Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 104 of 143
Found at i:31913996 original size:23 final size:24
Alignment explanation
Indices: 31913970--31914027 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
31913960 TTATAATAAT
31913970 TTTAAATTCAAA-TTAAATTTAAA
1 TTTAAATTCAAATTTAAATTTAAA
* *
31913993 TTTAAATTTAAATTTAATTTTAAA
1 TTTAAATTCAAATTTAAATTTAAA
*
31914017 -ATAAATTCAAA
1 TTTAAATTCAAA
31914028 ATGGTTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAATTCAAATTTAAATTTAAA
Found at i:31914003 original size:18 final size:17
Alignment explanation
Indices: 31913957--31914023 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
31913947 TATTTTACTG
*
31913957 AATTTATAA-TAATTTTA
1 AATTTA-AATTAAATTTA
*
31913974 AATTCAAATTAAATTTA
1 AATTTAAATTAAATTTA
31913991 AATTTAAATTTAAATTTA
1 AATTTAAA-TTAAATTTA
* *
31914009 ATTTTAAAATAAATT
1 AATTTAAATTAAATT
31914024 CAAAATGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
16 2 0.05
17 25 0.58
18 16 0.37
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:31914029 original size:11 final size:11
Alignment explanation
Indices: 31913971--31914023 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
31913961 TATAATAATT
*
31913971 TTAAATTCAAA
1 TTAAATTTAAA
31913982 TTAAATTTAAA
1 TTAAATTTAAA
31913993 TTTAAATTTAAA
1 -TTAAATTTAAA
*
31914005 TTTAATTTTAAA
1 -TTAAATTTAAA
*
31914017 ATAAATT
1 TTAAATT
31914024 CAAAATGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 15 0.41
12 22 0.59
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:31914971 original size:100 final size:100
Alignment explanation
Indices: 31914834--31915652 Score: 1022
Period size: 100 Copynumber: 8.2 Consensus size: 100
31914824 CCGCCATCTC
* * * *
31914834 ATCTTAGATCCTTTCC-TTCCTGTTTCTGAGGTACACGGTTCGCCGTTGCGACTTAGACTTTTCC
1 ATCTTAGAT-CTTTCCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
* * * * * *
31914898 CTTTTGTATCTTTGCGGTACTGGATCTGTCGTCGCG
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * *
31914934 ATCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGACTTAGGCCTTTCCC
1 ATCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCC
*
31914999 TGTTGTGTTTTTGCGGTACTGGATCTACCATTGCG
66 TGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * * * *
31915034 GTCTTAAATCTTTCGC-TTCATGCTTCTGAGGTACACGGTCCGCCCTTGCGACTTAGACATTTCC
1 ATCTTAGATCTTTC-CTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
*
31915098 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCT
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * *
31915134 ATCTTAGATCTTTCCCTTT-GTGCTTCTAAGGTACACGGTCAGCCGTTACGACTTAGACCTTTCC
1 ATCTTAGATCTTT-CCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
* *
31915198 CTGTTGTGTTTTTGCGGTACTAGATCTACCATTGCG
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* *
31915234 GTCTTAGATCTTTCCCTTT-GTGCTTCTGAGGTACACGGTCTGCCGTTGCGACTTAGACCTTTCC
1 ATCTTAGATCTTT-CCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
* * ** * *
31915298 CTTTTGTGTGTCGGCGATACTGGATCTGCCATTG-T
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * ** * *
31915333 AGTATTAGATCTTTCCCTTAATACTTCTGAGGTACATGGTCCGCCGTTGCGACTTAGACCTTTCC
1 A-TCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
* *
31915398 CTGTTGTGTTTTTACGGTACTGGATCTGCCATTACG
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * *
31915434 GTCTTAGACCTTTCTCTTT-GTGCTTCTGAGGTACACGATCCGCCGTTGCGACTTAGACCTTTCC
1 ATCTTAGATCTTTC-CTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCC
* * **
31915498 CTTTTGTGTTTTGGCGGTACTGGATCTGCTGTTGCG
65 CTGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
* * * * * *
31915534 GTCTTAGATCTTTCCCTTCATGCTTCTGAGGTATACGGTCCGCCCTTGCGACTTATACCTTTCCC
1 ATCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCC
*
31915599 TGTTATGTTTTTGCGGTACTGGATCTGCCATTGC-
66 TGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
31915633 AGTCTTAGATCTTTTCCTTT
1 A-TCTTAGATC-TTTCCTTT
31915653 GTATTTCATG
Statistics
Matches: 620, Mismatches: 88, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
99 13 0.02
100 593 0.96
101 14 0.02
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (100 bp):
ATCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCC
TGTTGTGTTTTTGCGGTACTGGATCTGCCATTGCG
Found at i:31914979 original size:50 final size:49
Alignment explanation
Indices: 31914836--31915297 Score: 161
Period size: 50 Copynumber: 9.3 Consensus size: 49
31914826 GCCATCTCAT
* * *
31914836 CTTAGATCCTTTCC-TTCCTGTTTCTGAGGTACACGGTTCGCCGTTGCGA
1 CTTAGAT-CTTTCCTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGA
* * * * * *
31914885 CTTAGA-CTTTTCCCTTTTGTATCTT-TGCGGTAC-TGGATCTGTCGTCGCGA
1 CTTAGATC-TTT-CCTTTCGT-GCTTCTGAGGTACACGGTTC-GTCGTTGCGA
31914935 TCTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGA
1 -CTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGA
** * * * * * * *
31914985 CTTAGGCCTTTCCCTGTT-GTGTTTTTGCGGTAC-TGGATC-TACCATTGCGGT
1 CTTAGATCTTT-CCT-TTCGTGCTTCTGAGGTACACGGTTCGT--CGTTGC-GA
* * * * *
31915036 CTTAAATCTTTCGC-TTCATGCTTCTGAGGTACACGGTCCGCCCTTGCGA
1 CTTAGATCTTTC-CTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGA
* * * * * * * *
31915085 CTTAGA-CATTTCCCTGTT-GTGTTTTTGCGGTAC-TGGATCTGCCATTGCTA
1 CTTAGATC-TTT-CCT-TTCGTGCTTCTGAGGTACACGGTTC-GTCGTTGCGA
* * *
31915135 TCTTAGATCTTTCCCTTT-GTGCTTCTAAGGTACACGG-TCAGCCGTTACGA
1 -CTTAGATCTTT-CCTTTCGTGCTTCTGAGGTACACGGTTC-GTCGTTGCGA
* * * * * * *
31915185 CTTAGACCTTTCCCTGTT-GTGTTTTTGCGGTACTA--GATC-TACCATTGCGGT
1 CTTAGATCTTT-CCT-TTCGTGCTTCTGAGGTAC-ACGGTTCGT--CGTTGC-GA
*
31915236 CTTAGATCTTTCCCTTT-GTGCTTCTGAGGTACACGG-TCTGCCGTTGCGA
1 CTTAGATCTTT-CCTTTCGTGCTTCTGAGGTACACGGTTC-GTCGTTGCGA
*
31915285 CTTAGACCTTTCC
1 CTTAGATCTTTCC
31915298 CTTTTGTGTG
Statistics
Matches: 304, Mismatches: 73, Indels: 73
0.68 0.16 0.16
Matches are distributed among these distances:
47 1 0.00
48 7 0.02
49 70 0.23
50 160 0.53
51 64 0.21
52 2 0.01
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (49 bp):
CTTAGATCTTTCCTTTCGTGCTTCTGAGGTACACGGTTCGTCGTTGCGA
Found at i:31927303 original size:29 final size:29
Alignment explanation
Indices: 31927271--31927362 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
31927261 GAAATTGAGA
31927271 TAAAAACGAGATTTTGGAAAGTTCGAGGG
1 TAAAAACGAGATTTTGGAAAGTTCGAGGG
** *
31927300 TAAAATGGTA-ATTTTAGGAAA-ATC-AGGG
1 TAAAAACG-AGATTTT-GGAAAGTTCGAGGG
*
31927328 TCAAAAATG-GAATTTTGGAAAGTTCGAGGG
1 T-AAAAACGAG-ATTTTGGAAAGTTCGAGGG
31927358 TAAAA
1 TAAAA
31927363 TGGTAATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
28 10 0.20
29 29 0.58
30 11 0.22
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.26
Consensus pattern (29 bp):
TAAAAACGAGATTTTGGAAAGTTCGAGGG
Found at i:31927370 original size:29 final size:28
Alignment explanation
Indices: 31927281--31927668 Score: 205
Period size: 29 Copynumber: 13.5 Consensus size: 28
31927271 TAAAAACGAG
31927281 ATTTTGGAAAGTTCGAGGGTAAAATGGTA
1 ATTTTGGAAAGTTC-AGGGTAAAATGGTA
*
31927310 ATTTTAGGAAA-ATCAGGGTCAAAAATGG-A
1 ATTTT-GGAAAGTTCAGGGT--AAAATGGTA
31927339 ATTTTGGAAAGTTCGAGGGTAAAATGGTA
1 ATTTTGGAAAGTTC-AGGGTAAAATGGTA
**
31927368 ATTTTGGTGA-TATCAGGGGTAAAATGG-A
1 ATTTTGGAAAGT-TCA-GGGTAAAATGGTA
* * *
31927396 ATTTTAGAGAGTTTAGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCA-GGGTAAAATGGTA
* *
31927425 ATTTTGGTGAAA--TCAAGGTTAAAAAT-GAA
1 ATTTT-G-GAAAGTTC-AGGGT-AAAATGGTA
* **
31927454 ATTTTAGAAAGTTTGGGGGTAAAATGGTA
1 ATTTTGGAAAG-TTCAGGGTAAAATGGTA
* *
31927483 ATTTTGGTAAA-ATCAGGGTTAAAAATAG-A
1 ATTTTGG-AAAGTTCAGGG-T-AAAATGGTA
* *
31927512 ATTTTAGAAAGTTCAGGGGTAAAATGATA
1 ATTTTGGAAAGTTCA-GGGTAAAATGGTA
* **
31927541 ATTTTGGTGAAA--TCGAGGTTAAAAAT-AAA
1 ATTTT-G-GAAAGTTC-AGGGT-AAAATGGTA
*
31927570 ATTTTAGAAAGTTCAGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCA-GGGTAAAATGGTA
*
31927599 ATTTTGGTGAAA-TT-AGGGTTAAAAT-GAA
1 ATTTT-G-GAAAGTTCAGGG-TAAAATGGTA
* * *
31927627 ATTTTAGAAAGTTTAGGGGTAAAAAT-ATA
1 ATTTTGGAAAGTTCA-GGGT-AAAATGGTA
*
31927656 ATTTTAGAAAGTT
1 ATTTTGGAAAGTT
31927669 TTGGGGTTAA
Statistics
Matches: 282, Mismatches: 38, Indels: 78
0.71 0.10 0.20
Matches are distributed among these distances:
26 4 0.01
27 10 0.04
28 77 0.27
29 136 0.48
30 44 0.16
31 11 0.04
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (28 bp):
ATTTTGGAAAGTTCAGGGTAAAATGGTA
Found at i:31927534 original size:173 final size:174
Alignment explanation
Indices: 31927243--31927650 Score: 558
Period size: 173 Copynumber: 2.4 Consensus size: 174
31927233 ACTCGAGGGC
* * * * * * *
31927243 AAAATGGTAATTTTGGTCGAAATTGA-GATAAAAACGAGATTTTGGAAAGTTCGAGGGTAAAATG
1 AAAATGGTAATTTTGGT-GAAATTAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGTAAAATG
* * *
31927307 GTAATTTTAGGAAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTT
65 GTAATTTTAGGAAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTT
* ** * *
31927372 TGGTGATATC-AGGGGT-AAAATGGAATTTTAGAGAGTTTAGGGGT
130 TGGTGAAATCGA-GGGTAAAAATAAAATTTTAGAAAGTTCAGGGGT
*
31927416 AAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGTAAAATGG
1 AAAATGGTAATTTTGGTGAAATTAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGTAAAATGG
*
31927481 TAATTTT-GGTAAAATCAGGGTTAAAAATAGAATTTTAGAAAGTTC-AGGGGTAAAATGATAATT
66 TAATTTTAGG-AAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTCGA-GGGTAAAATGATAATT
*
31927544 TTGGTGAAATCGAGGTTAAAAATAAAATTTTAGAAAGTTCAGGGGT
129 TTGGTGAAATCGAGGGTAAAAATAAAATTTTAGAAAGTTCAGGGGT
* *
31927590 AAAATGGTAATTTTGGTGAAATTAGGGTT-AAAATGAAATTTTAGAAAGTTTAGGGGTAAAA
1 AAAATGGTAATTTTGGTGAAATTAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGTAAAA
31927651 ATATAATTTT
Statistics
Matches: 209, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
172 9 0.04
173 148 0.71
174 52 0.25
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (174 bp):
AAAATGGTAATTTTGGTGAAATTAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGTAAAATGG
TAATTTTAGGAAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTTT
GGTGAAATCGAGGGTAAAAATAAAATTTTAGAAAGTTCAGGGGT
Found at i:31927660 original size:57 final size:58
Alignment explanation
Indices: 31927243--31927650 Score: 490
Period size: 58 Copynumber: 7.1 Consensus size: 58
31927233 ACTCGAGGGC
* * * * * * *
31927243 AAAATGGTAATTTTGGTCGAAAT-TGAGATAAAAACGAGATTTTGGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTGGT-GAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAG-GGGT
* * * * *
