Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 164 of 193
Found at i:50953473 original size:117 final size:116
Alignment explanation
Indices: 50953284--50953599 Score: 465
Period size: 117 Copynumber: 2.7 Consensus size: 116
50953274 CTCGAAACTT
* * *
50953284 CCAAAACTAACCATTTTACCCCCGAACTTTCCAAGATTCCATTTTTAACCCCGATTTCACAAAAA
1 CCAAAA-TTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * *
50953349 ATGACCATTTTACCCTCGAACTTTCCAAAGTTCCATTTTTAACCCC-GATTTCA
65 ATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTCA
50953402 CCAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CCAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * *
50953467 TTACCATTTAATGCCCAAACTTTCTAAAATTCCATTTTTAACCCCAGTTTCA
66 TTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCA
* *
50953519 CCAAAAATTACCATTATACCCCCGAACTTTCCAAAATTCCATTTTTAAACCTCGATTTCACC-AA
1 CC-AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACCAAA
50953583 AATTACCATTTTACCCC
64 AATTACCATTTTACCCC
50953600 CGGGTATCCA
Statistics
Matches: 181, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
117 102 0.56
118 65 0.36
119 14 0.08
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (116 bp):
CCAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCA
Found at i:50965467 original size:15 final size:16
Alignment explanation
Indices: 50965438--50965491 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 16
50965428 ACATGTCTCC
50965438 TTTTTAAAATATTTAT
1 TTTTTAAAATATTTAT
*
50965454 TTTTTAATATTTTATTATAT
1 TTTTTAA-A--ATATT-TAT
50965474 TTTTATAAAATATTTAT
1 TTTT-TAAAATATTTAT
50965491 T
1 T
50965492 AGTCCTTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 7 0.23
17 5 0.16
18 4 0.13
19 4 0.13
20 8 0.26
21 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTAAAATATTTAT
Found at i:50965492 original size:22 final size:20
Alignment explanation
Indices: 50965447--50965492 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
50965437 CTTTTTAAAA
*
50965447 TATT-TATTTTTTAATATTT
1 TATTATATTTTTTAAAATTT
50965466 TATTATATTTTTATAAAATATT
1 TATTATATTTTT-TAAAAT-TT
50965488 TATTA
1 TATTA
50965493 GTCCTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 5 0.22
22 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATATTTTTTAAAATTT
Found at i:50973310 original size:25 final size:25
Alignment explanation
Indices: 50973266--50973324 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
50973256 GTTATTTCCA
*
50973266 TTATTTATTTTTTTTATAATTCTCCTT
1 TTATTT-TTTTATTTATAATT-TCCTT
*
50973293 TTATTTTTTTATTT-TAATTTTCTT
1 TTATTTTTTTATTTATAATTTCCTT
*
50973317 TTAATTTT
1 TTATTTTT
50973325 AATTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.38
25 5 0.17
26 7 0.24
27 6 0.21
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.75
Consensus pattern (25 bp):
TTATTTTTTTATTTATAATTTCCTT
Found at i:50973318 original size:11 final size:11
Alignment explanation
Indices: 50973299--50973337 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50973289 CCTTTTATTT
50973299 TTTTATTTTAA
1 TTTTATTTTAA
*
50973310 TTTTCTTTTAA
1 TTTTATTTTAA
*
50973321 TTTTAATTTTAT
1 TTTT-ATTTTAA
50973333 TTTTA
1 TTTTA
50973338 AATATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:50973323 original size:17 final size:17
Alignment explanation
Indices: 50973298--50973335 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50973288 TCCTTTTATT
* *
50973298 TTTTTATTTTAATTTTC
1 TTTTAATTTTAATTTTA
50973315 TTTTAATTTTAATTTTA
1 TTTTAATTTTAATTTTA
50973332 TTTT
1 TTTT
50973336 TAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTAATTTTAATTTTA
Found at i:50973496 original size:18 final size:18
Alignment explanation
Indices: 50973470--50973505 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50973460 CCACCAAAAA
50973470 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
50973488 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
50973506 ATTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:50979803 original size:20 final size:19
Alignment explanation
Indices: 50979780--50979820 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
50979770 GGTTAAGCCA
*
50979780 TTTTATATATTTTTAATTTT
1 TTTTATATATTTCT-ATTTT
*
50979800 TTTTATGTATTTCTATTTT
1 TTTTATATATTTCTATTTT
50979819 TT
1 TT
50979821 ATTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATATATTTCTATTTT
Found at i:50980497 original size:30 final size:31
Alignment explanation
Indices: 50980440--50980497 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
50980430 TAGCCGAAAT
* * **
50980440 ATTTCGGTTTGGTTAACATTTTTAAAAAAAA
1 ATTTCGGTTTGATTAACAGTTAAAAAAAAAA
50980471 ATTT-GGTTTGATTAACAGTTAAAAAAA
1 ATTTCGGTTTGATTAACAGTTAAAAAAA
50980498 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (31 bp):
ATTTCGGTTTGATTAACAGTTAAAAAAAAAA
Found at i:50993938 original size:39 final size:39
Alignment explanation
Indices: 50993878--50993954 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
50993868 CCAAGTAACT
*
50993878 TAAATATTCCAAATCTAAGTTTTTGTACCTTCACAACCC
1 TAAATATTCCAAATATAAGTTTTTGTACCTTCACAACCC
* * * *
50993917 TAAATATTTCAAATATGAGTTTTTGTATCTTCATAACC
1 TAAATATTCCAAATATAAGTTTTTGTACCTTCACAACC
50993955 ATCATTTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (39 bp):
TAAATATTCCAAATATAAGTTTTTGTACCTTCACAACCC
Found at i:50994587 original size:29 final size:31
Alignment explanation
Indices: 50994537--50994609 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
50994527 ATTAAAATTA
50994537 TTTAATAATTTTATTATTTTAAAAAAATAAT
1 TTTAATAATTTTATTATTTTAAAAAAATAAT
*
50994568 TTTAATAATTTTA-TA-TTTAAAAAATTAAT
1 TTTAATAATTTTATTATTTTAAAAAAATAAT
*
50994597 TCTAATAATTTTA
1 TTTAATAATTTTA
50994610 AAATTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 25 0.62
30 2 0.05
31 13 0.32
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTTAAAAAAATAAT
Found at i:50995618 original size:21 final size:21
Alignment explanation
Indices: 50995594--50995639 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50995584 ATAATTTTAA
*
50995594 TAAATA-GAGAATTAAAATTAT
1 TAAATATGAG-ATTAAAAATAT
*
50995615 TAAATATTAGATTAAAAATAT
1 TAAATATGAGATTAAAAATAT
50995636 TAAA
1 TAAA
50995640 AATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
TAAATATGAGATTAAAAATAT
Found at i:51003640 original size:179 final size:178
Alignment explanation
Indices: 51003315--51003656 Score: 400
Period size: 179 Copynumber: 1.9 Consensus size: 178
51003305 ATTAAAGGCA
* * * **
51003315 TCCTTAAACCAAAAAACCCTTGCTGTCACCAACACCATAATAGCTATAGTTCTGACAAATGCATC
1 TCCTTAAACC-AAAAACCCTAGCTCTCACAAACACCATAATAGCTATAGTTCCAACAAATGCATC
* * ** * **
51003380 TAATTAATCGAACACAGAGAGTGTGAGGTTCATAAAAGCATTCCGAGGATAATAACTGAACCATA
65 GAATTAATCAAACACAGAGAGTGCAAGGTTCATAAAAGCATTCCAAGGATAATAACAAAACCATA
51003445 AATCCTTCCCAGCCAAATAACACTAAAACCCATTGGTTCAAGTGAAGGTC
130 AATCCTTCCCAGCCAAATAACACT-AAACCCATTGGTTCAAGTGAAGGTC
* * * *
51003495 TCCTTAAACC-AAAACCCTAGCTCTCATAAACACCATAAATAGCTATAGTTCCAACAAGTTCTTC
1 TCCTTAAACCAAAAACCCTAGCTCTCACAAACACCAT-AATAGCTATAGTTCCAACAAATGCATC
* * * * * * *
51003559 GAATTAATCAAACACAGGGAGTGCAAGGTTCATAGAAGCGTTCCAATGATACTCACAAAACCCTA
65 GAATTAATCAAACACAGAGAGTGCAAGGTTCATAAAAGCATTCCAAGGATAATAACAAAACCATA
* **
51003624 AGTCC-TCCCTAGCCAAATAATTCTAAACCCATT
130 AATCCTTCCC-AGCCAAATAACACTAAACCCATT
51003657 AGTAAAGCTT
Statistics
Matches: 134, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
178 35 0.26
179 89 0.66
180 10 0.07
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (178 bp):
TCCTTAAACCAAAAACCCTAGCTCTCACAAACACCATAATAGCTATAGTTCCAACAAATGCATCG
AATTAATCAAACACAGAGAGTGCAAGGTTCATAAAAGCATTCCAAGGATAATAACAAAACCATAA
ATCCTTCCCAGCCAAATAACACTAAACCCATTGGTTCAAGTGAAGGTC
Found at i:51003816 original size:165 final size:160
Alignment explanation
Indices: 51003526--51003854 Score: 412
Period size: 165 Copynumber: 2.0 Consensus size: 160
51003516 TCTCATAAAC
* *
51003526 ACCATAAATAGCTATAGTTCCAACAAGTTCTTCGAATTAATCAAACACAGGGAGTGCAAGGTTCA
1 ACCATAAATAGCTATAGTTCCAACAAATGCTTCGAATTAATCAAACACAGGGAGTG-AAGGTTCA
* * * * *
51003591 TAGAAGCGTTCCAATGATACTCACAAAACCCTAAGTCCTCCCTAGCCAAATAATTCTAAACCCAT
65 TAAAAGAGTTCCAATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACCC--
* *
51003656 TAGTAAAGCTTTTGGTCCAAGTAAAGGCATCCTTAA
128 ---CAAAGCTTTTGGTCCAAGTAAAGGCAGCCTTAA
* * *
51003692 ACCAT-AATAGCTGTAGTTCTAACAAATGCTTCGAATTAATCAAACACAAAGGGTGTG-AGGTTT
1 ACCATAAATAGCTATAGTTCCAACAAATGCTTCGAATTAATCAAACAC--AGGGAGTGAAGG-TT
** *
51003755 CATAAAAGAGTT-TGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAACCC
63 CATAAAAGAGTTCCAATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACCC
*
51003819 CAAAGCTTTTGGTTCAAGTAAAGGCAGCCTTAA
128 CAAAGCTTTTGGTCCAAGTAAAGGCAGCCTTAA
51003852 ACC
1 ACC
51003855 GCAAACCTAG
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
160 33 0.23
165 87 0.60
166 17 0.12
167 7 0.05
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (160 bp):
ACCATAAATAGCTATAGTTCCAACAAATGCTTCGAATTAATCAAACACAGGGAGTGAAGGTTCAT
AAAAGAGTTCCAATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACCCCAA
AGCTTTTGGTCCAAGTAAAGGCAGCCTTAA
Found at i:51004798 original size:2 final size:2
Alignment explanation
Indices: 51004791--51004829 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
