Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 277 of 425
Found at i:85508502 original size:27 final size:27
Alignment explanation
Indices: 85508435--85508522 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
85508425 GGGGCAAAAT
* * *
85508435 GGTAATTTTACCCCAC-GAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
*
85508462 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
85508489 GGTAATTCTACCCTATAGGGTTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
85508516 GGTAATT
1 GGTAATT
85508523 TTGTAAATCG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:85508573 original size:27 final size:27
Alignment explanation
Indices: 85508516--85508846 Score: 247
Period size: 27 Copynumber: 12.3 Consensus size: 27
85508506 GGGTTGTTTC
* ****
85508516 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGCAAATCGAGGGTATTTT
* * *
85508543 GGTAATTTTGTAAATCGGGGGTACTTT
1 GGTAATTTTGCAAATCGAGGGTATTTT
* * * *
85508570 GGTAATTTTACAAGTTGAAGGTATTTT
1 GGTAATTTTGCAAATCGAGGGTATTTT
* * *
85508597 AGTAATTTTACAAATCG-GGGTATTTC
1 GGTAATTTTGCAAATCGAGGGTATTTT
* * *
85508623 AGTAATTTTGCAAATCG-GATGTATTTA
1 GGTAATTTTGCAAATCGAG-GGTATTTT
* *
85508650 GGTAATTTTGCAAATTGGGGGTATTTT
1 GGTAATTTTGCAAATCGAGGGTATTTT
* * *
85508677 AGTAATTTTACAAAT-TAGGGGTATTTT
1 GGTAATTTTGCAAATCGA-GGGTATTTT
* *
85508704 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTGCAAATCGA-GGGTATTTT
** * * *
85508731 GGTAATTTTAAAAACCAAGGGTATTTC
1 GGTAATTTTGCAAATCGAGGGTATTTT
** * * * *
85508758 AATAATTTTGTAAACCAAGGGTATTTC
1 GGTAATTTTGCAAATCGAGGGTATTTT
** *
85508785 AATAATTTTGCTAATCGAGGGTATTTT
1 GGTAATTTTGCAAATCGAGGGTATTTT
*
85508812 GGTAATTTTGCTAATCGAGGGTATTTT
1 GGTAATTTTGCAAATCGAGGGTATTTT
85508839 GGTAATTT
1 GGTAATTT
85508847 AGTAAACTAA
Statistics
Matches: 255, Mismatches: 44, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 24 0.09
27 228 0.89
28 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGTAATTTTGCAAATCGAGGGTATTTT
Found at i:85508833 original size:81 final size:81
Alignment explanation
Indices: 85508544--85508846 Score: 281
Period size: 81 Copynumber: 3.8 Consensus size: 81
85508534 GGGTAAAACG
* * * * *
85508544 GTAATTTTG-TAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAAGGTATTTTAGTAATTTTAC
1 GTAATTTTGCT-AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
85508608 AAATC-GGGGTATTTCA
65 AAATCAGGGGTATTTCA
* * * * * *
85508624 GTAATTTTGCAAATCG-GATGTATTTAGGTAATTTTGCAAATTGGGGGTATTTTAGTAATTTTAC
1 GTAATTTTGCTAATCGAG-GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* **
85508688 AAATTAGGGGTATTTTG
65 AAATCAGGGGTATTTCA
* * * * * * * * **
85508705 GTAATTTTAC-AAACCAGGGGTATTTTGGTAATTTTAAAAACCAAGGGTATTTCAATAATTTTGT
1 GTAATTTTGCTAATCGA-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* *
85508769 AAACCAAGGGTATTTCA
65 AAATCAGGGGTATTTCA
* * * *
85508786 ATAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTT
1 GTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
85508847 AGTAAACTAA
Statistics
Matches: 174, Mismatches: 43, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
79 1 0.01
80 60 0.34
81 108 0.62
82 5 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
GTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACA
AATCAGGGGTATTTCA
Found at i:85514578 original size:3 final size:3
Alignment explanation
Indices: 85514565--85514628 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
85514555 GAATATGAAA
85514565 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85514612 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
85514629 AGGCAATGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:85514794 original size:21 final size:20
Alignment explanation
Indices: 85514754--85514792 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
85514744 ATAAAGCAAT
85514754 AATAATAGTAAACAATAAATC
1 AATAATAG-AAACAATAAATC
85514775 AATAATA-AAACTAATAAA
1 AATAATAGAAAC-AATAAA
85514793 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (20 bp):
AATAATAGAAACAATAAATC
Found at i:85520409 original size:29 final size:29
Alignment explanation
Indices: 85520363--85520479 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
85520353 GGCCTAATCT
*
85520363 CATTTATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * *
85520392 CATTCATATGGCCTATCAGGCCTAATTTA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
85520421 TATTCATATGGCCCATCAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * *
85520450 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
85520479 C
1 C
85520480 CTTATATTCA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:85520734 original size:24 final size:23
Alignment explanation
Indices: 85520698--85520742 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
85520688 CGCAGCCGAA
* *
85520698 CTTTTGGCTTTTCGGCATTTTGAC
1 CTTTCGGCATTTCGGC-TTTTGAC
85520722 CTTTCGGCATTTCGGCTTTTG
1 CTTTCGGCATTTCGGCTTTTG
85520743 CCGATCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.49
Consensus pattern (23 bp):
CTTTCGGCATTTCGGCTTTTGAC
Found at i:85527167 original size:29 final size:29
Alignment explanation
Indices: 85527130--85527241 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
85527120 CATCTTAATT
*
85527130 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAAATCACATTC
* * *
85527159 ATATGGCCCATCAAGCCCAATTCATATTC
1 ATATGGCCCATCAGGCCCAAATCACATTC
* * *
85527188 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCCAAATCACATTC
* *
85527217 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGGCCCATCAGGCCCAAATCAC
85527242 CTTATATTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAAATCACATTC
Found at i:85533569 original size:81 final size:81
Alignment explanation
Indices: 85533468--85533630 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
85533458 AACCAATTAA
*
85533468 CACAACTACTGACTGGTGGGCTAGAAAAAGGAAAGAACCCTGTGGTCAATGCTGGAGATGATAAT
1 CACAACTACTGACTGGTGGGCTAGAAAAAGGAAAGAACCCTGTGGTCAATGCTGAAGATGATAAT
85533533 GAAGATCCTCTTTACC
66 GAAGATCCTCTTTACC
85533549 CACAACTACTGACTGGTGGGCTAGAAAAAGGAAAGAACCCTGTGGTCAATGCTGAAGATGATAAT
1 CACAACTACTGACTGGTGGGCTAGAAAAAGGAAAGAACCCTGTGGTCAATGCTGAAGATGATAAT
* *
85533614 GTAGATCTTCTTTACC
66 GAAGATCCTCTTTACC
85533630 C
1 C
85533631 CCTGGGTTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (81 bp):
CACAACTACTGACTGGTGGGCTAGAAAAAGGAAAGAACCCTGTGGTCAATGCTGAAGATGATAAT
GAAGATCCTCTTTACC
Found at i:85538572 original size:16 final size:17
Alignment explanation
Indices: 85538551--85538590 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
85538541 CCTAGCCTTG
*
85538551 TCTTTCTCCTTTT-TTT
1 TCTTTCCCCTTTTCTTT
85538567 TCTTTCCCCTTTTCTTT
1 TCTTTCCCCTTTTCTTT
85538584 TCTTTCC
1 TCTTTCC
85538591 TTTCTATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTTCCCCTTTTCTTT
Found at i:85554940 original size:22 final size:22
Alignment explanation
Indices: 85554912--85554953 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85554902 AAAAGTGTAG
85554912 GAATATTCTGTAAATATTTTAA
1 GAATATTCTGTAAATATTTTAA
* *
85554934 GAATATTTTGTAGATATTTT
1 GAATATTCTGTAAATATTTT
85554954 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (22 bp):
GAATATTCTGTAAATATTTTAA
Found at i:85559524 original size:22 final size:22
Alignment explanation
Indices: 85559496--85559540 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
85559486 AGGGGGAGTG
85559496 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
85559518 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
85559540 T
1 T
85559541 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:85561915 original size:19 final size:19
Alignment explanation
Indices: 85561888--85561928 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
85561878 AACAATATAT
*
85561888 AAATTTATAAAAAAATTAA
1 AAATATATAAAAAAATTAA
**
85561907 AAATATATAAAATTATTAA
1 AAATATATAAAAAAATTAA
85561926 AAA
1 AAA
85561929 GCACGTCCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATATAAAAAAATTAA
Found at i:85562021 original size:25 final size:24
Alignment explanation
Indices: 85561985--85562034 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
85561975 ATATCAACTG
*
85561985 TTTTATTAATTTATATATTTTAAAA
1 TTTTATTAATTTATA-ATTTCAAAA
*
85562010 TTTTA-TATATTTTTAATTTCAAAA
1 TTTTATTA-ATTTATAATTTCAAAA
85562034 T
1 T
85562035 AATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTAATTTATAATTTCAAAA
Found at i:85562027 original size:16 final size:16
Alignment explanation
Indices: 85561990--85562028 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
85561980 AACTGTTTTA
85561990 TTAA-TTTATATATTT
1 TTAATTTTATATATTT
*
85562005 TAAAATTTTATATATTT
1 T-TAATTTTATATATTT
85562022 TTAATTT
1 TTAATTT