31927301 AAAATGGTAATTTTAGG-AAAATCAGGGTCAAAAATGGAATTTTGGAAAG-TTCGAGGGT
1 AAAATGGTAATTTT-GGTGAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAG-GGGT
* * * *
31927359 AAAATGGTAATTTTGGTGATATCAGGGGT-AAAATGGAATTTTAGAGAGTTTAGGGGT
1 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGT
* *
31927416 AAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATGAAATTTTAGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGT
* *
31927474 AAAATGGTAATTTTGGTAAAATCAGGGTTAAAAAT-AGAATTTTAGAAAGTTCAGGGGT
1 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGA-AATTTTAGAAAGTTTAGGGGT
* * *
31927532 AAAATGATAATTTTGGTGAAATC-GAGGTTAAAAATAAAATTTTAGAAAGTTCAGGGGT
1 AAAATGGTAATTTTGGTGAAATCAG-GGTTAAAAATGAAATTTTAGAAAGTTTAGGGGT
*
31927590 AAAATGGTAATTTTGGTGAAATTAGGGTT-AAAATGAAATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGT
31927647 AAAA
1 AAAA
31927651 ATATAATTTT
Statistics
Matches: 310, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
57 85 0.27
58 221 0.71
59 4 0.01
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGT
Found at i:31927669 original size:29 final size:29
Alignment explanation
Indices: 31927444--31927748 Score: 141
Period size: 29 Copynumber: 10.5 Consensus size: 29
31927434 AAATCAAGGT
*
31927444 TAAAAATGA-AATTTTAGAAAGTTTGGGGG
1 TAAAAAT-ATAATTTTAGAAAGTTTAGGGG
* * * * *
31927473 T-AAAATGGTAATTTTGGTAAA-ATCAGGGT
1 TAAAAAT-ATAATTTTAG-AAAGTTTAGGGG
* *
31927502 TAAAAATAGAATTTTAGAAAGTTCAGGGG
1 TAAAAATATAATTTTAGAAAGTTTAGGGG
* ** *
31927531 T-AAAATGATAATTTTGGTGAAA-TCGA-GGT
1 TAAAAAT-ATAATTTT--AGAAAGTTTAGGGG
* *
31927560 TAAAAATAAAATTTTAGAAAGTTCAGGGG
1 TAAAAATATAATTTTAGAAAGTTTAGGGG
* *
31927589 T-AAAATGGTAATTTTGGTGAAA--TTA-GGG
1 TAAAAAT-ATAATTTT--AGAAAGTTTAGGGG
*
31927617 TTAAAATGA-AATTTTAGAAAGTTTAGGGG
1 TAAAAAT-ATAATTTTAGAAAGTTTAGGGG
*
31927646 TAAAAATATAATTTTAGAAAGTTTTGGGG
1 TAAAAATATAATTTTAGAAAGTTTAGGGG
* * * *
31927675 TTAAAATGTGATTTTGGAGAAA-TTTA-AGG
1 TAAAAATATAATTTT--AGAAAGTTTAGGGG
* * * * * *
31927704 TTAAAATGTAATTTCAAAGAAGTTTCGAGG
1 TAAAAATATAATTTTAGA-AAGTTTAGGGG
*
31927734 TTAAAATATAATTTT
1 TAAAAATATAATTTT
31927749 TAAATAGTAT
Statistics
Matches: 213, Mismatches: 40, Indels: 45
0.71 0.13 0.15
Matches are distributed among these distances:
26 4 0.02
27 6 0.03
28 37 0.17
29 119 0.56
30 34 0.16
31 13 0.06
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (29 bp):
TAAAAATATAATTTTAGAAAGTTTAGGGG
Found at i:31929628 original size:11 final size:11
Alignment explanation
Indices: 31929614--31929659 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
31929604 TATAATAATT
31929614 TTAAATTCAAA
1 TTAAATTCAAA
31929625 TTAAATTCAAA
1 TTAAATTCAAA
*
31929636 TTTAAATTTTAAA
1 -TTAAA-TTCAAA
*
31929649 ATAAATTCAAA
1 TTAAATTCAAA
31929660 ATGATTTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.53
12 9 0.30
13 5 0.17
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
TTAAATTCAAA
Found at i:31929637 original size:24 final size:24
Alignment explanation
Indices: 31929613--31929659 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31929603 TTATAATAAT
*
31929613 TTTAAA-TTCAAATTAAATTCAAA
1 TTTAAATTTCAAAATAAATTCAAA
*
31929636 TTTAAATTTTAAAATAAATTCAAA
1 TTTAAATTTCAAAATAAATTCAAA
31929660 ATGATTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAATTTCAAAATAAATTCAAA
Found at i:31931542 original size:30 final size:30
Alignment explanation
Indices: 31931508--31931565 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
31931498 CTGGGGATTG
*
31931508 ATATG-TGTAATATAGGGTATGAAAATGATA
1 ATATGATG-AATACAGGGTATGAAAATGATA
*
31931538 ATATGAATGATTACAGGGTATGAAAATG
1 ATATG-ATGAATACAGGGTATGAAAATG
31931566 CAAATGTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.21
31 17 0.71
32 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (30 bp):
ATATGATGAATACAGGGTATGAAAATGATA
Found at i:31931582 original size:31 final size:29
Alignment explanation
Indices: 31931521--31931621 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 29
31931511 TGTGTAATAT
*
31931521 AGGGTATGAAAATG-ATAATATGAATGATTAC
1 AGGGTATGAAAATGCA-AATGTGAA--ATTAC
31931552 AGGGTATGAAAATGCAAATGTGACCAATTAC
1 AGGGTATGAAAATGCAAATGTGA--AATTAC
* ** *
31931583 AAGGTAT-ATTATGCAAATGTGAAAGGTAC
1 AGGGTATGAAAATGCAAATGTGAAA-TTAC
31931612 AGGGTATGAA
1 AGGGTATGAA
31931622 TATGTTAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
28 2 0.03
29 9 0.16
30 14 0.24
31 31 0.53
32 1 0.02
33 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (29 bp):
AGGGTATGAAAATGCAAATGTGAAATTAC
Found at i:31947885 original size:16 final size:15
Alignment explanation
Indices: 31947834--31947898 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
31947824 ATTAGGTTTA
31947834 TTAAAATTAAAAATT
1 TTAAAATTAAAAATT
* *
31947849 CT-AAATT-TAAATT
1 TTAAAATTAAAAATT
**
31947862 CAAAAATTAAAAATAT
1 TTAAAATTAAAAAT-T
*
31947878 TTAAAATTAAATATT
1 TTAAAATTAAAAATT
31947893 TTAAAA
1 TTAAAA
31947899 ATACTTTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
13 6 0.15
14 10 0.25
15 12 0.30
16 12 0.30
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAAATTAAAAATT
Found at i:31947899 original size:16 final size:17
Alignment explanation
Indices: 31947863--31947900 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
31947853 ATTTAAATTC
31947863 AAAAATTAAAAATATTT
1 AAAAATTAAAAATATTT
*
31947880 -AAAATTAAATAT-TTT
1 AAAAATTAAAAATATTT
31947895 AAAAAT
1 AAAAAT
31947901 ACTTTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATTAAAAATATTT
Found at i:31948051 original size:17 final size:18
Alignment explanation
Indices: 31948009--31948044 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
31947999 CCAAAAAAAA
*
31948009 ATATTTTCAAAATTATAT
1 ATATTTTTAAAATTATAT
31948027 ATATTTTTAAAA-TATAT
1 ATATTTTTAAAATTATAT
31948044 A
1 A
31948045 CTTTTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTTTTAAAATTATAT
Found at i:31953887 original size:48 final size:48
Alignment explanation
Indices: 31953834--31953934 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
31953824 TCTATTCTTA
*
31953834 AAAATTCTAATCTTTTTGTATATCAACTGCCCCTTTTAAAGCCAAAAT
1 AAAATTCTAATATTTTTGTATATCAACTGCCCCTTTTAAAGCCAAAAT
** *
31953882 AAAATTCTAATATTTTTGTATATCAACTGTTCTTTTTAAAGCCAAAAT
1 AAAATTCTAATATTTTTGTATATCAACTGCCCCTTTTAAAGCCAAAAT
31953930 AAAAT
1 AAAAT
31953935 GTTACCTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.40
Consensus pattern (48 bp):
AAAATTCTAATATTTTTGTATATCAACTGCCCCTTTTAAAGCCAAAAT
Found at i:31958214 original size:11 final size:11
Alignment explanation
Indices: 31958198--31958240 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
31958188 AAAAAATTAA
31958198 TTTAAATTTAT
1 TTTAAATTTAT
31958209 TTTAAATTTA-
1 TTTAAATTTAT
* *
31958219 TTTATATTATTT
1 TTTAAATT-TAT
31958231 TTTAAATTTA
1 TTTAAATTTA
31958241 AAAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.27
11 12 0.46
12 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:31958215 original size:21 final size:22
Alignment explanation
Indices: 31958191--31958238 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
31958181 TATTTGTAAA
31958191 AAATTAATTTAAATT-TATTTT
1 AAATTAATTTAAATTATATTTT
* * *
31958212 AAATTTATTTATATTATTTTTT
1 AAATTAATTTAAATTATATTTT
31958234 AAATT
1 AAATT
31958239 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATTAATTTAAATTATATTTT
Found at i:31958298 original size:24 final size:24
Alignment explanation
Indices: 31958255--31958311 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
31958245 AAATATTTAT
* * *
31958255 ATTATATTATTTTATAATTTTATA
1 ATTATTTTATTTAATAATTTTAAA
* *
31958279 ATTTTTTTATTTAATTATTTTAAA
1 ATTATTTTATTTAATAATTTTAAA
31958303 ATTATTTTA
1 ATTATTTTA
31958312 ATGTTTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTATTTTATTTAATAATTTTAAA
Found at i:31959419 original size:11 final size:11
Alignment explanation
Indices: 31959371--31959419 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
31959361 TCAGCAAAAA
31959371 AAAATTATTTT
1 AAAATTATTTT
*
31959382 AAAAATATTTT
1 AAAATTATTTT
*
31959393 AAAATTAATTT
1 AAAATTATTTT
31959404 AAAATTATTTT
1 AAAATTATTTT
*
31959415 TAAAT
1 AAAAT
31959420 ATAAAGTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:31960121 original size:12 final size:12
Alignment explanation
Indices: 31960104--31960146 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
31960094 ACCCTAAACA
31960104 GAAAGGGAAGGG
1 GAAAGGGAAGGG
31960116 GAAAGGGAAAGGG
1 GAAAGGG-AAGGG
*
31960129 GGAAGGGAAGGG
1 GAAAGGGAAGGG
*
31960141 GGAAGG
1 GAAAGG
31960147 TAACAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GAAAGGGAAGGG
Found at i:31960129 original size:13 final size:13
Alignment explanation
Indices: 31960104--31960144 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31960094 ACCCTAAACA
31960104 GAAAGGG-AAGGG
1 GAAAGGGAAAGGG
31960116 GAAAGGGAAAGGG
1 GAAAGGGAAAGGG
* *
31960129 GGAAGGGAAGGGG
1 GAAAGGGAAAGGG
31960142 GAA
1 GAA
31960145 GGTAACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (13 bp):
GAAAGGGAAAGGG
Found at i:31960262 original size:38 final size:37
Alignment explanation
Indices: 31960183--31960267 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 37
31960173 ATGATGATGA
* * *
31960183 TTTAATAATTTTATATTTTAAATTAATTTTAAAATAGT
1 TTTAATAATTTTATATTTAAAAATAATTTT-AAATAAT
31960221 TTTAATAATTTTATATTTAAAAAAATAATTTT-AATAAT
1 TTTAATAATTTTATATTT--AAAAATAATTTTAAATAAT
31960259 TTTAA-AATT
1 TTTAATAATT
31960268 ATTTGTTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 4 0.10
38 28 0.67
40 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTAATAATTTTATATTTAAAAATAATTTTAAATAAT
Found at i:31960265 original size:20 final size:18
Alignment explanation
Indices: 31960186--31960271 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 18
31960176 ATGATGATTT
31960186 AATAATTTTATATTTTAA
1 AATAATTTTATATTTTAA
*
31960204 ATTAATTTTAAAATAGTTTT--
1 AATAATTTT---ATA-TTTTAA
*
31960224 AATAATTTTATATTTAAAAA
1 AATAATTTTATATTT--TAA
31960244 AATAATTTTAATAATTTTAA
1 AATAATTTT-AT-ATTTTAA
*
31960264 AATTATTT
1 AATAATTT
31960272 GTTGACGTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 8 0.15
20 26 0.49
21 5 0.09
22 8 0.15
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (18 bp):
AATAATTTTATATTTTAA
Found at i:31960704 original size:9 final size:9
Alignment explanation
Indices: 31960687--31960718 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
31960677 TTTAGGGCAT
31960687 AAAAAGAAG