51004781 CAAATTTATA
51004791 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
51004830 ATAAAACATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51005654 original size:29 final size:29
Alignment explanation
Indices: 51005608--51005673 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
51005598 TTTTGTCCAT
* *
51005608 CCAACTATGAAAATTTATAAAATGGTCAC
1 CCAACTATGAAAAGTTATAAAATGATCAC
* *
51005637 CCAACTATGAAAAGTTATAACATGATCAT
1 CCAACTATGAAAAGTTATAAAATGATCAC
51005666 CCAACTAT
1 CCAACTAT
51005674 TCAACTTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (29 bp):
CCAACTATGAAAAGTTATAAAATGATCAC
Found at i:51012642 original size:21 final size:23
Alignment explanation
Indices: 51012609--51012651 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
51012599 CAGTCAATCA
51012609 AATTAAATCAA-TT-AAATTGAG
1 AATTAAATCAATTTAAAATTGAG
51012630 AATTAAGAT-AATTTAAAATTGA
1 AATTAA-ATCAATTTAAAATTGA
51012652 ATCAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (23 bp):
AATTAAATCAATTTAAAATTGAG
Found at i:51014070 original size:29 final size:30
Alignment explanation
Indices: 51014033--51014102 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
51014023 TTAGTTTAGG
* *
51014033 TGTGTAATTTTATACA-AAAATTTTGATTT
1 TGTGCAATTATATACATAAAATTTTGATTT
*
51014062 TGTGCAATTATATATATAAAATTTTGATTT
1 TGTGCAATTATATACATAAAATTTTGATTT
* *
51014092 AGTCCAATTAT
1 TGTGCAATTAT
51014103 CACAAACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.49
Consensus pattern (30 bp):
TGTGCAATTATATACATAAAATTTTGATTT
Found at i:51015018 original size:13 final size:13
Alignment explanation
Indices: 51015000--51015025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51014990 AATTTGTAAT
51015000 TGTGAGAAATTTG
1 TGTGAGAAATTTG
51015013 TGTGAGAAATTTG
1 TGTGAGAAATTTG
51015026 ACTATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
TGTGAGAAATTTG
Found at i:51016647 original size:30 final size:31
Alignment explanation
Indices: 51016607--51016669 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
51016597 AGTTTATATC
*
51016607 TTTATAATTTTTAAAAGATTAAATTA-AATT
1 TTTATAATTTTTAAAAGATTAAACTATAATT
* *
51016637 TTTATCATTTTTAAAGGATTAAACTATAATT
1 TTTATAATTTTTAAAAGATTAAACTATAATT
51016668 TT
1 TT
51016670 ATTTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATAATTTTTAAAAGATTAAACTATAATT
Found at i:51025883 original size:6 final size:6
Alignment explanation
Indices: 51025872--51025901 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
51025862 ATATTATGTG
51025872 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
51025902 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:51025939 original size:19 final size:17
Alignment explanation
Indices: 51025903--51025944 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
51025893 TTTAATTTTT
51025903 TTATTTTTATATTTATA
1 TTATTTTTATATTTATA
51025920 TTATCTTTTATATTTCATA
1 TTAT-TTTTATATTT-ATA
51025939 TTATTT
1 TTATTT
51025945 GTTTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
19 7 0.30
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTTATATTTATA
Found at i:51029620 original size:21 final size:21
Alignment explanation
Indices: 51029596--51029639 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51029586 TCTACAGATA
51029596 TAGT-ATTTATGTATTAGTTTG
1 TAGTGATTTATGTATT-GTTTG
*
51029617 TAGTGATTTATTTATTGTTTG
1 TAGTGATTTATGTATTGTTTG
51029638 TA
1 TA
51029640 TTGTGGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (21 bp):
TAGTGATTTATGTATTGTTTG
Found at i:51031376 original size:21 final size:23
Alignment explanation
Indices: 51031350--51031392 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51031340 ATCATTTTAA
*
51031350 AAAATTT-GTTTA-TTTTAAAAT
1 AAAATTTAGTCTATTTTTAAAAT
51031371 AAAATTTAGTCTATTTTTAAAA
1 AAAATTTAGTCTATTTTTAAAA
51031393 AAACAGGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (23 bp):
AAAATTTAGTCTATTTTTAAAAT
Found at i:51047953 original size:17 final size:17
Alignment explanation
Indices: 51047931--51047970 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
51047921 ATTCAACTCT
51047931 TAGTACAAAGGCATCCA
1 TAGTACAAAGGCATCCA
* * *
51047948 TAGTACGAGGGCATTCA
1 TAGTACAAAGGCATCCA
51047965 TAGTAC
1 TAGTAC
51047971 TTTTACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (17 bp):
TAGTACAAAGGCATCCA
Found at i:51052333 original size:3 final size:3
Alignment explanation
Indices: 51052325--51052385 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
51052315 AGTGTCTCAA
51052325 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51052373 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
51052386 GATAGTAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51054348 original size:20 final size:19
Alignment explanation
Indices: 51054308--51054349 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
51054298 TGTGTATTTT
*
51054308 TTTTATTGCTTTACGATCG
1 TTTTATTGCGTTACGATCG
51054327 TTTTATTGTCGTTATCGA-CG
1 TTTTATTG-CGTTA-CGATCG
51054347 TTT
1 TTT
51054350 AATATAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 9 0.45
21 3 0.15
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.55
Consensus pattern (19 bp):
TTTTATTGCGTTACGATCG
Found at i:51057995 original size:71 final size:71
Alignment explanation
Indices: 51057896--51058040 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
51057886 TATGGTGAAA
51057896 TTCAGCAATGAACTTTTAAAATTAGGGCTTGGAAAAGCTATTGAGATATAAATTTAGATGTCTTT
1 TTCAGCAATGAACTTTTAAAATTAGGGCTTGGAAAAGCTATTGAGATATAAATTTAGATGTCTTT
51057961 CTTTTT
66 CTTTTT
51057967 TTCAGCAATGAACTTTTAAAATTAGGGCTTGGAAAAGCTATTGAGATATAAATTTAGATGTCTTT
1 TTCAGCAATGAACTTTTAAAATTAGGGCTTGGAAAAGCTATTGAGATATAAATTTAGATGTCTTT
51058032 CTTTTT
66 CTTTTT
51058038 TTC
1 TTC
51058041 CAGGATTTGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (71 bp):
TTCAGCAATGAACTTTTAAAATTAGGGCTTGGAAAAGCTATTGAGATATAAATTTAGATGTCTTT
CTTTTT
Found at i:51059581 original size:48 final size:48
Alignment explanation
Indices: 51059493--51059750 Score: 367
Period size: 48 Copynumber: 5.3 Consensus size: 48
51059483 GCGCCGCTAA
51059493 ATAATTAAATATTTAAATCTTTTAACTTAATATAATTATTTACTTTAAT
1 ATAATTAAATATTTAAATC-TTTAACTTAATATAATTATTTACTTTAAT
* *
51059542 ATAATTAAATATTTAATTCTTTAACTTAATATAATTATTTACTTTAAC
1 ATAATTAAATATTTAAATCTTTAACTTAATATAATTATTTACTTTAAT
* * * *
51059590 ATAATTAAATAATTAAATCTTGCAAGTTATTATAATTATTTACTTTAAT
1 ATAATTAAATATTTAAATCTT-TAACTTAATATAATTATTTACTTTAAT
*
51059639 ATAATTAAATA-TTATATCTTTTAACTTAATATAATTATTTACTTTAAT
1 ATAATTAAATATTTAAATC-TTTAACTTAATATAATTATTTACTTTAAT
* * * *
51059687 ATAAATAAATAATTAAATATTTAA-TTATTTATAATTATTTACTTTAAT
1 ATAATTAAATATTTAAATCTTTAACTTA-ATATAATTATTTACTTTAAT
51059735 ATAATTAAATATTTAA
1 ATAATTAAATATTTAA
51059751 TTAAATAATT
Statistics
Matches: 187, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
47 3 0.02
48 125 0.67
49 59 0.32
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (48 bp):
ATAATTAAATATTTAAATCTTTAACTTAATATAATTATTTACTTTAAT
Found at i:51059662 original size:97 final size:95
Alignment explanation
Indices: 51059493--51059752 Score: 389
Period size: 97 Copynumber: 2.7 Consensus size: 95
51059483 GCGCCGCTAA
* *
51059493 ATAATTAAATATTTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATATTTAA
1 ATAATTAAATAATTAAATC-TTTAA-TTATTATAATTATTTACTTTAATATAATTAAATATTTAA
51059558 TTCTTTAACTTAATATAATTATTTACTTTAAC
64 TTCTTTAACTTAATATAATTATTTACTTTAAC
*
51059590 ATAATTAAATAATTAAATCTTGCAAGTTATTATAATTATTTACTTTAATATAATTAAATA-TT-A
1 ATAATTAAATAATTAAATCTT-TAA-TTATTATAATTATTTACTTTAATATAATTAAATATTTAA
*
51059653 TATCTTTTAACTTAATATAATTATTTACTTTAAT
64 T-TC-TTTAACTTAATATAATTATTTACTTTAAC
* *
51059687 ATAAATAAATAATTAAATATTTAATTATTTATAATTATTTACTTTAATATAATTAAATATTTAAT
1 ATAATTAAATAATTAAATCTTTAATTA-TTATAATTATTTACTTTAATATAATTAAATATTTAAT
51059752 T
65 T
51059753 AAATAATTAT
Statistics
Matches: 149, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
95 5 0.03
96 39 0.26
97 103 0.69
98 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (95 bp):
ATAATTAAATAATTAAATCTTTAATTATTATAATTATTTACTTTAATATAATTAAATATTTAATT
CTTTAACTTAATATAATTATTTACTTTAAC
Found at i:51059793 original size:22 final size:21
Alignment explanation
Indices: 51059692--51059797 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 21
51059682 TTAATATAAA
51059692 TAAATAATTAAATATTT-AAT
1 TAAATAATTAAATATTTGAAT
* * * *
51059712 T-ATTTA-TAATTATTT-ACTT
1 TAAATAATTAAATATTTGA-AT
51059731 TAATATAATTAAATATTT-AAT
1 TAA-ATAATTAAATATTTGAAT
*
51059752 TAAATAATT--ATATATG-AT
1 TAAATAATTAAATATTTGAAT
51059770 TAAATAATTAAATATTTTGAAT
1 TAAATAATTAAATA-TTTGAAT
51059792 TAAATA
1 TAAATA
51059798 TTTGAGTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
18 25 0.37
19 5 0.07
20 11 0.16
21 9 0.13
22 17 0.25
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAATAATTAAATATTTGAAT
Found at i:51059826 original size:4 final size:4
Alignment explanation
Indices: 51059817--51059846 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
51059807 TTTTTAATAT
51059817 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
51059847 GAGTTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:51059872 original size:46 final size:48
Alignment explanation
