Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 21 of 216
Found at i:6417057 original size:2 final size:2
Alignment explanation
Indices: 6417050--6417224 Score: 350
Period size: 2 Copynumber: 87.5 Consensus size: 2
6417040 GAAGTTTGAT
6417050 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6417092 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6417134 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6417176 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6417218 TC TC TC T
1 TC TC TC T
6417225 AACTTGCATT
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 173 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6432649 original size:14 final size:14
Alignment explanation
Indices: 6432632--6432673 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6432622 TCACTCAAAA
6432632 TTCAAAATTCAAGT
1 TTCAAAATTCAAGT
* *
6432646 TTCAAATTTCAAAT
1 TTCAAAATTCAAGT
6432660 TTCAAAAGTTCAAG
1 TTCAAAA-TTCAAG
6432674 AATATCCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCAAAATTCAAGT
Found at i:6433446 original size:13 final size:13
Alignment explanation
Indices: 6433402--6433451 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
6433392 ATTTAATAAT
*
6433402 ATTTTAATTGATA
1 ATTTTAATTTATA
* *
6433415 ATTTTTAAAATTATT
1 A-TTTT-AATTTATA
6433430 ATTTTAATTTATA
1 ATTTTAATTTATA
6433443 ATTTTAATT
1 ATTTTAATT
6433452 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 16 0.53
14 8 0.27
15 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATTTTAATTTATA
Found at i:6436696 original size:28 final size:28
Alignment explanation
Indices: 6436662--6436718 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
6436652 AGTAGTACGC
6436662 TGGGACAGTAAACAC-AGATAAAGTTTGT
1 TGGGACAGTAAACACGAGATAAA-TTTGT
*
6436690 TGGGACAGTAAACACGAGGTAAATTTGT
1 TGGGACAGTAAACACGAGATAAATTTGT
6436718 T
1 T
6436719 AGGAGGCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (28 bp):
TGGGACAGTAAACACGAGATAAATTTGT
Found at i:6437762 original size:35 final size:35
Alignment explanation
Indices: 6437711--6437780 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
6437701 GACCTAGTTA
6437711 AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
1 AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
*
6437746 AAGAACTCACTTAGTTCATTTGAACTTACAGTAGT
1 AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
6437781 GTGGCTGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (35 bp):
AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
Found at i:6439136 original size:15 final size:15
Alignment explanation
Indices: 6439116--6439147 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6439106 TAAACTATTG
6439116 AAATAATGAAGCTTC
1 AAATAATGAAGCTTC
6439131 AAATAATGAAGCTTC
1 AAATAATGAAGCTTC
6439146 AA
1 AA
6439148 GTGAGTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (15 bp):
AAATAATGAAGCTTC
Found at i:6439619 original size:58 final size:58
Alignment explanation
Indices: 6439527--6439660 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
6439517 ATACGTAGCT
* * * * * *
6439527 TAAGACCATGGATGAAAGTCGCCATGACAGCATGGTATAAGGTAAAATGTATATGGTG
1 TAAGACCATAGATGAAAGGCGCCATGACAGCATGGTACAAAGTAAAAGGTATATGATG
* *
6439585 TAAGACCATAGATGAAAGGCGCCATGGC-GACATGGTACAAAGTATAAGGTATATGATG
1 TAAGACCATAGATGAAAGGCGCCATGACAG-CATGGTACAAAGTAAAAGGTATATGATG
* *
6439643 TAAAACCATAGACGAAAG
1 TAAGACCATAGATGAAAG
6439661 ATGTTATGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.02
58 64 0.98
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (58 bp):
TAAGACCATAGATGAAAGGCGCCATGACAGCATGGTACAAAGTAAAAGGTATATGATG
Found at i:6441029 original size:15 final size:16
Alignment explanation
Indices: 6440992--6441030 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6440982 TTATTTTTTA
*
6440992 TTTTATTATTAGATTG
1 TTTTATTATTAGACTG
*
6441008 TTTTATTTTTAGACTG
1 TTTTATTATTAGACTG
6441024 -TTTATTA
1 TTTTATTA
6441031 GCAGCTGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (16 bp):
TTTTATTATTAGACTG
Found at i:6442691 original size:17 final size:16
Alignment explanation
Indices: 6442644--6442691 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6442634 GGCATATAAT
*
6442644 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
6442661 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
6442679 ATTTGATAGATTA
1 ATTTGATAGATTA
6442692 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:6443261 original size:21 final size:21
Alignment explanation
Indices: 6443200--6443278 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
6443190 GGTGGATCAA
* *
6443200 CTCTTACAAGCTCCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
*
6443221 CTCTTACGAGCTTCTATTCAG
1 CTCTTACGAGCTTCTGTTCAG
* * *
6443242 CTCTTATGAGTTTTTGTTCA-
1 CTCTTACGAGCTTCTGTTCAG
*
6443262 C-CTTTCGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
6443279 GGCGTATTCA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
19 12 0.26
20 1 0.02
21 34 0.72
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.43
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:6451524 original size:29 final size:31
Alignment explanation
Indices: 6451492--6451555 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
6451482 AAAAACTCAT
*
6451492 TAAAAATATATAAAAATTAT-TAAAA-TTAA
1 TAAAAATATATAAAAATTATAAAAAAGTTAA
* * *
6451521 TAAATATGTATAAATATTATAAAAAAGTTAA
1 TAAAAATATATAAAAATTATAAAAAAGTTAA
6451552 TAAA
1 TAAA
6451556 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 17 0.59
30 4 0.14
31 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
TAAAAATATATAAAAATTATAAAAAAGTTAA
Found at i:6452393 original size:10 final size:9
Alignment explanation
Indices: 6452355--6452620 Score: 87
Period size: 10 Copynumber: 28.0 Consensus size: 9
6452345 TTAAATTATT
6452355 TTTTTATAA
1 TTTTTATAA
6452364 --TTTATAA
1 TTTTTATAA
6452371 TTTTTATAA
1 TTTTTATAA
*
6452380 TTTTTAATAG
1 TTTTT-ATAA
*
6452390 TTTTGAT-A
1 TTTTTATAA
6452398 TTTTTAT-A
1 TTTTTATAA
*
6452406 TTTTTACAA
1 TTTTTATAA
* *
6452415 GCTTTTATGAC
1 -TTTTTAT-AA
*
6452426 TTTTTATACG
1 TTTTTATA-A
6452436 TTTTTATAA
1 TTTTTATAA
6452445 GTTTTTATATA
1 -TTTTTATA-A
* *
6452456 TTTTAAGTATG
1 TTTTTA-TA-A
6452467 TTTTTATTAAA
1 TTTTTA-T-AA
* *
6452478 TTTATAAAA
1 TTTTTATAA
6452487 TCTTTTATAA
1 T-TTTTATAA
* *
6452497 TATATTATAGC
1 T-TTTTATA-A
* **
6452508 TTATTAGATTT
1 TT-TT-TATAA
6452519 TTTTTATAA
1 TTTTTATAA
*
6452528 TATTTATAA
1 TTTTTATAA
*
6452537 CTTTTTTATTA
1 --TTTTTATAA
6452548 TTTTTATAA
1 TTTTTATAA
*
6452557 GTTTATATTAA
1 -TTTTTA-TAA
* *
6452568 TGTTAAT-A
1 TTTTTATAA
6452576 TTTGTTA-AA
1 TTT-TTATAA
**
6452585 TTTAAATAA
1 TTTTTATAA
6452594 -TTTTATAA
1 TTTTTATAA
*
6452602 TTTTTTATGA
1 -TTTTTATAA
6452612 TTTTTATAA
1 TTTTTATAA
6452621 GAAAATATAA
Statistics
Matches: 187, Mismatches: 46, Indels: 48
0.67 0.16 0.17
Matches are distributed among these distances:
7 7 0.04
8 23 0.12
9 54 0.29
10 70 0.37
11 30 0.16
12 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6452410 original size:8 final size:8
Alignment explanation
Indices: 6452350--6452411 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
6452340 GGAGTTTAAA
*
6452350 TTATTTTT
1 TTATATTT
*
6452358 TTATA-AT
1 TTATATTT
6452365 TTATAATTT
1 TTAT-ATTT
6452374 TTATAATTT
1 TTAT-ATTT
6452383 TTAATAGTTT
1 TT-ATA-TTT
*
6452393 TGATATTT
1 TTATATTT
6452401 TTATATTT
1 TTATATTT
6452409 TTA
1 TTA
6452412 CAAGCTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
7 5 0.11
8 18 0.40
9 16 0.36
10 6 0.13
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (8 bp):
TTATATTT
Found at i:6452551 original size:29 final size:31
Alignment explanation
Indices: 6452489--6452556 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 31
6452479 TTATAAAATC
* *
6452489 TTTTATAATATATTATAGCTTATTAGATTTT
1 TTTTATAATATATTATAACTTATTAGATTAT
**
6452520 TTTTATAATAT-TTATAACTT-TTTTATTAT
1 TTTTATAATATATTATAACTTATTAGATTAT
6452549 TTTTATAA
1 TTTTATAA
6452557 GTTTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 14 0.42
30 8 0.24
31 11 0.33
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTATAATATATTATAACTTATTAGATTAT
Found at i:6454077 original size:15 final size:15
Alignment explanation
Indices: 6454053--6454089 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6454043 AGTCGTGTCG
*
6454053 CCACCACTGAGTCCT
1 CCACCGCTGAGTCCT
6454068 CCACCGCTGAGTCCT
1 CCACCGCTGAGTCCT
6454083 CCACCGC
1 CCACCGC
6454090 ACCGATCCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.51, G:0.16, T:0.16
Consensus pattern (15 bp):
CCACCGCTGAGTCCT
Found at i:6459270 original size:25 final size:24
Alignment explanation
Indices: 6459211--6459271 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
6459201 AGGAGAGGTG
* * *
6459211 TTTTTCAATATTAATATAATTATT
1 TTTTTAAATATTAATATAAATAAT
*
6459235 TTTATTTAATATTAATATAAAATAAT
1 TTT-TTAAATATTAATAT-AAATAAT
6459261 TTTTTAAATAT
1 TTTTTAAATAT
6459272 ATTAATATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 8 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTAAATATTAATATAAATAAT
Found at i:6464745 original size:18 final size:17
Alignment explanation