1 AAAAAGAAG
*
31960696 AAGAAGAAG
1 AAAAAGAAG
31960705 AAAAAGAAG
1 AAAAAGAAG
31960714 AAAAA
1 AAAAA
31960719 TGGATATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:31961069 original size:16 final size:16
Alignment explanation
Indices: 31961048--31961078 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31961038 TTTTGTTGGT
31961048 TGTTACTTCTCATGGC
1 TGTTACTTCTCATGGC
31961064 TGTTACTTCTCATGG
1 TGTTACTTCTCATGG
31961079 TTGCTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTTACTTCTCATGGC
Found at i:31961895 original size:21 final size:21
Alignment explanation
Indices: 31961871--31961919 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
31961861 CCATTTGCAA
31961871 CTGAGTTGTGCTGCTCACTTG
1 CTGAGTTGTGCTGCTCACTTG
*
31961892 CTGAGATGTGCTGCTCACTTG
1 CTGAGTTGTGCTGCTCACTTG
31961913 CTGAGTT
1 CTGAGTT
31961920 TCGGTCCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.22, G:0.29, T:0.37
Consensus pattern (21 bp):
CTGAGTTGTGCTGCTCACTTG
Found at i:31963461 original size:2 final size:2
Alignment explanation
Indices: 31963454--31963501 Score: 87
Period size: 2 Copynumber: 23.5 Consensus size: 2
31963444 ATTATTATTA
31963454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31963496 GAT AT A
1 -AT AT A
31963502 AAAGAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31963856 original size:38 final size:39
Alignment explanation
Indices: 31963783--31963857 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
31963773 AAGTTAGCAT
*
31963783 TGATAAAGGGATTAAATTGTAAAAGAAGCTATAAATTTTG
1 TGATAAAGGGATTAAATTG-AAAAGAAACTATAAATTTTG
* * *
31963823 TGATAGAGGGATTAAATTG-AAAGAAATTTTAAATT
1 TGATAAAGGGATTAAATTGAAAAGAAACTATAAATT
31963858 AGGGTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.42
40 18 0.58
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.33
Consensus pattern (39 bp):
TGATAAAGGGATTAAATTGAAAAGAAACTATAAATTTTG
Found at i:31970664 original size:2 final size:2
Alignment explanation
Indices: 31970657--31970704 Score: 87
Period size: 2 Copynumber: 23.5 Consensus size: 2
31970647 TTATTAATTA
31970657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31970699 GAT AT A
1 -AT AT A
31970705 AAAGAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31975747 original size:28 final size:26
Alignment explanation
Indices: 31975686--31975749 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 26
31975676 AAATTGTCAT
*
31975686 TTAAATTATAAAATTACTAATAGTTTA
1 TTAAATTATAAAATTACTAATA-TTAA
31975713 TTAAATTATAAAATTTACTAAT-TTAA
1 TTAAATTATAAAA-TTACTAATATTAA
31975739 TTCAGAATTAT
1 TT-A-AATTAT
31975750 TAGTACCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 5 0.15
27 14 0.42
28 14 0.42
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (26 bp):
TTAAATTATAAAATTACTAATATTAA
Found at i:32008501 original size:2 final size:2
Alignment explanation
Indices: 32008494--32008519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32008484 GAGCATACAA
32008494 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32008520 TATGAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32009397 original size:83 final size:82
Alignment explanation
Indices: 32009308--32009462 Score: 283
Period size: 83 Copynumber: 1.9 Consensus size: 82
32009298 TCATGTCAAC
32009308 ACACAAAATTCTCTTAGTTCAAAATTTTCAATCATATTCAACGTATTAAATAAAAAAATTCAACT
1 ACACAAAATTCTCTTAGTTCAAAATTTTCAATCATATTCAACGTATTAAAT-AAAAAATTCAACT
32009373 AAAGAAATCACTTGTGCA
65 AAAGAAATCACTTGTGCA
* *
32009391 ACACAAAATTCTCTTAGTTCAAAATTTTCAATCATGTTCAATGTATTAAATAAAAAATTCAACTA
1 ACACAAAATTCTCTTAGTTCAAAATTTTCAATCATATTCAACGTATTAAATAAAAAATTCAACTA
32009456 AAGAAAT
66 AAGAAAT
32009463 TACTCGGCAA
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 21 0.30
83 49 0.70
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (82 bp):
ACACAAAATTCTCTTAGTTCAAAATTTTCAATCATATTCAACGTATTAAATAAAAAATTCAACTA
AAGAAATCACTTGTGCA
Found at i:32022315 original size:19 final size:18
Alignment explanation
Indices: 32022275--32022323 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
32022265 AGACCAAACC
32022275 AAACACAAAAACCAGAAA
1 AAACACAAAAACCAGAAA
*
32022293 AAACACAAAAATCTCAG-AT
1 AAACACAAAAA-C-CAGAAA
32022312 AAACACAAAAAC
1 AAACACAAAAAC
32022324 AGAGACGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.43
19 13 0.46
20 3 0.11
ACGTcount: A:0.67, C:0.22, G:0.04, T:0.06
Consensus pattern (18 bp):
AAACACAAAAACCAGAAA
Found at i:32027237 original size:17 final size:18
Alignment explanation
Indices: 32027215--32027254 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
32027205 TATTTTATTT
* *
32027215 AAAATGACTAAATTAA-A
1 AAAATGACCAAAATAATA
32027232 AAAATGACCAAAATAATA
1 AAAATGACCAAAATAATA
32027250 AAAAT
1 AAAAT
32027255 CTTATCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAATGACCAAAATAATA
Found at i:32031329 original size:15 final size:15
Alignment explanation
Indices: 32031309--32031349 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
32031299 TAAAAACATA
*
32031309 AAAAAAATGAAATTT
1 AAAAAAATAAAATTT
32031324 AAAAAAATAAAATTT
1 AAAAAAATAAAATTT
32031339 ATAAGAAAATA
1 A-AA-AAAATA
32031350 TTAGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
16 2 0.09
17 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
AAAAAAATAAAATTT
Found at i:32031386 original size:20 final size:19
Alignment explanation
Indices: 32031323--32031387 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
32031313 AAATGAAATT
*
32031323 TAAAAAAATAAAATTTATA
1 TAAAAATATAAAATTTATA
* *
32031342 -AGAAAATATTAGAAATTAATT
1 TA-AAAATA-TA-AAATTTATA
32031363 TAAAAATCATAAAATTTATA
1 TAAAAAT-ATAAAATTTATA
32031383 TAAAA
1 TAAAA
32031388 CAATTTCCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 14 0.39
21 14 0.39
22 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAAATATAAAATTTATA
Found at i:32032166 original size:30 final size:31
Alignment explanation
Indices: 32032131--32032199 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
32032121 CACGTTTTTT
*
32032131 TAATTTGGCATTT-AAATT-ATATTTTTAGCC
1 TAATTTGGCATTTGAAATTGACATTTTT-GCC
* * *
32032161 TAATTTGGTATTTGAACTTGACATTTTTTCC
1 TAATTTGGCATTTGAAATTGACATTTTTGCC
32032192 TAATTTGG
1 TAATTTGG
32032200 TACCTAAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 12 0.36
31 14 0.42
32 7 0.21
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (31 bp):
TAATTTGGCATTTGAAATTGACATTTTTGCC
Found at i:32032890 original size:12 final size:12
Alignment explanation
Indices: 32032873--32032898 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32032863 TATTTATTTA
32032873 TTTATAATAATT
1 TTTATAATAATT
32032885 TTTATAATAATT
1 TTTATAATAATT
32032897 TT
1 TT
32032899 ACAAGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATAATAATT
Found at i:32040222 original size:13 final size:13
Alignment explanation
Indices: 32040204--32040245 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
32040194 TTTGATACTG
32040204 TTTTTACTGTTAT
1 TTTTTACTGTTAT
*
32040217 TTTTTATTGTTA-
1 TTTTTACTGTTAT
*
32040229 TTTTTGCTGTTAT
1 TTTTTACTGTTAT
32040242 TTTT
1 TTTT
32040246 GTTACTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.74
Consensus pattern (13 bp):
TTTTTACTGTTAT
Found at i:32040246 original size:12 final size:12
Alignment explanation
Indices: 32040204--32040245 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
32040194 TTTGATACTG
32040204 TTTTTACTGTTA
1 TTTTTACTGTTA
*
32040216 TTTTTTATTGTTA
1 -TTTTTACTGTTA
*
32040229 TTTTTGCTGTTA
1 TTTTTACTGTTA
32040241 TTTTT
1 TTTTT
32040246 GTTACTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.74
Consensus pattern (12 bp):
TTTTTACTGTTA
Found at i:32040254 original size:24 final size:24
Alignment explanation
Indices: 32040193--32040272 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
32040183 TATTTTTCTG
* * *
32040193 TTTTGATACTGTTTTTACTGTTATT
1 TTTTGTTACTATTTTTGCTGTTA-T
* **
32040218 TTTTATTGTTATTTTTGCTGTTAT
1 TTTTGTTACTATTTTTGCTGTTAT
*
32040242 TTTTGTTACTATTTTTGTTGTT-T
1 TTTTGTTACTATTTTTGCTGTTAT
32040265 TTGTTGTT
1 TT-TTGTT
32040273 GTTTTGCAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 3 0.07
24 24 0.55
25 17 0.39
ACGTcount: A:0.11, C:0.05, G:0.14, T:0.70
Consensus pattern (24 bp):
TTTTGTTACTATTTTTGCTGTTAT
Found at i:32043318 original size:15 final size:15
Alignment explanation
Indices: 32043298--32043336 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
32043288 ACACATCAAA
*
32043298 CAAGAATTAATATAT
1 CAAGAATTAATAAAT
*
32043313 CAAGAA-TACTAAAT
1 CAAGAATTAATAAAT
32043327 CAAGAATTAA
1 CAAGAATTAA
32043337 GCACACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTAATAAAT
Found at i:32043769 original size:25 final size:25
Alignment explanation
Indices: 32043716--32043761 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
32043706 GTTGGATCTA
32043716 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
32043741 AATTAAA-TCTAAACA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
32043762 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:32046974 original size:4 final size:4
Alignment explanation
Indices: 32046967--32047010 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
32046957 CTACTAACTC
32046967 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
32047011 CGAACAGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:32047070 original size:3 final size:3
Alignment explanation
Indices: 32047062--32047099 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
32047052 TAGTTTACTC
32047062 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32047100 AGAGAAGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32048716 original size:6 final size:6
Alignment explanation
Indices: 32048698--32048805 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
32048688 TTAAATTGAT
* * *
32048698 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAAA TTAAATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A
* ** *
32048745 TTTAAA TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
32048793 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
32048806 AGTCCAAATG
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 50 0.60
7 21 0.25
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:32048728 original size:17 final size:17
Alignment explanation
Indices: 32048698--32048774 Score: 77
Period size: 17 Copynumber: 4.4 Consensus size: 17
32048688 TTAAATTGAT
