Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 60 of 199
Found at i:17302276 original size:16 final size:17
Alignment explanation
Indices: 17302239--17302281 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
17302229 GATAAAAATT
*
17302239 AAATAAAAATTATATCA
1 AAATTAAAATTATATCA
*
17302256 AAATTAAAATTAT-TTA
1 AAATTAAAATTATATCA
*
17302272 AAATTTAAAT
1 AAATTAAAAT
17302282 AAATAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAATTATATCA
Found at i:17309414 original size:20 final size:21
Alignment explanation
Indices: 17309391--17309506 Score: 57
Period size: 19 Copynumber: 5.8 Consensus size: 21
17309381 AAAATTACAA
17309391 AAAAAATTC-AAAATATTTAT
1 AAAAAATTCTAAAATATTTAT
* * *
17309411 -AAAAATTCTTATATATTTTT
1 AAAAAATTCTAAAATATTTAT
* * *
17309431 AAAAAA-TATATAAT-TTTTT
1 AAAAAATTCTAAAATATTTAT
* **
17309450 AAAAAGATTCTAAAAAAAATAT
1 AAAAA-ATTCTAAAATATTTAT
* *
17309472 AAAGAAAGT-TAAAA-AATTA-
1 AAA-AAATTCTAAAATATTTAT
*
17309491 AAAATATTCTAAAATA
1 AAAAAATTCTAAAATA
17309507 ATAACTTTGG
Statistics
Matches: 71, Mismatches: 17, Indels: 16
0.68 0.16 0.15
Matches are distributed among these distances:
18 3 0.04
19 26 0.37
20 18 0.25
21 15 0.21
22 7 0.10
23 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAATTCTAAAATATTTAT
Found at i:17320982 original size:29 final size:33
Alignment explanation
Indices: 17320923--17320986 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
17320913 TGAATTTTCA
17320923 AATAATTATAAAAATATATATTAAAAAATAATT
1 AATAATTATAAAAATATATATTAAAAAATAATT
*
17320956 AATAATTATAATAA-AT-T-TT-AAAAATAATT
1 AATAATTATAAAAATATATATTAAAAAATAATT
17320985 AA
1 AA
17320987 AAACAACTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 12 0.40
30 2 0.07
31 1 0.03
32 2 0.07
33 13 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
AATAATTATAAAAATATATATTAAAAAATAATT
Found at i:17321075 original size:24 final size:23
Alignment explanation
Indices: 17321033--17321077 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17321023 AAATAATTAT
17321033 AAATATAATAATAAAATTTTTAA
1 AAATATAATAATAAAATTTTTAA
* *
17321056 AAATATTAATAATTATATTTTT
1 AAATA-TAATAATAAAATTTTT
17321078 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATAATAATAAAATTTTTAA
Found at i:17339398 original size:123 final size:122
Alignment explanation
Indices: 17339086--17339455 Score: 514
Period size: 123 Copynumber: 3.0 Consensus size: 122
17339076 TTAGGGTTTT
* *** * * * *
17339086 TAGGTCCTGGAAGAAATAATTTCGAGTTAACGTTTCTGATCAAATAGTATAAATTCGCTTCTAGT
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
17339151 AGGATGCTATTTGAGAAGAATTTGTGAAAT---CCTCGTGGACACGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTGAAATCCGCCTCGTGGACGCGCTTTTGCTACAG
* *
17339206 TAGGTCATGGATGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* *
17339271 GGATGCTATTTGAGACGAATTAGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATC-CG-CCTCGTGGACGCGCTTTTGCTACAG
*
17339330 TAGGTCATGGAAGAAAT-ATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCG
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * *
17339394 GGATGCTATTTGAGAAGAGTTTGTGAAATCACGGCTTCGTGGACGCGTTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATC-C-GCCTCGTGGACGCGCTTTTGCTACAG
17339453 TAG
1 TAG
17339456 CATGTTTGGG
Statistics
Matches: 222, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
119 62 0.28
120 20 0.09
123 99 0.45
124 41 0.18
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (122 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAATCCGCCTCGTGGACGCGCTTTTGCTACAG
Found at i:17342031 original size:12 final size:12
Alignment explanation
Indices: 17342008--17342043 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17341998 ATTTTTACGG
17342008 TTTAAAAA-ATT
1 TTTAAAAATATT
17342019 TTTAAAAATATT
1 TTTAAAAATATT
*
17342031 TTTAAAATTATT
1 TTTAAAAATATT
17342043 T
1 T
17342044 AAAAAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:17342049 original size:12 final size:11
Alignment explanation
Indices: 17342008--17342049 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
17341998 ATTTTTACGG
17342008 TTTAAAAAATT
1 TTTAAAAAATT
17342019 TTTAAAAATATT
1 TTTAAAAA-ATT
17342031 TTT--AAAATT
1 TTTAAAAAATT
17342040 ATTTAAAAAA
1 -TTTAAAAAA
17342050 AGGGAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.11
10 6 0.22
11 8 0.30
12 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAAATT
Found at i:17342137 original size:11 final size:11
Alignment explanation
Indices: 17342121--17342156 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
17342111 GAGAATTTTT
17342121 GAGGAAATTGA
1 GAGGAAATTGA
17342132 GAGGAAATTGA
1 GAGGAAATTGA
*
17342143 AAGGAAATTTGA
1 GAGGAAA-TTGA
17342155 GA
1 GA
17342157 AAGGATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (11 bp):
GAGGAAATTGA
Found at i:17345927 original size:25 final size:24
Alignment explanation
Indices: 17345851--17345946 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 24
17345841 GTATACTGTA
* *
17345851 AAAAAAAGCATATATATATTATAT
1 AAAAAATGCGTATATATATTATAT
* **
17345875 AAAAAACGCGTGCATACTA-TATAT
1 AAAAAATGCGTATATA-TATTATAT
17345899 -AAAAATGCGTATATATATTATTAT
1 AAAAAATGCGTATATATATTA-TAT
* *
17345923 AAAAAATGTGTATGTATA-TATAT
1 AAAAAATGCGTATATATATTATAT
17345946 A
1 A
17345947 GTAATAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
22 2 0.03
23 18 0.31
24 22 0.37
25 17 0.29
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (24 bp):
AAAAAATGCGTATATATATTATAT
Found at i:17345969 original size:15 final size:15
Alignment explanation
Indices: 17345949--17345992 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
17345939 TATATATAGT
*
17345949 AATAATAATAACAAC
1 AATAATAATAACAAA
* *
17345964 AATAATAATTATAAA
1 AATAATAATAACAAA
17345979 AATAATAATAACAA
1 AATAATAATAACAA
17345993 TGTTAACACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATAATAACAAA
Found at i:17345971 original size:18 final size:18
Alignment explanation
Indices: 17345948--17345989 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17345938 ATATATATAG
*
17345948 TAATAATAATAACAACAA
1 TAATAATAATAAAAACAA
* *
17345966 TAATAATTATAAAAATAA
1 TAATAATAATAAAAACAA
17345984 TAATAA
1 TAATAA
17345990 CAATGTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
TAATAATAATAAAAACAA
Found at i:17347118 original size:14 final size:14
Alignment explanation
Indices: 17347091--17347129 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
17347081 TCTTCATTTG
17347091 TTTTGGGGCACTTGTA
1 TTTT-GGGC-CTTGTA
17347107 TTTTGGGCCTTGTA
1 TTTTGGGCCTTGTA
*
17347121 TTCTGGGCC
1 TTTTGGGCC
17347130 AGCTTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.64
15 4 0.18
16 4 0.18
ACGTcount: A:0.08, C:0.18, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTTGGGCCTTGTA
Found at i:17356302 original size:20 final size:20
Alignment explanation
Indices: 17356273--17356312 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17356263 TCTTTAACAA
*
17356273 AAAAAATATAAAACTATTTT
1 AAAAAATATAAAAATATTTT
*
17356293 AAAAACTATAAAAATATTTT
1 AAAAAATATAAAAATATTTT
17356313 TTTAACATTT
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:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATATAAAAATATTTT
Found at i:17364573 original size:9 final size:9
Alignment explanation
Indices: 17364518--17364556 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
17364508 TTTTAATAAA
17364518 TTTATATTTT
1 TTTA-ATTTT
*
17364528 TCT-ATTTT
1 TTTAATTTT
17364536 TTTAATTTT
1 TTTAATTTT
17364545 TTTAATTTT
1 TTTAATTTT
17364554 TTT
1 TTT
17364557 TGTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.27
9 17 0.65
10 2 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTAATTTT
Found at i:17365677 original size:46 final size:46
Alignment explanation
Indices: 17365619--17365714 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
17365609 TGTAGATTTA
17365619 AAATTTTAAAAACTCTTCATGAAGATTAAAATTTT-TAAGGCACAAC
1 AAATTTTAAAAACTCTTCATGAAGATT-AAATTTTATAAGGCACAAC
* * *
17365665 AAATTTTGAAAACTCTTGATGAAGATTAAATTTTATAAGGCACAGC
1 AAATTTTAAAAACTCTTCATGAAGATTAAATTTTATAAGGCACAAC
17365711 AAAT
1 AAAT
17365715 GTAAATGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (46 bp):
AAATTTTAAAAACTCTTCATGAAGATTAAATTTTATAAGGCACAAC
Found at i:17367631 original size:24 final size:23
Alignment explanation
Indices: 17367603--17367656 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
17367593 AATATATAAT
*
17367603 ATTAATTTTAAATATTTTTAAATA
1 ATTAATTTTAAATATTTATAAA-A
* *
17367627 ATTAATATTAATTATTTATAAAA
1 ATTAATTTTAAATATTTATAAAA
*
17367650 TTTAATT
1 ATTAATT
17367657 AGAATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTAATTTTAAATATTTATAAAA
Found at i:17367695 original size:14 final size:13
Alignment explanation
Indices: 17367653--17367703 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
17367643 TATAAAATTT
*
17367653 AATTAGAATATATA
1 AATTA-AATATAAA
* *
17367667 AATTATATTTAAA
1 AATTAAATATAAA
17367680 AATTTAAATATAAA
1 AA-TTAAATATAAA
17367694 AATTAAATAT
1 AATTAAATAT
17367704 TTGTAATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 15 0.48
14 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AATTAAATATAAA
Found at i:17370605 original size:30 final size:29
Alignment explanation
Indices: 17370548--17370605 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
17370538 CTCCAATTTC
17370548 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
1 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
17370577 ACCAGCAGAGGGGAAA-AAAACGTTTGGGG
1 ACCAGCAGAGGGGAAAGAAAA--TTTGGGG
17370606 GAGAATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.40, C:0.12, G:0.38, T:0.10