Indices: 6464712--6464750 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6464702 TTTTATAAAT
6464712 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
6464730 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
6464747 TGTG
1 TGTG
6464751 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:6465005 original size:23 final size:23
Alignment explanation
Indices: 6464979--6465097 Score: 157
Period size: 23 Copynumber: 5.2 Consensus size: 23
6464969 GTTATTGATT
*
6464979 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
* *
6465002 AGTGGTAGCTACAGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
*
6465025 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
* **
6465048 AGTGGTAGCTACGGCTACGCATC
1 AGTGGTAGCTTCGGCTACATATC
* *
6465071 AATGGTAGTTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
6465094 AGTG
1 AGTG
6465098 TGGCACTTAT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:6465032 original size:46 final size:46
Alignment explanation
Indices: 6464979--6465097 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
6464969 GTTATTGATT
*
6464979 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACATATC
1 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACACATC
* *
6465025 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACGCATC
1 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACACATC
* * *
6465071 AATGGTAGTTTCGGCTACATATCAGTG
1 AGTGGTAGCTTCGGCTACATTTCAGTG
6465098 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACACATC
Found at i:6482285 original size:17 final size:17
Alignment explanation
Indices: 6482263--6482296 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6482253 TAAATATATT
*
6482263 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
6482280 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
6482297 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:6482292 original size:29 final size:30
Alignment explanation
Indices: 6482253--6482326 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 30
6482243 CCGAATATAA
6482253 TAAATATATTTTTTAAAAT-TTTTTTAATTT
1 TAAATATA-TTTTTAAAATATTTTTTAATTT
6482283 TAAA-ATATTTTTAAAATACTTTTTT-ATTT
1 TAAATATATTTTTAAAATA-TTTTTTAATTT
6482312 T---T-TATTTTTAAAATA
1 TAAATATATTTTTAAAATA
6482327 AATTTTTGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
26 13 0.32
28 10 0.24
29 8 0.20
30 10 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (30 bp):
TAAATATATTTTTAAAATATTTTTTAATTT
Found at i:6482308 original size:30 final size:30
Alignment explanation
Indices: 6482253--6482313 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
6482243 CCGAATATAA
6482253 TAAATATATTTTTTAAAATTTTTTTAATTT
1 TAAATATATTTTTTAAAATTTTTTTAATTT
*
6482283 TAAA-ATA-TTTTTAAAATACTTTTTTATTTT
1 TAAATATATTTTTTAAAAT--TTTTTTAATTT
6482313 T
1 T
6482314 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.36
29 3 0.11
30 15 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TAAATATATTTTTTAAAATTTTTTTAATTT
Found at i:6482341 original size:26 final size:26
Alignment explanation
Indices: 6482288--6482343 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
6482278 AATTTTAAAA
** * *
6482288 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTT
*
6482314 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAATAAATTTTTAGTGTT
6482340 TATT
1 TATT
6482344 AAAAAATGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (26 bp):
TATTTTTAAAATAAATTTTTAGTGTT
Found at i:6483910 original size:31 final size:32
Alignment explanation
Indices: 6483864--6483926 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
6483854 AAACAATTAA
6483864 GCCTTTGTTTTTTTTTTTGCACTCATTTGGGT
1 GCCTTTGTTTTTTTTTTTGCACTCATTTGGGT
6483896 GCCTTTG-TTTTTTTTTTGCACTCATTTGGGT
1 GCCTTTGTTTTTTTTTTTGCACTCATTTGGGT
6483927 ATTTGAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.06, C:0.16, G:0.19, T:0.59
Consensus pattern (32 bp):
GCCTTTGTTTTTTTTTTTGCACTCATTTGGGT
Found at i:6484067 original size:91 final size:91
Alignment explanation
Indices: 6483906--6484079 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
6483896 GCCTTTGTTT
* * *
6483906 TTTTTTTGCACTCATTTGGGTATTTGAACTTTCAAAATGCATTAAAAAAATCCCTCAAACCGTTT
1 TTTTTTTGCACCCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAAATCCCTCAAACCGTTT
* **
6483971 CAAAAAATTCAATTAAGCTCCTACTA
66 AAAAAAAAGCAATTAAGCTCCTACTA
* *
6483997 TTTTTTTGCACCCAATTGGGTACTTGAACTTTCAAAATGTATT-AAAAAGTCCCTCAAACTC-TT
1 TTTTTTTGCACCCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAAATCCCTCAAAC-CGTT
6484060 TAAAAAAAAAGCAATTAAGC
65 T-AAAAAAAAGCAATTAAGC
6484080 CCCTGCTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 18 0.25
91 55 0.75
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (91 bp):
TTTTTTTGCACCCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAAATCCCTCAAACCGTTT
AAAAAAAAGCAATTAAGCTCCTACTA
Found at i:6484213 original size:20 final size:19
Alignment explanation
Indices: 6484177--6484244 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
6484167 AAATTAGAAG
*
6484177 ATATATATAAATAGTAAAA
1 ATATATAAAAATAGTAAAA
*
6484196 ATATATACAAAATTGTAAAA
1 ATATATA-AAAATAGTAAAA
* *
6484216 TTTTATAAAAATAGTAAAA
1 ATATATAAAAATAGTAAAA
*
6484235 A-AAATAAAAA
1 ATATATAAAAA
6484245 AATATATATA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 7 0.17
19 18 0.45
20 15 0.38
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (19 bp):
ATATATAAAAATAGTAAAA
Found at i:6484550 original size:35 final size:36
Alignment explanation
Indices: 6484485--6484553 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
6484475 GGGTCATTAC
* **
6484485 TTTTTTATGATATTTATAAAATTTTATAATTTTTTA
1 TTTTTTACGATATTTATAAAAAATTATAATTTTTTA
*
6484521 TTTTTTACGATTTTTATAAAAAATT-TAATTTTT
1 TTTTTTACGATATTTATAAAAAATTATAATTTTT
6484554 AATAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (36 bp):
TTTTTTACGATATTTATAAAAAATTATAATTTTTTA
Found at i:6484561 original size:10 final size:10
Alignment explanation
Indices: 6484546--6484643 Score: 50
Period size: 9 Copynumber: 10.3 Consensus size: 10
6484536 ATAAAAAATT
6484546 TAATTTTTAA
1 TAATTTTTAA
6484556 TAATTTTTAA
1 TAATTTTTAA
*
6484566 T-TTTTTTAA
1 TAATTTTTAA
6484575 T-ATTTATT-A
1 TAATTT-TTAA
6484584 -AA-TTTTAA
1 TAATTTTTAA
**
6484592 T-ATTTATTTC
1 TAATTT-TTAA
*
6484602 TAAATTTTAA
1 TAATTTTTAA
*
6484612 T-ATTTTT-T
1 TAATTTTTAA
**
6484620 TAATTTTTTT
1 TAATTTTTAA
6484630 TAAATTTTTAA
1 T-AATTTTTAA
6484641 TAA
1 TAA
6484644 GAGCAGGAGC
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 26 0.39
10 23 0.34
11 11 0.16
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:6484564 original size:17 final size:17
Alignment explanation
Indices: 6484544--6484641 Score: 63
Period size: 18 Copynumber: 5.4 Consensus size: 17
6484534 TTATAAAAAA
6484544 TTTAATTTTTAATAATT
1 TTTAATTTTTAATAATT
6484561 TTTAATTTTTTTAAT-ATT
1 TTTAA--TTTTTAATAATT
*
6484579 TATTAAATTTTAATATTTATT
1 T-TTAATTTTTAATA---ATT
* * *
6484600 TCTAAATTTTAATATTTT
1 TTTAATTTTTAATA-ATT
**
6484618 TTTAATTTTTTTTAAATT
1 TTTAATTTTTAAT-AATT
6484636 TTTAAT
1 TTTAAT
6484642 AAGAGCAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
17 12 0.18
18 24 0.37
19 13 0.20
20 12 0.18
21 4 0.06
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAATTTTTAATAATT
Found at i:6484605 original size:20 final size:17
Alignment explanation
Indices: 6484569--6484626 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
6484559 TTTTTAATTT
6484569 TTTTAATATTTATTAAA
1 TTTTAATATTTATTAAA
6484586 TTTTAATATTTATTTCTAAA
1 TTTTAATATTTA--T-TAAA
* *
6484606 TTTTAATATTTTTTTAA
1 TTTTAATATTTATTAAA
6484623 TTTT
1 TTTT
6484627 TTTTAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 19 0.53
18 1 0.03
19 1 0.03
20 15 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATATTTATTAAA
Found at i:6484629 original size:20 final size:18
Alignment explanation
Indices: 6484544--6484627 Score: 82
Period size: 19 Copynumber: 4.6 Consensus size: 18
6484534 TTATAAAAAA
*
6484544 TTTAATTTTTAATA-ATT
1 TTTAATTTTTAATATTTT
6484561 TTTAATTTTTTTAATA-TTT
1 TTTAA--TTTTTAATATTTT
* *
6484580 ATTAAATTTTAATATTTAT
1 TTTAATTTTTAATATTT-T
*
6484599 TTCTAAATTTTAATATTTT
1 TT-TAATTTTTAATATTTT
6484618 TTTAATTTTT
1 TTTAATTTTT
6484628 TTTAAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 13 0.23
18 9 0.16
19 20 0.35
20 15 0.26
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATTTTTAATATTTT
Found at i:6484637 original size:9 final size:10
Alignment explanation
Indices: 6484549--6484642 Score: 67
Period size: 10 Copynumber: 9.9 Consensus size: 10
6484539 AAAAATTTAA
*
6484549 TTTTTAATAA
1 TTTTTAATAT
6484559 TTTTTAAT-T
1 TTTTTAATAT
6484568 TTTTTAATAT
1 TTTTTAATAT
*
6484578 TTATTAA-A-
1 TTTTTAATAT
6484586 -TTTTAATAT
1 TTTTTAATAT
* *
6484595 TTATTT-CTAA
1 TT-TTTAATAT
*
6484605 ATTTTAATATT
1 TTTTTAATA-T
*
6484616 TTTTTAATTT
1 TTTTTAATAT
6484626 TTTTTAA-A-
1 TTTTTAATAT
6484634 TTTTTAATA
1 TTTTTAATA
6484643 AGAGCAGGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
7 5 0.08
8 8 0.12
9 13 0.20
10 29 0.45
11 10 0.15
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:6502693 original size:30 final size:30