32048698 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
32048714 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
32048731 TTTAAAATTAAATATTTAAA
1 TTT-AAATT-TAT-TTTAAA
*
32048751 TTT-AATTTGAATTTAAA
1 TTTAAATTT-ATTTTAAA
32048768 TTTAAAT
1 TTTAAAT
32048775 AAAAATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.18
17 18 0.36
18 12 0.24
19 2 0.04
20 9 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:32048763 original size:11 final size:11
Alignment explanation
Indices: 32048688--32048774 Score: 61
Period size: 11 Copynumber: 7.5 Consensus size: 11
32048678 GACTCTTGAG
* *
32048688 TTAAATTGATT
1 TTAAATTTAAT
32048699 TTAAATTT-AT
1 TTAAATTTAAT
32048709 TTAAATTTAGAT
1 TTAAATTTA-AT
*
32048721 TT-ATTTTAAAT
1 TTAAATTT-AAT
*
32048732 TTAAAATTAAATAT
1 TT-AAATT-TA-AT
32048746 TTAAATTTAAT
1 TTAAATTTAAT
*
32048757 TTGAATTTAAAT
1 TTAAATTT-AAT
32048769 TTAAAT
1 TTAAAT
32048775 AAAAATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
10 9 0.15
11 24 0.40
12 14 0.23
13 9 0.15
14 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:32048795 original size:31 final size:30
Alignment explanation
Indices: 32048725--32048805 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
32048715 TTAGATTTAT
* * *
32048725 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA-TAAAATTAAA
*
32048756 TTTGAATTTAAATTTAAATA-AAAATTAAAA
1 TTTAAATTTAAATTTAAATATAAAATT-AAA
32048786 TATTAAATTTAACATTTAAA
1 T-TTAAATTTAA-ATTTAAA
32048806 AGTCCAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.12
30 3 0.07
31 27 0.64
32 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATATAAAATTAAA
Found at i:32048853 original size:14 final size:14
Alignment explanation
Indices: 32048834--32048872 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
32048824 CATGGCCCAC
32048834 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
32048848 GGCCCAATT--AAG
1 GGCCCAATTACAAA
32048860 GGCCCAATTACAA
1 GGCCCAATTACAA
32048873 TAGTCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:32049492 original size:15 final size:15
Alignment explanation
Indices: 32049472--32049508 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
32049462 AATGACGGTT
*
32049472 ATAATATCAATAATA
1 ATAATAACAATAATA
*
32049487 ATAATAACAGTAATA
1 ATAATAACAATAATA
32049502 ATAATAA
1 ATAATAA
32049509 ATATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAATAACAATAATA
Found at i:32050513 original size:158 final size:162
Alignment explanation
Indices: 32050275--32050589 Score: 446
Period size: 158 Copynumber: 2.0 Consensus size: 162
32050265 CTTTTCAATT
* *
32050275 TAGTCCTTTGACTGTTTGACCGTACCATAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
1 TAGTCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
*
32050340 TTAGTCCTTTCTTA-TTTT-TTTATTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTAC-G
66 TTAGTCCTTTCTTATTTTTATTTATTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACAA
32050400 AATT-GACCCAATAATTTTTCAAGGTTTATAAAC
130 AATTGGACCCAA-AATTTTTCAAGGTTTATAAAC
* * * *
32050433 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATCTTTTTGGATTATTTCTGTA
1 TAGTCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCA-CTTTTTGGATTATTTATGCA
* *
32050498 TTTAGTCCTTT-TTATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACA
65 TTTAGTCCTTTCTTATTTTT-ATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACA
* *
32050562 AAATTGGTCCTAAAATTTTTCAAGGTTT
129 AAATTGGACCCAAAATTTTTCAAGGTTT
32050590 TCAAATGGGT
Statistics
Matches: 138, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
158 43 0.31
159 33 0.24
161 17 0.12
162 17 0.12
163 23 0.17
164 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
TTAGTCCTTTCTTATTTTTATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
ATTGGACCCAAAATTTTTCAAGGTTTATAAAC
Found at i:32050635 original size:162 final size:158
Alignment explanation
Indices: 32050275--32050639 Score: 393
Period size: 158 Copynumber: 2.3 Consensus size: 158
32050265 CTTTTCAATT
* * * * * *
32050275 TAGTCCTTTGACTGTTTGACCGTACCATAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
1 TAGTCCCTTGACTGCTGGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
*
32050340 TTAGTCCTTTCTTATTTTTTTATTTTAATTTAATCCCAAATCAACTTTATTTTAATTACGAATTG
66 TTAGTCCTTTCTTATTTTTTTATTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAATTG
32050405 ACCCAATAATTTTTCAAGGTTTATAAAC
131 ACCCAATAATTTTTCAAGGTTTATAAAC
* * * * * *
32050433 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATCTTTTTGGATTATTTCTGTA
1 TAGTCCCTTGACTGCTGGACTGCACCAGAGGCTGCCACGTGTCA-CTTTTTGGATTATTTATGCA
* *
32050498 TTTAGTCCTTT-TTATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTT-TATTTAATTAC
65 TTTAGTCCTTTCTTA-TTTT--TTTATTTTAATTTAATCC-CAAATCAACTTTAT-TTTAATTAC
* *
32050561 AAAATTGGTCCTAA-AATTTTTCAAGGTTT-TCAAA-
125 -AAATT-GACCCAATAATTTTTCAAGGTTTAT-AAAC
* ** *
32050595 TGGGTCCCTTGACTGCTGGA-TGC-CTGTGGGGCTGCCACGTGTCAC
1 T-AGTCCCTTGACTGCTGGACTGCAC-CAGAGGCTGCCACGTGTCAC
32050640 CCACTCTTTG
Statistics
Matches: 177, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
158 43 0.24
159 33 0.19
161 20 0.11
162 40 0.23
163 36 0.20
164 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (158 bp):
TAGTCCCTTGACTGCTGGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
TTAGTCCTTTCTTATTTTTTTATTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAATTG
ACCCAATAATTTTTCAAGGTTTATAAAC
Found at i:32050715 original size:29 final size:28
Alignment explanation
Indices: 32050683--32050846 Score: 89
Period size: 29 Copynumber: 5.6 Consensus size: 28
32050673 AACAATCCAG
* *
32050683 AAATTATATTTTGATCCC-AAAACTTTTCA
1 AAATTACATTTT-AACCCTAAAAC-TTTCA
32050712 AAATTACATTTTAACCCTAAAACTTTCAA
1 AAATTACATTTTAACCCTAAAACTTTC-A
* * * *
32050741 AAATTACCATTTTACCCCCCAAATCTTTTA
1 AAATTA-CATTTTA-ACCCTAAAACTTTCA
* * ** **
32050771 AAATTCCATTTTTAACCCCGATTAC-ACCA
1 AAATTACA-TTTTAA-CCCTAAAACTTTCA
* * *
32050800 AAATTACCATTTTATCCCTGAAACTTCCA
1 AAATTA-CATTTTAACCCTAAAACTTTCA
*
32050829 AAATTCCATTTCTAACCC
1 AAATTACATTT-TAACCC
32050847 CGATTTCACC
Statistics
Matches: 102, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
28 18 0.18
29 49 0.48
30 25 0.25
31 10 0.10
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAAAACTTTCA
Found at i:32051055 original size:59 final size:59
Alignment explanation
Indices: 32050738--32051055 Score: 458
Period size: 59 Copynumber: 5.4 Consensus size: 59
32050728 CTAAAACTTT
* * * *
32050738 CAAAAATTACCATTTTACCCCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTACAC
1 CAAAAATTACCATTTTA-CCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* * * * *
32050798 C-AAAATTACCATTTTATCCCTGAAACTTCCAAAATTCCATTTCTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* *
32050856 CGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTTCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* ** * * *
32050915 CAAAAATTACCATTTTACCCCCAAAGCTTCTAAAATTCTGTTTTCAACCCCGTTTTCAT
1 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
*
32050974 CAAAAATTACCATTTTGCCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
32051033 CAAAAATTACCATTTTACCCCCG
1 CAAAAATTACCATTTTACCCCCG
32051056 GGTATCCATA
Statistics
Matches: 227, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
58 35 0.15
59 191 0.84
60 1 0.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:32051076 original size:118 final size:117
Alignment explanation
Indices: 32050737--32051093 Score: 427
Period size: 118 Copynumber: 3.0 Consensus size: 117
32050727 CCTAAAACTT
* * * *
32050737 TCAAAAATTACCATTTTACCCCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTACACC-AA
1 TCAAAAATTACCATTTTA-CCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAA
* * * *
32050801 AATTACCATTTTA-TCCCTGAAACTTCCAAAATTCC-ATTTCTAACCCCGATTTCA
65 AATTACCATTTTACCCCCAGATA--TCCAAAATTCCGTTTTC-AACCCCGATTTCA
* * *
32050855 CCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTTCATTTTTAACCCCGATTTCACCAAAA
1 TCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
32050920 ATTACCATTTTACCCCCAAAGCT-TCTAAAATTCTGTTTTCAACCCCGTTTTCA
66 ATTACCATTTTACCCCC--AGATATCCAAAATTCCGTTTTCAACCCCGATTTCA
*
32050973 TCAAAAATTACCATTTTGCCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAA
1 TCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
32051038 ATTACCATTTTACCCCCGGGTATCCATAAGTCCCGTTTTTC-ACCCCGATTTCA
66 ATTACCATTTTACCCCCAGATATCCA-AAATTCCG-TTTTCAACCCCGATTTCA
32051091 TCA
1 TCA
32051094 TTTATCGATA
Statistics
Matches: 205, Mismatches: 26, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
116 2 0.01
117 41 0.20
118 149 0.73
119 12 0.06
121 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (117 bp):
TCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCCAGATATCCAAAATTCCGTTTTCAACCCCGATTTCA
Found at i:32052409 original size:63 final size:63
Alignment explanation
Indices: 32052322--32052542 Score: 261
Period size: 62 Copynumber: 3.6 Consensus size: 63
32052312 TTTGTCAGAT
** * * *
32052322 AAAAAATTC-AATTTTTTTGGTGTTGATCATTTTAAGACAGACACCATCTTTTTAATCTGATA
1 AAAAAATTCAAATTTTTTTGGTGTTGATCATTGCATGGCAGACACCACCTTTTTAATCTGATA
* * ** * *
32052384 AAAAAATTCAATTTTTTTTTGTGTTGCCCATTGCATGGTAGACACCACCTTTTTAATCTGA-C
1 AAAAAATTCAAATTTTTTTGGTGTTGATCATTGCATGGCAGACACCACCTTTTTAATCTGATA
* * * * *
32052446 AAAAAATTTAAATTTTTTTGGTGTTGGTCATTGCATGGCCGACACCACCTATTT-CTCTGATA
1 AAAAAATTCAAATTTTTTTGGTGTTGATCATTGCATGGCAGACACCACCTTTTTAATCTGATA
*
32052508 AAAAAATTCAAATTTTTTTTGTGTTGATCA-TGCAT
1 AAAAAATTCAAATTTTTTTGGTGTTGATCATTGCAT
32052543 TGGCTGATGT
Statistics
Matches: 133, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
61 10 0.08
62 82 0.62
63 41 0.31
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (63 bp):
AAAAAATTCAAATTTTTTTGGTGTTGATCATTGCATGGCAGACACCACCTTTTTAATCTGATA
Found at i:32052622 original size:17 final size:17
Alignment explanation
Indices: 32052597--32052652 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
32052587 TCAACTTTTA
* *
32052597 ATTTAAAATTTTAATTC
1 ATTTTAAATTTGAATTC
*
32052614 ATTTTAAATTTGAATTT
1 ATTTTAAATTTGAATTC
*
32052631 ATTTTAAATTTGAAATC
1 ATTTTAAATTTGAATTC
32052648 ATTTT
1 ATTTT
32052653 GGGTTTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTGAATTC
Found at i:32054634 original size:30 final size:30
Alignment explanation
Indices: 32054600--32054831 Score: 206
Period size: 30 Copynumber: 7.9 Consensus size: 30
32054590 AAACTATCCA
*