Consensus pattern (29 bp):
ACCAGCAGAGGGGAAAGAAAATTTGGGGA
Found at i:17388435 original size:5 final size:5
Alignment explanation
Indices: 17388427--17388455 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17388417 TAAATATGAT
17388427 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
17388456 TAATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATTAG
Found at i:17388462 original size:5 final size:5
Alignment explanation
Indices: 17388420--17388477 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
17388410 TGAAGTATAA
* * * * * * *
17388420 ATATG ATATT AGATT AGATT AGATT AGATT AGATT ATAAT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
17388470 ATATT ATA
1 ATATT ATA
17388478 AAAGAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (5 bp):
ATATT
Found at i:17388465 original size:15 final size:15
Alignment explanation
Indices: 17388425--17388477 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17388415 TATAAATATG
*
17388425 ATATTAGATTAGATT
1 ATATTATATTAGATT
* *
17388440 AGATTAGATTAGATT
1 ATATTATATTAGATT
* *
17388455 ATAATATATTATATT
1 ATATTATATTAGATT
17388470 ATATTATA
1 ATATTATA
17388478 AAAGAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
ATATTATATTAGATT
Found at i:17389461 original size:25 final size:25
Alignment explanation
Indices: 17389433--17389486 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
17389423 TCTTTGATAT
17389433 TTAGCACGTCAGTGCTATCTGATT-A
1 TTAGCACGTCAGTGCTATCTG-TTCA
*
17389458 TTAGCACGTCAGTGCTCTCTGTTCA
1 TTAGCACGTCAGTGCTATCTGTTCA
17389483 TTAG
1 TTAG
17389487 TGCATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAGCACGTCAGTGCTATCTGTTCA
Found at i:17394457 original size:37 final size:37
Alignment explanation
Indices: 17394407--17394485 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17394397 TTATTACGAA
* * *
17394407 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17394444 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17394481 GTCTT
1 GTCTT
17394486 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17394698 original size:47 final size:47
Alignment explanation
Indices: 17394660--17395127 Score: 801
Period size: 47 Copynumber: 9.9 Consensus size: 47
17394650 CTTGTCACGT
* * *
17394660 ATATACACTTTCACATTCATCACATCTGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
17394707 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17394754 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17394801 ATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17394848 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17394895 ATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17394942 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
17394989 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
* *
17395036 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATAT
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA-T-CACAC
*
17395085 ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 AT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
17395128 CTATCATTTC
Statistics
Matches: 405, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 361 0.89
48 1 0.00
49 5 0.01
51 38 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
Found at i:17394857 original size:141 final size:141
Alignment explanation
Indices: 17394603--17395127 Score: 807
Period size: 141 Copynumber: 3.7 Consensus size: 141
17394593 CCTTTCGGGA
** * * * * * * * * **
17394603 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACGTATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* *
17394668 TTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17394733 GGCTATTAGGC
131 GGCTATTAGGC
17394744 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* * *
17394809 TTTCACATTCATCACCTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17394874 GGCTATTAGGC
131 GGCTATTAGGC
*
17394885 CTTATCACACATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* *
17394950 TTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17395015 GGCTATTAGGC
131 GGCTATTAGGC
* * *
17395026 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAT
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA-T-CACACAT--AT
17395091 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
17395128 CTATCATTTC
Statistics
Matches: 355, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 312 0.88
142 1 0.00
143 5 0.01
145 37 0.10
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (141 bp):
CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:17398179 original size:41 final size:41
Alignment explanation
Indices: 17398122--17398278 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
17398112 TTATATAAAA
* * *
17398122 CACCGGCATAAAGCCTGCTAGGGACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* *
17398163 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* * * * *
17398204 CACCAGCACAGAGCCTGCTAGGCATAGAGGCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* *
17398245 CACCGACACAGAGCCTGCTAGGCATAAAGCCCGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGA
17398279 ACTTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.17
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
Found at i:17398499 original size:47 final size:47
Alignment explanation
Indices: 17398383--17398522 Score: 145
Period size: 47 Copynumber: 2.9 Consensus size: 47
17398373 TAACTTCAAA
* * * *
17398383 TAATTTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTT
1 TAATTCATTTCAATGCATAAC-AAT-TATATATACATTCAGCCATAGAT
* ** * * *
17398432 TAAGTCATTTCTCTGCATAACAGTTACATATACATTCAGCTATAGAT
1 TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATAGAT
* * *
17398479 TAATTCATTTCAATGTATAACAAATATATATACATTCGGCCATA
1 TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATA
17398523 ACCTATGTAA
Statistics
Matches: 72, Mismatches: 19, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
47 53 0.74
48 2 0.03
49 17 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (47 bp):
TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATAGAT
Found at i:17398609 original size:47 final size:47
Alignment explanation
Indices: 17398553--17398665 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
17398543 TTTATTTCAA
* * * *
17398553 TGCATAACAAATATATATGCATTCGGCCATAGTTTAATTCATTTCTC
1 TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
* * **
17398600 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
**
17398647 TATATAACAAATACATATA
1 TGCATAACAAATACATATA
17398666 TATACATTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (47 bp):
TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
Found at i:17398636 original size:155 final size:157
Alignment explanation
Indices: 17398347--17398665 Score: 545
Period size: 155 Copynumber: 2.1 Consensus size: 157
17398337 AACAATTCAC
* *
17398347 TATAT-TACATTCAGCCATAGCTTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
*
17398411 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAGTTACATATACATTCAGCTATA
66 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
*
17398476 GATTAATTCATTTCAATGTATAACAAA
131 GATTAATTCATTTCAATATATAACAAA
* *
17398503 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAAC-AA-ATA
1 TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
*
17398566 TATATGCATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
66 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
17398631 GATTAATTCATTTCAATATATAACAAA
131 GATTAATTCATTTCAATATATAACAAA
*
17398658 TACATATA
1 TATATATA
17398666 TATACATTCG
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
155 99 0.64
156 7 0.05
157 48 0.31
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (157 bp):
TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
GATTAATTCATTTCAATATATAACAAA
Found at i:17400608 original size:85 final size:85
Alignment explanation
Indices: 17400465--17400620 Score: 312
Period size: 85 Copynumber: 1.8 Consensus size: 85
17400455 TAGTTTAGGC
17400465 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
1 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
17400530 TGCCATCTGAAATAGGTGTA
66 TGCCATCTGAAATAGGTGTA
17400550 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
1 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
17400615 TGCCAT
66 TGCCAT
17400621 TTGAGAATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (85 bp):
TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
TGCCATCTGAAATAGGTGTA
Found at i:17402458 original size:438 final size:438
Alignment explanation
Indices: 17401594--17403348 Score: 2629
Period size: 438 Copynumber: 4.0 Consensus size: 438
17401584 CTGTATGACA
** * * * *
17401594 CATTGTACTGGAACCGGGCTTGTTTGTTGGCAATCAATATTGAGACAATAATGGTTGGCATGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* * * * *
17401659 TTTACCAATGGCCACAATTGCATATCATTTTTGCATCTAGCTTCTTATGATCTTACATTATACGT
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
** * * *
17401724 TCTGCAGTGTATGTATGGGGCTTTTCCAATTTGCTGAATGTCTACA-TTGAGTCATTTGTATAAG
131 TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
* * * *
17401788 TGCAACACTAACCCACCATTTACACTATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCA
196 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
*
17401853 ATGTTGACTTGGTGACTTT-TAGTCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
261 ATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
* *
17401917 CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAGCAACTCATCAAAATTTGTATCTTCCATCGA
326 CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
*