Alignment explanation
Indices: 6502652--6502720 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
6502642 AAATTACACC
* *
6502652 AACAATCACTCAATATTGA-GAAAATAATAA
1 AACAGTCACTCAAT-TTGAGGAAAATAACAA
*
6502682 AACAGTCACTCAATTTTAGGAAAATAACAA
1 AACAGTCACTCAATTTGAGGAAAATAACAA
6502712 AACAGTCAC
1 AACAGTCAC
6502721 CCGCTAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 32 0.91
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (30 bp):
AACAGTCACTCAATTTGAGGAAAATAACAA
Found at i:6503619 original size:3 final size:3
Alignment explanation
Indices: 6503611--6503644 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6503601 TCTTTTATTT
6503611 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6503645 ACGGCCCAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6505965 original size:30 final size:29
Alignment explanation
Indices: 6505930--6506004 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
6505920 AAGAAGTACA
* *
6505930 ACTAAATTGATAGAATG-TGTAAAGTTGAGG
1 ACTAAATTGATA-AATGATGTAAAATT-AAG
* *
6505960 ACTAAATTTATTAAATGATTTAAAATTAAG
1 ACTAAATTGA-TAAATGATGTAAAATTAAG
6505990 ACTAAATTGATAAAT
1 ACTAAATTGATAAAT
6506005 ATTATAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.13
30 24 0.63
31 9 0.24
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.35
Consensus pattern (29 bp):
ACTAAATTGATAAATGATGTAAAATTAAG
Found at i:6514440 original size:21 final size:21
Alignment explanation
Indices: 6514414--6514454 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6514404 TTTTAGAAAT
*
6514414 TTTAGAA-TTTTTAACAATTTC
1 TTTAGAAGATTTTAA-AATTTC
6514435 TTTAGAAGATTTTAAAATTT
1 TTTAGAAGATTTTAAAATTT
6514455 TGTACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTAGAAGATTTTAAAATTTC
Found at i:6514799 original size:20 final size:19
Alignment explanation
Indices: 6514770--6514809 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
6514760 AAAATTATAA
6514770 AAAATTAAA-TTAATCTTTT
1 AAAATTAAATTTAAT-TTTT
6514789 AAAATTAAAATTTAATTTTT
1 AAAATT-AAATTTAATTTTT
6514809 A
1 A
6514810 CCCCTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTAAATTTAATTTTT
Found at i:6515222 original size:9 final size:9
Alignment explanation
Indices: 6515210--6515238 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6515200 AATATATTTA
6515210 TTTTTTAA-
1 TTTTTTAAT
6515218 TTTTTTAAT
1 TTTTTTAAT
6515227 TTTTTTAAT
1 TTTTTTAAT
6515236 TTT
1 TTT
6515239 GAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:6515248 original size:17 final size:17
Alignment explanation
Indices: 6515211--6515251 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6515201 ATATATTTAT
** *
6515211 TTTTTAATTTTTTAATT
1 TTTTTAATTTTGAAATA
6515228 TTTTTAATTTTGAAATA
1 TTTTTAATTTTGAAATA
6515245 TTTTTAA
1 TTTTTAA
6515252 AATATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTAATTTTGAAATA
Found at i:6515249 original size:11 final size:11
Alignment explanation
Indices: 6515235--6515328 Score: 66
Period size: 11 Copynumber: 9.4 Consensus size: 11
6515225 ATTTTTTTAA
*
6515235 TTTTGAAATAT
1 TTTTAAAATAT
6515246 TTTTAAAATAT
1 TTTTAAAATAT
**
6515257 TTTTTTAA-AT
1 TTTTAAAATAT
6515267 TTTT--AA-A-
1 TTTTAAAATAT
6515274 TTTTAAAATAT
1 TTTTAAAATAT
6515285 TTTTAAAATACAT
1 TTTTAAAAT--AT
6515298 TTTT-AAAT-T
1 TTTTAAAATAT
6515307 TTTT---A-AT
1 TTTTAAAATAT
6515314 TTTTAAAATAT
1 TTTTAAAATAT
6515325 TTTT
1 TTTT
6515329 TTAGTATTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 22
0.73 0.03 0.23
Matches are distributed among these distances:
7 10 0.14
8 3 0.04
9 7 0.10
10 8 0.12
11 31 0.45
12 4 0.06
13 6 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:6515260 original size:28 final size:26
Alignment explanation
Indices: 6515227--6515288 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 26
6515217 ATTTTTTAAT
6515227 TTTTTTAATTTTGAAATATTTTTAAAATA
1 TTTTTTAATTTT-AAA-A-TTTTAAAATA
*
6515256 TTTTTTTAAATTTTTAAATTTTAAAATA
1 -TTTTTT-AATTTTAAAATTTTAAAATA
6515284 TTTTT
1 TTTTT
6515289 AAAATACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.17
28 10 0.33
29 1 0.03
30 8 0.27
31 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTTAATTTTAAAATTTTAAAATA
Found at i:6515261 original size:39 final size:39
Alignment explanation
Indices: 6515218--6515328 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
6515208 TATTTTTTAA
* * *
6515218 TTTTTTAATTTTTTTAATTTTGAAATATTTTTAAAATAT
1 TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
6515257 TTTTTTAAATTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
6515296 ATTTTTAAATTTTTTAATTTTTAAAATATTTTT
1 TTTTTTAAATTTTTTAA-TTTTAAAATATTTTT
6515329 TTAGTATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 50 0.77
40 15 0.23
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (39 bp):
TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:6515277 original size:7 final size:8
Alignment explanation
Indices: 6515211--6515320 Score: 52
Period size: 8 Copynumber: 14.0 Consensus size: 8
6515201 ATATATTTAT
*
6515211 TTTTTAAT
1 TTTTTAAA
*
6515219 TTTTTAAT
1 TTTTTAAA
*
6515227 TTTTTTAA
1 TTTTTAAA
*
6515235 TTTTGAAATA
1 TTTT-TAA-A
6515245 TTTTTAAA
1 TTTTTAAA
* *
6515253 ATATT---
1 TTTTTAAA
6515258 TTTTTAAA
1 TTTTTAAA
6515266 TTTTTAAA
1 TTTTTAAA
*
6515274 TTTTAAAATA
1 TTTT-TAA-A
6515284 TTTTTAAA
1 TTTTTAAA
* *
6515292 ---ATACA
1 TTTTTAAA
6515297 TTTTTAAA
1 TTTTTAAA
*
6515305 TTTTTTAA
1 TTTTTAAA
6515313 TTTTTAAA
1 TTTTTAAA
6515321 ATATTTTTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
5 6 0.08
8 52 0.69
9 7 0.09
10 10 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:6520916 original size:22 final size:21
Alignment explanation
Indices: 6520888--6520936 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6520878 AAAAAACTAT
*
6520888 AATTTTTTAAATATAAATTTTG
1 AATTTTTT-AATACAAATTTTG
* *
6520910 AATTTTTTTATACATATTTTG
1 AATTTTTTAATACAAATTTTG
6520931 AATTTT
1 AATTTT
6520937 AAAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTTAATACAAATTTTG
Found at i:6520982 original size:20 final size:19
Alignment explanation
Indices: 6520924--6520987 Score: 110
Period size: 19 Copynumber: 3.3 Consensus size: 19
6520914 TTTTTATACA
6520924 TATTTTGAATTTTAAAATT
1 TATTTTGAATTTTAAAATT
6520943 TATTTTGAATTTTAAAATT
1 TATTTTGAATTTTAAAATT
*
6520962 TATTTTGAATATTTGAAATT
1 TATTTTGAAT-TTTAAAATT
6520982 TATTTT
1 TATTTT
6520988 AAAATTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
TATTTTGAATTTTAAAATT
Found at i:6520992 original size:32 final size:34
Alignment explanation
Indices: 6520951--6521016 Score: 118
Period size: 32 Copynumber: 2.0 Consensus size: 34
6520941 TTTATTTTGA
6520951 ATTTTAAAATTTATTTTGAATA-TTTGAA-ATTT
1 ATTTTAAAATTTATTTTGAATATTTTGAATATTT
6520983 ATTTTAAAATTTATTTTGAATATTTTGAATATTT
1 ATTTTAAAATTTATTTTGAATATTTTGAATATTT
6521017 TAAATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 22 0.69
33 6 0.19
34 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (34 bp):
ATTTTAAAATTTATTTTGAATATTTTGAATATTT
Found at i:6521008 original size:9 final size:9
Alignment explanation
Indices: 6520994--6521023 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6520984 TTTTAAAATT
6520994 TATTTTGAA
1 TATTTTGAA
6521003 TATTTTGAA
1 TATTTTGAA
*
6521012 TATTTTAAA
1 TATTTTGAA
6521021 TAT
1 TAT
6521024 AAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (9 bp):
TATTTTGAA
Found at i:6521040 original size:41 final size:39
Alignment explanation
Indices: 6520938--6521057 Score: 91
Period size: 41 Copynumber: 2.9 Consensus size: 39
6520928 TTGAATTTTA
6520938 AAATTTATTTTGAATTTTAAAATTTATTTTGAATATTTGAAATT
1 AAATTTATTTTG-ATTTT--AA--TATTTTGAATATTTGAAATT
* * * *
6520982 TATTTTAAAATTT-ATTTTGAATATTTTGAATATTTTAAATAT
1 AAATTT--ATTTTGATTTT-AATATTTTGAATATTTGAAAT-T
* *
6521024 AAATTTATTTTGATTTTCATATTTT-CATATTTGA
1 AAATTTATTTTGATTTTAATATTTTGAATATTTGA
6521058 CAATGACCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
39 7 0.11
40 11 0.18
41 23 0.38
42 5 0.08
43 2 0.03
44 9 0.15
46 4 0.07
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (39 bp):
AAATTTATTTTGATTTTAATATTTTGAATATTTGAAATT
Found at i:6525980 original size:19 final size:20
Alignment explanation
Indices: 6525943--6525983 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6525933 AATTTTTTCC
*
6525943 TTTTTATATATCTTGAATTT
1 TTTTTAAATATCTTGAATTT
*
6525963 TTTTTAAATTTCTT-AATTT
1 TTTTTAAATATCTTGAATTT
6525982 TT
1 TT
6525984 AAAGATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTAAATATCTTGAATTT
Found at i:6526198 original size:11 final size:11
Alignment explanation
Indices: 6526182--6526209 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6526172 ATATACTTAT
6526182 ATTTAAAAATA
1 ATTTAAAAATA
6526193 ATTTAAAAATA
1 ATTTAAAAATA
6526204 ATTTAA
1 ATTTAA
6526210 TTAATACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTTAAAAATA
Found at i:6532073 original size:56 final size:56
Alignment explanation
Indices: 6531987--6532098 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
6531977 TCTTTGATAC
6531987 AAATTAGAATTCGTAGGCATAAAATTATTTACAAATTTCCATACTGTAATTTTCAT
1 AAATTAGAATTCGTAGGCATAAAATTATTTACAAATTTCCATACTGTAATTTTCAT