32054600 AAAATTGTATTTTAACCCTAAAACTTTTTT
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* *
32054630 AAAATTATATTTTGACCCT-AAACTTCTTT
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* * * * *
32054659 AAAATTATATTTTGACCCCAAAACTCTCTA
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* * * *
32054689 AAAATTACATTTTGA-CCTTAAACTTTTTC
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* *
32054718 AAAATTATATTTTAACCCCAAAAC-TTTCT
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* * * *
32054747 ATAAATTACATTTTGACCCTTAAACTTTTCT
1 A-AAATTATATTTTAACCCTAAAACTTTTTT
* * *
32054778 AAAATTATATCTTAACCCCAAAA--TTTCT
1 AAAATTATATTTTAACCCTAAAACTTTTTT
* *
32054806 AAAATTACATTTTATCCCT-AAACTTT
1 AAAATTATATTTTAACCCTAAAACTTT
32054832 CCAAAATTTA
Statistics
Matches: 163, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
27 3 0.02
28 20 0.12
29 55 0.34
30 79 0.48
31 6 0.04
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTATATTTTAACCCTAAAACTTTTTT
Found at i:32054663 original size:59 final size:57
Alignment explanation
Indices: 32054600--32054831 Score: 306
Period size: 59 Copynumber: 4.0 Consensus size: 57
32054590 AAACTATCCA
* * * *
32054600 AAAATTGTATTTTAACCCTAAAACTTTTTTAAAATTATATTTTGACCCTAAACTTCTTT
1 AAAATTATATTTTAACCCCAAAAC-TTTCTAAAATTACATTTTGACCCTAAACTT-TTT
* * *
32054659 AAAATTATATTTTGACCCCAAAACTCTCTAAAAATTACATTTTGACCTTAAACTTTTT
1 AAAATTATATTTTAACCCCAAAACTTTCT-AAAATTACATTTTGACCCTAAACTTTTT
32054717 CAAAATTATATTTTAACCCCAAAACTTTCTATAAATTACATTTTGACCCTTAAACTTTTCT
1 -AAAATTATATTTTAACCCCAAAACTTTCTA-AAATTACATTTTGACCC-TAAACTTTT-T
*
32054778 AAAATTATATCTTAACCCCAAAA-TTTCTAAAATTACATTTT-ATCCCTAAACTTT
1 AAAATTATATTTTAACCCCAAAACTTTCTAAAATTACATTTTGA-CCCTAAACTTT
32054832 CCAAAATTTA
Statistics
Matches: 156, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
57 9 0.06
58 22 0.14
59 93 0.60
60 31 0.20
61 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (57 bp):
AAAATTATATTTTAACCCCAAAACTTTCTAAAATTACATTTTGACCCTAAACTTTTT
Found at i:32054889 original size:59 final size:58
Alignment explanation
Indices: 32054806--32054943 Score: 172
Period size: 58 Copynumber: 2.4 Consensus size: 58
32054796 CAAAATTTCT
* ** * * *
32054806 AAAATTA-CATTTTATCCCT-AAACTTTCCAAAATTTAATTTTTGACCCCGATTTTATCA
1 AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCAATTTTTGA-CCCAATTTCAACA
* *
32054864 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCAATTTCAACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCAATTTTTGACCCAATTTCAACA
32054922 AAAATTACCATTTTACCCTCGA
1 AAAATTACCATTTTACCCTCGA
32054944 GTATCCAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 42 0.60
59 28 0.40
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCAATTTTTGACCCAATTTCAACA
Found at i:32054896 original size:29 final size:29
Alignment explanation
Indices: 32054801--32054943 Score: 72
Period size: 29 Copynumber: 4.9 Consensus size: 29
32054791 AACCCCAAAA
* *
32054801 TTTCTAAAATTA-CATTTTATCCCT-AAAC
1 TTTCCAAAATTACCATTTTA-CCCTCGAAC
**
32054829 TTTCCAAAATTTA--ATTTTTGACCC-CGATT
1 TTTCCAAAA-TTACCA-TTTT-ACCCTCGAAC
*
32054858 TTATCAAAAATTACCATTTTACCCTCGAAC
1 TT-TCCAAAATTACCATTTTACCCTCGAAC
*
32054888 TTTCCAAAA-TCCCATTTTTGA-CC-C-AA-
1 TTTCCAAAATTACCA-TTTT-ACCCTCGAAC
32054914 TTTCAACCAAAATTACCATTTTACCCTCGA
1 TTT---CCAAAATTACCATTTTACCCTCGA
32054944 GTATCCAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
26 3 0.03
27 2 0.02
28 15 0.17
29 44 0.50
30 22 0.25
31 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTCCAAAATTACCATTTTACCCTCGAAC
Found at i:32058534 original size:21 final size:20
Alignment explanation
Indices: 32058510--32058559 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
32058500 AATTTTTTAT
* *
32058510 AATATTTTTTTCTATTTTCGA
1 AATATTTTTATATATTTTC-A
32058531 AATATTTTTATATATTTTCA
1 AATATTTTTATATATTTTCA
32058551 AAT-TTTTTA
1 AATATTTTTA
32058560 AAATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 6 0.22
20 4 0.15
21 17 0.63
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
AATATTTTTATATATTTTCA
Found at i:32058565 original size:20 final size:21
Alignment explanation
Indices: 32058522--32058561 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
32058512 TATTTTTTTC
*
32058522 TATTTTCGAAATATTTTTATA
1 TATTTTCGAAATATTTTTAAA
32058543 TATTTTC-AAAT-TTTTTAAA
1 TATTTTCGAAATATTTTTAAA
32058562 ATATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTTTCGAAATATTTTTAAA
Found at i:32058591 original size:13 final size:13
Alignment explanation
Indices: 32058575--32058599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32058565 TAAAAATCTG
32058575 ATATTTTTTACAA
1 ATATTTTTTACAA
32058588 ATATTTTTTACA
1 ATATTTTTTACA
32058600 TTTTCGAAAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTACAA
Found at i:32058636 original size:59 final size:56
Alignment explanation
Indices: 32058530--32058645 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 56
32058520 TCTATTTTCG
* *
32058530 AAATATTTTTATATATTTTCAAATTTTTTAAAATATAAAAATCTGATATTTTTTAC
1 AAATATTTTTATACATTTTCAAATTTTTTAAAATATAAAAATCTGATACTTTTTAC
*
32058586 AAATATTTTT-TACATTTTCGAAATATTTTTTCACAAATA-AAAAATTTGATACTTTTTAC
1 AAATATTTTTATACATTTTC--AA-ATTTTTT-A-AAATATAAAAATCTGATACTTTTTAC
32058645 A
1 A
32058646 TTTTCGAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
55 8 0.15
56 10 0.19
57 2 0.04
58 7 0.13
59 20 0.38
60 5 0.10
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (56 bp):
AAATATTTTTATACATTTTCAAATTTTTTAAAATATAAAAATCTGATACTTTTTAC
Found at i:32058742 original size:13 final size:13
Alignment explanation
Indices: 32058724--32058748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32058714 TAAAAATCTG
32058724 ATATTTTTTACAA
1 ATATTTTTTACAA
32058737 ATATTTTTTACA
1 ATATTTTTTACA
32058749 TTTTCGAAAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTACAA
Found at i:32059890 original size:24 final size:23
Alignment explanation
Indices: 32059858--32059921 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
32059848 TTATATTTTA
*
32059858 ATTTTAATTTATAATTTCCTGTAT
1 ATTTTAATTT-TAATTTCATGTAT
*
32059882 ATTTTAATTTTAATTTCATTTAT
1 ATTTTAATTTTAATTTCATGTAT
32059905 ATTTTTAATTTT-ATTTC
1 A-TTTTAATTTTAATTTC
32059922 TAATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTAATTTTAATTTCATGTAT
Found at i:32059905 original size:23 final size:23
Alignment explanation
Indices: 32059854--32059921 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
32059844 TCGTTTATAT
*
32059854 TTTA-ATTTTAATTTATAATTTCC
1 TTTATATTTTAATTT-TAATTTCA
*
32059877 TGTATATTTTAATTTTAATTTCA
1 TTTATATTTTAATTTTAATTTCA
32059900 TTTATATTTTTAATTTT-ATTTC
1 TTTATA-TTTTAATTTTAATTTC
32059922 TAATTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.50
24 20 0.50
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (23 bp):
TTTATATTTTAATTTTAATTTCA
Found at i:32059928 original size:24 final size:24
Alignment explanation
Indices: 32059859--32059935 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
32059849 TATATTTTAA
*
32059859 TTTTAATTTATAATTTC-CTGTATA-
1 TTTTAATTT-TAATTTCAAT-TATAT
*
32059883 TTTTAATTTTAATTTCATTTATAT
1 TTTTAATTTTAATTTCAATTATAT
32059907 TTTTAATTTT-ATTTCTAATTATTAT
1 TTTTAATTTTAATTTC-AATTA-TAT
32059932 TTTT
1 TTTT
32059936 TGAATATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
23 16 0.34
24 24 0.51
25 7 0.15
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTTAATTTTAATTTCAATTATAT
Found at i:32060936 original size:61 final size:60
Alignment explanation
Indices: 32060786--32061028 Score: 282
Period size: 62 Copynumber: 4.0 Consensus size: 60
32060776 CGGCTAAGCA
* * * *
32060786 ATGGCTAACACCAAAAAATTT-AATTTTTTT-TCAAATAAAAATGTGGTGTCGGCCAATGC
1 ATGGCCAACACAAAAAAATTTGAATTTTTTTATCAAAT-AAAAGGTGGTGTCGACCAATGC
* *
32060845 ATGGCCAACACAAAAATTATTTGAATTTTTTTATCAGATAGAAAGGTGGTGTCGACC-ATGC
1 ATGGCCAACACAAAAA-AATTTGAATTTTTTTATCAAATA-AAAGGTGGTGTCGACCAATGC
* *
32060906 AATGGTCC-ACACAAAAAAATTT-AATTTTTTTTATCAAATAATAGGTGGTGTCGGCCAATGC
1 -ATGG-CCAACACAAAAAAATTTGAA-TTTTTTTATCAAATAAAAGGTGGTGTCGACCAATGC
* *
32060967 ATGACCAACACCAAAAAAATTTGAATTTTTTTTATCAGATAAAAGGTGGTGTCGACC-ATGC
1 ATGGCCAACA-CAAAAAAATTTGAA-TTTTTTTATCAAATAAAAGGTGGTGTCGACCAATGC
32061028 A
1 A
32061029 AAAAATTTAA
Statistics
Matches: 159, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
59 16 0.10
60 26 0.16
61 52 0.33
62 63 0.40
63 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (60 bp):
ATGGCCAACACAAAAAAATTTGAATTTTTTTATCAAATAAAAGGTGGTGTCGACCAATGC
Found at i:32060989 original size:122 final size:121
Alignment explanation
Indices: 32060793--32061029 Score: 372
Period size: 122 Copynumber: 2.0 Consensus size: 121
32060783 GCAATGGCTA
* * *
32060793 ACACCAAAAAATTTAATTTTTTTTCAAATAAAAATGTGGTGTCGGCCAATGCATGGCCAACACAA
1 ACACAAAAAAATTTAATTTTTTTTCAAATAAAAAGGTGGTGTCGGCCAATGCATGACCAACACAA
*
32060858 AAATTATTTGAA-TTTTTTTATCAGATAGAAAGGTGGTGTCGACCATGCAATGGTCC
66 AAATAATTTGAATTTTTTTTATCAGATA-AAAGGTGGTGTCGACCATGCAATGGTCC
*
32060914 ACACAAAAAAATTTAATTTTTTTTATCAAAT-AATAGGTGGTGTCGGCCAATGCATGACCAACAC
1 ACACAAAAAAATTTAA-TTTTTTT-TCAAATAAAAAGGTGGTGTCGGCCAATGCATGACCAACA-
32060978 CAAAAA-AATTTGAATTTTTTTTATCAGATAAAAGGTGGTGTCGACCATGCAA
63 CAAAAATAATTTGAATTTTTTTTATCAGATAAAAGGTGGTGTCGACCATGCAA
32061030 AAAATTTAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
121 15 0.14
122 65 0.61
123 27 0.25
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (121 bp):
ACACAAAAAAATTTAATTTTTTTTCAAATAAAAAGGTGGTGTCGGCCAATGCATGACCAACACAA
AAATAATTTGAATTTTTTTTATCAGATAAAAGGTGGTGTCGACCATGCAATGGTCC
Found at i:32061058 original size:47 final size:48
Alignment explanation
Indices: 32060980--32061076 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 48
32060970 ACCAACACCA
* * * *
32060980 AAAAAATTTGAATTTTTTTTATCAGATAAAAGGTGGTGTCGACCATGC
1 AAAAAATTTGAATATTTTTTATCAGAAAAAAGGGGGTGTCGACAATGC
*
32061028 AAAAAATTT-AA-ATTTTTTATCTGACAAAAAGGGGGTGTCGACAATGC
1 AAAAAATTTGAATATTTTTTATCAGA-AAAAAGGGGGTGTCGACAATGC
32061075 AA
1 AA
32061077 TGGCCAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 11 0.26
47 23 0.53
48 9 0.21
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (48 bp):
AAAAAATTTGAATATTTTTTATCAGAAAAAAGGGGGTGTCGACAATGC
Found at i:32061176 original size:60 final size:58
Alignment explanation
Indices: 32061028--32061177 Score: 192
Period size: 59 Copynumber: 2.5 Consensus size: 58
32061018 TCGACCATGC
* * *
32061028 AAAAAATTTAAATTTTTTATCTGACAAAAAGGGGGTGTCGACAATGCAATGGCCAACAT