17401982 ACGGTGAGCACGCATTATATCTAGCTACTCAAGGAACTCTGGTACATG
391 ACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* * *
17402030 CGTTGTACTGGAACCGGGCTTGCATGTCGGTAATCAATACTAAGACAAGAATGGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* *
17402095 TTCACCAATGGTCACAATTACAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
* *
17402160 TCTGCAGTGTATGTATGAGGCCCTTCCAATTTGTTGATTGTCCACATTTAAGTCATTTGTATAAG
131 TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
* *
17402225 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACATTCCCTAACGTATAATGTCG
196 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
* * * * * *
17402290 GTGCTGAGTTGGTGACTTTGTAATCCACCGACACGTACATGCTATACCTTTTTATTGCAATAACA
261 ATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
*
17402355 CAATCCTCCTTGTTCACGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
326 CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
* *
17402420 ACGGTGAGTACGCATTATATCTAGGTACTCAGGGAACTCTGGTACATG
391 ACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* *
17402468 CATTGTACTGGAACCGGGCTTGCTTGTCGGCAATCAATACTGAGACAATAATGGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* *
17402533 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTATGTCATA-AG
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACA-
*
17402597 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCCTTTGTATAA
130 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAA
* * * *
17402662 GCGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCTAACATTCCCTAACGTATAATGTC
195 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTC
* * * *
17402727 GGTGTTGAGTTAGTGACTTTGTAATCCACAGACACCTACATGCTATACCTTTTTATTGCAATAAC
260 GATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAAC
* * * *
17402792 ACAATTCTACTTGTTCGCGAATTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCTGTCG
325 ACAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
* *
17402857 AACGGTGAGCACGCATTATATCTAGGTACTCAAAGAACTCTGGTGCATG
390 AACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* * * *
17402906 CATTGTACTGAAATCGGGCTTGCATGTCGGCAATCAATACTGAGACACGAATTGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* * * * *
17402971 TTCACCAATGGCCATAGTTGCAGATCATTTTTTCATCTACCTTCCTATGATCTTACGTCT-TACG
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGT-TATACA
* * * * *
17403035 TTCTGCAGTGTATGTATTGGGCCCTTCCAATTTGCTGATTGTCTATATTTGAGTCCTTTGTATAA
130 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAA
*
17403100 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCAAACACTCCCCAACGTATAATGTC
195 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTC
* * * *
17403165 GATGTTGACTTGGTGACTTTGTAGTCCACAGACGCCTACACGCTATACATTTTTATTGTAATAAC
260 GATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAAC
* * * *
17403230 ACAATCCTCCTTGTTCGTGAACTGTTGCCCTATGAACAAGTCATCAAAATCTGTATCTTCTGTCG
325 ACAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
* * * * * * *
17403295 AACGATAAGCATGCATTATATATAAGTACTC-AGGAAACTCTGGTGCATA
390 AACGGTGAGCACGCATTATATCTAGGTACTCAAGG-AACTCTGGTACATG
17403344 CATTG
1 CATTG
17403349 CATCAAGGTC
Statistics
Matches: 1202, Mismatches: 111, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
436 154 0.13
437 95 0.08
438 953 0.79
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (438 bp):
CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
ATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
ACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
Found at i:17406551 original size:17 final size:19
Alignment explanation
Indices: 17406514--17406551 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17406504 TAAAATATTA
*
17406514 ATATTAATTTATTTAAATT
1 ATATTAATTTATATAAATT
17406533 ATATTAATTT-TAT-AATT
1 ATATTAATTTATATAAATT
17406550 AT
1 AT
17406552 GTCAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAATTTATATAAATT
Found at i:17406790 original size:16 final size:16
Alignment explanation
Indices: 17406769--17406825 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
17406759 TTTGGTTCGC
*
17406769 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17406785 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17406801 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
17406817 TGTAATGGA
1 TGTAATGGA
17406826 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:17407092 original size:18 final size:17
Alignment explanation
Indices: 17407071--17407105 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17407061 TTATTATTAA
*
17407071 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17407089 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17407106 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17407224 original size:16 final size:16
Alignment explanation
Indices: 17407205--17407338 Score: 65
Period size: 16 Copynumber: 8.6 Consensus size: 16
17407195 TTAATCATAT
*
17407205 TTAAATATAATTATTA
1 TTAAATATAATTATAA
17407221 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
17407236 TTAAA-AT-A-TATAA
1 TTAAATATAATTATAA
* *
17407249 TTTAATATGAATT-TAC
1 TTAAATAT-AATTATAA
*
17407265 TCAAATCATAATATATGATA
1 TTAAAT-ATAAT-TAT-A-A
17407285 CTGTAAA-AT-A-TA-AA
1 -T-TAAATATAATTATAA
* *
17407299 TT-AACATAATTATTA
1 TTAAATATAATTATAA
17407314 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
17407329 TTAAAATATA
1 TT-AAATATA
17407339 TAATTTAATA
Statistics
Matches: 90, Mismatches: 10, Indels: 35
0.67 0.07 0.26
Matches are distributed among these distances:
11 2 0.02
12 3 0.03
13 11 0.12
14 8 0.09
15 23 0.26
16 28 0.31
17 6 0.07
18 1 0.01
19 2 0.02
20 2 0.02
21 1 0.01
22 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:17407245 original size:154 final size:156
Alignment explanation
Indices: 17406958--17407255 Score: 537
Period size: 154 Copynumber: 1.9 Consensus size: 156
17406948 TAGAATACCC
17406958 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
17407023 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
17407088 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
17407115 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
*
17407178 TATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
17407243 ATATAATTTAATA
131 ATATAATTTAATA
17407256 TGAATTTACT
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 76 0.55
155 1 0.01
157 60 0.44
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:17407249 original size:34 final size:33
Alignment explanation
Indices: 17407209--17407343 Score: 81
Period size: 34 Copynumber: 4.2 Consensus size: 33
17407199 TCATATTTAA
17407209 ATATAATTATTATTAAATATATTATAATTAAAAT
1 ATATAATTATTATTAAATATATTA-AATTAAAAT
* * * * * *
17407243 ATATAATT-TAATATGAATTTACTCAAATCATAAT
1 ATATAATTATTAT-TAAATATA-TTAAATTAAAAT
* * *
17407277 ATATGA-TACT-GTAAA-ATA-TAAATT---A-
1 ATATAATTATTATTAAATATATTAAATTAAAAT
*
17407302 ACATAATTATTATTAAATATATTATAATTAAAAT
1 ATATAATTATTATTAAATATATTA-AATTAAAAT
17407336 ATATAATT
1 ATATAATT
17407344 TAATAAAATT
Statistics
Matches: 70, Mismatches: 19, Indels: 24
0.62 0.17 0.21
Matches are distributed among these distances:
25 4 0.06
26 4 0.06
27 4 0.06
28 3 0.04
29 6 0.09
30 4 0.06
31 2 0.03
32 3 0.04
33 5 0.07
34 33 0.47
35 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (33 bp):
ATATAATTATTATTAAATATATTAAATTAAAAT
Found at i:17407253 original size:14 final size:15
Alignment explanation
Indices: 17407205--17407348 Score: 79
Period size: 15 Copynumber: 9.5 Consensus size: 15
17407195 TTAATCATAT
*
17407205 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
17407221 TTAAATATATTATAA
1 TTAAATATATTATAA
17407236 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
17407249 TTTAATATGAATTTACTCAAA
1 TTAAATAT--A-TTA-T--AA
* * *
17407270 TCATAATATATGATAC
1 TTA-AATATATTATAA
17407286 TGTAAA-ATA-TA-AA
1 T-TAAATATATTATAA
*
17407299 TTAACATA-ATTATTA
1 TTAA-ATATATTATAA
17407314 TTAAATATATTATAA
1 TTAAATATATTATAA
17407329 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
17407342 TTTAATA
1 TTAAATA
17407349 AAATTCTTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 34
0.68 0.08 0.23
Matches are distributed among these distances:
12 3 0.03
13 22 0.22
14 16 0.16
15 30 0.30
16 13 0.13
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:17407312 original size:154 final size:155
Alignment explanation
Indices: 17406997--17407312 Score: 392
Period size: 154 Copynumber: 2.0 Consensus size: 155
17406987 ATTGTTATTG
17406997 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
17407062 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
17407127 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
*
17407154 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAATATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
17407217 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
17407279 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
17407308 TTATT
1 TTATT
17407313 ATTAAATATA
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.12
154 91 0.65
155 3 0.02
157 23 0.17
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:17407363 original size:44 final size:43
Alignment explanation
Indices: 17407274--17407364 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
17407264 CTCAAATCAT
* * *
17407274 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
17407317 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
17407361 AATA
1 AATA
17407365 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:17407388 original size:120 final size:119
Alignment explanation
Indices: 17407254--17407472 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
17407244 TATAATTTAA