Indices: 51059771--51059872 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 48
51059761 ATATATGATT
* * * * * *
51059771 AAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTT
1 AAATAATTAAATATATTGAATTAAATAATTGAGTTGATTTAAATAATA
* * *
51059819 AATTAATTAATTA-ATT-AATTAATTAATTGAGTTGATTTAAATAATA
1 AAATAATTAAATATATTGAATTAAATAATTGAGTTGATTTAAATAATA
51059865 AAATAATT
1 AAATAATT
51059873 CAGTATTTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
46 31 0.70
47 2 0.05
48 11 0.25
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (48 bp):
AAATAATTAAATATATTGAATTAAATAATTGAGTTGATTTAAATAATA
Found at i:51059907 original size:8 final size:8
Alignment explanation
Indices: 51059891--51059942 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
51059881 GGGTTGTTTT
51059891 AATAATTA
1 AATAATTA
*
51059899 AATATTTA
1 AATAATTA
* *
51059907 ATTAAATA
1 AATAATTA
**
51059915 TTTAATTA
1 AATAATTA
51059923 AATAATTA
1 AATAATTA
51059931 AATAATTA
1 AATAATTA
51059939 AATA
1 AATA
51059943 TTTTGAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
AATAATTA
Found at i:51059910 original size:12 final size:12
Alignment explanation
Indices: 51059893--51059959 Score: 80
Period size: 12 Copynumber: 5.1 Consensus size: 12
51059883 GTTGTTTTAA
51059893 TAATTAAATATT
1 TAATTAAATATT
51059905 TAATTAAATATT
1 TAATTAAATATT
51059917 TAATTAAATAATT
1 TAATTAAAT-ATT
51059930 AAATAATTAAATATTT
1 ---TAATTAAATA-TT
51059946 TGAATTAAATATT
1 T-AATTAAATATT
51059959 T
1 T
51059960 GGGTTGTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
12 21 0.43
13 7 0.14
14 9 0.18
15 1 0.02
16 11 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:51059942 original size:159 final size:159
Alignment explanation
Indices: 51059735--51060053 Score: 480
Period size: 163 Copynumber: 2.0 Consensus size: 159
51059725 TTACTTTAAT
* *
51059735 ATAATTAAATATTTAATTAAATAATTATATATGATTAAATAATTAAATATTTTGAATTAAATATT
1 ATAATTAAATATTTAATTAAATAATTATAAATAATTAAATAATTAAATATTTTGAATTAAATATT
**
51059800 TGAGTTGTTTTTAATATTTA-AT-TAATTAATTAATTAATTAATTAATTGAGTTGATTTAAATAA
66 TGAGTTGTTTTTAATATTTATATATAAAAAATTAATTAATTAATTAATTGAGTTGATTTAAATAA
** *
51059863 TAAAATAATTCAGTATTTGGGTTGTTTTA
131 TAAAATAATGAAGTATTTCGGTTGTTTTA
*
51059892 ATAATTAAATATTTAATTAAATATTTAATTAAATAATTAAATAATTAAATATTTTGAATTAAATA
1 ATAATTAAATATTTAATTAAATAATT-A-TAAATAATTAAATAATTAAATATTTTGAATTAAATA
* *
51059957 TTTGGGTTGTTTTTAATATTTATATAAATAAAAAATTAATTAATTAATTAATTGGGTTGATTTAA
64 TTTGAGTTGTTTTTAATATTTATAT--ATAAAAAATTAATTAATTAATTAATTGAGTTGATTTAA
* *
51060022 GTAATTAAATAATGAAGTATTTCGGTTGTTTT
127 ATAATAAAATAATGAAGTATTTCGGTTGTTTT
51060054 TTCTAACTTA
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
157 25 0.17
158 1 0.01
159 55 0.38
160 2 0.01
163 61 0.42
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.48
Consensus pattern (159 bp):
ATAATTAAATATTTAATTAAATAATTATAAATAATTAAATAATTAAATATTTTGAATTAAATATT
TGAGTTGTTTTTAATATTTATATATAAAAAATTAATTAATTAATTAATTGAGTTGATTTAAATAA
TAAAATAATGAAGTATTTCGGTTGTTTTA
Found at i:51060298 original size:40 final size:40
Alignment explanation
Indices: 51060253--51060333 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
51060243 ATAACAAGCA
51060253 TCATAAACAAAAATAATAAAACAATCATAAGAACATTAAT
1 TCATAAACAAAAATAATAAAACAATCATAAGAACATTAAT
51060293 TCATAAACAAAAATAATAAAACAATCATAAGAACATTAAT
1 TCATAAACAAAAATAATAAAACAATCATAAGAACATTAAT
51060333 T
1 T
51060334 GAAAAGAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.23
Consensus pattern (40 bp):
TCATAAACAAAAATAATAAAACAATCATAAGAACATTAAT
Found at i:51061851 original size:41 final size:40
Alignment explanation
Indices: 51061765--51062023 Score: 220
Period size: 41 Copynumber: 6.3 Consensus size: 40
51061755 ATGTATAAAT
* * *
51061765 TTTAGCGGCGCTTTTCCATAAGCGCCGC-AATTGCTTAGACT
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTAATT-CTT-TACC
* *
51061806 TTTAGCAGCGCTTTTCCATAAGCGCCGCTAATTCTCTTACC
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTAATTCT-TTACC
* **
51061847 TTTAGCGGCGCTTTTTTTATAAGCGCCGCT-ATTGACCCTACC
1 TTTAGCGGCGC-TTTTCTATAAGCGCCGCTAATT--CTTTACC
* * * ***
51061889 TTTAGCGGCGCTTTTTTATAAGTGCCGCTAATGACCCGACC
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTAAT-TCTTTACC
*
51061930 TTTAGCGGCGC-TTTCTACTAAGCGCCGCTAATGCTTTACC
1 TTTAGCGGCGCTTTTCTA-TAAGCGCCGCTAATTCTTTACC
* ** * *
51061970 TTTTGCGGCGCTTTGTGGA-AAGCGCCGCTAATGCTTTACA
1 TTTAGCGGCGCTTT-TCTATAAGCGCCGCTAATTCTTTACC
*
51062010 TTTTGCGGCGCTTT
1 TTTAGCGGCGCTTT
51062024 GTTTCCAAAC
Statistics
Matches: 187, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
40 53 0.28
41 93 0.50
42 40 0.21
43 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGCTTTTCTATAAGCGCCGCTAATTCTTTACC
Found at i:51061903 original size:83 final size:83
Alignment explanation
Indices: 51061765--51062023 Score: 214
Period size: 83 Copynumber: 3.2 Consensus size: 83
51061755 ATGTATAAAT
* * * *
51061765 TTTAGCGGCGC-TTTTCCA-TAAGCGCCGC-AATTG-CTTAGACTTTTAGCAGCGCTTTTCCATA
1 TTTAGCGGCGCTTTTTCTACTAAGCGCCGCTAA-TGCCCT--ACCTTTAGCGGCGCTTTTCCATA
*
51061826 AGCGCCGCTAATTCTCTTACC
63 AGCGCCGCTAATACTCTTACC
* * **
51061847 TTTAGCGGCGCTTTTTTTA-TAAGCGCCGCTATTGACCCTACCTTTAGCGGCGCTTTTTTATAAG
1 TTTAGCGGCGCTTTTTCTACTAAGCGCCGCTAATG-CCCTACCTTTAGCGGCGCTTTTCCATAAG
* **
51061911 TGCCGCTAATGAC-CCGACC
65 CGCCGCTAAT-ACTCTTACC
** * **
51061930 TTTAGCGGCGC--TTTCTACTAAGCGCCGCTAATGCTTTACCTTTTGCGGCGCTTTGTGGA-AAG
1 TTTAGCGGCGCTTTTTCTACTAAGCGCCGCTAATGCCCTACCTTTAGCGGCGCTTT-TCCATAAG
* *
51061992 CGCCGCTAATGCT-TTACA
65 CGCCGCTAATACTCTTACC
*
51062010 TTTTGCGGCGCTTT
1 TTTAGCGGCGCTTT
51062024 GTTTCCAAAC
Statistics
Matches: 142, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
80 13 0.09
81 35 0.25
82 28 0.20
83 62 0.44
84 2 0.01
85 2 0.01
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.34
Consensus pattern (83 bp):
TTTAGCGGCGCTTTTTCTACTAAGCGCCGCTAATGCCCTACCTTTAGCGGCGCTTTTCCATAAGC
GCCGCTAATACTCTTACC
Found at i:51062024 original size:40 final size:40
Alignment explanation
Indices: 51061949--51062025 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
51061939 GCTTTCTACT
*
51061949 AAGCGCCGCTAATGCTTTACCTTTTGCGGCGCTTTGTGGA
1 AAGCGCCGCTAATGCTTTACATTTTGCGGCGCTTTGTGGA
51061989 AAGCGCCGCTAATGCTTTACATTTTGCGGCGCTTTGT
1 AAGCGCCGCTAATGCTTTACATTTTGCGGCGCTTTGT
51062026 TTCCAAACGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.34
Consensus pattern (40 bp):
AAGCGCCGCTAATGCTTTACATTTTGCGGCGCTTTGTGGA
Found at i:51069026 original size:21 final size:23
Alignment explanation
Indices: 51068986--51069032 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
51068976 TTATCAATAA
* *
51068986 TTTTGTTTATGTTTTACTTATAT
1 TTTTATTTATGTTTTACTTAAAT
51069009 TTTTATTTAT-TTTT-CTTAAAT
1 TTTTATTTATGTTTTACTTAAAT
51069030 TTT
1 TTT
51069033 AAACATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTATTTATGTTTTACTTAAAT
Found at i:51074649 original size:51 final size:51
Alignment explanation
Indices: 51074559--51074700 Score: 194
Period size: 51 Copynumber: 2.7 Consensus size: 51
51074549 TTTTTTTTCA
* * *
51074559 AACATAATCATAATTTCGTCCCCATTAGTATTATTATTAAAAGACAAGTTCC
1 AACATAATTATAATTTCAT-CCCATTAGTATTATAATTAAAAGACAAGTTCC
* *
51074611 AACATAATTATAATTTCATCCCATTCGTATTATAATTAAAAGCCAAGTTCC
1 AACATAATTATAATTTCATCCCATTAGTATTATAATTAAAAGACAAGTTCC
* * *
51074662 AACATAATTATAATTTCGTTGCCATTTGTATTATAATTA
1 AACATAATTATAATTTC-ATCCCATTAGTATTATAATTA
51074701 GGGTAAACTA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 46 0.57
52 35 0.43
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (51 bp):
AACATAATTATAATTTCATCCCATTAGTATTATAATTAAAAGACAAGTTCC
Found at i:51075859 original size:233 final size:234
Alignment explanation
Indices: 51075413--51075879 Score: 607
Period size: 233 Copynumber: 2.0 Consensus size: 234
51075403 CATATAAATT
* * * * * *
51075413 TTCAAATCGCTCTAATATCTTTATCATATTGATTTACAATATTATATATATTAAAATACGTATTC
1 TTCAAACCGCTCTAATATCTTTATCAAATTGATTTACAATACTAAAGATATTAAAATACATATTC
* *
51075478 AATGAGGAATAGTTTTCCATAAAACAAATAATTAAAAATTTTTAATTCACATCAAATTTAACATC
66 AATGAGGAATAGTTTTACATAAAACAAATAATTAAAAATTTTTAATTCACATCAAATTTAACATA
***
51075543 CATAATCTATATGAATGAAATATTAAATTCAACAATTGAATCATTAAAATATTAATGGTACAAAA
131 CATAATCTATATGAATGAAATATTAAATTCAACAATTGAATCATTAAAATATTAACCATACAAAA
** *
51075608 AGATGTGAAAATATGTAAAGCAACTTTAATTTTACACCA
196 AGATGCAAAAAAATGTAAAGCAACTTTAATTTTACACCA
* * *
51075647 TTCAAACCGACTC-AATATCTTTATCAAATTTATTTACAATACTAAAGATA-TAATACTATATAT
1 TTCAAACCG-CTCTAATATCTTTATCAAATTGATTTACAATACTAAAGATATTAA-AATACATAT
* * * * * * * * *
51075710 TCAATGAGGAAT-TTTTTATATAAAATAAATAGTTAAAAATTTTTAATTTATATTATATTTGACA
64 TCAATGAGGAATAGTTTTACATAAAACAAATAATTAAAAATTTTTAATTCACATCAAATTTAACA
* * * *
51075774 TATATTATCTATATGAATGGAATATTAAATTCAACAATTGGATCATTAAAATATTAACCATACAA
129 TACATAATCTATATGAATGAAATATTAAATTCAACAATTGAATCATTAAAATATTAACCATACAA
* *
51075839 ATAGATGCAAAAAAATGTAAATCAACTTTAATTTTACACCA
194 AAAGATGCAAAAAAATGTAAAGCAACTTTAATTTTACACCA
51075880 ATATAAATGG
Statistics
Matches: 199, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
233 138 0.69
234 58 0.29
235 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (234 bp):
TTCAAACCGCTCTAATATCTTTATCAAATTGATTTACAATACTAAAGATATTAAAATACATATTC
AATGAGGAATAGTTTTACATAAAACAAATAATTAAAAATTTTTAATTCACATCAAATTTAACATA
