT
1 CCTCTGTTTAAAGGAGCTTTGTTTATTGTTTTAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTGGT
* * * * *
8012320 TTATTTTTCAGAAGTCGTTGAGCCTCTGATTAGATGAGC-CATTTA-TTTTC-AAGGTCGT-GAA
66 TTATTTTTCAAAAGTCATCGAGCCTCTGATTAGAGGAGCTCATTTATTTTTCAAAAGTCGTCG-A
8012381 A
130 A
* * * * * *
8012382 TCTCTGTTTAGAGGAGCTTTGTTTTTTTTTTTTTTAAGTCATTGAGCCTCTGATTAGAGGAGC
1 CCTCTGTTTAAAGGAGCTTTG---TTTATTGTTTTAAGTCGTTGAGCCTCTGTTTAGAGGAGC
8012445 CATTTATTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
125 1 0.01
126 28 0.17
127 5 0.03
128 4 0.02
129 9 0.06
130 85 0.53
131 26 0.16
132 3 0.02
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (130 bp):
CCTCTGTTTAAAGGAGCTTTGTTTATTGTTTTAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTGGT
TTATTTTTCAAAAGTCATCGAGCCTCTGATTAGAGGAGCTCATTTATTTTTCAAAAGTCGTCGAA
Found at i:8012530 original size:86 final size:86
Alignment explanation
Indices: 8012302--8012514 Score: 304
Period size: 86 Copynumber: 2.5 Consensus size: 86
8012292 GTTGAGCCTT
* *** *
8012302 TGTTTAGAAGAGCTTGGTTTA--TTTTTCAGAAGTCGTTGAGCCTCTGATTAGATGAGCCATTTA
1 TGTTTAGAAGAGCTTTGTTTATTTTTTTTTTAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
8012365 TTTTCAAGGTCGTGAAATCTC
66 TTTTCAAGGTCGTGAAATCTC
* * *
8012386 TGTTTAGAGGAGCTTTGTTTTTTTTTTTTTTAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTA
1 TGTTTAGAAGAGCTTTGTTTATTTTTTTTTTAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
* * *
8012451 TTTTCAAGGTTGTGGAGTCTC
66 TTTTCAAGGTCGTGAAATCTC
*
8012472 TGTTTAGAAGAGCTTTGTTTATTTTTTTTTTAAATCGTTGAGC
1 TGTTTAGAAGAGCTTTGTTTATTTTTTTTTTAAGTCGTTGAGC
8012515 ATCTACTTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
84 18 0.16
86 94 0.84
ACGTcount: A:0.21, C:0.12, G:0.22, T:0.45
Consensus pattern (86 bp):
TGTTTAGAAGAGCTTTGTTTATTTTTTTTTTAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
TTTTCAAGGTCGTGAAATCTC
Found at i:8013450 original size:60 final size:58
Alignment explanation
Indices: 8013203--8013503 Score: 285
Period size: 58 Copynumber: 5.1 Consensus size: 58
8013193 TTTTGTGCAG
* * **
8013203 GAAAAATTGATACTTTCAACTTTTCC-CC-AAAATA-TTTTTTGGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAACTTTTTT-GAAAATTT-ATTTTAA
*
8013260 GAAAAATTAATACTTTCAACTTTTCCT-CAAAAAAACTTTTTGTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAAC----T-TTTTTGAAAATTTA-TTTTAA
* * *
8013323 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAATA-TTTTTTGGAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAACTTTTTT-GAAAATTT-ATTT-TAA
* * *
8013382 G-AAAATTGATATTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTCTTCTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAA-CTTTTTTGAAAATTTATT-TTAA
* * * *
8013441 GAAAAATTGATACTTTCAACTTTTCCTCCAAAATATA-TTTTTTTAAATTTTATTTAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAA-AAACTTTTTTGAAAATTTATTTTAA
8013499 GAAAA
1 GAAAA
8013504 TAAAATAAAT
Statistics
Matches: 203, Mismatches: 22, Indels: 37
0.77 0.08 0.14
Matches are distributed among these distances:
57 31 0.15
58 45 0.22
59 32 0.16
60 37 0.18
61 8 0.04
62 3 0.01
63 42 0.21
64 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAACTTTTTTGAAAATTTATTTTAA
Found at i:8013484 original size:121 final size:120
Alignment explanation
Indices: 8013203--8013483 Score: 430
Period size: 121 Copynumber: 2.4 Consensus size: 120
8013193 TTTTGTGCAG