* * * *
17407254 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATCA
17407317 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
17407374 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
*
17407439 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
17407473 TAAAATTATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 24 0.26
120 62 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:17407458 original size:17 final size:17
Alignment explanation
Indices: 17407438--17407471 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17407428 TTAATATCAA
*
17407438 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
17407455 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
17407472 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:17407614 original size:93 final size:92
Alignment explanation
Indices: 17407504--17407698 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
17407494 GATTATAGTT
* * *
17407504 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
17407567 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
17407597 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
17407662 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
17407689 TATGAATTTA
1 TATGAATTTA
17407699 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:17409303 original size:34 final size:34
Alignment explanation
Indices: 17409260--17409327 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17409250 TCTGAAATTC
17409260 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
17409294 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
17409328 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:17409599 original size:78 final size:78
Alignment explanation
Indices: 17409470--17409626 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
17409460 TATTAGTCAA
* * *
17409470 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
17409535 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
17409548 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
17409613 GACAGCAACACTC
66 GACAGCAACACTC
17409626 G
1 G
17409627 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:17412707 original size:259 final size:259
Alignment explanation
Indices: 17412248--17412769 Score: 1044
Period size: 259 Copynumber: 2.0 Consensus size: 259
17412238 GATCATAGAT
17412248 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
1 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
17412313 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
66 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
17412378 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
131 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
17412443 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
196 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
17412507 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
1 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
17412572 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
66 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
17412637 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
131 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
17412702 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
196 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
17412766 GTTG
1 GTTG
17412770 CAATCCACAG
Statistics
Matches: 263, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 263 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (259 bp):
GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
Found at i:17423813 original size:2 final size:2
Alignment explanation
Indices: 17423808--17423833 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17423798 AGCGCGCGCG
17423808 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
17423834 AAAAGGAAGT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:17432984 original size:17 final size:16
Alignment explanation
Indices: 17432951--17433008 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
17432941 AGTTTAATAG
*
17432951 TTTAATATTAAATTTAA
1 TTTAATATTATA-TTAA
17432968 TTTAATACTTATATTAA
1 TTTAATA-TTATATTAA
*
17432985 --TAATATTTTATTAA
1 TTTAATATTATATTAA
*
17432999 TTTAAAATTA
1 TTTAATATTA
17433009 AAGTGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 6 0.18
17 11 0.32
18 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATATTATATTAA
Found at i:17439885 original size:17 final size:18
Alignment explanation
Indices: 17439863--17439896 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17439853 AGCTAATCAA
17439863 ACTAA-TTAAAACAAGGT
1 ACTAATTTAAAACAAGGT
*
17439880 ACTAATTTAAAATAAGG
1 ACTAATTTAAAACAAGG
17439897 GATTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (18 bp):
ACTAATTTAAAACAAGGT
Found at i:17449930 original size:40 final size:39
Alignment explanation
Indices: 17449865--17450000 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
17449855 ACTATGTTTA
* * * * *
17449865 GCACTTAGTATGTGATTCGAGATAGCTTCAGCTATTTATG
1 GCACTTAGTGTGCGACT-GAGATAGCTTCGGCTATATATG
* *
17449905 GCACTTAGTGTGCGATTGGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGACTGAG-ATAGCTTCGGCTATATATG
* * * *
17449945 ACACTTAGTGTGTGAAACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCG--ACTGAGATAGCTTCGGCTATATATG
17449986 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
17450001 GATTATAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.04
40 44 0.55
41 29 0.36
42 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (39 bp):
GCACTTAGTGTGCGACTGAGATAGCTTCGGCTATATATG
Found at i:17450774 original size:24 final size:24
Alignment explanation
Indices: 17450745--17450827 Score: 125
Period size: 23 Copynumber: 3.5 Consensus size: 24
17450735 TTTACATGAT
*
17450745 AAATGCTGTCCAATTTGATGCATA
1 AAATGCTGTCCAATTTGATGTATA
* *
17450769 AAATGCTGTCCAGTTTGGTGTAT-
1 AAATGCTGTCCAATTTGATGTATA
17450792 AAATGCTGTCCAATTTGATGTATA
1 AAATGCTGTCCAATTTGATGTATA
17450816 AAA-GCTGTCCAA
1 AAATGCTGTCCAA
17450828 AACAGGGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 30 0.57
24 23 0.43
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (24 bp):
AAATGCTGTCCAATTTGATGTATA
Found at i:17456434 original size:16 final size:16
Alignment explanation
Indices: 17456413--17456443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17456403 AAATATAATA
*
17456413 AAATATTTTAAAAAAT
1 AAATATTTGAAAAAAT
17456429 AAATATTTGAAAAAA
1 AAATATTTGAAAAAA
17456444 AATTAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATATTTGAAAAAAT
Found at i:17460215 original size:25 final size:25
Alignment explanation
Indices: 17460170--17460292 Score: 117
Period size: 25 Copynumber: 5.0 Consensus size: 25
17460160 GTCATTAGGG
* *
17460170 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* *
17460194 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * * *
17460219 TTACCGTTATTCGGCTCGAAGGAAC
1 TTACCGTTATTCAGCTCGTATGAGC
* * *
17460244 TTACCGTTATTCAACTCGGAAGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
17460269 TTACCGTT-TAT-AGCTCGTATGAGC
1 TTACCGTTAT-TCAGCTCGTATGAGC
17460293 ATACATGTAT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 19 0.23
25 62 0.77
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:17463912 original size:50 final size:50
Alignment explanation
Indices: 17463850--17463946 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
17463840 AAGAAGAAAC
* *
17463850 ATCTCTTTCTAAAATAATCAAGAATTATTAACACAATAAGCTATGATCGA
1 ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCGA
* * * *
17463900 ATCTCTTACTAAAATGATCCATAATTATTAACACAATTAGCCATGAT
1 ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGAT
17463947 TCGACAGGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (50 bp):
ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCGA
Found at i:17464768 original size:25 final size:27
Alignment explanation
Indices: 17464725--17464774 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
17464715 ACTCAACCGA
* *
17464725 ATTTTTTTATCCCAGTTAAATTCTGCT
1 ATTTTTTTATCCCAATTAAACTCTGCT
17464752 ATTTTTTT-T-CCAATTAAACTCTG
1 ATTTTTTTATCCCAATTAAACTCTG
17464775 GTTAGTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 1 0.05
27 8 0.38
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (27 bp):
ATTTTTTTATCCCAATTAAACTCTGCT
Found at i:17467377 original size:18 final size:18
Alignment explanation
Indices: 17467350--17467392 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17467340 ATTTTTTTAA
17467350 ATTA-TTTTTGAATATAT
1 ATTATTTTTTGAATATAT
*
17467367 ATTATTTTTTGAATTTAT
1 ATTATTTTTTGAATATAT
17467385 A-TATTTTT
1 ATTATTTTT
17467393 AATTTCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTATTTTTTGAATATAT
Found at i:17467624 original size:23 final size:24
Alignment explanation
Indices: 17467585--17467635 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
17467575 ATAAAATTTT
*
17467585 TAAA-TATTTTTAGAAAATTAATA
1 TAAATTATTTGTAGAAAATTAATA
*
17467608 TAAATTATTTGTA-AAAATTAATT
1 TAAATTATTTGTAGAAAATTAATA
17467631 TAAAT
1 TAAAT
17467636 ACACAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TAAATTATTTGTAGAAAATTAATA
Found at i:17467738 original size:21 final size:21
Alignment explanation
Indices: 17467714--17467755 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17467704 CACAAGTAAA
17467714 GTTAGGGGGTTGACTAGTATT
1 GTTAGGGGGTTGACTAGTATT
17467735 GTTAGGGGGTTGACTAGTATT
1 GTTAGGGGGTTGACTAGTATT
17467756 CTATAAGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (21 bp):
GTTAGGGGGTTGACTAGTATT
Found at i:17473507 original size:12 final size:12
Alignment explanation