85562029 CAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTATATATTT
Found at i:85562199 original size:22 final size:20
Alignment explanation
Indices: 85562169--85562213 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
85562159 TTATATTTTT
85562169 TATTAATTTATATATTTTTACA
1 TATTAATTT-T-TATTTTTACA
* *
85562191 TATTCATTTTTATTTTTATA
1 TATTAATTTTTATTTTTACA
85562211 TAT
1 TAT
85562214 ACTTACTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTAATTTTTATTTTTACA
Found at i:85563704 original size:27 final size:26
Alignment explanation
Indices: 85563670--85563724 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
85563660 AAATATGATT
* * *
85563670 AAATTATTTATTATTATTTTTAATAA
1 AAATTATTTAATAATAATTTTAATAA
*
85563696 AAATATATTTAATAATAATTTTATTAA
1 AAAT-TATTTAATAATAATTTTAATAA
85563723 AA
1 AA
85563725 TTTAATAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATTATTTAATAATAATTTTAATAA
Found at i:85569541 original size:17 final size:16
Alignment explanation
Indices: 85569521--85569564 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
85569511 TAAGTATTTT
*
85569521 TTTTATTTGATATATAC
1 TTTT-TTTGATATATAA
*
85569538 TTTTTCTTGATATCTAA
1 TTTTT-TTGATATATAA
85569555 TTTTTTTGAT
1 TTTTTTTGAT
85569565 TAATTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTTTTTGATATATAA
Found at i:85571457 original size:22 final size:22
Alignment explanation
Indices: 85571429--85571482 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
85571419 CTTTGTTTCA
*
85571429 TATTTTTACTTTGATATTTATT
1 TATTTTTACTTTGATATTAATT
*
85571451 TATTTTTATTTTGATATTAATT
1 TATTTTTACTTTGATATTAATT
85571473 T-TTTTT-CTTT
1 TATTTTTACTTT
85571483 CAGTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 5 0.17
22 21 0.72
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TATTTTTACTTTGATATTAATT
Found at i:85573465 original size:5 final size:5
Alignment explanation
Indices: 85573448--85573492 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
85573438 CATTTGCTTC
85573448 TGATA TG-TA TGATA TGATA TGATA TGATA TGATA TGATA TGATA T
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA T
85573493 AAACTGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:85573500 original size:15 final size:15
Alignment explanation
Indices: 85573455--85573504 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
85573445 TTCTGATATG
*
85573455 TATGATATGATATGA
1 TATGATATGAAATGA
*
85573470 TATGATATGATATGA
1 TATGATATGAAATGA
85573485 TATGATAT-AAACTGA
1 TATGATATGAAA-TGA
85573500 TATGA
1 TATGA
85573505 GGTGATAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
14 2 0.06
15 31 0.94
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (15 bp):
TATGATATGAAATGA
Found at i:85581406 original size:18 final size:19
Alignment explanation
Indices: 85581381--85581425 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
85581371 CGGTTCTTAC
85581381 ATTTTATTTA-TTTATTATT
1 ATTTTATTTATTTTATT-TT
85581400 A-TTTA-TTATTTTATTTT
1 ATTTTATTTATTTTATTTT
85581417 ATTTTATTT
1 ATTTTATTT
85581426 CAGATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.26
18 14 0.61
19 3 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTATTTATTTTATTTT
Found at i:85583141 original size:12 final size:11
Alignment explanation
Indices: 85583091--85583152 Score: 61
Period size: 11 Copynumber: 5.3 Consensus size: 11
85583081 CCTTTAAGTC
85583091 TTTTTATTTTA
1 TTTTTATTTTA
* *
85583102 TTATTATTACTA
1 TTTTTATT-TTA
85583114 TTTATTATTATTA
1 TTT-TTATT-TTA
85583127 TTTTTAATTTTA
1 TTTTT-ATTTTA
*
85583139 TTTTTCTTTTA
1 TTTTTATTTTA
85583150 TTT
1 TTT
85583153 GTTTTTGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.35
12 14 0.33
13 14 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:85597507 original size:45 final size:45
Alignment explanation
Indices: 85597443--85597530 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
85597433 AAACATGTGT
* * *
85597443 CACATACATCATGAACTCAGAGCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGATGC
*
85597488 CACATATATCATGAACTCAGACCACAACTAAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGAT
85597531 CACATAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGATGC
Found at i:85608617 original size:45 final size:45
Alignment explanation
Indices: 85608557--85608644 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
85608547 AAACATATGT
*
85608557 CACATACATCATGAACTCAGACCAGAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
* * *
85608602 CACATATATCTTGAACTCAGACCACAACTCAATGGGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
85608645 CACATAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:85622591 original size:34 final size:34
Alignment explanation
Indices: 85622542--85622622 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
85622532 TTTGATTGCA
* *
85622542 TACTATT-CTAAAATGGGCTAAGGCCTACACTG-
1 TACTATTACTGAAATGGGCTAAGGCCTAAACTGC
85622574 TCACTATTACTGAAATGGGCTAAGGCCTAAACTGC
1 T-ACTATTACTGAAATGGGCTAAGGCCTAAACTGC
*
85622609 TACTGTTACTGAAA
1 TACTATTACTGAAA
85622623 AAGGGGCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.02
33 6 0.14
34 35 0.81
35 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (34 bp):
TACTATTACTGAAATGGGCTAAGGCCTAAACTGC
Found at i:85631405 original size:44 final size:44
Alignment explanation
Indices: 85631342--85631476 Score: 234
Period size: 44 Copynumber: 3.1 Consensus size: 44
85631332 ATTTTGTCAC
85631342 GTAAGGTTAAACAGTTGAGAAATAAAAGCATAGCTCTCGTGAAA
1 GTAAGGTTAAACAGTTGAGAAATAAAAGCATAGCTCTCGTGAAA
*
85631386 GTAAGGTTAAACAATTGAGAAATAAAAGCATAGCTCTCGTGAAA
1 GTAAGGTTAAACAGTTGAGAAATAAAAGCATAGCTCTCGTGAAA
* * *
85631430 GTAAGGTTAAACAGTTAAGTAATAAAAACATAGCTCTCGTGAAA
1 GTAAGGTTAAACAGTTGAGAAATAAAAGCATAGCTCTCGTGAAA
85631474 GTA
1 GTA
85631477 GTTTGGAAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 86 1.00
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (44 bp):
GTAAGGTTAAACAGTTGAGAAATAAAAGCATAGCTCTCGTGAAA
Found at i:85632412 original size:17 final size:16
Alignment explanation
Indices: 85632390--85632421 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
85632380 CATGTGTCTA
85632390 TTGTGAATTTCATTAAT
1 TTGTGAATTT-ATTAAT
85632407 TTGTGAATTTATTAA
1 TTGTGAATTTATTAA
85632422 ATAAGGACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (16 bp):
TTGTGAATTTATTAAT
Found at i:85647745 original size:118 final size:118
Alignment explanation
Indices: 85647532--85647773 Score: 457
Period size: 118 Copynumber: 2.0 Consensus size: 118
85647522 GAAGCTAACC
*
85647532 CAATGTATCCCCTAATGACATGTCACTAGTATCTTAAACTATTCCTACGGTTCAACTGGGATTTC
1 CAAT-TATCCCCTAATGACATGTCACTAGTATCTTAAACTATTCCTACGGTTCAACCGGGATTTC
85647597 GAATGCCGAATTACCATCGAGTCATTTTCGAACTTATCTGAAATCTCATATTCA
65 GAATGCCGAATTACCATCGAGTCATTTTCGAACTTATCTGAAATCTCATATTCA
85647651 CAATTATCCCCTAATGACATGTCACTAGTATCTTAAACTATTCCTACGGTTCAACCGGGATTTCG
1 CAATTATCCCCTAATGACATGTCACTAGTATCTTAAACTATTCCTACGGTTCAACCGGGATTTCG
*
85647716 AATGTCGAATTACCATCGAGTCATTTTCGAACTTATCTGAAATCTCATATTCA
66 AATGCCGAATTACCATCGAGTCATTTTCGAACTTATCTGAAATCTCATATTCA
85647769 CAATT
1 CAATT
85647774 TATACAACAT
Statistics
Matches: 121, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
118 117 0.97
119 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (118 bp):
CAATTATCCCCTAATGACATGTCACTAGTATCTTAAACTATTCCTACGGTTCAACCGGGATTTCG
AATGCCGAATTACCATCGAGTCATTTTCGAACTTATCTGAAATCTCATATTCA
Found at i:85654290 original size:20 final size:20
Alignment explanation
Indices: 85654241--85654296 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
85654231 AGTTTATGCT
* * *
85654241 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
85654261 AAGTCAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
85654281 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
85654297 TCATAGTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:85656867 original size:40 final size:39
Alignment explanation
Indices: 85656813--85656997 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
85656803 CTTGCACAAG
* * *
85656813 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAAT
85656853 GCCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
85656893 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
85656933 GCGTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
85656974 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCG-GACTTAGCCCGGATAT
85656998 CATTCGAATA
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 90 0.74
41 27 0.22
42 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:85656996 original size:81 final size:80
Alignment explanation
Indices: 85656777--85656997 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