8013203 GAAAAATTGATACTTTCAACTTTTCC-CC-AAAATATTTTTTGGAAACTTTAATTTCGAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAA
* *
8013266 TTAATACTTTCAACTTTTCCTCAAAAAAACTTTTTGTTTTTGAAAATTTATTTTTAA
66 TTAATACTTTCAACTTTTCCTCAAAAAAAC--TCTGTTTTTGAAAATTTATTCTTAA
8013323 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAACTTTAATTTCGA-AGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAAATATTTTTTGGAAACTTTAATTTCGAGA-AAA
* * *
8013386 ATTGATATTTTCAACTTTTCCTCAAAAAAAAC-CT-TTTTTGAAAATTTCTTCTTAA
65 ATTAATACTTTCAACTTTTCCTC-AAAAAAACTCTGTTTTTGAAAATTTATTCTTAA
8013441 GAAAAATTGATACTTTCAACTTTTCCTCCAAAATATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCCAAAA-ATATTTTTT
8013484 TAAATTTTAT
Statistics
Matches: 150, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
118 43 0.29
119 10 0.07
120 36 0.24
121 53 0.35
122 8 0.05
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (120 bp):
GAAAAATTGATACTTTCAACTTTTCCTCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAA
TTAATACTTTCAACTTTTCCTCAAAAAAACTCTGTTTTTGAAAATTTATTCTTAA
Found at i:8013533 original size:8 final size:8
Alignment explanation
Indices: 8013495--8013627 Score: 85
Period size: 8 Copynumber: 15.6 Consensus size: 8
8013485 AAATTTTATT
8013495 TAAAGAAAA
1 TAAA-AAAA
8013504 TAAAATAAA
1 TAAAA-AAA
8013513 TAAGAAAAA
1 TAA-AAAAA
*
8013522 TAAAAGAA
1 TAAAAAAA
8013530 T--AAAAA
1 TAAAAAAA
*
8013536 TAAAAGAA
1 TAAAAAAA
8013544 TAAAAAAA
1 TAAAAAAA
8013552 TAAAAAAA
1 TAAAAAAA
8013560 TAGAAAAAA
1 TA-AAAAAA
8013569 -AAATAATCCTAA
1 TAAA-AA----AA
* *
8013581 TATAATAA
1 TAAAAAAA
*
8013589 TAAATAAA
1 TAAAAAAA
8013597 TAAATAAAA
1 TAAA-AAAA
8013606 TAAAATAAA
1 TAAAA-AAA
8013615 TGAAAAAAA
1 T-AAAAAAA
8013624 -AAAA
1 TAAAA
8013628 CCTACGAATG
Statistics
Matches: 100, Mismatches: 10, Indels: 30
0.71 0.07 0.21
Matches are distributed among these distances:
6 5 0.05
7 6 0.06
8 42 0.42
9 36 0.36
10 6 0.06
12 3 0.03
13 2 0.02
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (8 bp):
TAAAAAAA
Found at i:8013624 original size:14 final size:14
Alignment explanation
Indices: 8013495--8013624 Score: 70
Period size: 14 Copynumber: 10.0 Consensus size: 14
8013485 AAATTTTATT
*
8013495 TAAAGAAAATAAAA
1 TAAATAAAATAAAA
*
8013509 TAAATAAGA-AAAA
1 TAAATAAAATAAAA
*
8013522 TAAA-AGAATAAAAA
1 TAAATAAAAT-AAAA
*
8013536 TAAA-AGAATAAAA
1 TAAATAAAATAAAA
8013549 -AAAT-AAA-AAAA
1 TAAATAAAATAAAA
*
8013560 TAGA-AAAA-AAAA
1 TAAATAAAATAAAA
** *
8013572 T-AATCCTAATATAA
1 TAAAT-AAAATAAAA
8013586 T-AAT-AAAT-AAA
1 TAAATAAAATAAAA
8013597 TAAATAAAATAAAA
1 TAAATAAAATAAAA
8013611 TAAATGAAAA-AAAA
1 TAAAT-AAAATAAAA
8013625 AAACCTACGA
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
11 8 0.09
12 23 0.25
13 18 0.20
14 39 0.42
15 4 0.04
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:8014140 original size:11 final size:11
Alignment explanation
Indices: 8014110--8014138 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8014100 TCAACCAAAA
8014110 TCTAGAAATTT
1 TCTAGAAATTT
8014121 TCTAGAAATTT
1 TCTAGAAATTT
8014132 TC-AGAAA
1 TCTAGAAA
8014139 ATAATTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (11 bp):
TCTAGAAATTT
Found at i:8014530 original size:26 final size:24
Alignment explanation
Indices: 8014475--8014540 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 24
8014465 AATAAACCAA
8014475 AAAT-TAACAGATAAATTAATTAT
1 AAATATAACAGATAAATTAATTAT