6532043 AAATTAGAATTCGTAGGCATAAAATTATTTACAAATTTCCATACTGTAATTTTCAT
1 AAATTAGAATTCGTAGGCATAAAATTATTTACAAATTTCCATACTGTAATTTTCAT
6532099 TCTTTCCGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (56 bp):
AAATTAGAATTCGTAGGCATAAAATTATTTACAAATTTCCATACTGTAATTTTCAT
Found at i:6533170 original size:15 final size:16
Alignment explanation
Indices: 6533150--6533195 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
6533140 ATTTAAAAAT
6533150 TATAAAATATATAAA-
1 TATAAAATATATAAAG
* *
6533165 TATAAAATTTAAAAAG
1 TATAAAATATATAAAG
6533181 TA-AAAATAATATAAA
1 TATAAAAT-ATATAAA
6533196 AAGATTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
TATAAAATATATAAAG
Found at i:6533172 original size:31 final size:31
Alignment explanation
Indices: 6533137--6533195 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6533127 AGTTATTTTA
*
6533137 AAAATTTAAAAATTATAAAAT-ATATAAATAT
1 AAAATTTAAAAAGTA-AAAATAATATAAATAT
6533168 AAAATTTAAAAAGTAAAAATAATATAAA
1 AAAATTTAAAAAGTAAAAATAATATAAA
6533196 AAGATTGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAAAGTAAAAATAATATAAATAT
Found at i:6534148 original size:13 final size:13
Alignment explanation
Indices: 6534132--6534164 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6534122 ATTTTCATTG
6534132 ATAATTTTTGAAA
1 ATAATTTTTGAAA
*
6534145 ATAAATTTTGAAA
1 ATAATTTTTGAAA
6534158 ATAATTT
1 ATAATTT
6534165 CGAAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (13 bp):
ATAATTTTTGAAA
Found at i:6534151 original size:14 final size:13
Alignment explanation
Indices: 6534132--6534175 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
6534122 ATTTTCATTG
*
6534132 ATAATTTTTGAAA
1 ATAAATTTTGAAA
6534145 ATAAATTTTGAAA
1 ATAAATTTTGAAA
*
6534158 AT-AATTTCGAAA
1 ATAAATTTTGAAA
6534170 CATAAA
1 -ATAAA
6534176 AATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 9 0.33
13 16 0.59
14 2 0.07
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (13 bp):
ATAAATTTTGAAA
Found at i:6537949 original size:28 final size:28
Alignment explanation
Indices: 6537917--6537977 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
6537907 AGCCCCGTGA
*
6537917 CAAGTGGTATCAGAGCTAGAG-TTCGAAC
1 CAAGTGGTATCAGAGCCA-AGTTTCGAAC
* *
6537945 CAAGTGGTATCCGAGCCAAGTTTTGAAC
1 CAAGTGGTATCAGAGCCAAGTTTCGAAC
6537973 CAAGT
1 CAAGT
6537978 TATTCGAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (28 bp):
CAAGTGGTATCAGAGCCAAGTTTCGAAC
Found at i:6547390 original size:4 final size:4
Alignment explanation
Indices: 6547381--6547407 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6547371 AGAAAGCAAA
6547381 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6547408 ACATATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6549967 original size:15 final size:15
Alignment explanation
Indices: 6549947--6549975 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6549937 TTTTTTTAAT
6549947 AATAATTAGAAAAAG
1 AATAATTAGAAAAAG
6549962 AATAATTAGAAAAA
1 AATAATTAGAAAAA
6549976 CATACCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
AATAATTAGAAAAAG
Found at i:6554377 original size:29 final size:31
Alignment explanation
Indices: 6554345--6554418 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 31
6554335 ATTGAGGGTC
6554345 TAATTAAAATTTTTAAAT-TTTT-GTGAGAT
1 TAATTAAAATTTTTAAATATTTTAGTGAGAT
* *
6554374 TAATGAAAATTTTTAAATATTTTAAGTGAGTT
1 TAATTAAAATTTTTAAATATTTT-AGTGAGAT
*
6554406 TAATTTAAATTTT
1 TAATTAAAATTTT
6554419 AAAAAAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 17 0.45
30 4 0.11
32 17 0.45
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.51
Consensus pattern (31 bp):
TAATTAAAATTTTTAAATATTTTAGTGAGAT
Found at i:6566160 original size:27 final size:27
Alignment explanation
Indices: 6566130--6566187 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
6566120 AATTTTAAAG
*
6566130 AAATATATAAATA-ATTTTAATAAAATA
1 AAATATA-AAATATATTATAATAAAATA
* * *
6566157 AAATTTAAAATATATTATAATTAAATT
1 AAATATAAAATATATTATAATAAAATA
6566184 AAAT
1 AAAT
6566188 TAATTTCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATAAAATATATTATAATAAAATA
Found at i:6566188 original size:27 final size:26
Alignment explanation
Indices: 6566138--6566188 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
6566128 AGAAATATAT
*
6566138 AAATAATTTTAATAAAATAAAATTTA
1 AAATAATTATAATAAAATAAAATTTA
* *
6566164 AAATATATTATAATTAAATTAAATT
1 AAATA-ATTATAATAAAATAAAATT
6566189 AATTTCTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAATTATAATAAAATAAAATTTA
Found at i:6571169 original size:3 final size:3
Alignment explanation
Indices: 6571161--6571213 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
6571151 ACCAATAACA
* *
6571161 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6571209 AAT AA
1 AAT AA
6571214 AGGAAGAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6572046 original size:14 final size:16
Alignment explanation
Indices: 6572015--6572048 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
6572005 TAAAAGAAAT
6572015 TTATAAACGTTATATA
1 TTATAAACGTTATATA
6572031 TTATAAA-GTT-TATA
1 TTATAAACGTTATATA
6572045 TTAT
1 TTAT
6572049 TTTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTATAAACGTTATATA
Found at i:6576054 original size:20 final size:21
Alignment explanation
Indices: 6576016--6576059 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
6576006 GGTTGTATAG
* *
6576016 AAAAAATTAATATTTAAGGAT
1 AAAAAATTAAAATTAAAGGAT
*
6576037 AAAAAA-TAAAATTAAAGGTT
1 AAAAAATTAAAATTAAAGGAT
6576057 AAA
1 AAA
6576060 TGTTGCTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAAAATTAAAATTAAAGGAT
Found at i:6579013 original size:21 final size:21
Alignment explanation
Indices: 6578953--6579013 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6578943 AATATTTTTC
* *
6578953 AATTCTAGTCAAGTAAAATGA
1 AATTCGAGTCGAGTAAAATGA
* *
6578974 AATTCGAGTAGGGTAAAATGA
1 AATTCGAGTCGAGTAAAATGA
*
6578995 AATTCGAGTCGAGTCAAAT
1 AATTCGAGTCGAGTAAAAT
6579014 CAAGTGAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (21 bp):
AATTCGAGTCGAGTAAAATGA
Found at i:6579217 original size:18 final size:17
Alignment explanation
Indices: 6579194--6579237 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
6579184 TTTTTTTAAA
6579194 TATAAAATTTGAAATTCT
1 TATAAAATTTGAAATT-T
*
6579212 TATAAATATTTTAAATTT
1 TATAAA-ATTTGAAATTT
6579230 TA-AAAATT
1 TATAAAATT
6579238 ATTTGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 9 0.38
19 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TATAAAATTTGAAATTT
Found at i:6579227 original size:19 final size:18
Alignment explanation
Indices: 6579194--6579243 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
6579184 TTTTTTTAAA
6579194 TATAAA-ATTTGAAATTCT
1 TATAAATATTTGAAATT-T
*
6579212 TATAAATATTTTAAATTT
1 TATAAATATTTGAAATTT
*
6579230 TAAAAATTATTTGA
1 TATAAA-TATTTGA
6579244 TTTTTTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (18 bp):
TATAAATATTTGAAATTT
Found at i:6579249 original size:19 final size:20
Alignment explanation
Indices: 6579227--6579269 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6579217 ATATTTTAAA
6579227 TTTTAAAAATTA-TTTGATT
1 TTTTAAAAATTATTTTGATT
**
6579246 TTTTGGAAATTATTTTGATT
1 TTTTAAAAATTATTTTGATT
6579266 TTTT
1 TTTT
6579270 TTTGTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGATT
Found at i:6580952 original size:11 final size:11
Alignment explanation
Indices: 6580909--6580946 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6580899 CATAGTTAAA
6580909 AAATTAAAATT
1 AAATTAAAATT
*
6580920 -AAGTATAAATT
1 AAATTA-AAATT
6580931 AAATTAAAATT
1 AAATTAAAATT
6580942 AAATT
1 AAATT
6580947 TTAATTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:6584722 original size:22 final size:24
Alignment explanation
Indices: 6584694--6584737 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6584684 CGATATATAT
*
6584694 ATTATTA-AATT-ATAAAAAAACC
1 ATTATTAGAATTGAAAAAAAAACC
6584716 ATTATTAGAATTGAAAAAAAAA
1 ATTATTAGAATTGAAAAAAAAA
6584738 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
ATTATTAGAATTGAAAAAAAAACC
Found at i:6589701 original size:27 final size:27
Alignment explanation
Indices: 6589659--6589710 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
6589649 ATCTAAATAA
*
6589659 TCCAACACTTGTGTTTCGC-CACCAAAG
1 TCCAACACTTGAGTTTC-CTCACCAAAG
6589686 TCCAACACTTGAGTTTCCTCACCAA
1 TCCAACACTTGAGTTTCCTCACCAA
6589711 GGTTTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.27
Consensus pattern (27 bp):
TCCAACACTTGAGTTTCCTCACCAAAG
Found at i:6590439 original size:14 final size:15
Alignment explanation
Indices: 6590411--6590440 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6590401 TCATCTATTC
6590411 TCTCAATTATTTTAT
1 TCTCAATTATTTTAT
6590426 TCTCAATT-TTTTAT
1 TCTCAATTATTTTAT
6590440 T
1 T
6590441 TAATTTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTCAATTATTTTAT
Found at i:6591443 original size:94 final size:94
Alignment explanation
Indices: 6591323--6591510 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
6591313 GTAATAAAGT
6591323 AAGATTCAGTTAATAATATAATTATCATATTATTTTTTCATTATTATATTTTTTAAATAATATAT