CATAATCTATATGAATGAAATATTAAATTCAACAATTGAATCATTAAAATATTAACCATACAAAA
AGATGCAAAAAAATGTAAAGCAACTTTAATTTTACACCA
Found at i:51080936 original size:21 final size:21
Alignment explanation
Indices: 51080910--51080952 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51080900 TCAAACTTGA
51080910 TTCATTAATTGTTATCATGTC
1 TTCATTAATTGTTATCATGTC
51080931 TTCATTAATTGTTATCATGTC
1 TTCATTAATTGTTATCATGTC
51080952 T
1 T
51080953 AACATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (21 bp):
TTCATTAATTGTTATCATGTC
Found at i:51081131 original size:23 final size:24
Alignment explanation
Indices: 51081087--51081132 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
51081077 GTCGAACCTC
*
51081087 AAACAATCGAAACTTTACTTAGAA
1 AAACAATCGAAAATTTACTTAGAA
51081111 AAAC-ATCGAAAATATTA-TTAGA
1 AAACAATCGAAAAT-TTACTTAGA
51081133 GTTGGCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (24 bp):
AAACAATCGAAAATTTACTTAGAA
Found at i:51084599 original size:153 final size:153
Alignment explanation
Indices: 51084428--51084722 Score: 448
Period size: 153 Copynumber: 1.9 Consensus size: 153
51084418 AACCTATAAT
* * * *
51084428 AAAAAATAATAACCCTTTCTCCATTTGTTCCCATTTTCTCTTTCCAAGTGAAGTTTGAAGTAGAG
1 AAAAAAAAATAACCCTTTCTCCATTTGTTCCCATTTTCTCTTACAAAGTGAAGTTTGAAATAGAG
* * * *
51084493 ATGGCAATAGGGTAGGGCGA-GACAACTTTTCATCAGTCATGACTTCGATATGATATATCTTTAA
66 ATGGCAATAGGATAAGGC-ATGACAACTTTTCATCAGCCATGACTTCGATATGACATATCTTTAA
51084557 CATAATTCGATTTATATTCGAAAA
130 CATAATTCGATTTATATTCGAAAA
* * *
51084581 AAAAAAAAATAGCCCTTTCTCCATTTGTTTCTATTTTCTCTTACAAAGTGAAGTTTGAAATAGAG
1 AAAAAAAAATAACCCTTTCTCCATTTGTTCCCATTTTCTCTTACAAAGTGAAGTTTGAAATAGAG
* * *
51084646 ATGGCAATAGGATAAGGCATGACAGCTTTTCGTCAGCCATGATTTCGATATGACATATCTTTAAC
66 ATGGCAATAGGATAAGGCATGACAACTTTTCATCAGCCATGACTTCGATATGACATATCTTTAAC
51084711 ATAATTCGATTT
131 ATAATTCGATTT
51084723 TAATTTGAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
152 1 0.01
153 126 0.99
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (153 bp):
AAAAAAAAATAACCCTTTCTCCATTTGTTCCCATTTTCTCTTACAAAGTGAAGTTTGAAATAGAG
ATGGCAATAGGATAAGGCATGACAACTTTTCATCAGCCATGACTTCGATATGACATATCTTTAAC
ATAATTCGATTTATATTCGAAAA
Found at i:51086298 original size:22 final size:24
Alignment explanation
Indices: 51086270--51086315 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
51086260 TATAAAATTA
*
51086270 TTAAATA-TTAAAATAAT-ATAAT
1 TTAAATATTTAAAAAAATAATAAT
51086292 TTAAATATTTAAAAAAATAATAAT
1 TTAAATATTTAAAAAAATAATAAT
51086316 ATGGATGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAATATTTAAAAAAATAATAAT
Found at i:51086534 original size:16 final size:16
Alignment explanation
Indices: 51086513--51086547 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51086503 ATTATGTAAA
*
51086513 AAAAATAAATATAATT
1 AAAAATAAACATAATT
*
51086529 AAAAATAAGCATAATT
1 AAAAATAAACATAATT
51086545 AAA
1 AAA
51086548 TTATTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATAAACATAATT
Found at i:51090919 original size:179 final size:179
Alignment explanation
Indices: 51090613--51090972 Score: 533
Period size: 179 Copynumber: 2.0 Consensus size: 179
51090603 ATCATGATCA
* * * * * **
51090613 ATTTACTCTTTGATCTAACGTACAACAACTAATCTACCCATTTTTGAGGAGGCAAAATGCAATTT
1 ATTTACTCTTTAATCCAACGTACAAAAACTAATCTACACATTTTTGAGGAGACAAAATAAAATTT
* *
51090678 GATTTCAATACAAGAGCCTCCATAATCAATTTACACTTTGATCTAACGTACAAAATCTAATCTAC
66 GACTTCAATACAAGAGCCTCCATAATCAATTTACACTTTGATCTAACGTACAAAAACTAATCTAC
*
51090743 CCATTTTTGAGGAGCCAAAATGCAATTTAACTTCAGTACAAGGGCCTCC
131 CCATTTTTGAGGAGCCAAAATGCAATTTAACTTCAATACAAGGGCCTCC
*
51090792 ATTTACTCTTTAATCCGACGTACAAAAACTAATCTACACATCTTTT-AGGAGACAAAATAAAATT
1 ATTTACTCTTTAATCCAACGTACAAAAACTAATCTACACAT-TTTTGAGGAGACAAAATAAAATT
* * *
51090856 TGACTTCAGTACAAGGGCCTCCATAATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTA
65 TGACTTCAATACAAGAGCCTCCATAATCAATTTACACTTTGATCTAACGTACAAAAACTAATCTA
* * * * *
51090921 CCCATTTTTGAGGGGGCAAAATGCAATTTAATTTCAATAGAAGTGCCTCC
130 CCCATTTTTGAGGAGCCAAAATGCAATTTAACTTCAATACAAGGGCCTCC
51090971 AT
1 AT
51090973 GATACATTTA
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
179 157 0.98
180 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (179 bp):
ATTTACTCTTTAATCCAACGTACAAAAACTAATCTACACATTTTTGAGGAGACAAAATAAAATTT
GACTTCAATACAAGAGCCTCCATAATCAATTTACACTTTGATCTAACGTACAAAAACTAATCTAC
CCATTTTTGAGGAGCCAAAATGCAATTTAACTTCAATACAAGGGCCTCC
Found at i:51090982 original size:93 final size:93
Alignment explanation
Indices: 51090609--51090972 Score: 474
Period size: 93 Copynumber: 4.0 Consensus size: 93
51090599 CGGAATCATG
*
51090609 ATCAATTTACTCTTTGATCTAACGTACAACAACTAATCTACCCATTTTTGAGGAGGCAAAATGCA
1 ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCATTTTTGAGGAGGCAAAATGCA
* * *
51090674 ATTTGATTTCAATACAAGAGCCTCCATA
66 ATTTAACTTCAATACAAGGGCCTCCATA
* * *
51090702 ATCAATTTACACTTTGATCTAACGTACAAAATCTAATCTACCCATTTTTGAGGAGCCAAAATGCA
1 ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCATTTTTGAGGAGGCAAAATGCA
*
51090767 ATTTAACTTCAGTACAAGGGCCT-C---
66 ATTTAACTTCAATACAAGGGCCTCCATA
* ** * * **
51090791 --C-ATTTACTCTTTAATCCGACGTACAAAAACTAATCTACACATCTTTT-AGGAGACAAAATAA
1 ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCAT-TTTTGAGGAGGCAAAATGC
* *
51090852 AATTTGACTTCAGTACAAGGGCCTCCATA
65 AATTTAACTTCAATACAAGGGCCTCCATA
*
51090881 ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCATTTTTGAGGGGGCAAAATGCA
1 ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCATTTTTGAGGAGGCAAAATGCA
* * *
51090946 ATTTAATTTCAATAGAAGTGCCTCCAT
66 ATTTAACTTCAATACAAGGGCCTCCAT
51090973 GATACATTTA
Statistics
Matches: 231, Mismatches: 31, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
86 69 0.30
87 6 0.03
92 6 0.03
93 150 0.65
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (93 bp):
ATCAATTTACTCTTTGATCTAACGTACAAAAACTAATCTACCCATTTTTGAGGAGGCAAAATGCA
ATTTAACTTCAATACAAGGGCCTCCATA
Found at i:51093969 original size:15 final size:15
Alignment explanation
Indices: 51093925--51093962 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
51093915 AAACAAGAAG
*
51093925 AAAAATAACAATAAT
1 AAAAATAAAAATAAT
51093940 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
*
51093955 GAAAATAA
1 AAAAATAA
51093963 TATTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:51101162 original size:20 final size:20
Alignment explanation
Indices: 51101127--51101176 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
51101117 TATTTTTCAA
51101127 CAAAAA-TTA-AAAAAAAAT
1 CAAAAATTTATAAAAAAAAT
51101145 CAAAATATTTATAAAAAAAAT
1 CAAAA-ATTTATAAAAAAAAT
*
51101166 CCAAAATTTAT
1 CAAAAATTTAT
51101177 GTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.18
19 1 0.04
20 9 0.32
21 13 0.46
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
CAAAAATTTATAAAAAAAAT
Found at i:51102649 original size:111 final size:112
Alignment explanation
Indices: 51102435--51102655 Score: 309
Period size: 111 Copynumber: 2.0 Consensus size: 112
51102425 TTTAGTTGTT
* * * * * * ***
51102435 GTTTGGAAACGATTTTGAGGGTTTTCCCTTTTTAATCTTCCACAATCAGGGTTTTTTTCGTTGGA
1 GTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAG-TTTTTTAAATGGA
*
51102500 AATTAATGATTTATTTAATGTTTAGATAAAGGTATTCTTTTATTTATA
65 AATTAATGATTTATTTAATGTTTAGATAAAGGGATTCTTTTATTTATA
*
51102548 GTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGGATCTTCAACAATCAGAG-TTTTTAAATGGAA
1 GTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAGTTTTTTAAATGGAA
* *
51102612 TTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTT
66 ATTAATGATTTATTTAATGTTTAGATAAAGGGATTCTTTTATTT
51102656 TTTGTAGTTG
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 51 0.54
113 44 0.46
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.46
Consensus pattern (112 bp):
GTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAGTTTTTTAAATGGAA
ATTAATGATTTATTTAATGTTTAGATAAAGGGATTCTTTTATTTATA
Found at i:51102828 original size:159 final size:160
Alignment explanation
Indices: 51102538--51102843 Score: 544
Period size: 159 Copynumber: 1.9 Consensus size: 160
51102528 AAGGTATTCT
*
51102538 TTTATTTATAGTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGGATCTTCAACAATCAGAGTTTT
1 TTTATTTATAGTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAGTTTT
*
51102603 TAAATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTTTTGTAGTTGTT
66 TAAATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTGTTGTAGTTGTT
51102668 GGTTGATTGATTGATTGAAATTATTGTTAA
131 GGTTGATTGATTGATTGAAATTATTGTTAA
* *
51102698 TTTATTTATAGTTTGGAAACAATTTTGAGGGTTTTCCCGTTTGAATCTTCCACAATCAG-GATTT
1 TTTATTTATAGTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAG-TTT
51102762 TT-AATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTGTTGTAGTTGT
65 TTAAATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTGTTGTAGTTGT
*
51102826 TGGTTGGTTGATTGATTG
130 TGGTTGATTGATTGATTG
51102844 TTGTTGTGGT
Statistics
Matches: 140, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
159 79 0.56
160 61 0.44
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (160 bp):
TTTATTTATAGTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATCAGAGTTTT
TAAATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTGTTGTAGTTGTT
GGTTGATTGATTGATTGAAATTATTGTTAA