8014498 AATATATAATCAGATAAA-TATATATAT
1 AA-ATATAA-CAGATAAATTA-AT-TAT
*
8014525 AAATATTAACAAATAA
1 AAATA-TAACAGATAA
8014541 TAATAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 5 0.14
26 19 0.53
27 8 0.22
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATATAACAGATAAATTAATTAT
Found at i:8014654 original size:14 final size:14
Alignment explanation
Indices: 8014632--8014674 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8014622 ATATATATAT
*
8014632 AATATAAAATACAA
1 AATAAAAAATACAA
8014646 AATACAAAAATA-AA
1 AATA-AAAAATACAA
*
8014660 AATAAAAAAAACAA
1 AATAAAAAATACAA
8014674 A
1 A
8014675 GCAGACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
14 13 0.52
15 6 0.24
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAAAAATACAA
Found at i:8014663 original size:21 final size:22
Alignment explanation
Indices: 8014632--8014674 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8014622 ATATATATAT
* *
8014632 AATATAAAATACAAAATACAAA
1 AATATAAAATAAAAAAAACAAA
8014654 AATA-AAAATAAAAAAAACAAA
1 AATATAAAATAAAAAAAACAAA
8014675 GCAGACCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (22 bp):
AATATAAAATAAAAAAAACAAA
Found at i:8014910 original size:46 final size:46
Alignment explanation
Indices: 8014840--8014995 Score: 203
Period size: 46 Copynumber: 3.5 Consensus size: 46
8014830 AAGACTTGAT
* *
8014840 CAAGGCTCCTCTAAGCAGAAGCTCAACGACTTTGAAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
*
8014886 CAAGGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
* * * *
8014932 CAATGCTCCTCTAATCAAAGGCTCGACGACTTTGGAAA--AAT-AA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
*
8014975 -ATGGCTCCTCTAAGTCAGAGG
1 CAAGGCTCCTCTAA-TCAGAGG
8014996 GGGGGGCTCA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 11 0.11
43 8 0.08
44 3 0.03
46 76 0.78
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (46 bp):
CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
Found at i:8015053 original size:1 final size:1
Alignment explanation
Indices: 8015049--8015109 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
8015039 ATCAGAGGCA
* * * * * * * *
8015049 TTTTTTTTGTTTTTTTTTATTTTATTTTTTTTGTTGTTTTTTTGTGTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8015110 ATCCAAGCTC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:8015064 original size:10 final size:10
Alignment explanation
Indices: 8015049--8015109 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 10
8015039 ATCAGAGGCA
8015049 TTTTTTTTG-
1 TTTTTTTTGT
8015058 TTTTTTTT-T
1 TTTTTTTTGT
* *
8015067 ATTTTATT-T
1 TTTTTTTTGT
*
8015076 TTTTTGTTGT
1 TTTTTTTTGT
*
8015086 TTTTTTGTGT
1 TTTTTTTTGT
8015096 TTTTTTTTGT
1 TTTTTTTTGT
8015106 TTTT
1 TTTT
8015110 ATCCAAGCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
9 21 0.49
10 22 0.51
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:8015374 original size:41 final size:41
Alignment explanation
Indices: 8015197--8015682 Score: 438
Period size: 41 Copynumber: 12.0 Consensus size: 41
8015187 TCAAATATAA
8015197 TGCTCCTCT-AACAGAGGCACC-ACAACTTTGAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
* * * *
8015237 TGCTCCTCTAATCAGAGGCACACCACGACTTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCAC-CGA-AAC-TTTGAAAAGTAAAT
* *
8015281 TGCTCCTCTCAATAGAGGCAACACG--ACTTTG-AAA--AAAT
1 TGCTCCTCTAAACAGAGGC-AC-CGAAACTTTGAAAAGTAAAT