1 AAGATTCAGTTAATAATATAATTATCATATTATTTTTTCATTATTATATTTTTTAAATAATATAT
6591388 TATTTGAGTAAATAGAATAATGACGCGAG
66 TATTTGAGTAAATAGAATAATGACGCGAG
6591417 AAGATTCAGTTAATAATATAATTATCATATTATTTTTTCATTATTATATTTTTTAAATAATATAT
1 AAGATTCAGTTAATAATATAATTATCATATTATTTTTTCATTATTATATTTTTTAAATAATATAT
6591482 TATTTGAGTAAATAGAATAATGACGCGAG
66 TATTTGAGTAAATAGAATAATGACGCGAG
6591511 TTATGTGGGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (94 bp):
AAGATTCAGTTAATAATATAATTATCATATTATTTTTTCATTATTATATTTTTTAAATAATATAT
TATTTGAGTAAATAGAATAATGACGCGAG
Found at i:6598020 original size:19 final size:18
Alignment explanation
Indices: 6597987--6598116 Score: 68
Period size: 19 Copynumber: 6.9 Consensus size: 18
6597977 ATTATAATAA
* *
6597987 ATAAAAATAAATAAAAGTT
1 ATAAAAAT-TATAAAATTT
6598006 ATAAAAATTAGT-AAATTT
1 ATAAAAATTA-TAAAATTT
*
6598024 A-AAAAAATATTAAAAATTT
1 ATAAAAATTA-T-AAAATTT
***
6598043 ATTAAAAATTATAAAAACC
1 A-TAAAAATTATAAAATTT
* *
6598062 ATAAAAGAATAAAAAATTT
1 ATAAAA-ATTATAAAATTT
*
6598081 -TAAAATTTTATAAATATTAT
1 ATAAAA-ATTATAAA-ATT-T
*
6598101 AAAAAAATTATAAAAT
1 ATAAAAATTATAAAAT
6598117 ACATAAAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
17 8 0.10
18 22 0.27
19 33 0.40
20 9 0.11
21 11 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAAAAATTATAAAATTT
Found at i:6598057 original size:9 final size:9
Alignment explanation
Indices: 6597973--6598115 Score: 71
Period size: 9 Copynumber: 15.4 Consensus size: 9
6597963 CAGGTGGCAA
6597973 AAAAATTAT
1 AAAAATTAT
*
6597982 AATAA--AT
1 AAAAATTAT
*
6597989 AAAAATAAAT
1 AAAAAT-TAT
*
6597999 AAAAGTTAT
1 AAAAATTAT
6598008 AAAAATTAGT
1 AAAAATTA-T
*
6598018 -AAATTTA-
1 AAAAATTAT
*
6598025 AAAAAATATT
1 AAAAATTA-T
6598035 AAAAATTTATT
1 AAAAA-TTA-T
6598046 AAAAATTAT
1 AAAAATTAT
**
6598055 AAAAACCAT
1 AAAAATTAT
*
6598064 AAAAGAATA-
1 AAAA-ATTAT
*
6598073 AAAAATTTT
1 AAAAATTAT
*
6598082 AAAATTTTAT
1 AAAA-ATTAT
*
6598092 AAATATTAT
1 AAAAATTAT
6598101 AAAAAAATTAT
1 --AAAAATTAT
6598112 AAAA
1 AAAA
6598116 TACATAAAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 26
0.69 0.14 0.18
Matches are distributed among these distances:
7 6 0.06
8 7 0.07
9 47 0.47
10 24 0.24
11 17 0.17
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6598111 original size:20 final size:20
Alignment explanation
Indices: 6598008--6598127 Score: 58
Period size: 20 Copynumber: 6.2 Consensus size: 20
6597998 TAAAAGTTAT
6598008 AAAAATTAGTAAAT-TTA-AA
1 AAAAATTA-TAAATATTATAA
* *
6598027 AAAATATTAAAAAT-TTAT-T
1 AAAA-ATTATAAATATTATAA
* **
6598046 AAAAATTATAAAAACCATAA
1 AAAAATTATAAATATTATAA
* * *
6598066 AAGAA-TA-AAAAATT-TTA
1 AAAAATTATAAATATTATAA
**
6598083 AAATTTTATAAATATTATAA
1 AAAAATTATAAATATTATAA
*
6598103 AAAAATTATAAA-ATACATAA
1 AAAAATTATAAATAT-TATAA
6598123 AAAAA
1 AAAAA
6598128 AACCCTTTAA
Statistics
Matches: 74, Mismatches: 19, Indels: 15
0.69 0.18 0.14
Matches are distributed among these distances:
17 4 0.05
18 14 0.19
19 27 0.36
20 29 0.39
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTATAAATATTATAA
Found at i:6609263 original size:2 final size:2
Alignment explanation
Indices: 6609256--6609282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6609246 CTGGTTTCTT
6609256 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
6609283 AATAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6623796 original size:21 final size:23
Alignment explanation
Indices: 6623758--6623810 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
6623748 GATTTCTTTT
* *
6623758 TAATTATTTATAGCATTT-TA-A
1 TAATTTTTTATAGCATTTGCATA
**
6623779 TAATTTTTTATATTATTTGCATA
1 TAATTTTTTATAGCATTTGCATA
6623802 TAATTTTTT
1 TAATTTTTT
6623811 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 15 0.58
22 1 0.04
23 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
TAATTTTTTATAGCATTTGCATA
Found at i:6623882 original size:7 final size:7
Alignment explanation
Indices: 6623870--6623909 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
6623860 TACTCCAAAC
6623870 CTTAAAT
1 CTTAAAT
6623877 CTTAAAT
1 CTTAAAT
6623884 AC-TAAAT
1 -CTTAAAT
6623891 CTTAAA-
1 CTTAAAT
6623897 CTTAAAT
1 CTTAAAT
6623904 CTTAAA
1 CTTAAA
6623910 CCTTGAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.23
7 22 0.73
8 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (7 bp):
CTTAAAT
Found at i:6623909 original size:20 final size:20
Alignment explanation
Indices: 6623866--6623920 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
6623856 TTTATACTCC
6623866 AAACCTTAAATCTTAAATACT
1 AAACCTTAAA-CTTAAATACT
*
6623887 AAATCTTAAACTTAAAT-CTT
1 AAACCTTAAACTTAAATAC-T
*
6623907 AAACCTTGAACTTA
1 AAACCTTAAACTTA
6623921 GATTTAGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 20 0.67
21 9 0.30
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (20 bp):
AAACCTTAAACTTAAATACT
Found at i:6623920 original size:13 final size:13
Alignment explanation
Indices: 6623870--6623910 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
6623860 TACTCCAAAC
6623870 CTTAAATCTTAAA
1 CTTAAATCTTAAA
6623883 -TACTAAATCTTAAA
1 CT--TAAATCTTAAA
6623897 CTTAAATCTTAAA
1 CTTAAATCTTAAA
6623910 C
1 C
6623911 CTTGAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 12 0.48
14 11 0.44
15 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (13 bp):
CTTAAATCTTAAA
Found at i:6629700 original size:36 final size:36
Alignment explanation
Indices: 6629598--6629700 Score: 86
Period size: 36 Copynumber: 2.9 Consensus size: 36
6629588 GAAAGATAAA
* * **
6629598 GTGCC-AAGAAAGACGAAGGATAG-TTAAAAAGGTTGT
1 GTGCCTAA-AAAGATGAAGGAT-GCTTAAAAAGGCTAC
* * * *
6629634 GTGCCTGAAAATG-TGAAGTATGCCTGAAAAGGCTAC
1 GTGCCT-AAAAAGATGAAGGATGCTTAAAAAGGCTAC
6629670 GTGCCTAAAAAGATGAAGGATGCTTAAAAAG
1 GTGCCTAAAAAGATGAAGGATGCTTAAAAAG
6629701 ATTATATTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
35 6 0.12
36 40 0.78
37 3 0.06
38 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (36 bp):
GTGCCTAAAAAGATGAAGGATGCTTAAAAAGGCTAC
Found at i:6629953 original size:19 final size:20
Alignment explanation
Indices: 6629921--6629960 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6629911 AAGAAGTGAA
**
6629921 ATGTGCTTGGAAAGAC-AAT
1 ATGTGCTTAAAAAGACTAAT
6629940 ATGTGCTTAAAAAGACTAAT
1 ATGTGCTTAAAAAGACTAAT
6629960 A
1 A
6629961 ATCTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (20 bp):
ATGTGCTTAAAAAGACTAAT
Found at i:6632990 original size:20 final size:19
Alignment explanation
Indices: 6632967--6633023 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
6632957 AATTTCAATT
6632967 TTAATAATTAATTAAATTTA
1 TTAATAATT-ATTAAATTTA
*
6632987 TTAATAAATTATTTAATTTA
1 TTAAT-AATTATTAAATTTA
* * *
6633007 ATAATAAATATAAAATT
1 TTAATAATTATTAAATT
6633024 ATACACTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 9 0.29
20 18 0.58
21 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATAATTATTAAATTTA
Found at i:6633589 original size:24 final size:24
Alignment explanation
Indices: 6633560--6633607 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6633550 CTAATGACAT
* * *
6633560 TATAAAAATTGAGGTACTAAATTA
1 TATAAAAATTAAAGTACAAAATTA
6633584 TATAAAAATTAAAGTACAAAATTA
1 TATAAAAATTAAAGTACAAAATTA
6633608 AATCACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (24 bp):
TATAAAAATTAAAGTACAAAATTA
Found at i:6633735 original size:29 final size:30
Alignment explanation
Indices: 6633701--6633757 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
6633691 TACATCAAGA
*
6633701 TAGTCCCTT-TATTATT-AAATGAATTAATT
1 TAGT-CCTTATATTATTAAAAAGAATTAATT
6633730 TAGTCCTTATATTATTAAAAAGAATTAA
1 TAGTCCTTATATTATTAAAAAGAATTAA
6633758 ATGAGTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (30 bp):
TAGTCCTTATATTATTAAAAAGAATTAATT
Found at i:6635766 original size:3 final size:3
Alignment explanation
Indices: 6635758--6635786 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6635748 TATAGTAAAT
6635758 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6635787 ACACTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6636365 original size:9 final size:9
Alignment explanation
Indices: 6636349--6636391 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
6636339 GGTATTTTTC
6636349 GGTAATTCG
1 GGTAATTCG
*
6636358 GTTAATTCG
1 GGTAATTCG
*
6636367 GTTAATTCG
1 GGTAATTCG
6636376 GGTAATTCG
1 GGTAATTCG
6636385 GGTAATT
1 GGTAATT
6636392 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:6636569 original size:12 final size:12
Alignment explanation
Indices: 6636552--6636576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6636542 AGTAATTTCG
6636552 GGTCGGTTAACC
1 GGTCGGTTAACC
6636564 GGTCGGTTAACC
1 GGTCGGTTAACC
6636576 G
1 G
6636577 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6642017 original size:42 final size:42
Alignment explanation
Indices: 6641967--6642097 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
6641957 TTAAAATGAC
6641967 TTTTTATTAAAAGTTTAAATTTAGGCAGGTTACTAACAATTT
1 TTTTTATTAAAAGTTTAAATTTAGGCAGGTTACTAACAATTT
* ** **
6642009 TTTTTATTAAATATTAATTTAATATTTA---ATATT--TAA-AATGAC
1 TTTTTATT-AA-A--AGTTTAA-ATTTAGGCAGGTTACTAACAAT-TT
*