Indices: 17473490--17473537 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
17473480 ATAAATACCA
17473490 AAAAATTATTTT
1 AAAAATTATTTT
*
17473502 AAAAATTA---A
1 AAAAATTATTTT
*
17473511 AAAAAGTATTTT
1 AAAAATTATTTT
17473523 AAAAA-TATTTT
1 AAAAATTATTTT
17473534 AAAA
1 AAAA
17473538 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.23
11 10 0.33
12 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:17473515 original size:21 final size:21
Alignment explanation
Indices: 17473489--17473528 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17473479 AATAAATACC
*
17473489 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
17473510 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
17473529 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Found at i:17473566 original size:21 final size:21
Alignment explanation
Indices: 17473490--17473566 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
17473480 ATAAATACCA
*
17473490 AAAAATTATTTT--AAAAATT
1 AAAAAGTATTTTAAAAAAATT
*
17473509 AAAAAAAGTATTTTAAAAATATT
1 --AAAAAGTATTTTAAAAAAATT
** **
17473532 TTAAA--ATTAAAAAAAAATT
1 AAAAAGTATTTTAAAAAAATT
17473551 AAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAA
17473567 TTAAAAATAA
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
19 14 0.34
21 21 0.51
23 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAGTATTTTAAAAAAATT
Found at i:17473583 original size:29 final size:27
Alignment explanation
Indices: 17473541--17473596 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
17473531 TTTAAAATTA
17473541 AAAAAAAATTAAAAAGTATTTTAAAATT
1 AAAAAAAA-TAAAAAGTATTTTAAAATT
*
17473569 AAAAATAATAAAAAAGTATTTTCAAAAT
1 AAAAAAAAT-AAAAAGTATTTT-AAAAT
17473597 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 19 0.76
29 5 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAAAAATAAAAAGTATTTTAAAATT
Found at i:17474966 original size:7 final size:7
Alignment explanation
Indices: 17474954--17475004 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
17474944 TGGGTGAATA
17474954 GTTTAGG
1 GTTTAGG
17474961 GTTTAGG
1 GTTTAGG
*
17474968 GTTTATG
1 GTTTAGG
17474975 G-TTAGG
1 GTTTAGG
17474981 GTTTTTAGG
1 G--TTTAGG
*
17474990 TTTTTAGG
1 -GTTTAGG
17474998 GTTTAGG
1 GTTTAGG
17475005 ATTTTAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 6 0.17
9 5 0.14
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:17475140 original size:95 final size:96
Alignment explanation
Indices: 17475035--17475235 Score: 232
Period size: 95 Copynumber: 2.1 Consensus size: 96
17475025 TAATTAATGG
* * * * *
17475035 ATTAGTGTTTA-GGATTTGTCAATTAAATTAATTATAATTTTTTT-CAAAATTGTATT-AGGTTT
1 ATTAGGGTTTACGG-TTTCTCAAGTAAATTAATTA-AATTTTTTTAAAAAATTGGATTAAGGTTT
* *
17475097 CGTGTTTATGGTTTTTAAAG-AAAAA-TAAATTAA
64 AGTGTTTA-GGGTTTT-AAGTAAAAACTAAATTAA
**
17475130 ATTAGGGTTTACGGTTTCTTGAGTAAATTAATTAAATTTTTTTAAAAAATTGGATTAAGGTTTAG
1 ATTAGGGTTTACGGTTTCTCAAGTAAATTAATTAAATTTTTTTAAAAAATTGGATTAAGGTTTAG
* *
17475195 TGTTTAGGGTTTTATGTAAAAACTTAATTAA
66 TGTTTAGGGTTTTAAGTAAAAACTAAATTAA
17475226 ATTAGGGTTT
1 ATTAGGGTTT
17475236 GGGGTTTAGG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
94 11 0.12
95 47 0.52
96 32 0.36
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (96 bp):
ATTAGGGTTTACGGTTTCTCAAGTAAATTAATTAAATTTTTTTAAAAAATTGGATTAAGGTTTAG
TGTTTAGGGTTTTAAGTAAAAACTAAATTAA
Found at i:17475242 original size:7 final size:7
Alignment explanation
Indices: 17475227--17475262 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
17475217 CTTAATTAAA
17475227 TTAGGGT
1 TTAGGGT
*
17475234 TTGGGGT
1 TTAGGGT
17475241 TTAGGGT
1 TTAGGGT
17475248 TTAGGGT
1 TTAGGGT
17475255 TTAGGGT
1 TTAGGGT
17475262 T
1 T
17475263 ACTTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:17475242 original size:96 final size:95
Alignment explanation
Indices: 17475058--17475235 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 95
17475048 ATTTGTCAAT
* * * *
17475058 TAAATTAATTATAATTTTTTTCAAAATTGTATTAGGTTTCGTGTTTATGGTTTTTAAAGAAAAAT
1 TAAATTAATTATAATTTTTTTAAAAATTGGATTAGGTTTAGTGTTTATGGGTTTTAAAGAAAAAT
17475123 AAATTAAATTAGGGTTTACGGTTTCTTGAG
66 AAATTAAATTAGGGTTTACGGTTTCTTGAG
*
17475153 TAAATTAATTA-AATTTTTTTAAAAAATTGGATTAAGGTTTAGTGTTTA-GGGTTTT-ATGTAAA
1 TAAATTAATTATAATTTTTTT-AAAAATTGGATT-AGGTTTAGTGTTTATGGGTTTTAAAG-AAA
*
17475215 AACTTAATTAAATTAGGGTTT
63 AA-TAAATTAAATTAGGGTTT
17475236 GGGGTTTAGG
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 11 0.15
95 32 0.44
96 30 0.41
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (95 bp):
TAAATTAATTATAATTTTTTTAAAAATTGGATTAGGTTTAGTGTTTATGGGTTTTAAAGAAAAAT
AAATTAAATTAGGGTTTACGGTTTCTTGAG
Found at i:17475440 original size:125 final size:126
Alignment explanation
Indices: 17475288--17475581 Score: 448
Period size: 125 Copynumber: 2.3 Consensus size: 126
17475278 TTGTTAATTT
* ** * * * * *
17475288 AAAGAAGCTCTCATATGGACGTGTTTTTTCCACAGTAGCTCTTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCTGAC
* * *
17475353 GTTTCTGAGCAAATAGTGTC-AAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTATTG
66 CTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
17475413 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACA-TAGCTCCTGAAAAAATAATTTCGAGCTGAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCTGAC
* *
17475477 CTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAATTACTA
66 CTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
*
17475538 AAAGAAGCTCCCACGTGGACGCATTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTG
17475582 TTAGGCCTGG
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
124 47 0.31
125 97 0.63
126 9 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCTGAC
CTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
Found at i:17477609 original size:7 final size:7
Alignment explanation
Indices: 17477597--17477647 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
17477587 AACATGGGTA
17477597 TTTAGGG
1 TTTAGGG
*
17477604 TTTAGGA
1 TTTAGGG
**
17477611 TTTATAG
1 TTTAGGG
17477618 TTTAGGG
1 TTTAGGG
*
17477625 TTTAAGG
1 TTTAGGG
17477632 TTTAGGG
1 TTTAGGG
17477639 TTTAGGG
1 TTTAGGG
17477646 TT
1 TT
17477648 ATACAGGCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:17478346 original size:33 final size:33
Alignment explanation
Indices: 17478317--17478407 Score: 102
Period size: 28 Copynumber: 2.9 Consensus size: 33
17478307 TAAAAATATT
*
17478317 AAAGTAAATTACAATTGGTACATAGAAAATGTA
1 AAAGTAAATTACAATTGATACATAGAAAATGTA
* * *
17478350 AAAG--AATTTCTATT-ATA-TTA-AAAATGTA
1 AAAGTAAATTACAATTGATACATAGAAAATGTA
*
17478378 AAAGTAAATTACAATTGCTACATAGAAAAT
1 AAAGTAAATTACAATTGATACATAGAAAAT
17478408 CTAATCTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
28 12 0.27
29 2 0.04
30 10 0.22
31 10 0.22
32 2 0.04
33 9 0.20
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (33 bp):
AAAGTAAATTACAATTGATACATAGAAAATGTA
Found at i:17478346 original size:49 final size:50
Alignment explanation
Indices: 17478291--17478426 Score: 130
Period size: 61 Copynumber: 2.5 Consensus size: 50
17478281 CTTATTTAAA
*
17478291 AGAAAATCTAATCTATTAAAAATATT-AAAGTAAATTACAATTGGTACAT
1 AGAAAATCTAATCTATTAAAAATATTAAAAGTAAATTACAATTGCTACAT
* *
17478340 AGAAAATGTAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGCTACAT
1 AGAAAATCT-----AA--TCTATTA-A--AAATAT-TAAAAGTAAATTACAATTGCTACAT
*
17478401 AGAAAATCTAATCTATTAAACATATT
1 AGAAAATCTAATCTATTAAAAATATT
17478427 GCCTTATTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
49 8 0.12
50 1 0.01
51 4 0.06
53 1 0.01
54 9 0.13
56 9 0.13
57 1 0.01
59 5 0.07
60 1 0.01
61 30 0.43
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (50 bp):
AGAAAATCTAATCTATTAAAAATATTAAAAGTAAATTACAATTGCTACAT
Found at i:17478353 original size:61 final size:61
Alignment explanation
Indices: 17478287--17478407 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
17478277 TTGACTTATT
* * *
17478287 TAAAAGAAAATCTAATCTATTAAAAATATTAAAGTAAATTACAATTGGTACATAGAAAATG
1 TAAAAGAAAATCTAATATATTAAAAATATAAAAGTAAATTACAATTGCTACATAGAAAATG
** * *
17478348 TAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGCTACATAGAAAAT
1 TAAAAGAAAATCTAATATATTAAAAATATAAAAGTAAATTACAATTGCTACATAGAAAAT
17478408 CTAATCTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (61 bp):
TAAAAGAAAATCTAATATATTAAAAATATAAAAGTAAATTACAATTGCTACATAGAAAATG
Found at i:17478682 original size:21 final size:22
Alignment explanation
Indices: 17478658--17478716 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
17478648 GTCTAGCTTT
*
17478658 CGGTGAGGG-TTGTGGTTGC-TC
1 CGGTGAGGGATTCTGGTT-CTTC
17478679 CGGTG-GGGATTCTGGTTCTTC
1 CGGTGAGGGATTCTGGTTCTTC
*
17478700 CGGT-AGGGAATCTGGTT
1 CGGTGAGGGATTCTGGTT
17478717 GTCGGTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.08, C:0.15, G:0.42, T:0.34
Consensus pattern (22 bp):
CGGTGAGGGATTCTGGTTCTTC
Found at i:17478984 original size:18 final size:18
Alignment explanation
Indices: 17478958--17479000 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
17478948 GACTAGAAAA
* *
17478958 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
17478976 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
17478994 AGGATAC
1 AGGATAC
17479001 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:17480901 original size:10 final size:10
Alignment explanation
Indices: 17480838--17480924 Score: 111
Period size: 11 Copynumber: 8.2 Consensus size: 10
17480828 TTTTAAAAAT
17480838 AATTTGAGAGG
1 AATTTGAGA-G
17480849 AATTTGAGAGG
1 AATTTGAGA-G
17480860 AATTTGAGAAG
1 AATTTGAG-AG
17480871 AATTTGAGAG
1 AATTTGAGAG
17480881 AATATTAGAGAG
1 AAT-TT-GAGAG
17480893 AATTTGAGAG