** ** *
8015319 TATTCCTTCTAAACAGAGGCCACCGAAAC-TCAAAAATTAAAT
1 TGCTCC-TCTAAACAGAGG-CACCGAAACTTTGAAAAGTAAAT
* * *
8015361 TGCTCCTCTAAACAGAGGTACC-ACGACTTTGCAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
* ** *
8015402 TGCTCTTCTAAACAGAGGCAATGAAAC-TT------CAAAT
1 TGCTCCTCTAAACAGAGGCACCGAAACTTTGAAAAGTAAAT
* * *
8015436 TGCTTCTCTAAATAAAGGCACC-ATAACTTTGAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
*
8015477 TGCTCCTCTAAACAGAGGCACC-ACCACTTTGAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
*
8015518 TGCTCCTCTAAACAGAGGCAACGAAACTTTGGAAAA-TAAAT
1 TGCTCCTCTAAACAGAGGCACCGAAACTTT-GAAAAGTAAAT
*
8015559 TGCTCCTCTAAACAGAGGCACC-ACGACTTTGAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
* ** *
8015600 TGCTCTTCTAAACAGAGGCAATGAAACTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCGAAACTTTGAAAAGTAAAT
*
8015641 TGCTCCTCTAAACAGAGGCACC-ACGACTTTGAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCGA-AACTTTGAAAAGTAAAT
8015682 T
1 T
8015683 ACTCATTGAC
Statistics
Matches: 364, Mismatches: 53, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
33 1 0.00
34 23 0.06
35 2 0.01
38 10 0.03
39 14 0.04
40 32 0.09
41 226 0.62
42 19 0.05
43 4 0.01
44 29 0.08
45 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (41 bp):
TGCTCCTCTAAACAGAGGCACCGAAACTTTGAAAAGTAAAT
Found at i:8015603 original size:198 final size:196
Alignment explanation
Indices: 8015267--8015628 Score: 550
Period size: 198 Copynumber: 1.8 Consensus size: 196
8015257 CACCACGACT
* * * *
8015267 TTTGAAAAATAAATTGCTCCTCTCAATAGAGGCAACACGACTTTGAAAAAATTATTCCTTCTAAA
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACACCACTTTGAAAAAATTACTCCTTCTAAA
* * *
8015332 CAGAGGCCACCGAAACTCAAAAATTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGCAAAG
66 CAGAGGCCAACGAAACTCAAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAG
8015397 TAAATTGCTCTTCTAAACAGAGGCAATGAAACTTCAAATTGCTTCTCTAAATAAAGGCACCATAA
131 TAAATTGCTCTTCTAAACAGAGGCAATGAAACTTCAAATTGCTTCTCTAAATAAAGGCACCATAA
8015462 C
196 C
* * *
8015463 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACCACTTTGAAAAGTAAATTGCTCC-TCT
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACACCACTTTG-AAA--AAATTACTCCTTCT
**
8015527 AAACAGAGG-CAACGAAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
63 AAACAGAGGCCAACGAAAC--TCAAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
8015590 AAAAGTAAATTGCTCTTCTAAACAGAGGCAATGAAACTT
126 AAAAGTAAATTGCTCTTCTAAACAGAGGCAATGAAACTT
8015629 TGAAAAATAA
Statistics
Matches: 149, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
196 40 0.27
197 11 0.07
198 85 0.57
199 13 0.09
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (196 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACACCACTTTGAAAAAATTACTCCTTCTAAA
CAGAGGCCAACGAAACTCAAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAG
TAAATTGCTCTTCTAAACAGAGGCAATGAAACTTCAAATTGCTTCTCTAAATAAAGGCACCATAA
C
Found at i:8015670 original size:123 final size:121
Alignment explanation
Indices: 8015189--8015682 Score: 516
Period size: 123 Copynumber: 4.1 Consensus size: 121
8015179 CCATGACTTC
*
8015189 AAATATAA-TGCTCCTCT-AACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAATCAG
1 AAATA-AATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* *
8015252 AGGCACACCACGACTTTTGAAAAATAAATTGCTCCTCTCAATAGAGGCAACACGACTTTG-