1 AAAAAATTT-AATTTTTTATCTGACAAAAAAGGGGTGTCGACAATACAATGGCAAACAT
* * * * *
32061087 AAAAAAATTAATTTTTTACCAGATAAAAAAAGGGGTGTCGACCATACAATGGCAAACACT
1 AAAAAATTTAATTTTTTATCTGA-CAAAAAAGGGGTGTCGACAATACAATGGCAAACA-T
32061147 AAAAAATTTGAATTTTTTATCTGACAAAAAA
1 AAAAAATTT-AATTTTTTATCTGACAAAAAA
32061178 ATTGATCTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 12 0.16
59 37 0.49
60 15 0.20
61 12 0.16
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (58 bp):
AAAAAATTTAATTTTTTATCTGACAAAAAAGGGGTGTCGACAATACAATGGCAAACAT
Found at i:32061178 original size:85 final size:87
Alignment explanation
Indices: 32061087--32061263 Score: 261
Period size: 87 Copynumber: 2.1 Consensus size: 87
32061077 TGGCCAACAT
* * *
32061087 AAAAAAATTAATTTTTTACCAGAT-AAAAAAA-GGGGTGTC-GACCATACAATGGCAAACACTAA
1 AAAAAAATTAATCTTTTACCAGATAAAAAAAAGGGGGTATCAG-CCATACAATGGCAAACACCAA
32061149 AAAATTTGAATTTTTTATCTGAC
65 AAAATTTGAATTTTTTATCTGAC
* * **
32061172 AAAAAAATTGATCTTTTACCAGATAAAAAAAAGGGGGTATCAGCCATGCAATGGCCCACACCAAA
1 AAAAAAATTAATCTTTTACCAGATAAAAAAAAGGGGGTATCAGCCATACAATGGCAAACACCAAA
32061237 AAATTTGAATTTTTTATCTGAC
66 AAATTTGAATTTTTTATCTGAC
32061259 AAAAA
1 AAAAA
32061264 GGTGTGTCGA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
85 22 0.27
86 7 0.09
87 52 0.63
88 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (87 bp):
AAAAAAATTAATCTTTTACCAGATAAAAAAAAGGGGGTATCAGCCATACAATGGCAAACACCAAA
AAATTTGAATTTTTTATCTGAC
Found at i:32070667 original size:3 final size:3
Alignment explanation
Indices: 32070659--32070686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32070649 TAAAGCAGAT
32070659 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32070687 AAAGAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32072867 original size:3 final size:3
Alignment explanation
Indices: 32072861--32072893 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32072851 TTCTGAAATA
32072861 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32072894 GTCATGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32079137 original size:2 final size:2
Alignment explanation
Indices: 32079130--32079167 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
32079120 GTGAATGTGT
32079130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
32079168 TCAACCTCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32084682 original size:30 final size:32
Alignment explanation
Indices: 32084637--32084695 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
32084627 TTGATCATTT
32084637 AACTATTTGAAAA-TTTTCATTTAAGTCACTA
1 AACTATTTGAAAATTTTTCATTTAAGTCACTA
*
32084668 AACTATTT-AAAATTTTTTATTTAAGTCA
1 AACTATTTGAAAATTTTTCATTTAAGTCA
32084696 TTGGACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (32 bp):
AACTATTTGAAAATTTTTCATTTAAGTCACTA
Found at i:32084809 original size:23 final size:23
Alignment explanation
Indices: 32084778--32084853 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
32084768 GATAGATTAG
32084778 TATTATCAACGAGTAGAAAAACA
1 TATTATCAACGAGTAGAAAAACA
* * **
32084801 TATTGTCAACGATCGGTAGATAGATTA
1 TATTATCAACGA---GTAGA-AAAACA
32084828 GTATTATCAACGAGTAGAAAAACA
1 -TATTATCAACGAGTAGAAAAACA
32084852 TA
1 TA
32084854 CTTTAATTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 13 0.32
24 3 0.08
25 5 0.12
26 5 0.12
27 3 0.08
28 11 0.28
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (23 bp):
TATTATCAACGAGTAGAAAAACA
Found at i:32084813 original size:51 final size:51
Alignment explanation
Indices: 32084755--32084853 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
32084745 AAGTGACAAT
32084755 TCAACGATCGGTAGATAGATTAGTATTATCAACGAGTAGAAAAACATATTG
1 TCAACGATCGGTAGATAGATTAGTATTATCAACGAGTAGAAAAACATATTG
32084806 TCAACGATCGGTAGATAGATTAGTATTATCAACGAGTAGAAAAACATA
1 TCAACGATCGGTAGATAGATTAGTATTATCAACGAGTAGAAAAACATA
32084854 CTTTAATTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (51 bp):
TCAACGATCGGTAGATAGATTAGTATTATCAACGAGTAGAAAAACATATTG
Found at i:32084837 original size:28 final size:28
Alignment explanation
Indices: 32084755--32084840 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
32084745 AAGTGACAAT
32084755 TCAACGATCGGTAGATAGATTAGTATTA
1 TCAACGATCGGTAGATAGATTAGTATTA
* ** *
32084783 TCAACGA---GTAGA-AAAACA-TATTG
1 TCAACGATCGGTAGATAGATTAGTATTA
32084806 TCAACGATCGGTAGATAGATTAGTATTA
1 TCAACGATCGGTAGATAGATTAGTATTA
32084834 TCAACGA
1 TCAACGA
32084841 GTAGAAAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
23 11 0.24
24 3 0.07
25 5 0.11
26 5 0.11
27 3 0.07
28 18 0.40
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (28 bp):
TCAACGATCGGTAGATAGATTAGTATTA
Found at i:32085608 original size:28 final size:27
Alignment explanation
Indices: 32085549--32085639 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
32085539 GATTTTAGGG
* *
32085549 ATTAAATGCAGGGAAAATG-ATTAATGC
1 ATTAAATGTAGGGAAAATGCATTAA-GT
32085576 ATTAAATGTAGGGAAAATGCATTAAGAT
1 ATTAAATGTAGGGAAAATGCATTAAG-T
** *
32085604 ATTAAATGTAAAGAAAA-GACATTGAGGT
1 ATTAAATGTAGGGAAAATG-CATT-AAGT
32085632 ATTAAATG
1 ATTAAATG
32085640 CAAGAAAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
27 20 0.36
28 33 0.60
29 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.27
Consensus pattern (27 bp):
ATTAAATGTAGGGAAAATGCATTAAGT
Found at i:32089940 original size:85 final size:84
Alignment explanation
Indices: 32089838--32089997 Score: 266
Period size: 85 Copynumber: 1.9 Consensus size: 84
32089828 ATCAATTTTG
* *
32089838 AAATTAATAGTTCTATTTAAAAAGTTATTTTTCTCATATAAAGTTTGCTAATAAGTTAAAACAAT
1 AAATTAATAGTTCTATTTAAAAAGTTACTTTTCTCATAGAAAGTTTGCTAATAAGTTAAAACAAT
32089903 AAGGTGAAAAAATAAAATTC
66 AAGGT-AAAAAATAAAATTC
* * *
32089923 AAATTAATAGTTTTATTTAAAAAGTTGCTTTTCTCATAGAAAGTTTGCTGATAAGTTAAAACAAT
1 AAATTAATAGTTCTATTTAAAAAGTTACTTTTCTCATAGAAAGTTTGCTAATAAGTTAAAACAAT
32089988 AAGGTAAAAA
66 AAGGTAAAAA
32089998 GGCTATTTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 5 0.07
85 65 0.93
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (84 bp):
AAATTAATAGTTCTATTTAAAAAGTTACTTTTCTCATAGAAAGTTTGCTAATAAGTTAAAACAAT
AAGGTAAAAAATAAAATTC
Found at i:32094880 original size:30 final size:30
Alignment explanation
Indices: 32094834--32094928 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
32094824 ATTTTCGAGG
*
32094834 AATTTGGGGATCAAAAT-TGAGATTTTTGGAA
1 AATTTGGGGATCAAAATAT-A-ACTTTTGGAA
*
32094865 AATTT-GGGATTAAAATATAACTTTTGGAA
1 AATTTGGGGATCAAAATATAACTTTTGGAA
* * * *
32094894 AATTCGAGG-TCAAAAATGTGACTTTTGG-A
1 AATTTGGGGATC-AAAATATAACTTTTGGAA
32094923 AATTTG
1 AATTTG
32094929 AGAAAAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 20 0.38
30 27 0.51
31 6 0.11
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (30 bp):
AATTTGGGGATCAAAATATAACTTTTGGAA
Found at i:32094968 original size:29 final size:29
Alignment explanation
Indices: 32094933--32094998 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
32094923 AATTTGAGAA
* * *
32094933 AAAATGGTAATTTTTGGATGTTCGAGGGC
1 AAAATGGTAAATTTAGGATATTCGAGGGC
* * *
32094962 AAAATGGTAAATTTAGGATATTTGGGGGT
1 AAAATGGTAAATTTAGGATATTCGAGGGC
32094991 AAAATGGT
1 AAAATGGT
32094999 TTTTGAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (29 bp):
AAAATGGTAAATTTAGGATATTCGAGGGC
Found at i:32095075 original size:29 final size:29
Alignment explanation
Indices: 32095043--32095301 Score: 165
Period size: 29 Copynumber: 8.9 Consensus size: 29
32095033 GAAAAGTTCG
*
32095043 GGGTTAAAATGTGATTTTTGGAAGTTTAA
1 GGGTAAAAATGTGATTTTTGGAAGTTTAA
* *
32095072 GGGTAAAAATGTGATTTCTGGAAG--TAT
1 GGGTAAAAATGTGATTTTTGGAAGTTTAA
* * * *
32095099 GGGT-AAAATGTAAATTTGGAGAAGTTTAG
1 GGGTAAAAATGTGATTTTTG-GAAGTTTAA
* * *
32095128 GGGTAAAAATGTAATTTTTAGAAGTTT-G
1 GGGTAAAAATGTGATTTTTGGAAGTTTAA
* *
32095156 GGGATAAAAATGTGATTTTTGAAAGTTTAG
1 GGG-TAAAAATGTGATTTTTGGAAGTTTAA
* *** * **
32095186 GGGTAAAAATGTAATTTTAAAAAAATTCGA
1 GGGTAAAAATGTGATTTT-TGGAAGTTTAA
* *
32095216 GGGTAAAAATATGATTTTTGAGAAGTTTTAG
1 GGGTAAAAATGTGATTTTTG-GAAG-TTTAA
* * *
32095247 GGGT-AAAATAT-AATTTTGGAAAGTTCAA
1 GGGTAAAAATGTGATTTTTGG-AAGTTTAA
*
32095275 -GGT-TAAATCGTGATTTTTGGAAAGTTT
1 GGGTAAAAAT-GTGATTTTTGG-AAGTTT
32095302 GGGGACCTTT
Statistics
Matches: 181, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
26 11 0.06
27 17 0.09
28 9 0.05
29 92 0.51
30 46 0.25
31 6 0.03
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGTGATTTTTGGAAGTTTAA
Found at i:32095126 original size:56 final size:59
Alignment explanation
Indices: 32095063--32095202 Score: 180
Period size: 56 Copynumber: 2.4 Consensus size: 59
32095053 GTGATTTTTG
* * *
32095063 GAAGTTTAAGGGTAAAAATGTGATTTCTGGAAGTAT-GGG-T-AAAATGTAAATTTGGA
1 GAAGTTTAGGGGTAAAAATGTAATTTCTAGAAGTATGGGGATAAAAATGTAAATTTGGA
* * * * *
32095119 GAAGTTTAGGGGTAAAAATGTAATTTTTAGAAGTTTGGGGATAAAAATGTGATTTTTGA
1 GAAGTTTAGGGGTAAAAATGTAATTTCTAGAAGTATGGGGATAAAAATGTAAATTTGGA
32095178 -AAGTTTAGGGGTAAAAATGTAATTT
1 GAAGTTTAGGGGTAAAAATGTAATTT
32095203 TAAAAAAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 31 0.42
57 3 0.04
58 26 0.36
59 13 0.18
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.35
Consensus pattern (59 bp):
GAAGTTTAGGGGTAAAAATGTAATTTCTAGAAGTATGGGGATAAAAATGTAAATTTGGA
Found at i:32096894 original size:17 final size:17
Alignment explanation
Indices: 32096887--32096971 Score: 125
Period size: 17 Copynumber: 5.0 Consensus size: 17
32096877 AATTTTTAAT
32096887 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
32096904 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* *
32096921 TGAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
32096938 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
32096955 TAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
32096972 AATGGGTCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32096904 original size:7 final size:6
Alignment explanation
Indices: 32096886--32096970 Score: 63
Period size: 6 Copynumber: 14.8 Consensus size: 6
32096876 TAATTTTTAA
* *
32096886 TTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTATAA- -TGAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT
* * * * *
32096932 TCAAA- ATAAAT TTAAAC TTAAA- ATAAAT TAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
32096971 AAATGGGTCC
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
4 2 0.03
5 12 0.20
6 44 0.73
7 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:32097451 original size:39 final size:39