1 AATTTGAGAG
*
17480903 AATTTGAGAA
1 AATTTGAGAG
*
17480913 AATTTGAAAG
1 AATTTGAGAG
17480923 AA
1 AA
17480925 ATGATTAAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
10 29 0.41
11 32 0.46
12 9 0.13
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:17482668 original size:22 final size:23
Alignment explanation
Indices: 17482635--17482679 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17482625 CAATTTATAT
17482635 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
17482658 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATATATAAATATTTG
17482680 CTCGTTAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:17482677 original size:14 final size:14
Alignment explanation
Indices: 17482627--17482678 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
17482617 AAATTATTCA
17482627 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
17482640 -TTTATATATAAAT
1 ATTTATATATTTAT
* *
17482653 ATTTGTTTATTTAT
1 ATTTATATATTTAT
17482667 ATTTATATATTT
1 ATTTATATATTT
17482679 GCTCGTTAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 19 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:17482942 original size:86 final size:86
Alignment explanation
Indices: 17482787--17483439 Score: 896
Period size: 86 Copynumber: 7.6 Consensus size: 86
17482777 TGAACGACCA
* * * ** **
17482787 TATTT-ATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAACCTGTTGAACAACAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGG
* *
17482851 AAATAAATCCCGAAA-TAAATTT
65 GAATAAATCCCGAAACT-GATTT
* * * * * **
17482873 TATTTAATTTTAATACTTGTTTCGAAACAAAATAAAAAATGGAATAAAATCTGTTAAACGTCAAG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
**
17482938 AATAAATCCCGAAACAAATTT
66 AATAAATCCCGAAACTGATTT
* * *
17482959 TATTTAATTTTAATACTCGTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
* *
17483024 AATAAATCTCAAAACTGATTT
66 AATAAATCCCGAAACTGATTT
* * * * *
17483045 TTTTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAATAGAATAAAATATTTTGAACGGCGGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
17483110 AATAAATCCCGAAACTGATTT
66 AATAAATCCCGAAACTGATTT
* *
17483131 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAAATGGAATAAAATCTTTTGAACGGCG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT--AAAAAATGGAATAAAATCTGTTGAACGGCG
* *
17483196 GGAATAAATTCTGAAACTGATTT
64 GGAATAAATCCCGAAACTGATTT
*
17483219 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
* *
17483284 AATAGATCCCAAAACTGATTT
66 AATAAATCCCGAAACTGATTT
*
17483305 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGG
* *
17483370 GAATAAATCCTGAAACAGATTT
65 GAATAAATCCCGAAACTGATTT
*
17483392 TATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGAATAAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAA
17483440 TCTCGAAACA
Statistics
Matches: 514, Mismatches: 48, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
86 329 0.64
87 104 0.20
88 81 0.16
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (86 bp):
TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGG
AATAAATCCCGAAACTGATTT
Found at i:17483243 original size:174 final size:173
Alignment explanation
Indices: 17482787--17483439 Score: 927
Period size: 174 Copynumber: 3.8 Consensus size: 173
17482777 TGAACGACCA
* * * * **
17482787 TATTT-ATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAACCTGTTGAACAACAA
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
* * * * *
17482851 AAATAAATCCCGAAA-TAAATTTTATTTAATTTTAATACTTGTTTCGAAACAAAATAAAAAATGG
66 GAATAAATCCTGAAACT-GATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGG
* * * **
17482915 AATAAAATCTGTTAAACGTCAAGAATAAATCCCGAAACAAATTT
130 AATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
* * * *
17482959 TATTTAATTTTAATACTCGTTTAGAAACAAAAT-AAAAAATGGAATAAAATCTATTGAACGGCGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
* * * * *
17483023 GAATAAAT-CTCAAAACTGATTTTTTTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAATAG
66 GAATAAATCCT-GAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGG
* * *
17483087 AATAAAATATTTTGAACGGCGGGAATAAATCCCGAAACTGATTT
130 AATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
* * *
17483131 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAAATGGAATAAAATCTTTTGAACGGCG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAAT-AAAAAAATGGAATAAAATCTGTTGAACGACG
* *
17483196 GGAATAAATTCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAATGG
65 GGAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGG
* *
17483261 AATAAAATCTGTTGAACGGCGAGAATAGATCCCAAAACTGATTT
130 AATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
17483305 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
1 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
*
17483370 GAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
66 GAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
17483435 ATAAA
131 ATAAA
17483440 TCTCGAAACA
Statistics
Matches: 430, Mismatches: 45, Indels: 11
0.88 0.09 0.02
Matches are distributed among these distances:
171 1 0.00
172 147 0.34
173 122 0.28
174 158 0.37
175 2 0.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (173 bp):
TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
GAATAAATCCTGAAACTGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
ATAAAATCTGTTGAACGGCGAGAATAAATCCCGAAACTGATTT
Found at i:17483260 original size:260 final size:259
Alignment explanation
Indices: 17482787--17483439 Score: 970
Period size: 260 Copynumber: 2.5 Consensus size: 259
17482777 TGAACGACCA
* * **
17482787 TATTT-ATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAACCTGTTGAACAACAA
1 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAATCTGTTGAACGACGG
* * *
17482851 AAATAAATCCCGAAA-TAAATTTTATTTAATTTTAATACTTGTTTCGAAACAAAATAAAAAATGG
66 GAATAAATCCCGAAACT-GATTTTATTTAATTTTAATACTTGTTTGGAAACAAAATAAAAAATGG
*
17482915 AATAAAATCTGTTAAACGTCAAGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCGTT
130 AATAAAATCTGTTAAACGGCAAGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCGTT
* *
17482980 TAGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAATCTCAAAACTGATTT
195 TAGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGAGAATAAATCCCAAAACTGATTT
* * * *
17483045 TTTTTAATTTTAATACTTGTTTGGAAATAAAAT-AAAAAATAGAATAAAATATTTTGAACGGCGG
1 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAATCTGTTGAACGACGG
*
17483109 GAATAAATCCCGAAACTGATTTTATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAAATG
66 GAATAAATCCCGAAACTGATTTTATTTAATTTTAATACTTGTTTGGAAACAAAAT--AAAAAATG
* * ** * * **
17483174 GAATAAAATCTTTTGAACGGCGGGAATAAATTCTGAAACTGATTTTATTTAATTTTAATACTCGT
129 GAATAAAATCTGTTAAACGGCAAGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCGT
* * * *
17483239 TTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAGAATAGATCCCAAAACTGATT
194 TTAGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGAGAATAAATCCCAAAACTGATT
17483304 T
259 T
* *
17483305 TATTTAATTTTAATACTCGTTTGGAAATAAAATAAAAAAATGGAATAAAATCTGTTGAACGACGG
1 TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAATCTGTTGAACGACGG
* * *
17483370 GAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGA
66 GAATAAATCCCGAAACTGATTTTATTTAATTTTAATACTTGTTTGGAAACAAAATAAAAAATGGA
17483435 ATAAA
131 ATAAA
17483440 TCTCGAAACA
Statistics
Matches: 353, Mismatches: 37, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
258 77 0.22
259 43 0.12
260 155 0.44
261 78 0.22
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (259 bp):
TATTTAATTTTAATACTTGTTTGGAAATAAAATAAAAAAATAGAATAAAATCTGTTGAACGACGG
GAATAAATCCCGAAACTGATTTTATTTAATTTTAATACTTGTTTGGAAACAAAATAAAAAATGGA
ATAAAATCTGTTAAACGGCAAGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCGTTT
AGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGAGAATAAATCCCAAAACTGATTT
Found at i:17483575 original size:22 final size:21
Alignment explanation
Indices: 17483547--17483587 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17483537 CATGTTAGTG
17483547 AACAAATATATAAATATAAACA
1 AACAAATAT-TAAATATAAACA
*
17483569 AACAAATATTATATATAAA
1 AACAAATATTAAATATAAA
17483588 ATAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AACAAATATTAAATATAAACA
Found at i:17484319 original size:9 final size:9
Alignment explanation
Indices: 17484305--17484348 Score: 88
Period size: 9 Copynumber: 4.9 Consensus size: 9
17484295 CCAATATATC
17484305 TCAAAAATT
1 TCAAAAATT
17484314 TCAAAAATT
1 TCAAAAATT
17484323 TCAAAAATT
1 TCAAAAATT
17484332 TCAAAAATT
1 TCAAAAATT
17484341 TCAAAAAT
1 TCAAAAAT
17484349 GACAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
TCAAAAATT
Found at i:17495513 original size:83 final size:83
Alignment explanation
Indices: 17495360--17495513 Score: 236
Period size: 83 Copynumber: 1.9 Consensus size: 83
17495350 AATTGATTTT
* * * * * *
17495360 TTTTCAATTTAGTCCTCTTATAAATAGAGAAATTATAAATTAATATATAATGAATTTGTACTTTG
1 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
*
17495425 GCCCCCGAAAATAAAACA
66 ACCCCCGAAAATAAAACA
*
17495443 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAAATTGTACTTTA
1 TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
17495508 ACCCCC
66 ACCCCC
17495514 CATAAAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (83 bp):
TTTTCAATTCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAATAAAATTGTACTTTA
ACCCCCGAAAATAAAACA
Found at i:17503863 original size:23 final size:23
Alignment explanation
Indices: 17503831--17503911 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
17503821 CCTAGAATTT
*
17503831 AGAAAAAAAAATAACAGAAGAAA
1 AGAAAGAAAAATAACAGAAGAAA
* *
17503854 AGAAGGAAAAGAGAA-AGAAAGAAA