65 AGGCA-ACCAC-AC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACACGACTTTGA
** ** *
8015312 AAA-AAATTATTCCTTCTAAACAGAGGCCACCGA-AAC-TCAAAAATTAAATTGCTCCTCTAAAC
1 AAATAAATTGCTCC-TCTAAACAGAGG-CACC-ACAACTTTGAAAAGTAAATTGCTCCTCTAAAC
* * * *
8015374 AGAGG-TACCACGACTTTGCAAAGTAAATTGCTCTTCTAAACAGAGG--CA--A---TGA
63 AGAGGCAACCAC-ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACACGACTTTGA
* * * * *
8015426 AACTTCAAATTGCTTCTCTAAATAAAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAACA
1 AA-AT-AAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACA
*
8015491 GAGGC-ACCACCACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAAACTTTGGA
64 GAGGCAACCA-CACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACACG--ACTTT-GA
* *
8015551 AAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCTTCTAAACAGA
1 AAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGA
** *
8015616 GGCAATGAAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA
66 GGCAACCACACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGA
8015673 AAAGTAAATT
1 AAA-TAAATT
8015683 ACTCATTGAC
Statistics
Matches: 310, Mismatches: 34, Indels: 54
0.78 0.09 0.14
Matches are distributed among these distances:
113 2 0.01
114 3 0.01
115 7 0.02
116 75 0.24
117 9 0.03
118 2 0.01
121 30 0.10
122 18 0.06
123 110 0.35
124 39 0.13
125 14 0.05
126 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (121 bp):
AAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGA
GGCAACCACACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACACGACTTTGA
Found at i:8016038 original size:43 final size:42
Alignment explanation
Indices: 8015980--8016061 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
8015970 TTTGGCAAAC
*
8015980 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
8016022 TTGGAAATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGG-AATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
8016062 GTTCAAAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 4 0.11
43 31 0.84
44 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:8016293 original size:22 final size:21
Alignment explanation
Indices: 8016244--8016284 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
8016234 GGTTTCACTC
8016244 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
8016266 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
8016285 GTTCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:8017590 original size:9 final size:9
Alignment explanation
Indices: 8017578--8017603 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8017568 CATTTTCTCA
8017578 TTTTTTTTC
1 TTTTTTTTC
8017587 TTTTTTTTC
1 TTTTTTTTC
8017596 TTTTTTTT
1 TTTTTTTT
8017604 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:8017596 original size:21 final size:21
Alignment explanation
Indices: 8017570--8017643 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
8017560 TCTATTTTCA
8017570 TTTTCTCATTTTTTTTCTTTT
1 TTTTCTCATTTTTTTTCTTTT
8017591 TTTTCT--TTTTTTTT-TTAATT
1 TTTTCTCATTTTTTTTCTT--TT
* *
8017611 TTTT-TCA-TTATCTTCTTTTT
1 TTTTCTCATTTTTTTTC-TTTT
8017631 TTTTCTCATTTTT
1 TTTTCTCATTTTT
8017644 CATCCATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
18 2 0.05
19 9 0.21
20 17 0.40
21 9 0.21
22 5 0.12
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTCATTTTTTTTCTTTT
Found at i:8017615 original size:30 final size:30