Found at i:51126199 original size:41 final size:41
Alignment explanation
Indices: 51126153--51126234 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
51126143 TTCTTTTATT
* *
51126153 GCTTGGTGAAATTGATTTAGTGGTGTATATATTTTCATTGA
1 GCTTGGTGAAAGTGATTTAGTGGTGTATACATTTTCATTGA
* *
51126194 GCTTGGTGGAAGTGATTTAGTGGTTTATACATTTTCATTGA
1 GCTTGGTGAAAGTGATTTAGTGGTGTATACATTTTCATTGA
51126235 TTTAATGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (41 bp):
GCTTGGTGAAAGTGATTTAGTGGTGTATACATTTTCATTGA
Found at i:51127627 original size:6 final size:6
Alignment explanation
Indices: 51127611--51127644 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
51127601 TTAGATCATT
*
51127611 TGGGT- TGGGTG TGGGTG TGGGTG TGTGTG TGGGT
1 TGGGTG TGGGTG TGGGTG TGGGTG TGGGTG TGGGT
51127645 CATTTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (6 bp):
TGGGTG
Found at i:51132952 original size:14 final size:14
Alignment explanation
Indices: 51132933--51132959 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51132923 TAAACCAAAC
51132933 AGAAAACGAAAAAA
1 AGAAAACGAAAAAA
51132947 AGAAAACGAAAAA
1 AGAAAACGAAAAA
51132960 CGGATATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (14 bp):
AGAAAACGAAAAAA
Found at i:51133158 original size:8 final size:8
Alignment explanation
Indices: 51133145--51133174 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
51133135 TTTTATCTGC
51133145 ATATATGT
1 ATATATGT
*
51133153 ATATATAT
1 ATATATGT
51133161 ATATATGT
1 ATATATGT
51133169 ATATAT
1 ATATAT
51133175 TCAGTTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:51141327 original size:24 final size:23
Alignment explanation
Indices: 51141300--51141346 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
51141290 CTCGAAATTC
*
51141300 AAAACCAAATTTTCTTTATTATTA
1 AAAACCAAA-TTTATTTATTATTA
**
51141324 AAAATTAAATTTATTTATTATTA
1 AAAACCAAATTTATTTATTATTA
51141347 TCTTTAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAACCAAATTTATTTATTATTA
Found at i:51153519 original size:169 final size:169
Alignment explanation
Indices: 51153256--51153756 Score: 767
Period size: 171 Copynumber: 2.9 Consensus size: 169
51153246 GGCTATCTGC
* *
51153256 CATG-TTCATGTGTTTTATCCCTCAAAAAAATT-ATTTTTTTAATGCAAAATTGGGGATAAAATT
1 CATGTTTCATGTGTTTTAT-CCTTAAAAAAATTGAATTTTTT-ATGCAAAATTGGGGATAAAATT
*
51153319 TGAGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAAAATGC
64 TGAGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAGAATGC
*
51153384 TACAATGTAAGCTTTTGGGGTGGTTTTAATTTATCTACATTT
129 TACAATGTAAGCTTTTGGGGT-GTTTTAATTTAGCTACATTT
*
51153426 CATGTTTCATGTGGTTTATCCTTAAAAAAATTGAATTTTTTATGCAAAATTGGGGAT-AAATTTG
1 CATGTTTCATGTGTTTTATCCTTAAAAAAATTGAATTTTTTATGCAAAATTGGGGATAAAATTTG
51153490 AGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAGAATGCTA
66 AGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAGAATGCTA
*
51153555 CAATGTAAGCTTTTGGGGCTGTTTTAATTTAGCTATATTT
131 CAATGTAAGCTTTTGGGG-TGTTTTAATTTAGCTACATTT
* *
51153595 CATGTTTCATGTGTTTTATCCTTGAAAAAAATTTGAAATTTTTATGCTAAATT-GGGATAAAATT
1 CATGTTTCATGTGTTTTATCCTT-AAAAAAA-TTGAATTTTTTATGCAAAATTGGGGATAAAATT
** * * *
51153659 TGAGGCAATGAAATGGGTATTTGAAGAATGAATGTTTAGAATAATGGTTGGAACAAATAGAATGG
64 TGAGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAGAATGC
** *
51153724 TGTAATGTAAGGTTTTGGGGTTGTTTTAATTTA
129 TACAATGTAAGCTTTTGGGG-TGTTTTAATTTA
51153757 ATGGTAAAAG
Statistics
Matches: 307, Mismatches: 18, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
169 129 0.42
170 45 0.15
171 133 0.43
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (169 bp):
CATGTTTCATGTGTTTTATCCTTAAAAAAATTGAATTTTTTATGCAAAATTGGGGATAAAATTTG
AGGCCTTGAAATGGGTATTTGAAGAATGAATGATTAAAATAATGGTTGGAACAAATAGAATGCTA
CAATGTAAGCTTTTGGGGTGTTTTAATTTAGCTACATTT
Found at i:51155330 original size:31 final size:31
Alignment explanation
Indices: 51155263--51155332 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
51155253 ATAAAATAAT
* * * *
51155263 CATTGAACTATTTGAAAATTTTCATTTGAGT
1 CATTGAATTATTTCAAAATTTTCATTTAAGC
*
51155294 TATTGAATTA-TTCAAAAGTTTTCATTTAAGC
1 CATTGAATTATTTCAAAA-TTTTCATTTAAGC
51155325 CATTGAAT
1 CATTGAAT
51155333 AAAAGTTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
CATTGAATTATTTCAAAATTTTCATTTAAGC
Found at i:51157271 original size:17 final size:18
Alignment explanation
Indices: 51157238--51157272 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51157228 ATAGATTCAG
*
51157238 ATATTTTAAATTCAAATA
1 ATATTTAAAATTCAAATA
51157256 ATATTTAAAATT-AAATA
1 ATATTTAAAATTCAAATA
51157273 TTCTAATTAT
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:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTTAAAATTCAAATA
Found at i:51163832 original size:21 final size:20
Alignment explanation
Indices: 51163802--51163842 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
51163792 AAACAAATAA
51163802 TAATTAAATAATTAA-ATATT
1 TAATTAAATAA-TAACATATT
51163822 TAATTGAAATAATAACATATT
1 TAATT-AAATAATAACATATT
51163843 CGTTGATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATTAAATAATAACATATT
Found at i:51172925 original size:31 final size:29
Alignment explanation
Indices: 51172890--51172956 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
51172880 ATATGCTCTA
*
51172890 AGTCTTTATACCCTTTATTCATTTAA-AATTT
1 AGTCTTTATA-CCTTTATT--TCTAAGAATTT
* *
51172921 AGTCTTCATACTTTTATTTCTAAGAATTT
1 AGTCTTTATACCTTTATTTCTAAGAATTT
51172950 AGTCTTT
1 AGTCTTT
51172957 TACTTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.13
29 11 0.35
30 7 0.23
31 9 0.29
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (29 bp):
AGTCTTTATACCTTTATTTCTAAGAATTT
Found at i:51173160 original size:15 final size:15
Alignment explanation
Indices: 51173140--51173188 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
51173130 ATTGAACTTG
**
51173140 AATTTTAAATTTTAA
1 AATTTTAAAAATTAA
51173155 AATTTTTAAAAATTAA
1 AA-TTTTAAAAATTAA
* *
51173171 ATTTTTAAAAATAAA
1 AATTTTAAAAATTAA
51173186 AAT
1 AAT
51173189 ACAAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTAAAAATTAA
Found at i:51173188 original size:16 final size:15
Alignment explanation
Indices: 51173152--51173186 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51173142 TTTTAAATTT
51173152 TAAAATTTTTAAAAA
1 TAAAATTTTTAAAAA
*
51173167 TTAAATTTTTAAAAA
1 TAAAATTTTTAAAAA
51173182 TAAAA
1 TAAAA
51173187 ATACAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATTTTTAAAAA
Found at i:51179772 original size:22 final size:21
Alignment explanation
Indices: 51179739--51179783 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
51179729 TAATTTTTTT
51179739 AAAAAATCATAAAATTTATAA
1 AAAAAATCATAAAATTTATAA
* *
51179760 AAAAATATTATAAAATTTTTAA
1 AAAAA-ATCATAAAATTTATAA
51179782 AA
1 AA
51179784 TTAAATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATCATAAAATTTATAA
Found at i:51191507 original size:18 final size:18
Alignment explanation
Indices: 51191484--51191519 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51191474 AATTACTATA
51191484 TTTTATTCAAACAAAAAG
1 TTTTATTCAAACAAAAAG
* *
51191502 TTTTATTTAAAGAAAAAG
1 TTTTATTCAAACAAAAAG
51191520 AAGTATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (18 bp):
TTTTATTCAAACAAAAAG
Found at i:51198037 original size:33 final size:32
Alignment explanation
Indices: 51197971--51198039 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
51197961 TTTTAAAATT
*
51197971 TTTGGGTCATTTCGGTTCAAGACAATTCCAGG
1 TTTGGGTCATTTCGATTCAAGACAATTCCAGG
* *
51198003 TTTGGGTCAATTTCCGATTCGAGAC-ATTCTAGG
1 TTTGGGTC-ATTT-CGATTCAAGACAATTCCAGG
51198036 TTTG
1 TTTG
51198040 AGCCATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 8 0.25
33 15 0.47
34 9 0.28
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (32 bp):
TTTGGGTCATTTCGATTCAAGACAATTCCAGG
Found at i:51199377 original size:14 final size:15
Alignment explanation
Indices: 51199320--51199377 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
51199310 ATAGTATTTT
*
51199320 TATTTTTTAAATT-A
1 TATTTTTTAATTTAA
51199334 TATTATTTTAATTTAA
1 TATT-TTTTAATTTAA
** *
51199350 TATTTAATATTTTAA
1 TATTTTTTAATTTAA
51199365 TATTTTTT-ATTTA
1 TATTTTTTAATTTA
51199378 TTGAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
14 8 0.23
15 22 0.63
16 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTTTAATTTAA
Found at i:51201953 original size:19 final size:20
Alignment explanation
Indices: 51201914--51202012 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
51201904 ATAAAAAGAA
51201914 TCATAATAAATTTTAAAAAT
1 TCATAATAAATTTTAAAAAT
51201934 TCATAATAAATTTT-AAAAT
1 TCATAATAAATTTTAAAAAT
*
51201953 TCA-AA-ATATTTGTAAAAAT
1 TCATAATAAATTT-TAAAAAT
* ** *
51201972 TCAAAAATTTATATTAAAAAAT
1 TC-ATAATAAAT-TTTAAAAAT
51201994 T-ATAATAAATTTTTAAAAA
1 TCATAATAAA-TTTTAAAAA
51202013 AATTTTAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.08
18 3 0.05
19 15 0.23
20 27 0.42
21 3 0.05
22 10 0.15
23 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (20 bp):
TCATAATAAATTTTAAAAAT
Found at i:51202012 original size:22 final size:21
Alignment explanation
Indices: 51201987--51202050 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
51201977 AATTTATATT
51201987 AAAAAATTATAATAAATTTTTA