1 AGAAAGAAAA-ATAACAG-AAGAAA
*
17503878 TAGGGAGAAGAGAAATAACAGAAGAAA
1 -A--GA-AAGAAAAATAACAGAAGAAA
17503905 AGAAAGA
1 AGAAAGA
17503912 GAAGACAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 14 0.31
24 11 0.24
25 1 0.02
26 1 0.02
27 11 0.24
28 7 0.16
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (23 bp):
AGAAAGAAAAATAACAGAAGAAA
Found at i:17503899 original size:51 final size:51
Alignment explanation
Indices: 17503839--17503937 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
17503829 TTAGAAAAAA
* *
17503839 AAATAACAGAAGAAAAGAAGGAAAAGAGAAAGAAAGAAATAGGGAGAAGAG
1 AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAAGAG
*
17503890 AAATAACAGAAGAAAAGAAAGAGAAGACAAAGAAAGAAATAGGGAGAA
1 AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAA
17503938 AAAAATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.66, C:0.03, G:0.27, T:0.04
Consensus pattern (51 bp):
AAATAACAGAAGAAAAGAAAGAAAAGACAAAGAAAGAAATAGGGAGAAGAG
Found at i:17503923 original size:23 final size:24
Alignment explanation
Indices: 17503848--17503928 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
17503838 AAAATAACAG
* * *
17503848 AAGAAAAGAAGGAAAAGAGAAAGA
1 AAGAAAAGAAAGAGAAGACAAAGA
*
17503872 AAGAAATAGGGAGAAGAGAA-ATAACAG-
1 AAGAAA-A--GA-AAGAGAAGACAA-AGA
17503899 AAGAAAAGAAAGAGAAGACAAAGA
1 AAGAAAAGAAAGAGAAGACAAAGA
17503923 AAGAAA
1 AAGAAA
17503929 TAGGGAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 9 0.20
24 17 0.37
25 1 0.02
26 1 0.02
27 11 0.24
28 7 0.15
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (24 bp):
AAGAAAAGAAAGAGAAGACAAAGA
Found at i:17503936 original size:23 final size:23
Alignment explanation
Indices: 17503862--17503937 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
17503852 AAAGAAGGAA
17503862 AAGAGAAAGAAAGAAATAGGGAG
1 AAGAGAAAGAAAGAAATAGGGAG
* * *
17503885 AAGAGAAATAACAGAAGAAAAGAAAGAG
1 AAGAGAAAGAA-AG-A-AATAG--GGAG
*
17503913 AAGACAAAGAAAGAAATAGGGAG
1 AAGAGAAAGAAAGAAATAGGGAG
17503936 AA
1 AA
17503938 AAAAATGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 15 0.37
24 2 0.05
25 5 0.12
26 5 0.12
27 2 0.05
28 12 0.29
ACGTcount: A:0.64, C:0.03, G:0.29, T:0.04
Consensus pattern (23 bp):
AAGAGAAAGAAAGAAATAGGGAG
Found at i:17504745 original size:25 final size:25
Alignment explanation
Indices: 17504711--17504759 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
17504701 CATATAAGTA
17504711 ATCGTATAGTAGATTGAACACCATG
1 ATCGTATAGTAGATTGAACACCATG
17504736 ATCGTATAGTAGATTGAACACCAT
1 ATCGTATAGTAGATTGAACACCAT
17504760 ACTCTTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (25 bp):
ATCGTATAGTAGATTGAACACCATG
Found at i:17507591 original size:16 final size:16
Alignment explanation
Indices: 17507572--17507602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17507562 TAAATTAAAT
*
17507572 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
17507588 AATTAAATAATTTTC
1 AATTAAATAATTTTC
17507603 TCAACTCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:17507591 original size:24 final size:22
Alignment explanation
Indices: 17507548--17507599 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
17507538 CAAAATAAAT
*
17507548 ATAATAAATTAATTTAAATTAA
1 ATAATTAATTAATTTAAATTAA
*
17507570 ATAATTAATTAATTTTCCAATTAA
1 ATAATTAATTAA-TTT-AAATTAA
17507594 ATAATT
1 ATAATT
17507600 TTCTCAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 3 0.12
24 12 0.46
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATTAATTAATTTAAATTAA
Found at i:17512769 original size:43 final size:43
Alignment explanation
Indices: 17512716--17512802 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
17512706 TTACGGGTTT
17512716 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
1 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
*
17512759 TGTTTATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
1 TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
17512802 T
1 T
17512803 AATTAAACAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.25, T:0.21
Consensus pattern (43 bp):
TGTTAATTGGTAAGAAAATAATAAGGAACAAAGAAGAGCGAAG
Found at i:17515188 original size:13 final size:14
Alignment explanation
Indices: 17515164--17515194 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
17515154 AAACATATAT
17515164 AATAAAGTTATAAA
1 AATAAAGTTATAAA
17515178 AATAAAG-TATAAA
1 AATAAAGTTATAAA
17515191 AATA
1 AATA
17515195 TGTATAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAAAGTTATAAA
Found at i:17515239 original size:10 final size:10
Alignment explanation
Indices: 17515224--17515262 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17515214 ATATATATAG
17515224 AAATAAATAA
1 AAATAAATAA
17515234 AAATAAATAA
1 AAATAAATAA
* *
17515244 AATAAAAATAT
1 AA-ATAAATAA
17515255 AAATAAAT
1 AAATAAAT
17515263 TATGTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAATAAATAA
Found at i:17515248 original size:15 final size:14
Alignment explanation
Indices: 17515224--17515261 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
17515214 ATATATATAG
17515224 AAATAAATAAAAAT
1 AAATAAATAAAAAT
17515238 AAATAAAATAAAAAT
1 AAAT-AAATAAAAAT
17515253 --ATAAATAAA
1 AAATAAATAAA
17515262 TTATGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 4 0.17
15 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:17515424 original size:10 final size:10
Alignment explanation
Indices: 17515385--17515426 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
17515375 ATATATTTGA
17515385 ATTATAAAAT
1 ATTATAAAAT
*
17515395 A-TATAAAAA
1 ATTATAAAAT
*
17515404 ACTATATAAAT
1 ATTATA-AAAT
17515415 ATTATAAAAT
1 ATTATAAAAT
17515425 AT
1 AT
17515427 AAATATAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:17515518 original size:26 final size:28
Alignment explanation
Indices: 17515474--17515533 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
17515464 AAATAAAATA
**
17515474 ATAAT-AAAATATAAGATATGTATATAT
1 ATAATAAAAATATAAGATATACATATAT
*
17515501 -TAATAAAAATAT-ATATATACATATAT
1 ATAATAAAAATATAAGATATACATATAT
17515527 ATAATAA
1 ATAATAA
17515534 GATACATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (28 bp):
ATAATAAAAATATAAGATATACATATAT
Found at i:17516515 original size:17 final size:17
Alignment explanation
Indices: 17516493--17516529 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17516483 CAGGGGCGGT
17516493 TGCTGCGACGTGGAGCG
1 TGCTGCGACGTGGAGCG
*
17516510 TGCTGCGACGTGGGGCG
1 TGCTGCGACGTGGAGCG
17516527 TGC
1 TGC
17516530 GGCGCCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.24, G:0.49, T:0.19
Consensus pattern (17 bp):
TGCTGCGACGTGGAGCG
Found at i:17518996 original size:17 final size:16
Alignment explanation
Indices: 17518971--17519002 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17518961 TTGTGTACTC
17518971 TTTTTAAATGAGTTTT
1 TTTTTAAATGAGTTTT
17518987 TTTTTCAAATGAGTTT
1 TTTTT-AAATGAGTTT
17519003 CTCTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTTTAAATGAGTTTT
Found at i:17523757 original size:20 final size:18
Alignment explanation
Indices: 17523709--17523757 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
17523699 GTAATAAAAT
*
17523709 AAAATAAAAACAAATTTG
1 AAAATAAAAAAAAATTTG
17523727 AAAATGCAAAAAAAAATTTAAG
1 AAAAT--AAAAAAAAATTT--G
17523749 AAAATAAAA
1 AAAATAAAA
17523758 TAAATTGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
22 6 0.23
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAATAAAAAAAAATTTG
Found at i:17524625 original size:13 final size:13
Alignment explanation
Indices: 17524607--17524672 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
17524597 TAGATTTTTC
17524607 CTAAATATTATTA
1 CTAAATATTATTA
17524620 CTAAATA--ATT-
1 CTAAATATTATTA
* *
17524630 CTAGATATTATCA
1 CTAAATATTATTA
17524643 CTAAATA--ATT-
1 CTAAATATTATTA
* *
17524653 CTAATTATTATCA
1 CTAAATATTATTA
17524666 CTAAATA
1 CTAAATA
17524673 ATTAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
10 12 0.30
11 5 0.12
12 4 0.10
13 19 0.47
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:17524645 original size:23 final size:22
Alignment explanation
Indices: 17524610--17524675 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 22
17524600 ATTTTTCCTA
*
17524610 AATATTATTACTAAATAATTCT
1 AATATTATCACTAAATAATTCT
17524632 AGATATTATCACTAAATAATTCT
1 A-ATATTATCACTAAATAATTCT
17524655 AATTATTATCACTAAATAATT
1 AA-TATTATCACTAAATAATT
17524676 AAAAATTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 2 0.05
23 39 0.95
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATTATCACTAAATAATTCT
Found at i:17529061 original size:22 final size:22
Alignment explanation
Indices: 17529036--17529078 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17529026 GAAGTGTAAT
17529036 AAAATAAAATAAAAACAAATTCA
1 AAAATAAAA-AAAAACAAATTCA
* *
17529059 AAAATGAAAAAAAATAAATT
1 AAAATAAAAAAAAACAAATT
17529079 TAAGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATAAAAAAAAACAAATTCA
Found at i:17529108 original size:22 final size:20
Alignment explanation
Indices: 17529037--17529110 Score: 53
Period size: 22 Copynumber: 3.5 Consensus size: 20
17529027 AAGTGTAATA
* *
17529037 AAATAAAATAAAAACAAATTCAA
1 AAATAAAAT-AAAATAAATT--T
17529060 AAATGAAAA-AAAATAAATTT
1 AAAT-AAAATAAAATAAATTT
*
17529080 -AAGAAAATAAAATAAATTGGT
1 AAATAAAATAAAATAAATT--T
17529101 AAATAAAATA
1 AAATAAAATA
17529111 TTTTTAAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.10
19 12 0.29
21 1 0.02
22 17 0.40
23 4 0.10
24 4 0.10
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAATAAATTT
Found at i:17536492 original size:39 final size:38
Alignment explanation
Indices: 17536414--17536492 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