Alignment explanation
Indices: 8017570--8017643 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
8017560 TCTATTTTCA
* * * *
8017570 TTTTCTCATTTTTTTTCTTTTTTTTCTTTTT
1 TTTTCT-AATTTTTTTCATTATCTTCTTTTT
*
8017601 TTTTTTAATTTTTTTCATTATCTTCTTTTT
1 TTTTCTAATTTTTTTCATTATCTTCTTTTT
*
8017631 TTTTCTCATTTTT
1 TTTTCTAATTTTT
8017644 CATCCATTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (30 bp):
TTTTCTAATTTTTTTCATTATCTTCTTTTT
Found at i:8021611 original size:18 final size:17
Alignment explanation
Indices: 8021588--8021631 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
8021578 ACTTCTCCTC
*
8021588 AAAAAAATTTGTTTTTTA
1 AAAAAAATTT-ATTTTTA
8021606 AAAAAAATTTATTTTTA
1 AAAAAAATTTATTTTTA
*
8021623 AAGAAAATT
1 AAAAAAATT
8021632 GATGCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
AAAAAAATTTATTTTTA
Found at i:8021668 original size:133 final size:130
Alignment explanation
Indices: 8021516--8021898 Score: 382
Period size: 133 Copynumber: 3.0 Consensus size: 130
8021506 AAATTGATAA
*
8021516 TTTCAACTTTTCTCCAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACT
1 TTTCAACTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACT
** * *
8021581 TCTCCTCAAAAAAATTTGTTTTTTAAAAAAAATTTATTTTTAAAGAAAATTGATGCTTTCAA-TT
66 TCTCCTCAAAAAAAAAT-TTTTTT---AAAAATTTATTCTTAAAGAAAATTGATACTTTCAACTT
8021645 TTAC
127 TTAC
* * *
8021649 TTTCAACTTTTTTCAAAAATATTTTTTGAAAACTTTAATTTCTAGAAAAATTGATATTTTCAACT
1 TTTCAACTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACT
* * * *
8021714 TTTTCTCAAAAAAAAATTTTTTTGAAAATTTATTCTTAAGGAAAATTGATACTTTCAAC--TT--
66 TCTCCTCAAAAAAAAATTTTTTTAAAAATTTATTCTTAAAGAAAATTGATACTTTCAACTTTTAC
* * ** *
8021775 TTT---C----CTAAAAATATATTTTTTTAGAATTTTTAATTTTGAGAAAAATTGATACTTTCAA
1 TTTCAACTTTTCTCAAAA-ATATTTTTTGA-AAACTTTAATTTCGAGAAAAATTGATACTTTCAA
* * * *
8021833 CTTTTCCTCAATAAAAAACCCTTTTTTT--TAATTTATTCTT-AAGAAAAATTGATACTTTTAAC
64 CTTCTCCTCAA-AAAAAA--ATTTTTTTAAAAATTTATTCTTAAAG-AAAATTGATACTTTCAAC
8021895 TTTT
125 TTTT
8021899 TCTCTAAAAT
Statistics
Matches: 216, Mismatches: 25, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
119 5 0.02
120 10 0.05
121 41 0.19
122 34 0.16
123 1 0.00
124 9 0.04
126 3 0.01
128 2 0.01
129 31 0.14
132 6 0.03
133 74 0.34
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (130 bp):
TTTCAACTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACT
TCTCCTCAAAAAAAAATTTTTTTAAAAATTTATTCTTAAAGAAAATTGATACTTTCAACTTTTAC
Found at i:8021741 original size:61 final size:59
Alignment explanation
Indices: 8021646--8021928 Score: 258
Period size: 61 Copynumber: 4.7 Consensus size: 59
8021636 CTTTCAATTT
* *
8021646 TACTTTCAACTTTTT-TC--AAAAATATTTTTTGAAAACTTTAATT-TCT-AGAAAAATTGA
1 TACTTTCAACTTTTTCTCAAAAAAAAATTTTTTTAAAA-TTT-ATTCT-TAAGAAAAATTGA
* *
8021703 TATTTTCAACTTTTTCTCAAAAAAAAATTTTTTTGAAAATTTATTCTTAAGGAAAATTGA
1 TACTTTCAACTTTTTCTCAAAAAAAAATTTTTTT-AAAATTTATTCTTAAGAAAAATTGA
* * * *
8021763 TACTTTCAACTTTTTC-CTAAAAATATATTTTTTTAGAATTTTTAATT-TTGAGAAAAATTGA
1 TACTTTCAACTTTTTCTC-AAAAAAAAATTTTTTTA-AA-ATTT-ATTCTTAAGAAAAATTGA
* * *
8021824 TACTTTCAACTTTTCCTCAATAAAAAACCCTTTTTTT-TAATTTATTCTTAAGAAAAATTGA
1 TACTTTCAACTTTTTCTCAA-AAAAAA--ATTTTTTTAAAATTTATTCTTAAGAAAAATTGA
* * * * * *
8021885 TACTTTTAACTTTTTCTCTAAAATATATTTTTTTTAATTTTATT
1 TACTTTCAACTTTTTCTCAAAAAAAAATTTTTTTAAAATTTATT
8021929 TAAAAAAAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 30