85656767 CTCAAGTAAT
* * * * *
85656777 CTTCAGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCAGGACTTAGCCCGGATATAGTC-ACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
85656839 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
*
85656855 CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
* *
85656919 CAACTCGCACGAATGC
66 C-ACTAGCACAAATGC
* * * * *
85656935 GTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGAGACTTAGCCCGGATAT
1 CTTCAGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
85656998 CATTCGAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 59 0.48
81 32 0.26
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:85662908 original size:12 final size:12
Alignment explanation
Indices: 85662891--85662915 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85662881 AATATCTTCT
85662891 TATAATAAAACA
1 TATAATAAAACA
85662903 TATAATAAAACA
1 TATAATAAAACA
85662915 T
1 T
85662916 CATGCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAATAAAACA
Found at i:85663894 original size:54 final size:54
Alignment explanation
Indices: 85663814--85663919 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
85663804 TGGTATTGAT
* *
85663814 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCTG
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTCTG
* * *
85663868 ATATTTGTGTGAGTAAGATCACGTTTAATACGTTGACATCGATATGTGATTC
1 ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTC
85663920 AGTTATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (54 bp):
ATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTCTG
Found at i:85668580 original size:12 final size:11
Alignment explanation
Indices: 85668554--85668579 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85668544 TGTATATATA
85668554 TTTTAGAATTT
1 TTTTAGAATTT
85668565 TTTTAGAATTT
1 TTTTAGAATTT
85668576 TTTT
1 TTTT
85668580 TCAAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:85672390 original size:28 final size:28
Alignment explanation
Indices: 85672321--85672421 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
85672311 GACAAGATTG
* * * *
85672321 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
85672351 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
85672379 GCACTAAGTGTGCGAG-TTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
*
85672408 GAACTAAGTGTGCG
1 GCACTAAGTGTGCG
85672422 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85672415 original size:29 final size:28
Alignment explanation
Indices: 85672353--85672421 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 28
85672343 ATTGTACAGC
*
85672353 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGA
85672381 ACTAAGTGTGCGAG-TTGAATGTATATAGA
1 ACTAAGTGTGCGAGTTTG-AT-TATATAGA
85672410 ACTAAGTGTGCG
1 ACTAAGTGTGCG
85672422 GATTCACTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 3 0.08
28 16 0.42
29 19 0.50
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.32
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATTATATAGA
Found at i:85680357 original size:25 final size:24
Alignment explanation
Indices: 85680323--85680412 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 24
85680313 TTTGAAAGTC
85680323 CGCACACATAGTGCTCTTAC-TTAT-T
1 CGCACACATAGTGC-C--ACGTTATCT
*
85680348 CGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCCACGTTATCT
* *
85680372 CGCACACATAGTGCCATGTAATCT
1 CGCACACATAGTGCCACGTTATCT
*
85680396 CGCACACACAGTGCCAC
1 CGCACACATAGTGCCAC
85680413 TTAGTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.04
23 3 0.05
24 38 0.67
25 14 0.25
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (24 bp):
CGCACACATAGTGCCACGTTATCT
Found at i:85680403 original size:26 final size:24
Alignment explanation
Indices: 85680347--85680458 Score: 98
Period size: 24 Copynumber: 4.6 Consensus size: 24
85680337 TCTTACTTAT
**
85680347 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTAATC
*
85680371 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * * *
85680395 TCGCACACACAGTGCCACTTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
** * * *
85680420 TTACACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
*
85680444 TTGCACACATAGTGC
1 TCGCACACATAGTGC
85680459 TGAAATTTCT
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
24 53 0.76
25 17 0.24
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:85681540 original size:20 final size:21
Alignment explanation
Indices: 85681515--85681553 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
85681505 TAATTTCTTA
*
85681515 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTATTTATTT
85681535 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
85681554 GATCTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTATTTATTT
Found at i:85684101 original size:36 final size:36
Alignment explanation
Indices: 85684061--85684132 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
85684051 ATGCAGGGAA
*
85684061 TGATGGGGCA-TGATATGGTGTTTGTGTAAAATAAAC
1 TGATGGGG-AGTGATATGGTGGTTGTGTAAAATAAAC
** * *
85684097 TGATGTTGAGTGTTGTGGTGGTTGTGTAAAATAAAC
1 TGATGGGGAGTGATATGGTGGTTGTGTAAAATAAAC
85684133 CAAAACTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.36
Consensus pattern (36 bp):
TGATGGGGAGTGATATGGTGGTTGTGTAAAATAAAC
Found at i:85684170 original size:2 final size:2
Alignment explanation
Indices: 85684163--85684282 Score: 213
Period size: 2 Copynumber: 59.5 Consensus size: 2
85684153 TGAAGAATGA
85684163 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
85684205 GT GT GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
85684247 GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GCT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G-T GT G
85684283 ATGGTTGTGA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
2 111 0.98
3 2 0.02
ACGTcount: A:0.02, C:0.01, G:0.48, T:0.49
Consensus pattern (2 bp):
GT
Found at i:85685808 original size:28 final size:28
Alignment explanation
Indices: 85685770--85685828 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
85685760 AATTAACTAT
85685770 TTAAAGTTAAATAATTTAATAAATTTAC
1 TTAAAGTTAAATAATTTAATAAATTTAC
85685798 TTAAAGTTAAATAATTTAATAAATTTAC
1 TTAAAGTTAAATAATTTAATAAATTTAC
85685826 TTA
1 TTA
85685829 CCATTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (28 bp):
TTAAAGTTAAATAATTTAATAAATTTAC
Found at i:85685936 original size:15 final size:15
Alignment explanation
Indices: 85685902--85685941 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
85685892 AAAATATTTT
*
85685902 AAGAATAAAATTGAA
1 AAGAATAAAATTCAA
*
85685917 GAGAATAAAATTCAA
1 AAGAATAAAATTCAA
*
85685932 AAGAAGAAAA
1 AAGAATAAAA
85685942 GAATTTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (15 bp):
AAGAATAAAATTCAA
Found at i:85685977 original size:7 final size:7
Alignment explanation
Indices: 85685967--85686014 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
85685957 TTGATGATTG
85685967 AAAATTA
1 AAAATTA
85685974 AAAATTA
1 AAAATTA
85685981 AAAATTA
1 AAAATTA
85685988 AAAATTA
1 AAAATTA
*
85685995 GAAATTA
1 AAAATTA
*
85686002 GAAATTA
1 AAAATTA
*
85686009 GAAATT
1 AAAATT
85686015 TAAATGTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:85686034 original size:21 final size:20
Alignment explanation
Indices: 85685953--85686077 Score: 92
Period size: 21 Copynumber: 6.0 Consensus size: 20
85685943 AATTTAGAAA
*
85685953 AAAATTGATGATTGAAAATT
1 AAAATTGAAGATTGAAAATT
* * *
85685973 AAAAATTAAAAATTAAAAATT
1 -AAAATTGAAGATTGAAAATT
85685994 AGAAATTAGAA-ATT-AGAAATT
1 A-AAATT-GAAGATTGA-AAATT
*
85686015 TAAATGTGAAGATTGAAAATAT
1 AAAAT-TGAAGATTGAAAAT-T
* * *
85686037 AAAATTGAAAATTGAAGATA
1 AAAATTGAAGATTGAAAATT
*
85686057 AAAGATTGAAGATTGAGAATT
1 AAA-ATTGAAGATTGAAAATT
85686078 TAGAAAGAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
20 12 0.15
21 62 0.76
22 8 0.10
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAATTGAAGATTGAAAATT
Found at i:85692585 original size:11 final size:11
Alignment explanation
Indices: 85692571--85692603 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
85692561 TCTTTAAATG
85692571 ATTACTAAAAA
1 ATTACTAAAAA
85692582 ATTAC-AAAAA
1 ATTACTAAAAA
85692592 ATTA-TAAAAA
1 ATTACTAAAAA
85692602 AT
1 AT
85692604 ATTAGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (11 bp):
ATTACTAAAAA
Found at i:85693127 original size:10 final size:10
Alignment explanation
Indices: 85693112--85693156 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
85693102 TCTACTGTAG
85693112 TTTTTAATAA
1 TTTTTAATAA
*
85693122 TTTTTAAATAT
1 TTTTT-AATAA
*
85693133 TTTGTTATTAA
1 TTT-TTAATAA
85693144 TTTTTAATAA
1 TTTTTAATAA
85693154 TTT
1 TTT