6642051 TTTTTATTAAAAGTTTAAATTTAGGCAGGTTACTAACAAATT
1 TTTTTATTAAAAGTTTAAATTTAGGCAGGTTACTAACAATTT
6642093 TTTTT
1 TTTTT
6642098 GTCTATGTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 24
0.65 0.11 0.24
Matches are distributed among these distances:
37 5 0.08
38 6 0.09
40 4 0.06
41 5 0.08
42 27 0.41
43 4 0.06
44 4 0.06
46 6 0.09
47 5 0.08
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.49
Consensus pattern (42 bp):
TTTTTATTAAAAGTTTAAATTTAGGCAGGTTACTAACAATTT
Found at i:6642028 original size:84 final size:83
Alignment explanation
Indices: 6641930--6642097 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 83
6641920 AGTTGGCTTA
*
6641930 TATTAATTTTAATTTAATATTTAATATTTAAAATGACTTTTTATTAAAAGTTTAAATTTAGGCAG
1 TATTAATATTAATTTAATATTTAATATTTAAAATGACTTTTTATTAAAAGTTTAAATTTAGGCAG
*
6641995 GTTACTAACAATTTTTTT
66 GTTACTAACAAATTTTTT
6642013 TATTAAATATTAATTTAATATTTAATATTTAAAATGACTTTTTATTAAAAGTTTAAATTTAGGCA
1 TATT-AATATTAATTTAATATTTAATATTTAAAATGACTTTTTATTAAAAGTTTAAATTTAGGCA
6642078 GGTTACTAACAAATTTTTT
65 GGTTACTAACAAATTTTTT
6642097 T
1 T
6642098 GTCTATGTAG
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
83 4 0.05
84 78 0.95
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (83 bp):
TATTAATATTAATTTAATATTTAATATTTAAAATGACTTTTTATTAAAAGTTTAAATTTAGGCAG
GTTACTAACAAATTTTTT
Found at i:6642520 original size:16 final size:15
Alignment explanation
Indices: 6642485--6642520 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6642475 AAAAATTTTA
*
6642485 TATTAAAATAATATT
1 TATTAAAATAATAAT
6642500 TATTAAAATATATAAT
1 TATTAAAATA-ATAAT
6642516 TATTA
1 TATTA
6642521 TATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAATAATAAT
Found at i:6645961 original size:41 final size:41
Alignment explanation
Indices: 6645881--6646014 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
6645871 ATCTCGGTTC
* * *
6645881 CGCA-ACTTAGTGCCCGTTA-TTAACATAATTATTTGGTTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
* * *
6645920 CACACAATTAGTGCTCGTTATTTAACATCATTACTTAGTTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
* *
6645961 CGCACACTTAGTGCTCGTTATTCAACATCATTATTTAATTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
6646002 CGCACACTTAGTG
1 CGCACACTTAGTG
6646015 TCAAGCATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.04
40 13 0.16
41 66 0.80
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (41 bp):
CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
Found at i:6651132 original size:42 final size:42
Alignment explanation
Indices: 6651031--6651150 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
6651021 TGGGTTTATA
* * * * * *
6651031 CTTCAGTTTAGCTAATGATGCACTTATATGCCAGTATATTTT
1 CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTACATTTC
* * * *
6651073 GTTCGGTTCAT-TCGATGATGCATTTATGTGCTAGTACATTTC
1 CTTCAGTTTATCT-GATGATGCACTTATGTGCTAGTACATTTC
*
6651115 CTTCAGTTTATCTGATGATGTACTTATGTGCTAGTA
1 CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTA
6651151 TAATTGATTC
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (42 bp):
CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTACATTTC
Found at i:6651162 original size:42 final size:41
Alignment explanation
Indices: 6651032--6651241 Score: 122
Period size: 42 Copynumber: 5.0 Consensus size: 41
6651022 GGGTTTATAC
* * * *
6651032 TTCAGTTTAGCTAATGATGCACTTATATGCCAGTATATTTTG
1 TTCAGTTTATCTGATGATGCACTTATGTGCTAGTATA-TTTG
* * * * *
6651074 TTCGGTTCAT-TCGATGATGCATTTATGTGCTAGTACATTTCC
1 TTCAGTTTATCT-GATGATGCACTTATGTGCTAGTATATTT-G
* *
6651116 TTCAGTTTATCTGATGATGTACTTATGTGCTAGTATAATTG
1 TTCAGTTTATCTGATGATGCACTTATGTGCTAGTATATTTG
* * * ** *
6651157 ATTCAGCTTGTCT-AGTAATGCACCTCGTGTGTCT-GTATGATTTC
1 -TTCAGTTTATCTGA-TGATGCA-CTTATGTG-CTAGTAT-ATTTG
** *
6651201 TTCAGTTTATCCAATGATGCAC-TATGTATGCTAGTTTATTT
1 TTCAGTTTATCTGATGATGCACTTATG--TGCTAGTATATTT
6651242 CCTTTGAAAA
Statistics
Matches: 125, Mismatches: 31, Indels: 24
0.69 0.17 0.13
Matches are distributed among these distances:
41 7 0.06
42 81 0.65
43 31 0.25
44 6 0.05
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (41 bp):
TTCAGTTTATCTGATGATGCACTTATGTGCTAGTATATTTG
Found at i:6651423 original size:19 final size:19
Alignment explanation
Indices: 6651399--6651438 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6651389 AAAAGTTAGT
*
6651399 TACTAATCAAGTTGAAAGC
1 TACTAATCAAGCTGAAAGC
6651418 TACTAATCAAGCTGAAAGC
1 TACTAATCAAGCTGAAAGC
6651437 TA
1 TA
6651439 GTACCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (19 bp):
TACTAATCAAGCTGAAAGC
Found at i:6670243 original size:16 final size:17
Alignment explanation
Indices: 6670217--6670249 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6670207 ATAATTATAA
6670217 ATTTATTTTTAATATTT
1 ATTTATTTTTAATATTT
*
6670234 ATTT-TTTTTATTATTT
1 ATTTATTTTTAATATTT
6670250 GGGTTCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTATTTTTAATATTT
Found at i:6670874 original size:23 final size:22
Alignment explanation
Indices: 6670848--6670911 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
6670838 GGCAACCTTT
6670848 ATATATTTCATGAAAATTCA-AAA
1 ATATATTT-AT-AAAATTCATAAA
*
6670871 ATATTATTTATAAATTTCATAAA
1 ATA-TATTTATAAAATTCATAAA
* *
6670894 ATATTTTTAAAAAATTCA
1 ATATATTTATAAAATTCA
6670912 CTCAACAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 19 0.54
23 11 0.31
24 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATATTTATAAAATTCATAAA
Found at i:6670902 original size:22 final size:22
Alignment explanation
Indices: 6670860--6670911 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
6670850 ATATTTCATG
*
6670860 AAAATTCAAAAATATTATTTAT
1 AAAATTCAAAAATATTATTTAA
*
6670882 AAATTTCATAAAATATT-TTTAA
1 AAAATTCA-AAAATATTATTTAA
6670904 AAAATTCA
1 AAAATTCA
6670912 CTCAACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTCAAAAATATTATTTAA
Found at i:6672389 original size:3 final size:3
Alignment explanation
Indices: 6672383--6672409 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6672373 ATTAAAACAT
6672383 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
6672410 GGAGCTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6681958 original size:17 final size:17
Alignment explanation
Indices: 6681936--6682334 Score: 190
Period size: 18 Copynumber: 22.9 Consensus size: 17
6681926 TTTAAAAAAA
*
6681936 ACGAAAGTTTTTGAAAC
1 ACGAAAATTTTTGAAAC
*
6681953 ACGAAAAATTTTTAAAAAC
1 ACG-AAAATTTTT-GAAAC
6681972 ACGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
*
6681989 ACGAGAA-TTTT-AAA-
1 ACGAAAATTTTTGAAAC
* *
6682003 ACGTAAAAAATTTTAAAAC
1 ACG--AAAATTTTTGAAAC
*
6682022 ACGAAAATTTGTGAAAC
1 ACGAAAATTTTTGAAAC
* * * * *
6682039 GCTAGAGTTGTTGAAAAC
1 ACGAAAATTTTTG-AAAC
6682057 ACGAAAATTTTTAGAACAC
1 ACGAAAATTTTT-GAA-AC
* * * *
6682076 ACAAAAAGTTATTGGATC
1 ACGAAAA-TTTTTGAAAC
* *
6682094 ACCAGAATTTTTGAAAAC
1 ACGAAAATTTTTG-AAAC
6682112 ACGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
6682129 ACCG-AAATTTTTGAAAAC
1 A-CGAAAATTTTTG-AAAC
** ** *
6682147 ACGAGGATTTTCAAAAT
1 ACGAAAATTTTTGAAAC
** * *
6682164 ACGAATTTTTTTAAAAAT
1 ACGAAAATTTTT-GAAAC
*
6682182 ACGAAAATTTTTAAAAAC
1 ACGAAAATTTTT-GAAAC
6682200 AC-AGAAATTTTTG-AAC
1 ACGA-AAATTTTTGAAAC
* *
6682216 ACGGGAATTTTTTGAAAC
1 AC-GAAAATTTTTGAAAC
* *
6682234 ATG---ATTTTTTAAAC
1 ACGAAAATTTTTGAAAC
**
6682248 GTGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
6682265 ACTG-AAA-TTTTGAAAAC
1 AC-GAAAATTTTTG-AAAC
*
6682282 ACGAAGATTTTTTGAAAC
1 ACGAA-AATTTTTGAAAC
** * *
6682300 ACTGGGATTTTTTGAAAAT
1 AC-GAAAATTTTTG-AAAC
*
6682319 ACGAAAAATTTTGAAA
1 ACGAAAATTTTTGAAA
6682335 AATAGAATTT
Statistics
Matches: 292, Mismatches: 60, Indels: 60
0.71 0.15 0.15
Matches are distributed among these distances:
14 14 0.05
15 3 0.01
16 18 0.06
17 100 0.34
18 121 0.41
19 32 0.11
20 4 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
ACGAAAATTTTTGAAAC
Found at i:6681978 original size:18 final size:17
Alignment explanation
Indices: 6681931--6682293 Score: 166
Period size: 17 Copynumber: 21.0 Consensus size: 17
6681921 AGAACTTTAA
* *
6681931 AAAAAACGAAAGTTTTT
1 AAAACACGAAAATTTTT
*
6681948 GAAACACGAAAAATTTTT
1 AAAACACG-AAAATTTTT
6681966 AAAAACACGAAAATTTTT
1 -AAAACACGAAAATTTTT
* *
6681984 GAAACACGAGAA-TTTT
1 AAAACACGAAAATTTTT
*** *
6682000 AAAACGTAAAAAATTTT
1 AAAACACGAAAATTTTT
*
6682017 AAAACACGAAAATTTGT
1 AAAACACGAAAATTTTT
* * * * * *
6682034 GAAACGCTAGAGTTGTTG
1 AAAACACGAAAATT-TTT
6682052 AAAACACGAAAATTTTT
1 AAAACACGAAAATTTTT
* *
6682069 AGAACACACAAAAAGTTATT
1 A-AA-ACACGAAAA-TTTTT
** * * *
6682089 GGATCACCAGAATTTTT
1 AAAACACGAAAATTTTT
6682106 GAAAACACGAAAATTTTT
1 -AAAACACGAAAATTTTT
*
6682124 GAAACACCG-AAATTTTT
1 AAAACA-CGAAAATTTTT
** *
6682141 GAAAACACGAGGATTTTC
1 -AAAACACGAAAATTTTT
* **
6682159 AAAATACGAATTTTTTT
1 AAAACACGAAAATTTTT
*
6682176 AAAAATACGAAAATTTTT
1 -AAAACACGAAAATTTTT
6682194 AAAAACAC-AGAAATTTTT
1 -AAAACACGA-AAATTTTT
* * *
6682212 -GAACACGGGAATTTTTT
1 AAAACAC-GAAAATTTTT
* *
6682229 GAAACATG---ATTTTT
1 AAAACACGAAAATTTTT
* **
6682243 TAAACGTGAAAATTTTT
1 AAAACACGAAAATTTTT
* *
6682260 GAAACACTG-AAATTTTG
1 AAAACAC-GAAAATTTTT
*
6682277 AAAACACGAAGATTTTT