1 AAAAAATTATAA-AAATTTTTA
* * *
51202009 AAAAAATTTTAAAGAATATATAA
1 AAAAAATTATAAA-AAT-TTTTA
51202032 AAAAAATTA-AAAAATTTTT
1 AAAAAATTATAAAAATTTTT
51202051 CAAATCGAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 4 0.12
22 17 0.50
23 11 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAATTATAAAAATTTTTA
Found at i:51202016 original size:44 final size:43
Alignment explanation
Indices: 51201966--51202050 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 43
51201956 AAATATTTGT
* *
51201966 AAAAA-TTCAAA-AATTTATATTAAAAAATTATAATAAATTTTTAA
1 AAAAATTTCAAAGAATATATA-AAAAAAATTA-AA-AAATTTTTAA
*
51202010 AAAAATTTTAAAGAATATATAAAAAAAATTAAAAAATTTTT
1 AAAAATTTCAAAGAATATATAAAAAAAATTAAAAAATTTTT
51202051 CAAATCGAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 8 0.22
44 7 0.19
45 14 0.39
46 7 0.19
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (43 bp):
AAAAATTTCAAAGAATATATAAAAAAAATTAAAAAATTTTTAA
Found at i:51203999 original size:23 final size:23
Alignment explanation
Indices: 51203973--51204018 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
51203963 TTAAAGATAC
51203973 AATATTCAAC-AAATTTAACATTT
1 AATATT-AACAAAATTTAACATTT
* *
51203996 AATATTTACAAAATTTATCATTT
1 AATATTAACAAAATTTAACATTT
51204019 TAGTTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTAACAAAATTTAACATTT
Found at i:51212589 original size:17 final size:16
Alignment explanation
Indices: 51212549--51212591 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
51212539 TTTTTCAAAT
51212549 AATTCTATATATTTAAA
1 AATTC-ATATATTTAAA
* *
51212566 AAGTCATATTTTTATAA
1 AATTCATATATTTA-AA
51212583 AATTCATAT
1 AATTCATAT
51212592 CCGAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTCATATATTTAAA
Found at i:51214297 original size:16 final size:17
Alignment explanation
Indices: 51214270--51214311 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
51214260 TTTAATCTTT
*
51214270 TAAAATTTTTAAAGAT-A
1 TAAAATTATTAAA-ATAA
51214287 T-AAATTATTAAAATAA
1 TAAAATTATTAAAATAA
51214303 TAAAATTAT
1 TAAAATTAT
51214312 ATTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAATTATTAAAATAA
Found at i:51216866 original size:2 final size:2
Alignment explanation
Indices: 51216859--51216899 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
51216849 CGAGCTTCGA
51216859 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
51216900 TTACCCCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:51220792 original size:2 final size:2
Alignment explanation
Indices: 51220785--51220825 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
51220775 CTTTAAATGC
* *
51220785 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51220826 CATAGTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:51227620 original size:22 final size:22
Alignment explanation
Indices: 51227595--51227638 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
51227585 ATACTCACAC
51227595 TCAAATCTAAATAACATAAAAA
1 TCAAATCTAAATAACATAAAAA
* *
51227617 TCAAATTTGAATAACATAAAAA
1 TCAAATCTAAATAACATAAAAA
51227639 ATATCCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.25
Consensus pattern (22 bp):
TCAAATCTAAATAACATAAAAA
Found at i:51231837 original size:22 final size:22
Alignment explanation
Indices: 51231805--51231849 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51231795 ATCAAGTTAC
51231805 ACTCCAATAATCATAAACTTAA
1 ACTCCAATAATCATAAACTTAA
*
51231827 ACTCCAGTAATCATAAACTTAA
1 ACTCCAATAATCATAAACTTAA
51231849 A
1 A
51231850 TTTGACTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (22 bp):
ACTCCAATAATCATAAACTTAA
Found at i:51234079 original size:19 final size:19
Alignment explanation
Indices: 51234055--51234098 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
51234045 CTCGACAATT
51234055 AAACTTATTGAAAGTTATC
1 AAACTTATTGAAAGTTATC
51234074 AAACTTATTGAAAGTTATC
1 AAACTTATTGAAAGTTATC
51234093 AAACTT
1 AAACTT
51234099 GAACTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (19 bp):
AAACTTATTGAAAGTTATC
Found at i:51239947 original size:16 final size:18
Alignment explanation
Indices: 51239908--51239941 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51239898 TTAGTTTATA
51239908 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
51239925 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
51239942 AATTTAGAAC
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:51241768 original size:13 final size:13
Alignment explanation
Indices: 51241752--51241801 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
51241742 TTGAGAAGCG
51241752 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
**
51241765 CTTTGGAAAAGTGA
1 CTTTTAAAAAGT-A
*
51241779 -TTTTGAAAAGTA
1 CTTTTAAAAAGTA
51241791 CTTTTAAAAAG
1 CTTTTAAAAAG
51241802 CTTGGTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:51241768 original size:26 final size:26
Alignment explanation
Indices: 51241739--51241802 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
51241729 TTTAGCATTG
* *
51241739 CTTTTGAGAAGCGCTTTTAAAAAGTA
1 CTTTTGAAAAGCGATTTTAAAAAGTA
* * *
51241765 CTTTGGAAAAGTGATTTTGAAAAGTA
1 CTTTTGAAAAGCGATTTTAAAAAGTA
*
51241791 CTTTTAAAAAGC
1 CTTTTGAAAAGC
51241803 TTGGTTTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (26 bp):
CTTTTGAAAAGCGATTTTAAAAAGTA
Found at i:51242252 original size:15 final size:15
Alignment explanation
Indices: 51242232--51242264 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51242222 ATACTTTTAA
51242232 AAAGTATTATTAAAC
1 AAAGTATTATTAAAC
*
51242247 AAAGTATTATTAAGC
1 AAAGTATTATTAAAC
51242262 AAA
1 AAA
51242265 AAGCTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (15 bp):
AAAGTATTATTAAAC
Found at i:51244801 original size:18 final size:16
Alignment explanation
Indices: 51244766--51244807 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
51244756 GATTTTCAAT
51244766 TTTCAATTCATATCAC
1 TTTCAATTCATATCAC
*
51244782 TTTCAATTCCAATTTCAC
1 TTTCAATT-C-ATATCAC
51244800 TTTCAATT
1 TTTCAATT
51244808 TTGATCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTCAATTCATATCAC
Found at i:51262149 original size:275 final size:275
Alignment explanation
Indices: 51261654--51262178 Score: 718
Period size: 275 Copynumber: 1.9 Consensus size: 275
51261644 TTAATAAAAA
*
51261654 TATATATTATAAAAATGAGCAAAGTAATTTATTTTTTATTTTATTGGGTATAGGAACTAGACTTG
1 TATATATTATAAAAATGAGCAAAGTAATTTATCTTTTATTTTATTGGGTATAGGAACTAGACTTG
* * ** * *
51261719 TGCATACAATGGTTCAGTTCGAATGTTGGTTTAAAAAGTGGTAGGATTTATTAAAAATATAAGTT
66 TGCATA-AATGGTCCAGTTCGAATATCCGTCTAAAAAGTGGTAGGATTTAATAAAAATATAAGTT
* *
51261784 CAAAAAATGAATTAGAACAAAAAATAAGATCTATTTTTTAAATTAACCAGAACTCGAGTAAACTT
130 CAAAAAATGAATTAGAACAAAAAATAAGATCTATTTTTTAAATGAACCAGAACCCGAGTAAACTT
* * *
51261849 TTTTTGCTCGGCTTGAATTCCCTTAACAAAATATCGATACGATTGCCTAAGTATCAATACCCTTT
195 TTTTTGCTCGGCTCGAATACCCTTAACAAAATATCGATACCATTGCCTAAGTATCAATACCCTTT
51261914 CCTAGATTTTGATACT
260 CCTAGATTTTGATACT
*
51261930 TATATATTATAAAAATGAGCAAAGTAATTTATCTTTTATTTTATTGGGGTATAGGAATTAGA-TT
1 TATATATTATAAAAATGAGCAAAGTAATTTATCTTTTATTTTATT-GGGTATAGGAACTAGACTT
* * * *
51261994 GTTCAT-AATGGTCCAGCTT-GAATATCCGTCTAAAAAGTGGTAGGGTTTGAATAATAATATAGG
65 GTGCATAAATGGTCCAG-TTCGAATATCCGTCTAAAAAGTGGTAGGATTT-AATAAAAATATAAG
* * * * ** *
51262057 TTTAAAAAATGAGTTTGAACAAAAAATAAG-GCTCATTTTTT-AATCGAGTCAGATCCCGAGTAA
128 TTCAAAAAATGAATTAGAACAAAAAATAAGATCT-ATTTTTTAAAT-GAACCAGAACCCGAGTAA
* * *
51262120 ACTTTTTTTGCTCTGCTCGAATACCCTTAACAAAGTATCGATGCCATTGCCTAAGTATC
191 ACTTTTTTTGCTCGGCTCGAATACCCTTAACAAAATATCGATACCATTGCCTAAGTATC
51262179 GGTACCTTTC
Statistics
Matches: 217, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
274 38 0.18
275 113 0.52
276 51 0.24
277 15 0.07
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (275 bp):
TATATATTATAAAAATGAGCAAAGTAATTTATCTTTTATTTTATTGGGTATAGGAACTAGACTTG
TGCATAAATGGTCCAGTTCGAATATCCGTCTAAAAAGTGGTAGGATTTAATAAAAATATAAGTTC
AAAAAATGAATTAGAACAAAAAATAAGATCTATTTTTTAAATGAACCAGAACCCGAGTAAACTTT
TTTTGCTCGGCTCGAATACCCTTAACAAAATATCGATACCATTGCCTAAGTATCAATACCCTTTC
CTAGATTTTGATACT
Found at i:51263906 original size:26 final size:28
Alignment explanation
Indices: 51263877--51263936 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
51263867 TAAGATGACT
51263877 ATATAAAAAATT-TTAACA-AATAAAA-A
1 ATATAAAAAATTATTAA-ATAATAAAATA
* *
51263903 ATATATAAAATTATTAAATATTAAAATA
1 ATATAAAAAATTATTAAATAATAAAATA
51263931 ATATAA
1 ATATAA
51263937 TATAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 12 0.43
27 10 0.36
28 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
ATATAAAAAATTATTAAATAATAAAATA
Found at i:51265057 original size:13 final size:14
Alignment explanation
Indices: 51265027--51265059 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51265017 CAATCAAAAT
51265027 TTATAAAATATAAA
1 TTATAAAATATAAA
*
51265041 TTATTAAATAT-AA
1 TTATAAAATATAAA
51265054 TTATAA
1 TTATAA
51265060 CCCAAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTATAAAATATAAA
Found at i:51265242 original size:4 final size:4
Alignment explanation
Indices: 51265215--51265258 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
51265205 TGAAATTAAG
* * * *
51265215 CATA CATG CATG CATG CATG CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