Alignment explanation
Indices: 32097397--32097741 Score: 290
Period size: 39 Copynumber: 8.8 Consensus size: 39
32097387 AATGACTACT
* * *
32097397 ATCTGACCCAGGCTCGGGGTAAGAGATCGAATGGTTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * * *
32097436 ATCTTCCCCAAGCTCGGAGTAAGAGATTGACTGG-TAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCT-GTA
* * *
32097475 ATCTGCCTCAGGCTCGGGGTAAGAGATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* *
32097514 ATCTGCCCCAAGCTTGGGGTTAGAGATTAGCTG-ATGG-TG--
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-T--C-GAATGGCTGTA
*
32097553 ATCTGCCCC-AGCCTCGGGGTAAGAGATCGAATGGCTGCA
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATCGAATGGCTGTA
* * *
32097592 ATCTGCCCCAAGCTCGGGGTAAGAGCTAGAATGG-TGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCT-GTA
* * * * *
32097631 ATTTACCCCAAGTTCGAGGTAAGAGATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * * *
32097670 ATCTGCCCTAAGCTCGGGGTAAGAGATTGATTGACTGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * *
32097709 ATTTACCTCAAGCTCGGGGTAAAAGATCAGAAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGATC-GAAT
32097742 CTTCATTCTA
Statistics
Matches: 241, Mismatches: 50, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
35 1 0.00
36 5 0.02
37 2 0.01
38 5 0.02
39 212 0.88
40 8 0.03
41 2 0.01
42 5 0.02
43 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
Found at i:32097526 original size:78 final size:78
Alignment explanation
Indices: 32097397--32097699 Score: 410
Period size: 78 Copynumber: 3.9 Consensus size: 78
32097387 AATGACTACT
* * * * *
32097397 ATCTGACCCAGGCTCGGGGTAAGAGATCGAATGGTTGTAATCTTCCCCAAGCTCGGAGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
*
32097462 TTGACTGGTAGTG
66 TTGACTGGTGGTG
* * *
32097475 ATCTGCCTCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTTGGGGTTAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
*
32097540 TT-AGCTGATGGTG
66 TTGA-CTGGTGGTG
* *
32097553 ATCTGCCCCAGCCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGC
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
* *
32097618 TAGAATGGTGGTG
66 TTGACTGGTGGTG
* * * * * *
32097631 ATTTACCCCAAGTTCGAGGTAAGAGATCGAATGGCTGCAATCTGCCCTAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
32097696 TTGA
66 TTGA
32097700 TTGACTGTGA
Statistics
Matches: 196, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
TTGACTGGTGGTG
Found at i:32097710 original size:78 final size:78
Alignment explanation
Indices: 32097403--32097741 Score: 396
Period size: 78 Copynumber: 4.3 Consensus size: 78
32097393 TACTATCTGA
* * * * *
32097403 CCCAGGCTCGGGGTAAGAGATCGAATGGTTGTAATCTTCCCCAAGCTCGGAGTAAGAGATTGACT
1 CCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACT
* *
32097468 GGTAGTGATCTGC
66 GGTGGTGATCTAC
* * * *
32097481 CTCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTTGGGGTTAGAGATT-AGC
1 CCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGA-C
* *
32097545 TGATGGTGATCTGC
65 TGGTGGTGATCTAC
* * *
32097559 CCC-AGCCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGCTAGAA
1 CCCAAG-CTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGAC
*
32097623 TGGTGGTGATTTAC
65 TGGTGGTGATCTAC
* * * *
32097637 CCCAAGTTCGAGGTAAGAGATCGAATGGCTGCAATCTGCCCTAAGCTCGGGGTAAGAGATTGATT
1 CCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACT
* *
32097702 GACT-GTGATTTAC
66 G-GTGGTGATCTAC
* *
32097715 CTCAAGCTCGGGGTAAAAGATCAGAAT
1 CCCAAGCTCGGGGTAAGAGATC-GAAT
32097742 CTTCATTCTA
Statistics
Matches: 225, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
77 2 0.01
78 215 0.96
79 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
CCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACT
GGTGGTGATCTAC
Found at i:32097783 original size:41 final size:41
Alignment explanation
Indices: 32097725--32097816 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
32097715 CTCAAGCTCG
*
32097725 GGGTAAAAGATCAGAATCTTCATTCTA-CTCTTCTTGATTAA
1 GGGTAAAAGATCAGAATCTTCAATCTACCT-TTCTTGATTAA
** *
32097766 GGGTAAAAGATTGGAATCTTCAATCTGCCTTTCTTGATTAA
1 GGGTAAAAGATCAGAATCTTCAATCTACCTTTCTTGATTAA
32097807 GGGTAAAAGA
1 GGGTAAAAGA
32097817 CTGAATGATG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (41 bp):
GGGTAAAAGATCAGAATCTTCAATCTACCTTTCTTGATTAA
Found at i:32098104 original size:50 final size:49
Alignment explanation
Indices: 32098050--32098498 Score: 309
Period size: 50 Copynumber: 9.1 Consensus size: 49
32098040 CCATCTTGTT
* *
32098050 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAGCCTTTCCCTTCAAATC
1 TTCTAAGGTACC-GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* ** * * *
32098100 TTCTAAGGTACCAGGTTCGTCGTTGCGATCTCAACCTTTCCCTTAAAATT
1 TTCTAAGGTACC-GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* * * * * *
32098150 TTC-ATGAT-CTCGGATTCGTCATTGCGGCCTCAACCTTTCCAATCATAT-
1 TTCTAAGGTAC-CGG-TTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* * * * * *
32098198 TTC-ATGGTACCGAATTCGCCGTTGTGGCCTGAATCTTTCCCATCACATC
1 TTCTAAGGTACCG-GTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* * * * * *
32098247 TTCTGAGGTACCGGGTTCGTCGTTGCGGCCTTAACCTTTCTCGTCACATC
1 TTCTAAGGTACC-GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* * * *
32098297 TTTTAAGGTACCAGGTTCACCGTTGCGGTCTCAACCTTTCCCTTCAAATC
1 TTCTAAGGTACC-GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* *** * *
32098347 TTCTAAGGTACCGGATTCGCCATCATGGCCTCAATTCTTTCCCATCACAT-
1 TTCTAAGGTACCGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCATCAAATC
* * * *** *
32098397 TTC-ATGGTACCGGATTCGCCGTTGCGACCTCAATCTTTTTGATCATATC
1 TTCTAAGGTACCGG-TTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
* ** * *
32098446 TTTTGAA-GTACCGGGTTCGCCGTTGCAACCTCAACTTTTCCCTTCAAATC
1 TTCT-AAGGTACC-GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
32098496 TTC
1 TTC
32098499 ATTGTATTGG
Statistics
Matches: 312, Mismatches: 74, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
48 50 0.16
49 63 0.20
50 183 0.59
51 16 0.05
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (49 bp):
TTCTAAGGTACCGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATC
Found at i:32098447 original size:149 final size:148
Alignment explanation
Indices: 32098171--32098499 Score: 371
Period size: 149 Copynumber: 2.2 Consensus size: 148
32098161 GGATTCGTCA
** * * * ** *
32098171 TTGCGGCCTCAACCTTTCCAATCATAT-TTCATGGTACCGAATTCGCCGTTGTGGCCTGAATCTT
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCAAGGTACCGAATTCGCCATCATGGCCTCAATCTT
* * * *
32098235 TCCCATCACATCTTCTGAGGTACCGGGTTCGTCGTTGCGGCCTTAACCTTTCTCGTCACATCTTT
66 TCCCATCACATCTTCT-AGGTACCGGATTCGCCGTTGCGACCTCAACCTTTCTCGTCACATCTTT
32098300 T-AAGGTACCAGGTTCACCG
130 TGAA-GTACCAGGTTCACCG
* *
32098319 TTGCGGTCTCAACCTTTCCCTTCAAATCTTCTAAGGTACCGGATTCGCCATCATGGCCTCAATTC
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTC-AAGGTACCGAATTCGCCATCATGGCCTCAA-TC
* * *
32098384 TTTCCCATCACAT-TTC-ATGGTACCGGATTCGCCGTTGCGACCTCAATCTTT-TTGATCATATC
64 TTTCCCATCACATCTTCTA-GGTACCGGATTCGCCGTTGCGACCTCAACCTTTCTCG-TCACATC
* *
32098446 TTTTGAAGTACCGGGTTCGCCG
127 TTTTGAAGTACCAGGTTCACCG
** *
32098468 TTGCAACCTCAACTTTTCCCTTCAAATCTTCA
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCA
32098500 TTGTATTGGG
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
148 27 0.18
149 81 0.53
150 29 0.19
151 15 0.10
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (148 bp):
TTGCGGCCTCAACCTTTCCCTTCAAATCTTCAAGGTACCGAATTCGCCATCATGGCCTCAATCTT
TCCCATCACATCTTCTAGGTACCGGATTCGCCGTTGCGACCTCAACCTTTCTCGTCACATCTTTT
GAAGTACCAGGTTCACCG
Found at i:32104027 original size:51 final size:51
Alignment explanation
Indices: 32103962--32104185 Score: 304
Period size: 51 Copynumber: 4.3 Consensus size: 51
32103952 GCCGTAAATG
* *
32103962 AAAAGGTCCAATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATT
1 AAAA-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
32104014 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
32104065 AAAGGTCCGATGACTAAGTGCCGTCGTGAATAAATGAATCCTTTACGGATT
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * **
32104116 ATAAAGTTCGATGACTAAGTGTCATCGTGAGTATATGAATTCCTATACGGAAC
1 A-AAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
*
32104169 AAGAGGTCCGATGACTA
1 AA-AAGTCCGATGACTA
32104186 TATGTCGTAA
Statistics
Matches: 152, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
51 93 0.61
52 36 0.24
53 23 0.15
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:32109729 original size:6 final size:6
Alignment explanation
Indices: 32109718--32109767 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
32109708 CTTAGTTTAT
* *
32109718 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT--A TGTTAAA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
32109764 TTTA
1 TTTA
32109768 TTTTGAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 2 0.06
5 6 0.17
6 26 0.72
7 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:32109733 original size:17 final size:17
Alignment explanation
Indices: 32109713--32109781 Score: 102
Period size: 17 Copynumber: 4.1 Consensus size: 17
32109703 TAAACCTTAG
32109713 TTTATTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
32109730 TTTATTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
* *
32109747 TTTATGTTAAATTTGAA
1 TTTATTTTAAATTTAAA
* *
32109764 TTTATTTTGAATTAAAA
1 TTTATTTTAAATTTAAA
32109781 T
1 T
32109782 GTTTAAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATTTTAAATTTAAA
Found at i:32109738 original size:34 final size:34
Alignment explanation
Indices: 32109700--32109779 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
32109690 AACTTTTAAC
* *
32109700 TTTTAAACCTT-AGTTTATTTTAAATTTAAATTTA
1 TTTTAAA-CTTAAATTTATGTTAAATTTAAATTTA
* *
32109734 TTTTAAATTTAAATTTATGTTAAATTTGAATTTA
1 TTTTAAACTTAAATTTATGTTAAATTTAAATTTA
*
32109768 TTTTGAA-TTAAA
1 TTTTAAACTTAAA
32109780 ATGTTTAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 7 0.17
34 33 0.82
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTTAAACTTAAATTTATGTTAAATTTAAATTTA
Found at i:32110865 original size:20 final size:20
Alignment explanation
Indices: 32110840--32110879 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32110830 GATTGATGAT
*
32110840 CGGAGACGGTCGAGCAGGAC
1 CGGAGACGGACGAGCAGGAC
*
32110860 CGGAGATGGACGAGCAGGAC
1 CGGAGACGGACGAGCAGGAC
32110880 GGGGGAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.45, T:0.05