1 AAAACACGAAAATTTTT
6682294 TGAAACACTG
Statistics
Matches: 255, Mismatches: 70, Indels: 42
0.69 0.19 0.11
Matches are distributed among these distances:
14 11 0.04
16 17 0.07
17 113 0.44
18 94 0.37
19 16 0.06
20 4 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAACACGAAAATTTTT
Found at i:6681998 original size:35 final size:34
Alignment explanation
Indices: 6681893--6682334 Score: 206
Period size: 35 Copynumber: 12.8 Consensus size: 34
6681883 GAGATTTTTT
*
6681893 TTTTCTAAAACACGAGAA-TTTTGAAACA--AGAA
1 TTTT-TAAAACACGAAAATTTTTGAAACACGAGAA
** * * *
6681925 CTTTAAAAAAAACGAAAGTTTTTGAAACACGAAAAA
1 -TTTTTAAAACACGAAAATTTTTGAAACACG-AGAA
6681961 TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGAA
*** * * *
6681996 -TTTTAAAACGTAAAAAATTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGAA
* * * * * * * *
6682029 TTTGTGAAACGCTAGAGTTGTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTG-AAACACGAGAA
* * * * *
6682064 TTTTTAGAACACACAAAAAGTTATTGGATCACCAGAA
1 TTTTTA-AA-ACACGAAAA-TTTTTGAAACACGAGAA
6682101 TTTTTGAAAACACGAAAATTTTTGAAACACCGA-AA
1 TTTTT-AAAACACGAAAATTTTTGAAACA-CGAGAA
** ** * *
6682136 TTTTTGAAAACACGAGGATTTTCAAAATACGA-ATT
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGA-A
* *
6682171 TTTTTAAAAATACGAAAATTTTTAAAAACAC-AGAAA
1 TTTTT-AAAACACGAAAATTTTT-GAAACACGAG-AA
* * * *
6682207 TTTTT-GAACACGGGAATTTTTTGAAACA--TG-A
1 TTTTTAAAACAC-GAAAATTTTTGAAACACGAGAA
* **
6682238 TTTTTTAAACGTGAAAATTTTTGAAACACTGA-AA
1 TTTTTAAAACACGAAAATTTTTGAAACAC-GAGAA
* * * *
6682272 TTTTGAAAACACGAAGATTTTTTGAAACACTGGGAT
1 TTTTTAAAACACGAA-AATTTTTGAAACAC-GAGAA
* *
6682308 TTTTTGAAAATACGAAAAATTTTGAAA
1 TTTTT-AAAACACGAAAATTTTTGAAA
6682335 AATAGAATTT
Statistics
Matches: 306, Mismatches: 78, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
31 20 0.07
32 12 0.04
33 37 0.12
34 42 0.14
35 97 0.32
36 63 0.21
37 29 0.09
38 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAGAA
Found at i:6682364 original size:35 final size:36
Alignment explanation
Indices: 6682307--6682383 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 36
6682297 AACACTGGGA
* ** *
6682307 TTTTTTGAAAATACGAAAAATTTTGAAAAATAGAAT
1 TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
* * *
6682343 TTTTTTGAAAACATG-ATAATTTAAAAAAACGGAAT
1 TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
6682378 TTTTTT
1 TTTTTT
6682384 TTCCTATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 21 0.62
36 13 0.38
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
Found at i:6682623 original size:17 final size:17
Alignment explanation
Indices: 6682574--6682984 Score: 181
Period size: 17 Copynumber: 23.5 Consensus size: 17
6682564 ACGACTATAT
* *
6682574 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
***
6682591 -TTTTAAAACTTAAAAA
1 TTTTTAAAACACGAAAA
6682607 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * * * *
6682624 -TTTGAGAAACGCTAGAG
1 TTTTTA-AAACACGAAAA
*
6682641 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
*
6682659 TTTGTGAAAACACGAAAA
1 TTT-TTAAAACACGAAAA
*
6682677 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
6682694 TGTTTAGAACACACAAAAA
1 TTTTTA-AA-ACACGAAAA
* ** * *
6682713 GTTATTGGATCACCG-GAA
1 -TTTTTAAAACA-CGAAAA
6682731 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
6682749 -TTTTGAAACACCG-AAT
1 TTTTTAAAACA-CGAAAA
*
6682765 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
* **
6682783 TTTTTAAAATACGAATT
1 TTTTTAAAACACGAAAA
*
6682800 TTTTTAAAAATACGAAAA
1 TTTTT-AAAACACGAAAA
6682818 TTTTTAAAAACAC-AGAAA
1 TTTTT-AAAACACGA-AAA
* * *
6682836 TTTTT-GAACACGGGAAT
1 TTTTTAAAACAC-GAAAA
* **
6682853 TTTTTAAAACATG-ATT
1 TTTTTAAAACACGAAAA
* **
6682869 TTTTTTAAACGTGAAAA
1 TTTTTAAAACACGAAAA
* *
6682886 TTTTTGAAACACTAAAA
1 TTTTTAAAACACGAAAA
* *
6682903 TTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
*
6682920 TTTTTAAAAGCACGAAGAT
1 TTTTTAAAA-CACGAA-AA
* ** *
6682939 TTTTTGAAACACTGGGAT
1 TTTTTAAAACAC-GAAAA
6682957 TTTTTGAAAACACGAAAAA
1 TTTTT-AAAACACG-AAAA
*
6682976 TTTTGAAAA
1 TTTTTAAAA
6682985 ATAGAATTTT
Statistics
Matches: 293, Mismatches: 75, Indels: 51
0.70 0.18 0.12
Matches are distributed among these distances:
16 40 0.14
17 112 0.38
18 104 0.35
19 34 0.12
20 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:6682666 original size:18 final size:18
Alignment explanation
Indices: 6682552--6682984 Score: 226
Period size: 18 Copynumber: 24.6 Consensus size: 18
6682542 TTGTTGCCTT
6682552 ATTTTTGAAAACACGACTATA
1 ATTTTTGAAAACACGA--A-A
* *
6682573 TTTTTTG-AAACACGAGA
1 ATTTTTGAAAACACGAAA
***
6682590 A-TTTT-AAAACTTAAAA
1 ATTTTTGAAAACACGAAA
6682606 ATTTTT-AAAACACGAAA
1 ATTTTTGAAAACACGAAA
* * *
6682623 A--TTTGAGAAACGCTAGA
1 ATTTTTGA-AAACACGAAA
* *
6682640 GTTGTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
6682658 ATTTGTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
6682676 ATTTTTG-AAACACGAAA
1 ATTTTTGAAAACACGAAA
* * *
6682693 ATGTTTAGAACACACAAAA
1 AT-TTTTGAAAACACGAAA
* * * *
6682712 AGTTATTG-GATCACCG-GA
1 A-TTTTTGAAAACA-CGAAA
6682730 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
6682748 A-TTTTG-AAACACCG-AA
1 ATTTTTGAAAACA-CGAAA
* *
6682764 TTTTTTGAAAACACGAGA
1 ATTTTTGAAAACACGAAA
* *
6682782 ATTTTT-AAAATACGAAT
1 ATTTTTGAAAACACGAAA
* * *
6682799 TTTTTTAAAAATACGAAA
1 ATTTTTGAAAACACGAAA
*
6682817 ATTTTTAAAAACAC-AGAA
1 ATTTTTGAAAACACGA-AA
**
6682835 ATTTTTG--AACACGGGA
1 ATTTTTGAAAACACGAAA
* *
6682851 ATTTTTTAAAACATG--A
1 ATTTTTGAAAACACGAAA
* ** **
6682867 TTTTTTTTAAACGTGAAA
1 ATTTTTGAAAACACGAAA
*
6682885 ATTTTTG-AAACACTAAA
1 ATTTTTGAAAACACGAAA
*
6682902 A-TTTTGAAAACACGAAG
1 ATTTTTGAAAACACGAAA
6682919 ATTTTT-AAAAGCACGAAGA
1 ATTTTTGAAAA-CACGAA-A
* **
6682938 TTTTTTG-AAACACTGGGA
1 ATTTTTGAAAACAC-GAAA
*
6682956 TTTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
6682974 AATTTTGAAAA
1 ATTTTTGAAAA
6682985 ATAGAATTTT
Statistics
Matches: 313, Mismatches: 69, Indels: 63
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.01
16 49 0.16
17 89 0.28
18 125 0.40
19 32 0.10
20 9 0.03
21 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:6682923 original size:34 final size:34
Alignment explanation
Indices: 6682554--6682984 Score: 210
Period size: 34 Copynumber: 12.3 Consensus size: 34
6682544 GTTGCCTTAT
* *
6682554 TTTTGAAAACACGACTATATTTTTTGAAACACGAGAA
1 TTTTGAAAACACGA--A-AATTTTTGAAACACGAAAA
*** *
6682591 TTTT-AAAACTTAAAAATTTTTAAAACACGAAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * * * *
6682624 -TTTGAGAAACGCTAGAGTTGTTGAAAACACGAAAA
1 TTTTGA-AAACACGAAAATTTTTG-AAACACGAAAA
6682659 TTTGTGAAAACACGAAAATTTTTGAAACACGAAAA
1 TTT-TGAAAACACGAAAATTTTTGAAACACGAAAA
* * * * * * *
6682694 TGTTTAGAACACACAAAAAGTTATTGGATCACCGGAAT
1 T-TTT-GAAAACACGAAAA-TTTTTGAAACA-CGAAAA
**
6682732 TTTTGAAAACACGAAAA-TTTTGAAACACCGAATT
1 TTTTGAAAACACGAAAATTTTTGAAACA-CGAAAA
* * * **
6682766 TTTTGAAAACACGAGAATTTTTAAAATACGAATTT
1 TTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
* * * *
6682801 TTTTAAAAATACGAAAATTTTTAAAAACACAGAAAT
1 TTTTGAAAACACGAAAATTTTT-GAAACAC-GAAAA
* * * * **
6682837 TTTTG--AACACGGGAATTTTTTAAAACATG-ATT
1 TTTTGAAAACAC-GAAAATTTTTGAAACACGAAAA
** ** *
6682869 TTTTTTAAACGTGAAAATTTTTGAAACACTAAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * *
6682903 TTTTGAAAACACGAAGATTTTTAAAAGCACGAAGATT
1 TTTTGAAAACACGAAAATTTTTGAAA-CACGAA-A-A
** *
6682940 TTTTG-AAACACTGGGATTTTTTGAAAACACGAAAAA
1 TTTTGAAAACAC-GAAAATTTTTG-AAACACG-AAAA
6682976 TTTTGAAAA
1 TTTTGAAAA
6682985 ATAGAATTTT
Statistics
Matches: 300, Mismatches: 70, Indels: 48
0.72 0.17 0.11
Matches are distributed among these distances:
32 9 0.03
33 31 0.10
34 77 0.26
35 66 0.22
36 67 0.22
37 40 0.13
38 10 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:6682997 original size:18 final size:20
Alignment explanation
Indices: 6682976--6683012 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6682966 ACACGAAAAA
6682976 TTTTGAAAA-AT-AGAATTT
1 TTTTGAAAACATGAGAATTT
6682994 TTTTGAAAACATGAGAATT
1 TTTTGAAAACATGAGAATT
6683013 AAAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTTGAAAACATGAGAATTT
Found at i:6683165 original size:648 final size:629
Alignment explanation
Indices: 6682017--6683242 Score: 2001
Period size: 648 Copynumber: 1.9 Consensus size: 629
6682007 AAAAAATTTT
* * * * *
6682017 AAAACACGAAAATTTGTGAAACGCTAGAGTTGTTGAAAACACGAAAATTTTTAGAACACACAAAA
1 AAAACACGAAAATTTGTGAAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAAA
6682082 AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
66 AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
*
6682147 ACGAGGATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
131 ACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
*
6682212 GAACACGGGAATTTTTTGAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
196 GAACACGGGAATTTTTTAAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
*
6682277 AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAATACGAAAAATTTTGAAAAATAGAA
261 AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACACGAAAAATTTTGAAAAATAGAA
* * *
6682342 TTTTTTTGAAAACATGATAATTTAAAAAAACGGAATTTTTTTTTCCTATTTTGCTAAAACACGAA