51265259 AAAACAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:51271328 original size:104 final size:104
Alignment explanation
Indices: 51271193--51271959 Score: 507
Period size: 104 Copynumber: 7.3 Consensus size: 104
51271183 AGCAAAATAA
* * * * * * *
51271193 CCATGATTAAGG-TTTAAAGAACCAAACTATAGTTCAAATGAAATCATCGACTACTATACCAATG
1 CCATGATTCAGGTTTTACA-AATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATA
*
51271257 CTATGAATTTCGACATGCCAAAATTTAATGATTTGTGTAT
65 CTATGAATTTCGACATGCCAAAATTTAATGATTAGTGTAT
*
51271297 CCATGAGTT-AGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTATTAAACCAATA
1 CCATGA-TTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATA
* * ** * * ***
51271361 CTGT-AATGTGCGTTA-ATAGGAGGAAAAGTTACAAAGA--AAAATAT
65 CTATGAAT-TTCG--ACAT--G-CCAAAA-TT-TAATGATTAGTGTAT
* * * * * *
51271405 CGATGATTCAGGTTTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACCATACCAATGC
1 CCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATAC
*
51271470 TATGAATTTCGACATGCCAAAATTTAATGATTTGTGTAT
66 TATGAATTTCGACATGCCAAAATTTAATGATTAGTGTAT
* *
51271509 CCATGAGTT-AGGTTTTACAAATCAAACTATAGTTCAAACAAAATCATCAACTATTAAACCAATA
1 CCATGA-TTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATA
* * ** * ** ** ***
51271573 CTGT-AATGTGCGTTA-ATAGGAGGAAAAGTTACCGAGAAAAATAT
65 CTATGAAT-TTCG--ACAT--G-CCAAAATTTAATGATTAGTGTAT
* * * * * *
51271617 CCATGATTGAGGTTTTACGAACCAAACTATAGTTCAAATGAAATCATTAACTACTATACCAATAC
1 CCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATAC
*
51271682 TATGAATTTCGACATGCCAAAATTTAATGATTCGTGTAT
66 TATGAATTTCGACATGCCAAAATTTAATGATTAGTGTAT
* * * * * * *
51271721 CCATGATTCAAGTTTTACGAATCAAACTACAGTTGAAACCACATCATCTACTACTAAACCAATA-
1 CCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATAC
* ** * ** ** ***
51271785 T-TGTAATTT-GCATTAATAGGAGGAAAAGTTACCGAGCAAAATAT
66 TATG-AATTTCG-A--CAT--G-CCAAAATTTAATGATTAGTGTAT
** * * * * * *
51271829 CCATGATGGAGGATTTCCGAACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATAC
1 CCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATAC
* * *
51271894 TATGAATTT-GAACATGCCAAAATTTAATAATTCGTTTAT
66 TATGAATTTCG-ACATGCCAAAATTTAATGATTAGTGTAT
* * * *
51271933 ACATTATTCAGCTTTTACGAATCAAAC
1 CCATGATTCAGGTTTTACAAATCAAAC
51271960 GAAATCATCA
Statistics
Matches: 496, Mismatches: 133, Indels: 68
0.71 0.19 0.10
Matches are distributed among these distances:
102 7 0.01
103 15 0.03
104 215 0.43
105 18 0.04
106 4 0.01
107 13 0.03
108 202 0.41
109 16 0.03
110 6 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (104 bp):
CCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAATAC
TATGAATTTCGACATGCCAAAATTTAATGATTAGTGTAT
Found at i:51271438 original size:108 final size:107
Alignment explanation
Indices: 51271036--51271894 Score: 577
Period size: 108 Copynumber: 8.1 Consensus size: 107
51271026 GTATAGTTCA
* * *
51271036 ACCAATACTGTAATTTGCGTTAATAGGAGGAAATGTT-AATGAGT-AACTATCCATGATTCAGGT
1 ACCAATACTGTAA-TTGCGTTAATAGGAGGAAAAGTTCAAAGA-TAAAATATCCATGATTCAGGT
** *
51271099 TTTATGAACCAAACTATAGTT-AAATGAAATCATCAATTACTAT
64 TTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
* * * * * * *
51271142 ACCTATACTGTAATTTGAGTTAATACGAGGAAAAGTTACCAAG-CAAAATAACCATGATTAAGG-
1 ACCAATACTGTAA-TTGCGTTAATAGGAGGAAAAGTT-CAAAGATAAAATATCCATGATTCAGGT
* *
51271205 TTTAAAGAACCAAACTATAGTTCAAATGAAATCATCGACTACTAT
64 TTTACA-AACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
* * * ** * * ****
51271250 ACCAATGCTATGAATTTCG--ACAT--G-CCAAAA-TTTAATGATTTGTGTATCCATGAGTT-AG
1 ACCAATACTGT-AATTGCGTTA-ATAGGAGGAAAAGTTCAAAGA-TAAAATATCCATGA-TTCAG
* * * *
51271308 GTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTATTAA
62 GTTTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
*
51271354 ACCAATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACAAAGA-AAAATATCGATGATTCAGGT
1 ACCAATACTGTAAT-TGCGTTAATAGGAGGAAAAGTT-CAAAGATAAAATATCCATGATTCAGGT
*
51271418 TTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACCAT
64 TTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
* * * ** * * ****
51271462 ACCAATGCTATGAATTTCG--ACAT--G-CCAAAA-TTTAATGATTTGTGTATCCATGAGTT-AG
1 ACCAATACTGT-AATTGCGTTA-ATAGGAGGAAAAGTTCAAAGA-TAAAATATCCATGA-TTCAG
* ** * *
51271520 GTTTTACAAATCAAACTATAGTTCAAACAAAATCATCAACTATTAA
62 GTTTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
** *
51271566 ACCAATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCGAGA-AAAATATCCATGATTGAGGT
1 ACCAATACTGTAAT-TGCGTTAATAGGAGGAAAAGTT-CAAAGATAAAATATCCATGATTCAGGT
* *
51271630 TTTACGAACCAAACTATAGTTCAAATGAAATCATTAACTACTAT
64 TTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
* * ** * * **** *
51271674 ACCAATACTATGAATTTCG--ACAT--G-CCAAAA-TTTAATGATTCGTGTATCCATGATTCAAG
1 ACCAATACTGT-AATTGCGTTA-ATAGGAGGAAAAGTTCAAAGA-TAAAATATCCATGATTCAGG
* * * * ** * * *
51271733 TTTTACGAATCAAACTACAGTTGAAACCACATCATCTACTACTAA
63 TTTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
* * ** * ** *
51271778 ACCAATATTGTAATTTGCATTAATAGGAGGAAAAGTT-ACCGAGCAAAATATCCATGATGGAGGA
1 ACCAATACTGTAA-TTGCGTTAATAGGAGGAAAAGTTCAAAGA-TAAAATATCCATGATTCAGGT
* *
51271842 TTTCCGAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
64 TTTACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
51271886 ACCAATACT
1 ACCAATACT
51271895 ATGAATTTGA
Statistics
Matches: 566, Mismatches: 142, Indels: 88
0.71 0.18 0.11
Matches are distributed among these distances:
102 8 0.01
103 14 0.02
104 191 0.34
105 18 0.03
106 43 0.08
107 43 0.08
108 229 0.40
109 14 0.02
110 6 0.01
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (107 bp):
ACCAATACTGTAATTGCGTTAATAGGAGGAAAAGTTCAAAGATAAAATATCCATGATTCAGGTTT
TACAAACCAAACTATAGTTCAAATGAAATCATCAACTACTAT
Found at i:51271449 original size:212 final size:212
Alignment explanation
Indices: 51271083--51271959 Score: 1224
Period size: 212 Copynumber: 4.1 Consensus size: 212
51271073 AATGAGTAAC
** * * * * *
51271083 TATCCATGATTCAGGTTTTATGAACCAAACTATAGTT-AAATGAAATCATCAATTACTATACCTA
1 TATCCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAA
* * * * * * *
51271147 TACTGTAATTTGAGTTAATACGAGGAAAAGTTACCAAGCAAAATAACCATGATTAAGG-TTTAAA
66 TACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCAAGAAAAATATCCATGATTGAGGTTTTACA
* *
51271211 GAACCAAACTATAGTTCAAATGAAATCATCGACTACTATACCAATGCTATGAATTTCGACATGCC
131 -AACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTTCGACATGCC
51271276 AAAATTTAATGATTTGTG
195 AAAATTTAATGATTTGTG
*
51271294 TATCCATGAGTT-AGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTATTAAACCA
1 TATCCATGA-TTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCA
* * *
51271358 ATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACAAAGAAAAATATCGATGATTCAGGTTTTAC
65 ATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCAAGAAAAATATCCATGATTGAGGTTTTAC
* *
51271423 AAACCAAACTATAGTTCAAATGAAATCATCAACTACCATACCAATGCTATGAATTTCGACATGCC
130 AAACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTTCGACATGCC
51271488 AAAATTTAATGATTTGTG
195 AAAATTTAATGATTTGTG
* *
51271506 TATCCATGAGTT-AGGTTTTACAAATCAAACTATAGTTCAAACAAAATCATCAACTATTAAACCA
1 TATCCATGA-TTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCA
*
51271570 ATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCGAGAAAAATATCCATGATTGAGGTTTTAC
65 ATACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCAAGAAAAATATCCATGATTGAGGTTTTAC
* *
51271635 GAACCAAACTATAGTTCAAATGAAATCATTAACTACTATACCAATACTATGAATTTCGACATGCC
130 AAACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTTCGACATGCC
*
51271700 AAAATTTAATGATTCGTG
195 AAAATTTAATGATTTGTG
* * * * * * *
51271718 TATCCATGATTCAAGTTTTACGAATCAAACTACAGTTGAAACCACATCATCTACTACTAAACCAA
1 TATCCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAA
* * * * * * * * *
51271783 TATTGTAATTTGCATTAATAGGAGGAAAAGTTACCGAGCAAAATATCCATGATGGAGGATTTCCG
66 TACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCAAGAAAAATATCCATGATTGAGGTTTTACA
51271848 AACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTT-GAACATGCC
131 AACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTTCG-ACATGCC
* * *
51271912 AAAATTTAATAATTCGTT
195 AAAATTTAATGATTTGTG
* * * *
51271930 TATACATTATTCAGCTTTTACGAATCAAAC
1 TATCCATGATTCAGGTTTTACAAATCAAAC
51271960 GAAATCATCA
Statistics
Matches: 610, Mismatches: 51, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
211 34 0.06
212 571 0.94
213 5 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (212 bp):
TATCCATGATTCAGGTTTTACAAATCAAACTATAGTTCAAACGAAATCATCAACTACTAAACCAA
TACTGTAATGTGCGTTAATAGGAGGAAAAGTTACCAAGAAAAATATCCATGATTGAGGTTTTACA
AACCAAACTATAGTTCAAATGAAATCATCAACTACTATACCAATACTATGAATTTCGACATGCCA
AAATTTAATGATTTGTG
Found at i:51273984 original size:18 final size:18
Alignment explanation
Indices: 51273943--51273984 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
51273933 CAATGGTTTT
*
51273943 TAAAAAATTAAAAAATTA
1 TAAAAAATTAAAAAATAA
*
51273961 TCAAAAATTCAAAAAA-AA
1 TAAAAAATT-AAAAAATAA
51273979 TAAAAA
1 TAAAAA
51273985 TCAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAAAATTAAAAAATAA
Found at i:51279504 original size:18 final size:19
Alignment explanation
Indices: 51279469--51279508 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
51279459 AATAAAAAAA
51279469 TAAAATAATATTATTAAAT