17536404 CTTGGAAGAG
* * *
17536414 AATATGTAGTGTATTAAATAATTATTATGATACGCAAA
1 AATATATAGTGTATTAAATAATTATTATAATAAGCAAA
*
17536452 AATATATAGTGTATTAATATCAA-TATTATAATAAGTAAA
1 AATATATAGTGTATTAA-AT-AATTATTATAATAAGCAAA
17536491 AA
1 AA
17536493 GCTTATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 16 0.46
39 17 0.49
40 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (38 bp):
AATATATAGTGTATTAAATAATTATTATAATAAGCAAA
Found at i:17545044 original size:16 final size:17
Alignment explanation
Indices: 17545006--17545053 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
17544996 GAATTTTATG
* *
17545006 AAATTATATATCAGTATT
1 AAATTATAT-TTAATATT
17545024 AAATTATATTTAATATT
1 AAATTATATTTAATATT
*
17545041 -AATTATTTTTAAT
1 AAATTATATTTAAT
17545054 TGTATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 12 0.44
17 6 0.22
18 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTATATTTAATATT
Found at i:17545094 original size:91 final size:94
Alignment explanation
Indices: 17544963--17545174 Score: 252
Period size: 92 Copynumber: 2.3 Consensus size: 94
17544953 TTGATTTTAG
* * * *
17544963 TAAATTCATATAAGAACATTTTATTATTAAAAAGAATTTTATGAAATTATATATCAGT-ATTAAA
1 TAAATTCATATAAGAA-AATTTATTATT-AAAAGAATTTTATGAAATTAAATATCAATCATAAAA
* * *
17545027 TTATATTTAAT-ATTAATTATTTTTAATTGTA
64 TTATATGTAATAATT-ATTATTTTAAATTATA
* *
17545058 TAAATTCATATAAGAAAATTTATTA-T-CAAGAATTTTATGAAATTAAATATTAATCATAAAATT
1 TAAATTCATATAAGAAAATTTATTATTAAAAGAATTTTATGAAATTAAATATCAATCATAAAATT
17545121 ATATGTAATAATTATTATTTTAAATTATA
66 ATATGTAATAATTATTATTTTAAATTATA
* * * *
17545150 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
17545175 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
91 24 0.24
92 50 0.49
93 4 0.04
94 8 0.08
95 16 0.16
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (94 bp):
TAAATTCATATAAGAAAATTTATTATTAAAAGAATTTTATGAAATTAAATATCAATCATAAAATT
ATATGTAATAATTATTATTTTAAATTATA
Found at i:17545316 original size:120 final size:120
Alignment explanation
Indices: 17545190--17545722 Score: 928
Period size: 120 Copynumber: 4.4 Consensus size: 120
17545180 AATTATTTTA
* *
17545190 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
* * *
17545252 TTTATAGTATCATATATTATGACTTGAGTAAATTCATATAAGAATATTAATTATTAAT
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17545310 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
17545375 ACAATATTATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17545430 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
17545495 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17545550 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
17545615 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17545670 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
17545723 TAAATATGAT
Statistics
Matches: 395, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
119 6 0.02
120 387 0.98
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17545344 original size:18 final size:18
Alignment explanation
Indices: 17545298--17545345 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
17545288 TATAAGAATA
*
17545298 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
17545314 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
17545331 TTAATTATAATATAT
1 TTAATTATAATATAT
17545346 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:17545350 original size:15 final size:15
Alignment explanation
Indices: 17545315--17545366 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17545305 TTAATAATTT
*
17545315 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17545329 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17545343 TATTTAATAATAAT-
1 TATTTAATTATAATA
17545357 TATGTTAATT
1 TAT-TTAATT
17545367 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17545459 original size:18 final size:17
Alignment explanation
Indices: 17545431--17545465 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17545421 ATTATTAAGA
*
17545431 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17545448 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17545466 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17545590 original size:15 final size:15
Alignment explanation
Indices: 17545555--17545606 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17545545 TTAAGAATTT
*
17545555 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17545569 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17545583 TATTTAATAATAAT-
1 TATTTAATTATAATA
17545597 TATGTTAATT
1 TAT-TTAATT
17545607 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17545699 original size:18 final size:17
Alignment explanation
Indices: 17545671--17545705 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17545661 ATTATTAAGA
*
17545671 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17545688 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17545706 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17549486 original size:65 final size:66
Alignment explanation
Indices: 17549357--17549486 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 66
17549347 CAAAAGGTTT
*
17549357 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAATATAATTTGAACCCAAAT
17549422 G
66 G
* *
17549423 TGGTAGTGTTGGCATTGGCATTAATAAAA-TTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAATATAATTTGAACCCAAAT
17549487 CACATTTGCG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
65 32 0.52
66 29 0.48
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:17549754 original size:16 final size:16
Alignment explanation
Indices: 17549727--17549760 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
17549717 ATTTTAGTAA
17549727 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
17549744 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
17549759 AT
1 AT
17549761 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:17549789 original size:47 final size:47
Alignment explanation
Indices: 17549738--17549882 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
17549728 TTATATAAGA
*
17549738 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
17549785 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
17549829 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
17549876 ATATTTA
1 ATATTTA
17549883 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:17549849 original size:44 final size:43
Alignment explanation
Indices: 17549724--17549850 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
17549714 ATGATTTTAG
17549724 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
17549770 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
17549814 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
17549851 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:17550055 original size:120 final size:118
Alignment explanation
Indices: 17549947--17550449 Score: 889
Period size: 120 Copynumber: 4.2 Consensus size: 118
17549937 TTTTCAAGTT
*
17549947 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17550012 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
17550067 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17550132 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
*
17550187 ATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
17550252 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
17550307 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
17550372 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATAAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT--TA
17550427 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
17550450 TAAATATGAT
Statistics
Matches: 374, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
120 374 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (118 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:17550306 original size:18 final size:17
Alignment explanation
Indices: 17550278--17550312 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17550268 ATTATTAAGA
*
17550278 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17550295 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17550313 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17550432 original size:16 final size:16
Alignment explanation
Indices: 17550411--17550452 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17550401 TTATTAAATT
17550411 ATATATTTTAATAAAA
1 ATATATTTTAATAAAA
*
17550427 ATATA-TTTAATAATA
1 ATATATTTTAATAAAA
17550442 AT-TATGTTTAA
1 ATATAT-TTTAA
17550453 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:17550662 original size:44 final size:45
Alignment explanation
Indices: 17550597--17550687 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17550587 ACCTCTATTC
* * *
17550597 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
17550641 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
17550686 CA
1 CA
17550688 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:17550689 original size:16 final size:17
Alignment explanation
Indices: 17550668--17550743 Score: 120
Period size: 17 Copynumber: 4.6 Consensus size: 17
17550658 GATTAGCTAT
17550668 TACACCTCTAAT-CCAA
1 TACACCTCTAATCCCAA
17550684 TACACCTCTAATCCCAA
1 TACACCTCTAATCCCAA
17550701 TACACCTCTAATCCCAA
1 TACACCTCTAATCCCAA
*
17550718 TACATCTCTAAT-CCAA
1 TACACCTCTAATCCCAA
*
17550734 TACATCTCTA
1 TACACCTCTA
17550744 TTCTGCAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
16 26 0.45
17 32 0.55
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.28
Consensus pattern (17 bp):
TACACCTCTAATCCCAA
Done.