85693157 AAAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 14 0.48
11 13 0.45
12 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:85696291 original size:40 final size:40
Alignment explanation
Indices: 85696185--85696368 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
85696175 TGCTGGAAAT
* * * * * **
85696185 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
85696225 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
85696265 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
85696303 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
85696344 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
85696369 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:85704415 original size:40 final size:40
Alignment explanation
Indices: 85704309--85704492 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
85704299 TGCTGGAAAT
* * * * * **
85704309 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
85704349 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
85704389 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
85704427 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
85704468 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
85704493 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:85711978 original size:43 final size:43
Alignment explanation
Indices: 85711896--85712042 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
85711886 TGAGACATCG
* * * * * *
85711896 TGTAATACCGTGTTTGGGACACAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATAT-TGATTTACA
* *
85711939 TATAAGACCATGTCTGGGACACCGGCATC-ATATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATAT-TGATTTACA
* * * *
85711981 TGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAGTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATTGATTTACA
* *
85712024 TGTAAGACCACGTCCGGGA
1 TGTAAGACCATGTCTGGGA
85712043 TGTCGGCATT
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
42 32 0.39
43 50 0.61
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATATTGATTTACA
Found at i:85711998 original size:42 final size:43
Alignment explanation
Indices: 85711910--85712033 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 43
85711900 ATACCGTGTT
* * * *
85711910 TGGGACACAGGCCTCG--ATTGAGATTTACGTATAAGACCATGTC
1 TGGGACACAGGCATCGATATTGAG--TTACATGTAAGACCATATC
* * *
85711953 TGGGACACCGGCATC-ATATCTGA-TTTCATGTAAGACCCTATC
1 TGGGACACAGGCATCGATAT-TGAGTTACATGTAAGACCATATC
*
85711995 TGGGACAGAGGCATCGATATTGAGTTACATGTAAGACCA
1 TGGGACACAGGCATCGATATTGAGTTACATGTAAGACCA
85712034 CGTCCGGGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
42 30 0.46
43 30 0.46
44 2 0.03
45 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TGGGACACAGGCATCGATATTGAGTTACATGTAAGACCATATC
Found at i:85733989 original size:28 final size:28
Alignment explanation
Indices: 85733955--85734012 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
85733945 ATTAAATGAG
85733955 TAAAATTTTATTTTTATAGATCAAGAAA
1 TAAAATTTTATTTTTATAGATCAAGAAA
85733983 TAAAATTTTATTTTTATAGATCAAGAAA
1 TAAAATTTTATTTTTATAGATCAAGAAA
85734011 TA
1 TA
85734013 TGCAATCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (28 bp):
TAAAATTTTATTTTTATAGATCAAGAAA
Found at i:85734540 original size:40 final size:40
Alignment explanation
Indices: 85734461--85734540 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
85734451 AACGAGAGAC
* * *
85734461 AGTGTAAGACCTATTAGGGACATGGCATCGGCCTCGATGT
1 AGTGTAACACCTATTAGGGACATGGCATCGACCTAGATGT
* *
85734501 AGTGTAACACCTATCTA-GGACATGGCATTGACTTAGATGT
1 AGTGTAACACCTAT-TAGGGACATGGCATCGACCTAGATGT
85734541 GAGAGCTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (40 bp):
AGTGTAACACCTATTAGGGACATGGCATCGACCTAGATGT
Found at i:85755167 original size:27 final size:27
Alignment explanation
Indices: 85755129--85755182 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
85755119 AAGTTGTCAA
*
85755129 AGTTAGGTGAGTTTTGGTGACTAAATT
1 AGTTAAGTGAGTTTTGGTGACTAAATT
85755156 AGTTAAGTGAGTTTTGGTGACTAAATT
1 AGTTAAGTGAGTTTTGGTGACTAAATT
85755183 GACTAGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.41
Consensus pattern (27 bp):
AGTTAAGTGAGTTTTGGTGACTAAATT
Found at i:85756147 original size:49 final size:48
Alignment explanation
Indices: 85756094--85756269 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 48
85756084 ATGAAAGCCT
*
85756094 GTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAAATATACAAGGTA
1 GTGTAAGACCTGTCTAGGACATGGCATCGGCCTC-AAATATACAAGCTA
* * * *
85756143 GTGTAAGACCTGTCTGGGACATGGCATTGG-CACAGATA-AGCAAGAACTA
1 GTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAATATA-CAAG--CTA
* ** *
85756192 GTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGACGTATGA-AAGTTA
1 GTGTAAGACCTGTCTAGGACATGGCATCGGCCTC-AAATAT-ACAAGCTA
* *
85756241 GTGTAAGACCTATCTAGGACATGACATCG
1 GTGTAAGACCTGTCTAGGACATGGCATCG
85756270 ACTTAGAAGT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
46 1 0.01
47 8 0.07
48 2 0.02
49 87 0.81
50 2 0.02
51 6 0.06
53 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAATATACAAGCTA
Found at i:85758462 original size:27 final size:28
Alignment explanation
Indices: 85758406--85758475 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
85758396 AAACTTGTAC
85758406 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
85758434 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
85758461 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
85758476 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:85758486 original size:27 final size:27
Alignment explanation
Indices: 85758406--85758487 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
85758396 AAACTTGTAC
* *
85758406 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
85758434 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
85758461 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
85758488 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:85764261 original size:21 final size:22
Alignment explanation
Indices: 85764221--85764262 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
85764211 AATACCTAGT
*
85764221 AAAAGGTATCGATACTTTTTAA
1 AAAAGGGATCGATACTTTTTAA
85764243 AAAAGGGATCGATACTTTTT
1 AAAAGGGATCGATACTTTTT
85764263 GTAATTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (22 bp):
AAAAGGGATCGATACTTTTTAA
Found at i:85770065 original size:28 final size:28
Alignment explanation
Indices: 85769999--85770097 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
85769989 CATGAGATTG
* * * *
85769999 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTTC-GACTATATA
* * *
85770028 GCACTGAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGACTATATA
*
85770056 GCACAAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGACTATAT-A
85770084 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85770098 GGCTTATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.71
29 16 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATATA
Found at i:85771736 original size:80 final size:80
Alignment explanation
Indices: 85771652--85771800 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
85771642 TATGGTAACC
* * * *
85771652 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85771716 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
85771732 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85771797 CCGG
66 CCGG
85771801 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:85771742 original size:40 final size:38
Alignment explanation
Indices: 85771693--85771800 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
85771683 ATCACGATTT
*
85771693 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
85771733 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
85771773 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
85771801 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:85779841 original size:80 final size:80
Alignment explanation
Indices: 85779757--85779905 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
85779747 TATGGTAACC
* * * *
85779757 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85779821 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
85779837 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85779902 CCGG
66 CCGG
85779906 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:85779847 original size:40 final size:38
Alignment explanation
Indices: 85779798--85779905 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
85779788 ATCACGATTT
*
85779798 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
85779838 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
85779878 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