0.77 0.10 0.12
Matches are distributed among these distances:
57 14 0.08
58 9 0.05
59 13 0.07
60 64 0.35
61 69 0.37
62 9 0.05
64 7 0.04
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.49
Consensus pattern (59 bp):
TACTTTCAACTTTTTCTCAAAAAAAAATTTTTTTAAAATTTATTCTTAAGAAAAATTGA
Found at i:8021897 original size:122 final size:120
Alignment explanation
Indices: 8021646--8021918 Score: 362
Period size: 122 Copynumber: 2.3 Consensus size: 120
8021636 CTTTCAATTT
* ** *
8021646 TACTTTCAACTTTTT-TC-AAAA-ATATTTTTTGA-AAACTTTAATTTCTAGAAAAATTGATATT
1 TACTTTCAACTTTTTCTCTAAAATATATTTTTTTAGAATTTTTAATTTCTAGAAAAATTGATACT
* *
8021707 TTCAACTTTTTCTCAAAAAAAAATTTTTTTGAAAATTTATTCTTAAGGAAAATTGA
66 TTCAACTTTTCCTCAAAAAAAAATTTTTTT-AAAATTTATTCTTAAGAAAAATTGA
8021763 TACTTTCAACTTTTTC-CTAAAAATATATTTTTTTAGAATTTTTAATTT-TGAGAAAAATTGATA
1 TACTTTCAACTTTTTCTCT-AAAATATATTTTTTTAGAATTTTTAATTTCT-AGAAAAATTGATA
* *
8021826 CTTTCAACTTTTCCTCAATAAAAAACCCTTTTTTT-TAATTTATTCTTAAGAAAAATTGA
64 CTTTCAACTTTTCCTCAA-AAAAAA--ATTTTTTTAAAATTTATTCTTAAGAAAAATTGA
*
8021885 TACTTTTAACTTTTTCTCTAAAATATATTTTTTT
1 TACTTTCAACTTTTTCTCTAAAATATATTTTTTT
8021919 TAATTTTATT
Statistics
Matches: 137, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
117 16 0.12
119 4 0.03
120 11 0.08
121 39 0.28
122 58 0.42
123 2 0.01
124 7 0.05
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (120 bp):
TACTTTCAACTTTTTCTCTAAAATATATTTTTTTAGAATTTTTAATTTCTAGAAAAATTGATACT
TTCAACTTTTCCTCAAAAAAAAATTTTTTTAAAATTTATTCTTAAGAAAAATTGA
Found at i:8021942 original size:8 final size:8
Alignment explanation
Indices: 8021931--8022051 Score: 88
Period size: 8 Copynumber: 14.9 Consensus size: 8
8021921 ATTTTATTTA
8021931 AAAAAAAT
1 AAAAAAAT
8021939 AAAATAAAT
1 AAAA-AAAT
8021948 AAGAAAAAT
1 AA-AAAAAT
*
8021957 AAAAGAAT
1 AAAAAAAT
8021965 --AAAAAT
1 AAAAAAAT
8021971 AAAAAAAT
1 AAAAAAAT
8021979 -AAAAAAT
1 AAAAAAAT
8021986 GAAAATAAAT
1 -AAAA-AAAT
* *
8021996 AAAAATAG
1 AAAAAAAT
8022004 AAAAAAAT
1 AAAAAAAT
*** *
8022012 CCTAATAT
1 AAAAAAAT
8022020 AATAATAAAT
1 AA-AA-AAAT
*
8022030 -AAATAAT
1 AAAAAAAT
8022037 AAAAAAAT
1 AAAAAAAT
8022045 AAAAAAA
1 AAAAAAA
8022052 AAGAAACTTG
Statistics
Matches: 87, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
6 5 0.06
7 10 0.11
8 42 0.48
9 21 0.24
10 9 0.10
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8021957 original size:13 final size:13
Alignment explanation
Indices: 8021939--8021997 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
8021929 TAAAAAAAAT
8021939 AAAATAAATAAGA
1 AAAATAAATAAGA
8021952 AAAAT-AA-AAGA
1 AAAATAAATAAGA
*
8021963 ATAA-AAATAA-A
1 AAAATAAATAAGA
*
8021974 AAAATAAAAAATG-
1 AAAATAAATAA-GA
8021987 AAAATAAATAA
1 AAAATAAATAA
8021998 AAATAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
11 13 0.35
12 9 0.24
13 15 0.41
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAATAAATAAGA
Found at i:8021970 original size:14 final size:14
Alignment explanation
Indices: 8021931--8022053 Score: 90
Period size: 14 Copynumber: 8.3 Consensus size: 14
8021921 ATTTTATTTA
8021931 AAAAAAAT-AAAAT
1 AAAAAAATAAAAAT
* *
8021944 -AAATAAGAAAAAT
1 AAAAAAATAAAAAT
*
8021957 AAAAGAATAAAAAT
1 AAAAAAATAAAAAT
8021971 AAAAAAATAAAAAAT
1 AAAAAAAT-AAAAAT
8021986 GAAAATAAATAAAAAT
1 -AAAA-AAATAAAAAT
* *
8022002 AGAAAAAAATCCTAATAT
1 --AAAAAAAT--AAAAAT