Consensus pattern (20 bp):
CGGAGACGGACGAGCAGGAC
Found at i:32111488 original size:162 final size:162
Alignment explanation
Indices: 32111221--32111558 Score: 613
Period size: 162 Copynumber: 2.1 Consensus size: 162
32111211 GGTTTTCAAT
32111221 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCAAGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCAAGTGTCACTTTTTGGCTTATTTATGTA
32111286 TCTAGTCCCTGTCATTTTTAATTTGTTTTAACTAAATCCTTAAATCAACTCTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAACTAAATCCTTAAATCAACTCTTATTTAATTACAA
*
32111351 AATTGGCCCAAGAATTTTTCAAGATTTATAAG
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
32111383 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCAAGTGTCACTTTTTGGCTTATTTATGTA
* * *
32111448 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAACTAAATCCTTAAATCAACTCTTATTTAATTACAA
* *
32111513 AATTGGCTCGAGAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
32111545 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
32111559 TCTGGGTACC
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 169 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCAAGTGTCACTTTTTGGCTTATTTATGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAACTAAATCCTTAAATCAACTCTTATTTAATTACAA
AATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:32111693 original size:59 final size:59
Alignment explanation
Indices: 32111629--32111823 Score: 259
Period size: 59 Copynumber: 3.3 Consensus size: 59
32111619 CCTGGACTAT
*
32111629 CCAAAAATCACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGGTTTCA
1 CCAAAAATCACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* * * *
32111688 TCAAAAATTATCATTTTACCCC-AGAACTTTCCAAAA-TCCTATCTTTAACCCCGGTTTCA
1 CCAAAAATCACCATTTTACCCCTA-AACTTTCCAAAATTCC-ATTTTTAACCCCGGTTTCA
* * * *
32111747 CCAAAAATCACCATTTTACCCCTCGAACTTTCCAAAATTCCATTTTAAACCCCGATTTAA
1 CCAAAAATCACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
*
32111807 CCAAAAATTACCATTTT
1 CCAAAAATCACCATTTT
32111824 GCCCTGCGCA
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
58 3 0.03
59 68 0.58
60 43 0.37
61 3 0.03
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (59 bp):
CCAAAAATCACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
Found at i:32111723 original size:30 final size:30
Alignment explanation
Indices: 32111628--32111723 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
32111618 CCCTGGACTA
* *
32111628 TCCAAAAATCACCATTTTACCCCTA-AACTT
1 TCCAAAAATTATCATTTTACCCC-AGAACTT
*
32111658 TCC-AAAATT-TCATTTTTAACCCC-G--GTT
1 TCCAAAAATTATCA-TTTT-ACCCCAGAACTT
32111685 TCATCAAAAATTATCATTTTACCCCAGAACTT
1 TC--CAAAAATTATCATTTTACCCCAGAACTT
32111717 TCCAAAA
1 TCCAAAA
32111724 TCCTATCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 20
0.68 0.05 0.26
Matches are distributed among these distances:
27 4 0.08
28 2 0.04
29 15 0.29
30 24 0.46
31 3 0.06
32 4 0.08
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.33
Consensus pattern (30 bp):
TCCAAAAATTATCATTTTACCCCAGAACTT
Found at i:32111821 original size:31 final size:29
Alignment explanation
Indices: 32111671--32111823 Score: 88
Period size: 30 Copynumber: 5.1 Consensus size: 29
32111661 AAAATTTCAT
* * *
32111671 TTTTAACCCCGGTTTCATCAAAAATTATCA
1 TTTTAACCCCGATTT-ACCAAAAATTACCA
32111701 TTTT-ACCCCAGAACTTT-CC-AAAA-T-CCTA
1 TTTTAACCCC-G-A-TTTACCAAAAATTACC-A
* *
32111729 TCTTTAACCCCGGTTTCACCAAAAATCACCA
1 T-TTTAACCCCGATTT-ACCAAAAATTACCA
*
32111760 TTTTACCCCTCGAACTTT-CC-AAAATT-CCA
1 TTTTAACCC-CG-A-TTTACCAAAAATTACCA
32111789 TTTTAAACCCCGATTTAACCAAAAATTACCA
1 TTTT-AACCCCGATTT-ACCAAAAATTACCA
32111820 TTTT
1 TTTT
32111824 GCCCTGCGCA
Statistics
Matches: 95, Mismatches: 9, Indels: 37
0.67 0.06 0.26
Matches are distributed among these distances:
27 7 0.07
28 4 0.04
29 26 0.27
30 37 0.39
31 13 0.14
32 5 0.05
33 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (29 bp):
TTTTAACCCCGATTTACCAAAAATTACCA
Found at i:32113185 original size:18 final size:18
Alignment explanation
Indices: 32113159--32113201 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32113149 TATGGGTGAA
*
32113159 TAAATTATATAATAAA-AT
1 TAAAATATATAA-AAATAT
32113177 TAAAATATATAAAAATAT
1 TAAAATATATAAAAATAT
32113195 TAAAATA
1 TAAAATA
32113202 AAGTTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATATATAAAAATAT
Found at i:32113696 original size:20 final size:20
Alignment explanation
Indices: 32113671--32113709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32113661 AATGTGTTAA
*
32113671 AATAATTTAATTATGATTTG
1 AATAATTTAATTATAATTTG
*
32113691 AATAATTTAGTTATAATTT
1 AATAATTTAATTATAATTT
32113710 TTGAATGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
AATAATTTAATTATAATTTG
Found at i:32117778 original size:144 final size:143
Alignment explanation
Indices: 32117570--32117855 Score: 459
Period size: 144 Copynumber: 2.0 Consensus size: 143
32117560 TGTGGGGTAC
32117570 TTAGCTCAACTCTGTCTCTTTCTCAATGTATCAGCATAGGTATATGAAATTATTGTAGATTCAGA
1 TTAGCTCAACTCTGTCTCTTTCTCAATGTATCAGCATAGGTATATGAAATTATTGTAGATTCAGA
* * *
32117635 GGGTTATTTTTTTTTCTTTTATAAATCAAG-TGTTCCTTCTTTCATCAAAAATCTGTTTATGAGT
66 GGGTTA-ATTTTTATCTATTATAAATCAAGCT-TTCCTTCTTTCATCAAAAATCTGTTTATGAGT
32117699 ATTCATCCTTCTGGT
129 ATTCATCCTTCTGGT
* *
32117714 TTAGCTGAACTCTGTCTCTTTCTCAATGTATCAGCATTGGTATATGAAATTATTGTAG-TCTCAG
1 TTAGCTCAACTCTGTCTCTTTCTCAATGTATCAGCATAGGTATATGAAATTATTGTAGAT-TCAG
**
32117778 AGGGTTAATTTTTATCTATTATAAATCAAGCTTTCCTTCTTTCATCAAGCATCTGTTTATGAGTA
65 AGGGTTAATTTTTATCTATTATAAATCAAGCTTTCCTTCTTTCATCAAAAATCTGTTTATGAGTA
*
32117843 TTCCTCCTTCTGG
130 TTCATCCTTCTGG
32117856 CTGTCTGCTT
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
143 64 0.48
144 68 0.52
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (143 bp):
TTAGCTCAACTCTGTCTCTTTCTCAATGTATCAGCATAGGTATATGAAATTATTGTAGATTCAGA
GGGTTAATTTTTATCTATTATAAATCAAGCTTTCCTTCTTTCATCAAAAATCTGTTTATGAGTAT
TCATCCTTCTGGT
Found at i:32140772 original size:3 final size:3
Alignment explanation
Indices: 32140764--32140818 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
32140754 TTTAGGTTAT
* * *
32140764 TTA TTA TTA TT- TTA TTA TTA TT- TTA TTA TTA -TG TTG TTA CTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32140808 TTA TTA TTA TT
1 TTA TTA TTA TT
32140819 TTTTAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 7 0.16
3 37 0.84
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32140777 original size:11 final size:11
Alignment explanation
Indices: 32140763--32140820 Score: 89
Period size: 11 Copynumber: 5.3 Consensus size: 11
32140753 TTTTAGGTTA
32140763 TTTATTATTAT
1 TTTATTATTAT
32140774 TTTATTATTAT
1 TTTATTATTAT
32140785 TTTATTATTAT
1 TTTATTATTAT
* * *
32140796 GTTGTTACTAT
1 TTTATTATTAT
32140807 TTTATTATTAT
1 TTTATTATTAT
32140818 TTT
1 TTT
32140821 TTAAATATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:32140829 original size:22 final size:21
Alignment explanation
Indices: 32140763--32140829 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
32140753 TTTTAGGTTA
*
32140763 TTTATTATTATTTTATTATTAT
1 TTTATTATTATTTT-TTAATAT
* *
32140785 TTTATTATTATGTTGTTACTAT
1 TTTATTATTAT-TTTTTAATAT
32140807 TTTATTATTATTTTTTAAATAT
1 TTTATTATTATTTTTT-AATAT
32140829 T
1 T
32140830 GTATAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.10
22 33 0.85
23 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTATTATTATTTTTTAATAT
Found at i:32141771 original size:21 final size:21
Alignment explanation
Indices: 32141747--32141809 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
32141737 CTTATGGTGC
32141747 AATGGCAAAGAACCTTGTTGT
1 AATGGCAAAGAACCTTGTTGT
** * * *
32141768 AAT-G--AAG-TTCTAGGTGC
1 AATGGCAAAGAACCTTGTTGT
32141785 AATGGCAAAGAACCTTGTTGT
1 AATGGCAAAGAACCTTGTTGT
32141806 AATG
1 AATG
32141810 AAGTTCTAGT
Statistics
Matches: 28, Mismatches: 10, Indels: 8
0.61 0.22 0.17
Matches are distributed among these distances:
17 8 0.29
18 4 0.14
20 4 0.14
21 12 0.43
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (21 bp):
AATGGCAAAGAACCTTGTTGT
Found at i:32141793 original size:38 final size:38
Alignment explanation
Indices: 32141742--32141818 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
32141732 CCAAACTTAT
32141742 GGTGCAATGGCAAAGAACCTTGTTGTAATGAAGTTCTA
1 GGTGCAATGGCAAAGAACCTTGTTGTAATGAAGTTCTA
32141780 GGTGCAATGGCAAAGAACCTTGTTGTAATGAAGTTCTA
1 GGTGCAATGGCAAAGAACCTTGTTGTAATGAAGTTCTA
32141818 G
1 G
32141819 TGTCACGAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (38 bp):
GGTGCAATGGCAAAGAACCTTGTTGTAATGAAGTTCTA
Found at i:32152310 original size:2 final size:2
Alignment explanation
Indices: 32152303--32152328 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32152293 AAATATTTAA
32152303 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32152329 TTCTTTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32152949 original size:17 final size:18
Alignment explanation
Indices: 32152916--32152949 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32152906 CCAAATTTTG
*
32152916 AAGAAAATTGAAGGAGAA
1 AAGAAAATTGAAAGAGAA
32152934 AAGAAAA-TGAAAGAGA
1 AAGAAAATTGAAAGAGA
32152950 TGGGAGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
AAGAAAATTGAAAGAGAA
Found at i:32155110 original size:42 final size:41
Alignment explanation
Indices: 32155053--32155201 Score: 219
Period size: 42 Copynumber: 3.6 Consensus size: 41
32155043 AATCTCACGT
* *
32155053 TCATTCCGAGTCATGAGTCTTCCTTTAATCATATTCTTATTC
1 TCATCCCGAGACATGAGTCTTCCTTTAATCATATTC-TATTC
32155095 TCATCCCGAGACATGAGTCTTCCTTTAATCATATTCTCATTC
1 TCATCCCGAGACATGAGTCTTCCTTTAATCATATTCT-ATTC
** *
32155137 TCATCTTGAGACATGAGTCTTCCTTTAATCATAATC-ATTC
1 TCATCCCGAGACATGAGTCTTCCTTTAATCATATTCTATTC
*
32155177 TCATCCTGAGACATGAGTCTTCCTT
1 TCATCCCGAGACATGAGTCTTCCTT
32155202 AAATATCCTC
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 28 0.28
41 1 0.01
42 71 0.71
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (41 bp):
TCATCCCGAGACATGAGTCTTCCTTTAATCATATTCTATTC
Found at i:32157861 original size:19 final size:19
Alignment explanation
Indices: 32157837--32157874 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32157827 TTTAAAGGAA
32157837 AAAGTTTAAATTTTTAAAT
1 AAAGTTTAAATTTTTAAAT
**
32157856 AAAGTTTTGATTTTTAAAT
1 AAAGTTTAAATTTTTAAAT
32157875 TATTTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
AAAGTTTAAATTTTTAAAT
Done.