85779906 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:85789468 original size:28 final size:28
Alignment explanation
Indices: 85789403--85789501 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
85789393 CATGAGATTG
* * *
85789403 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
85789432 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
85789460 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
85789488 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85789502 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:85791946 original size:21 final size:21
Alignment explanation
Indices: 85791922--85791968 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
85791912 TACACAGCCG
85791922 TGTGGTTGAGAGACACG-CCT
1 TGTGGTTGAGAGACACGACCT
* * *
85791942 ATGTGATTGGGATACACGACCT
1 -TGTGGTTGAGAGACACGACCT
85791964 TGTGG
1 TGTGG
85791969 CTAGACCGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (21 bp):
TGTGGTTGAGAGACACGACCT
Found at i:85793237 original size:57 final size:57
Alignment explanation
Indices: 85793124--85793239 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
85793114 CGAAGCGTTC
* * **
85793124 AAAACATTTTATATTGTTGATCTAGAAAAACTTACTTAGTTTTTTTTTTTTTAAAAA
1 AAAACATTTTATATTGTTGATCTAAAAAAACTTACTTAGTTTTTTTTTATAAAAAAA
*
85793181 AAAACATTTTATATTGTTGATCTAAAAAAACTTACTTTGTTTTTTTTTATAAAAAAA
1 AAAACATTTTATATTGTTGATCTAAAAAAACTTACTTAGTTTTTTTTTATAAAAAAA
85793238 AA
1 AA
85793240 TAGTTTCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (57 bp):
AAAACATTTTATATTGTTGATCTAAAAAAACTTACTTAGTTTTTTTTTATAAAAAAA
Found at i:85794074 original size:27 final size:26
Alignment explanation
Indices: 85794038--85794153 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
85794028 CAGAATGGCT
** *
85794038 ACCAGAACAGATAATGTGATAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
85794064 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
85794092 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
85794119 ACCAGATCAGATAATTGTGTCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
85794146 ACCAGAAC
1 ACCAGAAC
85794154 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 56 0.71
28 16 0.20
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:85794099 original size:54 final size:54
Alignment explanation
Indices: 85794038--85794153 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
85794028 CAGAATGGCT
* *
85794038 ACCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * *
85794092 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGTCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
85794146 ACCAGAAC
1 ACCAGAAC
85794154 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 38 0.69
55 17 0.31
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:85797001 original size:39 final size:40
Alignment explanation
Indices: 85796872--85797048 Score: 207
Period size: 39 Copynumber: 4.5 Consensus size: 40
85796862 GGATATAACG
* * **
85796872 ACTCGCTCAAATGCCTTTGGGACAAAGCCC-GATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
85796912 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
85796952 AGTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
85796991 ACTCGTACAAATGCCTTCGAG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
85797030 ACTCGCACGAACGCCTTCG
1 ACTCGCACAAATGCCTTCG
85797049 TATCTTAGTC
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 67 0.57
40 48 0.41
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:85797056 original size:79 final size:80
Alignment explanation
Indices: 85796897--85797063 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 80
85796887 TTTGGGACAA
* * * *
85796897 AGCCC-GATTATAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAAGTCGCACA
1 AGCCCGGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACA
* *
85796961 AATGCCTTCGGGCTT
66 AACGCCTTCGAGCTT
* * * *
85796976 AGCCCGGATT-TAGTAACTCGTACAAATGCCTTCGAG-CTTAGCCCGGATTTATTAACTCGCACG
1 AGCCCGGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACA
*
85797039 AACGCCTTCGTATCTT
66 AACGCCTTCG-AGCTT
*
85797055 AGTCCGGAT
1 AGCCCGGAT
85797064 ATCATTCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
78 31 0.42
79 39 0.53
80 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
AGCCCGGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACA
AACGCCTTCGAGCTT
Found at i:85804194 original size:39 final size:40
Alignment explanation
Indices: 85804067--85804258 Score: 221
Period size: 39 Copynumber: 4.8 Consensus size: 40
85804057 GGATATAACG
* **
85804067 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * * *
85804107 ACTCGCACGAATGCCTTTGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
85804147 ACTTGCACAAATGCCTTCGGG-CTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
85804186 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
85804225 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGAT
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAT
85804259 ATCATTCAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
38 2 0.02
39 67 0.51
40 60 0.46
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:85811551 original size:43 final size:43
Alignment explanation
Indices: 85811503--85811669 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
85811493 ATTACCAAGA
*
85811503 TGTGATTACATGTAAGACCATGCTTGAGACATTGGCATTGAAT
1 TGTGATTACATGTAAGACCATGTTTGAGACATTGGCATTGAAT
* *
85811546 TGTGATTACATGTAAGACCATGTTTGAGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTTTGAGACATTGGCATTGAAT
* * * * *
85811589 TGTGATTACGTGTAAGACCATGTTTGGGACATTGGTATCG-TT
1 TGTGATTACATGTAAGACCATGTTTGAGACATTGGCATTGAAT
* * * * *
85811631 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
1 -TGTGATTACATGTAAGACCATGTTTGAGACATTGGCAT
85811670 CGATATGAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 109 0.99
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTTTGAGACATTGGCATTGAAT
Found at i:85811690 original size:43 final size:44
Alignment explanation
Indices: 85811506--85811703 Score: 176
Period size: 43 Copynumber: 4.6 Consensus size: 44
85811496 ACCAAGATGT
* * *
85811506 GATTACATGTAAGACCATG-CTTGAGACATTGGCATTGA-ATTGT
1 GATTACATGTAAGACCATGTC-TGGGACATTGGCATCGATATTGA
* * * * *
85811549 GATTACATGTAAGACCATGTTTGAGACATTGACATTG-TATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGA
* * * *
85811592 GATTACGTGTAAGACCATGTTTGGGACATTGGTATCGTTA-T-A
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGA
* *
85811634 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA-TGA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGA
* *
85811678 GTTTACACGTAAGACCA-GATCTGGGA
1 GATTACATGTAAGACCATG-TCTGGGA
85811704 TATGACATTG
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 129 0.97
44 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGA
Found at i:85812664 original size:19 final size:20
Alignment explanation
Indices: 85812626--85812664 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
85812616 GGCTTATGTG
*
85812626 TTGGCTAGATAGTAATTGAT
1 TTGGCTAGATAGTAAATGAT
*
85812646 TTGGCTA-ATTGTAAATGAT
1 TTGGCTAGATAGTAAATGAT
85812665 GTGTCATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGGCTAGATAGTAAATGAT
Found at i:85815205 original size:27 final size:26
Alignment explanation
Indices: 85815165--85815276 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
85815155 AGGAAGTGTA
* *
85815165 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
**
85815192 CTGGTGGCTCTGCCACATATATCTTTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
85815219 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
85815247 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
85815273 CTGG
1 CTGG
85815277 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.67
28 17 0.23
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:85815269 original size:54 final size:54
Alignment explanation
Indices: 85815165--85815276 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
85815155 AGGAAGTGTA
* * *
85815165 CTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTTTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
85815219 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
85815273 CTGG
1 CTGG
85815277 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:85820249 original size:49 final size:49
Alignment explanation
Indices: 85820179--85820536 Score: 666
Period size: 49 Copynumber: 7.3 Consensus size: 49
85820169 CCCTTCGGGA