8022020 AATAATAAATAAATAAT
1 AA-AA-AAATAAA-AAT
8022037 AAAAAAATAAAAA-
1 AAAAAAATAAAAAT
8022050 AAAA
1 AAAA
8022054 GAAACTTGGG
Statistics
Matches: 90, Mismatches: 9, Indels: 22
0.74 0.07 0.18
Matches are distributed among these distances:
12 5 0.06
13 9 0.10
14 20 0.22
15 13 0.14
16 20 0.22
17 15 0.17
18 8 0.09
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:8022007 original size:23 final size:23
Alignment explanation
Indices: 8021951--8022008 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 23
8021941 AATAAATAAG
*
8021951 AAAAATAAAAGAATAAAAAT-AA-
1 AAAAATAAAA-AATGAAAATAAAT
8021973 AAAAATAAAAAATGAAAATAAAT
1 AAAAATAAAAAATGAAAATAAAT
8021996 AAAAATAGAAAAA
1 AAAAATA-AAAAA
8022009 AATCCTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 8 0.25
22 12 0.38
23 7 0.22
24 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAAATGAAAATAAAT
Found at i:8022300 original size:9 final size:9
Alignment explanation
Indices: 8022281--8022327 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
8022271 CAGCATAAAC
8022281 CTTCT-TCT
1 CTTCTCTCT
8022289 CTTCTCTCT
1 CTTCTCTCT
8022298 CTTCTCTTCTTT
1 CTTCTC-TC--T
8022310 CTTCTCTCT
1 CTTCTCTCT
8022319 CTTCTCTCT
1 CTTCTCTCT
8022328 AGAATCTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.14
9 19 0.54
10 2 0.06
11 2 0.06
12 7 0.20
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (9 bp):
CTTCTCTCT
Found at i:8022314 original size:21 final size:22
Alignment explanation
Indices: 8022281--8022325 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
8022271 CAGCATAAAC
8022281 CTTCTTCTCTTCTCTCTCTTCT
1 CTTCTTCTCTTCTCTCTCTTCT
8022303 CTTCTT-TCTTCTCTCTCTTCT
1 CTTCTTCTCTTCTCTCTCTTCT
8022324 CT
1 CT
8022326 CTAGAATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTCTTCTCTTCTCTCTCTTCT
Found at i:8022852 original size:17 final size:17
Alignment explanation
Indices: 8022830--8022892 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
8022820 AGTCGAAAAA
8022830 AATAAAAAAAATCAAAT
1 AATAAAAAAAATCAAAT
*
8022847 AATAAAAAAAAT--ATT
1 AATAAAAAAAATCAAAT
*
8022862 AATAAATAAATAATCATAT
1 AATAAA-AAA-AATCAAAT
8022881 AA-ACAAAAAAAT
1 AATA-AAAAAAAT
8022893 TAACAGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
15 8 0.21
16 3 0.08
17 18 0.47
18 4 0.11
19 5 0.13
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAAAAAATCAAAT
Found at i:8022895 original size:32 final size:34
Alignment explanation
Indices: 8022830--8022892 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
8022820 AGTCGAAAAA
8022830 AATAAA-AAA-AATCAAATAATAAAAAAAATATT
1 AATAAATAAATAATCAAATAATAAAAAAAATATT
*
8022862 AATAAATAAATAATCATATAA-ACAAAAAAAT
1 AATAAATAAATAATCAAATAATA-AAAAAAAT
8022893 TAACAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 6 0.22
33 4 0.15
34 17 0.63
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (34 bp):
AATAAATAAATAATCAAATAATAAAAAAAATATT
Found at i:8022984 original size:18 final size:18
Alignment explanation
Indices: 8022933--8022985 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
8022923 AGATAAATAT
* *
8022933 ATATAAATATTAACAAAA
1 ATATATATATTAATAAAA
* *
8022951 ATA-ATAATAATAATAAAG
1 ATATAT-ATATTAATAAAA
8022969 ATATATATATTAATAAA
1 ATATATATATTAATAAA
8022986 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.89
19 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATATATATATTAATAAAA
Done.