326 TTTTTTTGAAAACATGAGAATTAAAAAAAACGGAA-TTGTTTTTCCTATTTTGCTAAAACACGAA
6682407 TATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATAT
390 TATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATAT
*
6682472 CGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTGTCAAA
455 CGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTATCAAA
* *
6682537 TCAATTTGTTGCCTTATTTTTGAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTT
520 TCAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTT
6682602 AAAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
585 AAAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
*
6682647 AAAACACGAAAATTTGTGAAAACACGAAAATTTTTG-AAACACGAAAATGTTTAGAACACACAAA
1 AAAACACGAAAATTTGTG-AAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAA
* *
6682711 AAGTTATTGGATCACCGGAATTTTTGAAAACACGAAAA-TTTTGAAACACCGAATTTTTTGAAAA
65 AAGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAA
*
6682775 CACGAGAATTTTTAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTT
130 CACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTT
6682840 TGAACACGGGAATTTTTTAAAACATGATTTTTTTTAAACGTGAAAATTTTTGAAACACTAAAATT
195 TGAACACGGGAATTTTTTAAAACATGA--TTTTTTAAACGTGAAAATTTTTGAAACAC-------
*
6682905 TTGAAAACACGAAGATTTTTAAAAGCACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACAC
251 -T--------GAA-ATTTTGAAAA-CACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACAC
*
6682970 GAAAAATTTTGAAAAATAGAATTTTTTTGAAAACATGAGAATTAAAAAAAAACTGAA-TGTTTTT
305 GAAAAATTTTGAAAAATAGAATTTTTTTGAAAACATGAGAATT-AAAAAAAACGGAATTGTTTTT
6683034 CCTATTTTGCTAAAACACGAATATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTC
369 CCTATTTTGCTAAAACACGAATATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTC
* *
6683099 GATTTTTTATTTAA-CACGTATCGTATTTGACACAAACCGGTGATATTCACTCAACATAGTAATG
434 GATTTTTTA-TTAAGCACATATCGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATG
*
6683163 AAATCAACGAATTAGTATCAAATCGATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTG
498 AAATCAACGAATTAGTATCAAATCAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTG
6683228 AAACACGAGAATTTT
563 AAACACGAGAATTTT
6683243 TTTTGAAGAC
Statistics
Matches: 550, Mismatches: 23, Indels: 28
0.92 0.04 0.05
Matches are distributed among these distances:
629 114 0.21
630 82 0.15
631 41 0.07
639 1 0.00
647 3 0.01
648 213 0.39
649 85 0.15
650 11 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (629 bp):
AAAACACGAAAATTTGTGAAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAAA
AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
ACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
GAACACGGGAATTTTTTAAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACACGAAAAATTTTGAAAAATAGAA
TTTTTTTGAAAACATGAGAATTAAAAAAAACGGAATTGTTTTTCCTATTTTGCTAAAACACGAAT
ATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATATC
GTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTATCAAAT
CAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTTA
AAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
Found at i:6683633 original size:8 final size:8
Alignment explanation
Indices: 6683620--6683670 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
6683610 ATTGATCCCC
6683620 TTTTTCTT
1 TTTTTCTT
6683628 TTTTTCTTT
1 TTTTTC-TT
*
6683637 TTTTTATCT
1 TTTTTCT-T
6683646 TTTTTCTT
1 TTTTTCTT
*
6683654 TCTTTCTT
1 TTTTTCTT
*
6683662 CTTTTCTT
1 TTTTTCTT
6683670 T
1 T
6683671 CTCTTCTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 21 0.60
9 14 0.40
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:6683646 original size:11 final size:10
Alignment explanation
Indices: 6683626--6683670 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 10
6683616 CCCCTTTTTC
6683626 TTTTTTTCTT
1 TTTTTTTCTT
6683636 TTTTTTATCTT
1 TTTTTT-TCTT
6683647 TTTTCTTTCTT
1 TTTT-TTTCTT
6683658 TCTTCTTTTCTT
1 T-TT-TTTTCTT
6683670 T
1 T
6683671 CTCTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.19
11 13 0.42
12 11 0.35
13 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:6683658 original size:22 final size:21
Alignment explanation
Indices: 6683626--6683687 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 21
6683616 CCCCTTTTTC
6683626 TTTT-TTTCTTTTTTTTATCTT
1 TTTTCTTTCTTTTTTTT-TCTT
6683647 TTTTCTTTCTTTCTTCTTTTCTT
1 TTTTCTTTCTTT-TT-TTTTCTT
6683670 TCTCTTCTCTTCTTTTTT
1 T-T-TTCT-TTCTTTTTT
6683688 GGGCCTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.11
22 7 0.20
23 7 0.20
24 5 0.14
25 6 0.17
26 6 0.17
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTTCTT
Found at i:6683664 original size:18 final size:18
Alignment explanation
Indices: 6683627--6683687 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
6683617 CCCTTTTTCT
*
6683627 TTTTTTCTTT-TTTTTATC
1 TTTTTTCTTTCTTTCT-TC
6683645 TTTTTTCTTTCTTTCTTC
1 TTTTTTCTTTCTTTCTTC
*
6683663 TTTTCTT-TCTCTTCTCTTC
1 TTTT-TTCTTTCTT-TCTTC
6683682 TTTTTT
1 TTTTTT
6683688 GGGCCTGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCTTC
Found at i:6683675 original size:11 final size:12
Alignment explanation
Indices: 6683622--6683672 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
6683612 TGATCCCCTT
*
6683622 TTTCTTTTTTTC
1 TTTCTTCTTTTC
6683634 TTT-TT-TTTATC
1 TTTCTTCTTT-TC
*
6683645 TTTTTTC-TTTC
1 TTTCTTCTTTTC
6683656 TTTCTTCTTTTC
1 TTTCTTCTTTTC
6683668 TTTCT
1 TTTCT
6683673 CTTCTCTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.09
11 15 0.44
12 16 0.47
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTCTTTTC
Found at i:6683680 original size:16 final size:16
Alignment explanation
Indices: 6683631--6683677 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6683621 TTTTCTTTTT
*
6683631 TTCTTTT-TTT-TATC
1 TTCTTTTCTTTCTTTC
6683645 TT-TTTTCTTTCTTTC
1 TTCTTTTCTTTCTTTC
6683660 TTCTTTTCTTTCTCTTC
1 TTCTTTTCTTTCT-TTC
6683677 T
1 T
6683678 CTTCTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.14
14 5 0.18
15 5 0.18
16 10 0.36
17 4 0.14
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTCTTTCTTTC
Found at i:6683897 original size:32 final size:32
Alignment explanation
Indices: 6683853--6683914 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
6683843 TTTTCTTCCC
*
6683853 CTTTCTTTTCCTTCTTTCTTTCTTT-TTTCAG
1 CTTTCTTTTCCTTCTTTCTTCCTTTCTTTCAG
*
6683884 CTTTCTTTATCCTTTTTTCTTCCTTTCTTTC
1 CTTTCTTT-TCCTTCTTTCTTCCTTTCTTTC
6683915 TTCCCCGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 8 0.30
32 15 0.56
33 4 0.15
ACGTcount: A:0.03, C:0.27, G:0.02, T:0.68
Consensus pattern (32 bp):
CTTTCTTTTCCTTCTTTCTTCCTTTCTTTCAG
Found at i:6684043 original size:25 final size:24
Alignment explanation
Indices: 6684012--6684075 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 24
6684002 TTCCCTTTCC
6684012 CTCTTTTTCTTTTTTTATT-CTTTG
1 CTCTTTTTCTTTTTTTATTGC-TTG
*
6684036 CTCTTTTTTCTTTTTTTTTTGCTTG
1 CTC-TTTTTCTTTTTTTATTGCTTG
6684061 CTCTTTTTCTTTTTT
1 CTCTTTTTCTTTTTT
6684076 CTTGCCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 15 0.41
25 21 0.57
26 1 0.03
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (24 bp):
CTCTTTTTCTTTTTTTATTGCTTG
Found at i:6684067 original size:18 final size:20
Alignment explanation
Indices: 6684044--6684085 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6684034 TGCTCTTTTT
6684044 TCTTTTT-TTTTTGCTTG-C
1 TCTTTTTCTTTTTGCTTGCC
*
6684062 TCTTTTTCTTTTTTCTTGCC
1 TCTTTTTCTTTTTGCTTGCC
6684082 TCTT
1 TCTT
6684086 GGTTGTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (20 bp):
TCTTTTTCTTTTTGCTTGCC
Found at i:6684577 original size:59 final size:60
Alignment explanation
Indices: 6684431--6684584 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 60
6684421 GGTCGAAACA
* * * * * *
6684431 TAATTTT-GATAAAGTTTAGGAG-TCAAATGTAATTTCGAGAAAGTTTCAGGGTTAAAATG
1 TAATTTTAGA-AAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
* *
6684490 TAA-TTTAGAAAAGTTTAGGGGTTTAAATGTAATTTTGA-AAAATATAAGGGTCAAAATG
1 TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
*
6684548 TAATTTTAGAAAAGTTTAGGAGTTAAAATGCAATTTT
1 TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTT
6684585 TTTAAAAAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 33 0.40
59 49 0.60
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (60 bp):
TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
Found at i:6684584 original size:30 final size:28
Alignment explanation
Indices: 6684431--6684584 Score: 157
Period size: 29 Copynumber: 5.2 Consensus size: 28
6684421 GGTCGAAACA
*
6684431 TAATTTTGATAAAGTTTAGGAG-TCAAATG
1 TAATTTTGA-AAAGTTTAGG-GTTAAAATG
*
6684460 TAATTTCGAGAAAGTTTCAGGGTTAAAATG
1 TAATTTTGA-AAAGTTT-AGGGTTAAAATG
* *
6684490 TAATTTAGAAAAGTTTAGGGGTTTAAATG
1 TAATTTTGAAAAGTTTA-GGGTTAAAATG
* * *
6684519 TAATTTTGAAAAATATAAGGGTCAAAATG
1 TAATTTTGAAAAGT-TTAGGGTTAAAATG
6684548 TAATTTTAGAAAAGTTTAGGAGTTAAAATG
1 TAATTTT-GAAAAGTTTAGG-GTTAAAATG
*
6684578 CAATTTT
1 TAATTTT
6684585 TTTAAAAAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.01
29 65 0.62
30 39 0.37
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (28 bp):
TAATTTTGAAAAGTTTAGGGTTAAAATG
Done.