85820179 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85820226 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85820275 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85820324 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85820373 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85820422 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85820471 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85820520 CTTATCACATATATATA
1 CTTATCACATATATATA
85820537 TCTCATACAA
Statistics
Matches: 303, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 10 0.03
48 1 0.00
49 292 0.96
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85827343 original size:27 final size:26
Alignment explanation
Indices: 85827311--85827399 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 26
85827301 CTATGACATA
85827311 ATTATCTGATCTGGTGGCTCTGCCAC
1 ATTATCTGATCTGGTGGCTCTGCCAC
*
85827337 ATATATCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGATCTGGTGGCTCTGCCAC
* *
85827364 GATTATCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTG-ATCTGGTGGCTCTGCCAC
85827392 ATTATCTG
1 ATTATCTG
85827400 TTCTAGCAGC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.04
27 37 0.66
28 17 0.30
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTATCTGATCTGGTGGCTCTGCCAC
Found at i:85829180 original size:29 final size:29
Alignment explanation
Indices: 85829147--85829229 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
85829137 GTGACGAGAT
85829147 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
85829176 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
85829205 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
85829230 AAACGGCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:85837049 original size:29 final size:28
Alignment explanation
Indices: 85836983--85837141 Score: 140
Period size: 29 Copynumber: 5.5 Consensus size: 28
85836973 TGACGAGATC
85836983 GGCACTAAGTGTGCGTGCTGGAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAATAT
85837011 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAA-ATAT
** *
85837040 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGG-AAAATAT
** * ***
85837069 GGCACTGGGTGTGCGAGCTCGGAGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAAATAT
** * * *
85837098 GGCACTGTGTGTGCGGGCT-TAAATTACGT
1 GGCACTAAGTGTGCGTGCTGGAAAATA--T
85837127 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
85837142 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.03
28 24 0.22
29 76 0.70
30 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (28 bp):
GGCACTAAGTGTGCGTGCTGGAAAATAT
Found at i:85840176 original size:30 final size:30
Alignment explanation
Indices: 85840140--85840299 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
85840130 GACAAGATTG
* * * * *
85840140 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
85840170 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
85840198 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85840227 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85840257 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85840286 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85840300 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:85840268 original size:59 final size:57
Alignment explanation
Indices: 85840140--85840299 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
85840130 GACAAGATTG
* * * * * *
85840140 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
85840198 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
85840257 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
85840300 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:85848148 original size:30 final size:30
Alignment explanation
Indices: 85848112--85848271 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
85848102 GACAAGATTG
* * * * *
85848112 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
85848142 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
85848170 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85848199 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85848229 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85848258 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85848272 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:85848240 original size:59 final size:57
Alignment explanation
Indices: 85848112--85848271 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
85848102 GACAAGATTG
* * * * * *
85848112 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
85848170 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
85848229 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
85848272 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:85852448 original size:16 final size:16
Alignment explanation
Indices: 85852401--85852448 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
85852391 TTTTAAAATT
85852401 ATAAATAATATAAT-G
1 ATAAATAATATAATAG
* *
85852416 ---AATAATATAAAAC
1 ATAAATAATATAATAG
85852429 ATAAATAATATAATAG
1 ATAAATAATATAATAG
85852445 ATAA
1 ATAA
85852449 TATACATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.40
16 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:85852502 original size:11 final size:11
Alignment explanation
Indices: 85852466--85852508 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
85852456 TATTCATAAC
85852466 ATATAATAAAA
1 ATATAATAAAA
* *
85852477 AAATAAGT-AAT
1 ATATAA-TAAAA
85852488 ATATAATAAAA
1 ATATAATAAAA
85852499 ATATAATAAA
1 ATATAATAAA
85852509 TGTTATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:85852506 original size:25 final size:24
Alignment explanation
Indices: 85852461--85852542 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
85852451 TACATTATTC
*
85852461 ATAACATATAATAAAA-A-AATAA
1 ATAATATATAATAAAATATAATAA
*
85852483 GTAATATATAATAAAAATATAATAA
1 ATAATATATAAT-AAAATATAATAA
**
85852508 ATGTTATATAATAAAATATAATGTAA
1 ATAATATATAATAAAATATAA--TAA
85852534 AT-ATATATA
1 ATAATATATA
85852543 GGAAAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 10 0.20
23 4 0.08
24 10 0.20
25 20 0.41
26 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATATATAATAAAATATAATAA
Found at i:85852552 original size:47 final size:44
Alignment explanation
Indices: 85852466--85852568 Score: 104
Period size: 47 Copynumber: 2.3 Consensus size: 44
85852456 TATTCATAAC
*
85852466 ATATAATAAAAAAATAAGTAATATATAATAAAAATATAATAAATG
1 ATATAAT-AAAATATAAGTAATATATAATAAAAATATAATAAATG
* *
85852511 TTATATAATAAAATATAATGTAA-ATATATATAGGAAA-ATAATATATG
1 --ATATAATAAAATATAA-GTAATATATA-ATA-AAAATATAATAAATG
85852558 ATA-AATAAAAT
1 ATATAATAAAAT
85852569 TTTTTATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
44 8 0.16
45 3 0.06
46 13 0.26
47 23 0.46
48 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (44 bp):
ATATAATAAAATATAAGTAATATATAATAAAAATATAATAAATG
Found at i:85852563 original size:14 final size:14
Alignment explanation
Indices: 85852479--85852565 Score: 53
Period size: 14 Copynumber: 6.6 Consensus size: 14
85852469 TAATAAAAAA
* *
85852479 ATAAGTAATATATA
1 ATAAATAATATATG
85852493 ATAAA-AATATA--
1 ATAAATAATATATG
** *
85852504 ATAAATGTTATATA
1 ATAAATAATATATG
85852518 AT-AA-AATATAATG
1 ATAAATAATAT-ATG
*
85852531 -TAAATATATATAGG
1 ATAAATA-ATATATG
85852545 A-AAATAATATATG
1 ATAAATAATATATG
85852558 ATAAATAA
1 ATAAATAA
85852566 AATTTTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
11 5 0.09
12 8 0.14
13 19 0.34
14 20 0.36
15 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATAAATAATATATG
Found at i:85852596 original size:26 final size:26
Alignment explanation
Indices: 85852548--85852633 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
85852538 ATATAGGAAA
** *
85852548 ATAATATATGATAAATAAAATTTTTTAT
1 ATAA-ATAT-ATAAATAGTATTTTTAAT
*
85852576 ATAAATATATAAATAGTATTTTTGAT
1 ATAAATATATAAATAGTATTTTTAAT
** *
85852602 A-ATAATATATGTATAGT-TTTTTAAA
1 ATA-AATATATAAATAGTATTTTTAAT
85852627 ATAAATA
1 ATAAATA
85852634 AATTATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 12 0.24
26 29 0.59
27 4 0.08
28 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATAAATATATAAATAGTATTTTTAAT
Found at i:85854764 original size:206 final size:206
Alignment explanation
Indices: 85854215--85854794 Score: 941
Period size: 205 Copynumber: 2.8 Consensus size: 206
85854205 CTGCTTCTTT
* * * * *
85854215 GATTTGTTCTCTAACAATACAAAGATACCAAATCATCTTAGATTTGCTTCAGCATAAGTACGCGA
1 GATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCACGTGA
** *
85854280 AAAACAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCATAAGGATACCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
* * *
85854345 CTGCTTCAGTCTAATCATCTGAAAGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
*
85854410 CGCCAAACTTC
196 CACCAAACTTC
* *
85854421 GATTTGTTCTCTGACAATACAGAGATG-CAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCACGTGA
85854485 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
*
85854550 CTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
85854615 CACCAAACTTC
196 CACCAAACTTC
* *
85854626 GATTTGTTCTCTGACAATACATAGATGCCAAACCATCTTAGATTTGCTTCAACATAAGCACGTGA
1 GATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCACGTGA
* *
85854691 AAGCCAAATCAGCTATGTCTTCGATTTTCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
*
85854756 -TGGCTTCAGTATAAACATCTGAA-GTTCAGATCTACTATG
131 CT-GCTTCAGTATAAACATCTGAAGGTT-AGATCTGCTATG
85854795 CCGTGGCCTA
Statistics
Matches: 349, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
205 196 0.56
206 153 0.44
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (206 bp):
GATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
CACCAAACTTC
Found at i:85866502 original size:29 final size:29
Alignment explanation
Indices: 85866469--85866600 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
85866459 GTGACGAGAT
85866469 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
85866498 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
85866527 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
85866556 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
85866585 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85866601 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:85869398 original size:46 final size:46
Alignment explanation
Indices: 85869330--85869466 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
85869320 TATATATACA
* * * *
85869330 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
85869376 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
85869422 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
85869467 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:85869497 original size:47 final size:47
Alignment explanation
Indices: 85869440--85869631 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
85869430 ACACATTTCG
* * * **
85869440 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
85869487 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
85869534 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCAGATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85869581 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85869628 CATT
1 CATT
85869632 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:85872963 original size:22 final size:22
Alignment explanation
Indices: 85872938--85872981 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
85872928 AGACAAGAGA
85872938 TAATCAATTACACGGCCTGACT
1 TAATCAATTACACGGCCTGACT
85872960 TAATCAATTACACGGCCTGACT
1 TAATCAATTACACGGCCTGACT
85872982 CTCTTATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
TAATCAATTACACGGCCTGACT
Found at i:85874398 original size:16 final size:16
Alignment explanation
Indices: 85874351--85874398 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
85874341 TTTTAAAATT
85874351 ATAAATAATATAAT-G
1 ATAAATAATATAATAG
* *
85874366 ---AATAATATAAAAC
1 ATAAATAATATAATAG
85874379 ATAAATAATATAATAG
1 ATAAATAATATAATAG
85874395 ATAA
1 ATAA
85874399 TATACGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.40
16 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:85874567 original size:24 final size:26
Alignment explanation
Indices: 85874517--85874568 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
85874507 TTTTTATATA
*
85874517 AATATATAAATAGTATTTTTGATAAT
1 AATATATAAATAGTATTTTTGAAAAT
**
85874543 AATATATGTATAGT-TTTTT-AAAAT
1 AATATATAAATAGTATTTTTGAAAAT
85874567 AA
1 AA
85874569 ATAAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
AATATATAAATAGTATTTTTGAAAAT
Found at i:85876115 original size:17 final size:17
Alignment explanation
Indices: 85876089--85876129 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
85876079 TATATTCAGT
85876089 TAAT-ATTAAACTT-ATA
1 TAATAATTAAA-TTCATA
85876105 TAATAATTAAATTCATA
1 TAATAATTAAATTCATA
*
85876122 TATTAATT
1 TAATAATT
85876130 TTAACTGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATTAAATTCATA
Found at i:85884445 original size:13 final size:13
Alignment explanation
Indices: 85884427--85884451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85884417 ATTTGACACT
85884427 TTAATCAGTAGAC
1 TTAATCAGTAGAC
85884440 TTAATCAGTAGA
1 TTAATCAGTAGA
85884452 GTCTTGCTGA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
TTAATCAGTAGAC
Found at i:85886527 original size:22 final size:23
Alignment explanation
Indices: 85886475--85886531 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
85886465 TAATGGAAAC
*
85886475 ATGAATAGATAAGAAACATAATAG
1 ATGAATA-ATAAGAAACATAAAAG
85886499 ATGAATAATAAGAAA-ATAAAAG
1 ATGAATAATAAGAAACATAAAAG
85886521 TAT-AATAATAA
1 -ATGAATAATAA
85886532 TTATAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (23 bp):
ATGAATAATAAGAAACATAAAAG
Found at i:85886933 original size:3 final size:3
Alignment explanation
Indices: 85886925--85887074 Score: 81
Period size: 3 Copynumber: 50.3 Consensus size: 3
85886915 GTATGTATAT
* * * * * * * *
85886925 ATA ATA ATA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
85886972 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATG AGG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
85887019 AAA ATA ATA ACA ATA AT- ATA TTA AGCA ACAA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA
*
85887065 GTA ATA ATA A
1 ATA ATA ATA A
85887075 AGAAATGGGA
Statistics
Matches: 106, Mismatches: 37, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
2 4 0.04
3 98 0.92
4 4 0.04
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:85888688 original size:68 final size:67
Alignment explanation
Indices: 85888612--85888767 Score: 260
Period size: 68 Copynumber: 2.3 Consensus size: 67
85888602 TGTTCCAATG
* *
85888612 CCATTTCAGGAAGAAGAGATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCA
1 CCATTTCAGGGAGAAGAGATCCACCGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCC-
85888677 ACAT
65 -CAT
85888681 -CATTTCAGGGAGAAGAGATCCACCGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCC
1 CCATTTCAGGGAGAAGAGATCCACCGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCC
85888745 AT
66 AT
85888747 GCCATTTCAGGGAGAAGAGAT
1 -CCATTTCAGGGAGAAGAGAT
85888768 TGGTGATTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
66 3 0.04
68 80 0.96
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (67 bp):
CCATTTCAGGGAGAAGAGATCCACCGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCC
AT
Found at i:85888927 original size:87 final size:88
Alignment explanation
Indices: 85888812--85888982 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 88
85888802 TCAAGGCTAA
* * *
85888812 TCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAA-TTCGGTCTATTACCCT
1 TCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAAACTTCAGCCTATTACCCT
*
85888876 ACTACTTAGGGGTTTAAGACCCT
66 ACTACTTAGAGGTTTAAGACCCT
* * * * * *
85888899 TCGTCTTTGATCTGTTTCC-CTATTGCTTAGGGGGTTAGGATCTGGAAATCTTCAGCCTGTTACC
1 TCGTCTTTGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGGAAA-CTTCAGCCTATTACC
*
85888963 CTACTGCTTAGAGGTTTAAG
64 CTACTACTTAGAGGTTTAAG
85888983 GTCTGTAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 38 0.54
88 3 0.04
89 29 0.41
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (88 bp):
TCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAAACTTCAGCCTATTACCCT
ACTACTTAGAGGTTTAAGACCCT
Found at i:85888965 original size:45 final size:42
Alignment explanation
Indices: 85888910--85889023 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 42
85888900 CGTCTTTGAT
* *
85888910 CTGTTTCCCTATTGCTTAGGGGGTTAGGATCTGGAAATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAGG-TCTGGAAAT-TT-AGC
* * * *
85888955 CTGTTACCCTACTGCTTAGAGGTTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTT-AGGTCTGGAAATTTAGC
* *
85888998 TTGCTACCCTACTGCTTAGGGGGTTA
1 CTGTTACCCTACTGCTTAGGGGGTTA
85889024 AGCCCATCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 23 0.40
44 2 0.03
45 29 0.50
46 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGGTTAGGTCTGGAAATTTAGC
Found at i:85894218 original size:40 final size:40
Alignment explanation
Indices: 85894026--85894211 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
85894016 TCGAATGATG
* * *
85894026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
85894066 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85894106 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85894146 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
85894187 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85894212 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:85894218 original size:80 final size:80
Alignment explanation
Indices: 85894026--85894243 Score: 252
Period size: 80 Copynumber: 2.8 Consensus size: 80
85894016 TCGAATGATG
* * **
85894026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
85894090 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
85894106 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
85894169 TTGTGCGAGTTACTATAA
64 TTGTGCGAGTTACTA-AA
* ** *
85894187 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ATTCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGATCCGAAGG
85894244 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
78 6 0.05
79 11 0.09
80 92 0.77
81 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:85899970 original size:40 final size:40
Alignment explanation
Indices: 85899843--85899972 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
85899833 ATGCTGGAAA
* * *
85899843 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
85899883 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
85899923 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
85899963 TTATATCCGG
1 TTATATCCGG
85899973 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:85905395 original size:39 final size:40
Alignment explanation
Indices: 85905311--85905508 Score: 226
Period size: 40 Copynumber: 5.0 Consensus size: 40
85905301 GATGTCCAGG
* *
85905311 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGA
*
85905351 CTAAGAT-CCGAAGGCATTTGTGCGCGTTACTA-ATCCGGA
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGA
* *
85905390 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGA
* * *
85905430 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGA
* **
85905470 CTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
85905509 TAAATTCCGA
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 41 0.29
40 91 0.65
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGA
Found at i:85905442 original size:79 final size:81
Alignment explanation
Indices: 85905311--85905489 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 81
85905301 GATGTCCAGG
*
85905311 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCG
1 CTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
* *
85905375 CGTTACTA-ATCCGGA
66 AGTTACTATAACCGGA
* * **
85905390 CTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 CTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTG
*
85905452 CGAGTTACTATAACCGGG
64 CGAGTTACTATAACCGGA
*
85905470 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
85905490 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.64
80 30 0.35
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (81 bp):
CTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
AGTTACTATAACCGGA
Found at i:85916071 original size:22 final size:23
Alignment explanation
Indices: 85916019--85916075 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
85916009 TAATGGAAAC
*
85916019 ATGAATAGATAAGAAACATAATAG
1 ATGAATA-ATAAGAAACATAAAAG
85916043 ATGAATAATAAGAAA-ATAAAAG
1 ATGAATAATAAGAAACATAAAAG
85916065 TAT-AATAATAA
1 -ATGAATAATAA
85916076 TTATAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (23 bp):
ATGAATAATAAGAAACATAAAAG
Found at i:85916197 original size:2 final size:2
Alignment explanation
Indices: 85916190--85916218 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85916180 CAATACTATG
85916190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85916219 GCATAAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85916465 original size:25 final size:24
Alignment explanation
Indices: 85916427--85916489 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
85916417 ATAATAATGG
* *
85916427 TAATAATATTTAAAATATATGTACA
1 TAATAATA-ATAAAAGATATGTACA
* *
85916452 TGAATAATAATAAAAGGTATGTATA
1 T-AATAATAATAAAAGATATGTACA
85916477 TATATAATAATAA
1 TA-ATAATAATAA
85916490 TAATGGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.75
26 7 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (24 bp):
TAATAATAATAAAAGATATGTACA
Found at i:85916488 original size:3 final size:3
Alignment explanation
Indices: 85916480--85916644 Score: 120
Period size: 3 Copynumber: 55.3 Consensus size: 3
85916470 ATGTATATAT
* * * * * * * *
85916480 ATA ATA ATA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
85916527 A-A ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * * *
85916574 ATA ATA ATG AGG ATA AAA ATA ATA ACA ATA ATA A-A TTA AGCA ACAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA
* *
85916620 ATA ATA ATG ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85916645 AGAAATGGGA
Statistics
Matches: 123, Mismatches: 35, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
2 3 0.02
3 116 0.94
4 4 0.03
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:85921385 original size:40 final size:40
Alignment explanation
Indices: 85921331--85921471 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
85921321 TATTCGAATG
85921331 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
85921370 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85921410 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
85921450 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
85921472 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 18 0.19
40 76 0.79
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:85929373 original size:40 final size:40
Alignment explanation
Indices: 85929318--85929539 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
85929308 TATTCGAATG
*
85929318 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
85929358 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85929398 ATATCCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
85929438 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85929478 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
85929518 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
85929540 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 156 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:85933094 original size:44 final size:45
Alignment explanation
Indices: 85933044--85933129 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
85933034 AGGACGGAAC
**
85933044 CATGAGGTTGTGCATCGATTATCAT-TGCTGAATAAAGTGACGAA
1 CATGAGGTTGTGCATCGATTATCATCAACTGAATAAAGTGACGAA
*
85933088 CATGAGGTTGTGCATCGATTATCGTCAACTGAATAAAGTGAC
1 CATGAGGTTGTGCATCGATTATCATCAACTGAATAAAGTGAC
85933130 AATAAAGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 24 0.63
45 14 0.37
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (45 bp):
CATGAGGTTGTGCATCGATTATCATCAACTGAATAAAGTGACGAA
Found at i:85938375 original size:40 final size:39
Alignment explanation
Indices: 85938216--85938377 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
85938206 TGTGTATGAA
*
85938216 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
85938255 TGTGCGAGTTGTGATAT-CGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
85938293 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
85938332 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
85938372 TGTGCG
1 TGTGCG
85938378 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 35 0.31
39 60 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:85938393 original size:40 final size:40
Alignment explanation
Indices: 85938233--85938413 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 40
85938223 ATTGTGATAT
* ***
85938233 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGAT-A
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * * ** *
85938271 TCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
85938310 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
85938349 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
85938389 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
85938414 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
38 33 0.27
39 44 0.36
40 45 0.37
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:85940588 original size:40 final size:40
Alignment explanation
Indices: 85940533--85940714 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
85940523 TATTCGAATG
85940533 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
85940573 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
85940613 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85940653 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
85940693 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
85940715 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.10
40 119 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Done.