1 TAAAATAATATTATTAAAT
* *
51279488 TAAAATATTTTTA-TAAAT
1 TAAAATAATATTATTAAAT
51279506 TAA
1 TAA
51279509 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATATTATTAAAT
Found at i:51279568 original size:21 final size:20
Alignment explanation
Indices: 51279517--51279579 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
51279507 AATTTAAAAT
*
51279517 AAATTTAAATTAATA-ATTTA
1 AAATTT-AATTAATATATCTA
*
51279537 CAAATTTAATTAATTTATCTA
1 -AAATTTAATTAATATATCTA
*
51279558 AAATATTAATTTATATATCTA
1 AAAT-TTAATTAATATATCTA
51279579 A
1 A
51279580 TCGAATTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTTAATTAATATATCTA
Found at i:51281380 original size:17 final size:17
Alignment explanation
Indices: 51281358--51281390 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51281348 CTAAAAATAT
*
51281358 AATATTAATATAATGTA
1 AATATTAAAATAATGTA
51281375 AATATTAAAATAATGT
1 AATATTAAAATAATGT
51281391 TAAGATGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AATATTAAAATAATGTA
Found at i:51293036 original size:20 final size:21
Alignment explanation
Indices: 51293013--51293060 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
51293003 TATTTGCAAA
* *
51293013 TTTATTTTGATA-TATTTAAT
1 TTTATTTTGAGACAATTTAAT
*
51293033 TTTAGTTTGAGACAATTTAAT
1 TTTATTTTGAGACAATTTAAT
51293054 TTT-TTTT
1 TTTATTTT
51293061 ACATAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
TTTATTTTGAGACAATTTAAT
Found at i:51299138 original size:54 final size:54
Alignment explanation
Indices: 51299104--51299256 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 54
51299094 AAAGTAGTGT
* *
51299104 CGTAGGTGCAATCATTGGCTTGATG-CCCGAAATTATGCAATAGTAGAATCATGC
1 CGTAGGTGCAATCATTGGCCTG-TGACCCGAAATTACGCAATAGTAGAATCATGC
* * * *
51299158 CGTAGGTGCAATCGTTGGCCTGTGACCTGAAATTACGCAATAGTAGAATGATTC
1 CGTAGGTGCAATCATTGGCCTGTGACCCGAAATTACGCAATAGTAGAATCATGC
* ** *
51299212 TGT-GGATGCAATTGTTGGCCCT-TGACCCGAAATTAGGCAATAGTA
1 CGTAGG-TGCAATCATTGG-CCTGTGACCCGAAATTACGCAATAGTA
51299257 AAATAATGTC
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (54 bp):
CGTAGGTGCAATCATTGGCCTGTGACCCGAAATTACGCAATAGTAGAATCATGC
Found at i:51299276 original size:54 final size:54
Alignment explanation
Indices: 51299107--51299285 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
51299097 GTAGTGTCGT
* * * * * **
51299107 AGGTGCAATCATTGGCTTGATG-CCCGAAATTATGCAATAGTAGAATCATGCCGT
1 AGGTGCAATCGTTGGCCTG-TGACCCGAAATTACGCAATAGTAGAATAATGTCAA
* * **
51299161 AGGTGCAATCGTTGGCCTGTGACCTGAAATTACGCAATAGTAGAATGAT-TCTG
1 AGGTGCAATCGTTGGCCTGTGACCCGAAATTACGCAATAGTAGAATAATGTCAA
* * * *
51299214 TGGATGCAATTGTTGGCCCT-TGACCCGAAATTAGGCAATAGTAAAATAATGTCAA
1 AGG-TGCAATCGTTGG-CCTGTGACCCGAAATTACGCAATAGTAGAATAATGTCAA
*
51299269 AGGTGCAATCGCTGGCC
1 AGGTGCAATCGTTGGCC
51299286 GATGGGCTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 7 0.07
54 88 0.86
55 7 0.07
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (54 bp):
AGGTGCAATCGTTGGCCTGTGACCCGAAATTACGCAATAGTAGAATAATGTCAA
Found at i:51302753 original size:25 final size:25
Alignment explanation
Indices: 51302725--51302788 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
51302715 CAGCACTGTG
51302725 TGTGCTCTCTGTTACCCAGCATTTA
1 TGTGCTCTCTGTTACCCAGCATTTA
*
51302750 TGTGCTCTCTGTTGCCCAGCATTTA
1 TGTGCTCTCTGTTACCCAGCATTTA
*
51302775 TGTGCTCTTTGTTA
1 TGTGCTCTCTGTTA
51302789 GTACTTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (25 bp):
TGTGCTCTCTGTTACCCAGCATTTA
Found at i:51304265 original size:11 final size:11
Alignment explanation
Indices: 51304192--51304383 Score: 64
Period size: 12 Copynumber: 16.8 Consensus size: 11
51304182 ATTTCAAAAA
*
51304192 TAATATTATTT
1 TAATATTAATT
51304203 TAATAGTTTAATAT
1 TAATA--TTAAT-T
51304217 TAA-ATTTAATT
1 TAATA-TTAATT
* *
51304228 TATTACTTATTT
1 TAATA-TTAATT
*
51304240 TAATAGT-ATT
1 TAATATTAATT
51304250 T--TATTAATT
1 TAATATTAATT
51304259 TAATATTAAAGTGAT
1 TAATATT-AA-T--T
51304274 T-ATATTAATAT
1 TAATATTAAT-T
51304285 TAA-ATTTAATT
1 TAATA-TTAATT
*
51304296 TAATATTTATCTT
1 TAATA-TTA-ATT
*
51304309 GTAA-ATAAATAT
1 -TAATATTAAT-T
* *
51304321 T-TTATTATTT
1 TAATATTAATT
51304331 TAATA--AGATT
1 TAATATTA-ATT
51304341 TAATATTAAATT
1 TAATATT-AATT
51304353 TAATA-TAATAT
1 TAATATTAAT-T
*
51304364 TTATATTAATT
1 TAATATTAATT
51304375 TAATATTAA
1 TAATATTAA
51304384 AGTGATTAAG
Statistics
Matches: 138, Mismatches: 18, Indels: 50
0.67 0.09 0.24
Matches are distributed among these distances:
8 3 0.02
9 5 0.04
10 15 0.11
11 44 0.32
12 45 0.33
13 12 0.09
14 12 0.09
15 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:51304275 original size:20 final size:18
Alignment explanation
Indices: 51304193--51304302 Score: 66
Period size: 20 Copynumber: 5.9 Consensus size: 18
51304183 TTTCAAAAAT
* *
51304193 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
51304212 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* * *
51304229 ATTACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
51304248 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
51304267 AAGTGATT-ATATTAATATTA
1 AA-T-ATTAAT-TTAATATTA
51304287 AAT-TTAATTTAATATT
1 AATATTAATTTAATATT
51304303 TATCTTGTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
17 20 0.27
18 7 0.10
19 22 0.30
20 24 0.33
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:51304347 original size:68 final size:66
Alignment explanation
Indices: 51304201--51304379 Score: 152
Period size: 68 Copynumber: 2.6 Consensus size: 66
51304191 ATAATATTAT
* *
51304201 TTTAATAGTTTAATATTAAATTTAATTTATTACTTATTTTAATAGTATTTTATTAATTTAATATT
1 TTTAATA--TTAATATTAAATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATA-T
51304266 AAAG
63 AAAG
* *
51304270 TGATT-ATATTAATATTAAATTTAATTTAATATTTATCTTGTAAATAAATATTTTATTATTTTAA
1 T--TTAATATTAATATTAAATTTAATTTAATACTTAT-TT-T-AAT-AATATTTTATTAATTTAA
*
51304334 TA-AGA-
60 TATAAAG
* * * *
51304339 TTTAATATTAA-ATTTAATATAATATTTATA-TTAATTTAATA
1 TTTAATATTAATATTAAATTTAAT-TTAATACTTATTTTAATA
51304380 TTAAAGTGAT
Statistics
Matches: 93, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
63 1 0.01
64 3 0.03
65 1 0.01
66 2 0.02
67 15 0.16
68 38 0.41
69 4 0.04
70 6 0.06
71 5 0.05
72 18 0.19
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (66 bp):
TTTAATATTAATATTAAATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATATAAA
G
Found at i:51304355 original size:22 final size:22
Alignment explanation
Indices: 51304323--51304380 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
51304313 ATAAATATTT
*
51304323 TATTATTTTAATA-AGAT-TTAA
1 TATTAATTTAATATA-ATATTAA
*
51304344 TATTAAATTTAATATAATATTTA
1 TATT-AATTTAATATAATATTAA
51304367 TATTAATTTAATAT
1 TATTAATTTAATAT
51304381 TAAAGTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTAATTTAATATAATATTAA
Found at i:51304363 original size:17 final size:18
Alignment explanation
Indices: 51304341--51304384 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
51304331 TAATAAGATT
51304341 TAATATTAAAT-TTAATA
1 TAATATTAAATATTAATA
* *
51304358 TAATATT-TATATTAATT
1 TAATATTAAATATTAATA
51304375 TAATATTAAA
1 TAATATTAAA
51304385 GTGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTAATA
Found at i:51307353 original size:157 final size:158
Alignment explanation
Indices: 51307158--51307475 Score: 419
Period size: 157 Copynumber: 2.0 Consensus size: 158
51307148 TGAACATTCC
* * * * *
51307158 TTCACCACTAAAATAAAAATAGTAAGCAAAACAAAACACAAGGAGTTGTTGACGCAATTCGGTTT
1 TTCACCACTAAAATAAAAACAATAAACAAAACAAAACACAAGGAATTGTTGACGCAATTCGATTT
* *
51307223 CCTTATA-TCTCTGGAG-CGTTGCTCAGTGAGAGATACT-CACTCT-TTCAACAATTACAACAAG
66 CCCTA-AGTCTCTGGAGTC-TTGCTCAGTGAGAAATA-TACACTCTCTTCAACAATTACAACAAG
*
51307284 TGATCCTAACCTATCACACCCCGTGATAATT
128 TGATCCTAACCTATCACACCCCATGATAATT
* * * * *
51307315 TTCACCACTAAAATGAAAACAATAAACAAAACAGAACACAAGGAATTGTTTATGCAATTTGATTT
1 TTCACCACTAAAATAAAAACAATAAACAAAACAAAACACAAGGAATTGTTGACGCAATTCGATTT
* * *
51307380 CCCTAAGTCTTTGGAGTCTTGCTCAGTGAGAAATATACGCTCTCTTCAACAATTACAATAAGTGA
66 CCCTAAGTCTCTGGAGTCTTGCTCAGTGAGAAATATACACTCTCTTCAACAATTACAACAAGTGA
* *
51307445 TCTTAACCTATCACACTCCATGATAATT
131 TCCTAACCTATCACACCCCATGATAATT
51307473 TTC
1 TTC
51307476 CTCACTTTTG
Statistics
Matches: 139, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
156 2 0.01
157 88 0.63
158 49 0.35
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (158 bp):
TTCACCACTAAAATAAAAACAATAAACAAAACAAAACACAAGGAATTGTTGACGCAATTCGATTT
CCCTAAGTCTCTGGAGTCTTGCTCAGTGAGAAATATACACTCTCTTCAACAATTACAACAAGTGA
TCCTAACCTATCACACCCCATGATAATT
Found at i:51309266 original size:23 final size:23
Alignment explanation
Indices: 51309222--51309268 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
51309212 GCCTTGGTCC
51309222 TAAAATGTAAAATTATATTTTTA
1 TAAAATGTAAAATTATATTTTTA
51309245 TAAAATAGTAAAATTATATTTTTA
1 TAAAAT-GTAAAATTATATTTTTA
51309269 CCCTTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATGTAAAATTATATTTTTA
Found at i:51313523 original size:31 final size:31
Alignment explanation
Indices: 51313467--51313532 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
51313457 AACCCTAGAG
* *
51313467 TTCAGGCCCCAATGTGAAAATAATTGCCAAA
1 TTCAGGCCCCAATATGAAAACAATTGCCAAA
** *
51313498 TTCAGGCCCCAATATGGGAACAATTGCCAAG
1 TTCAGGCCCCAATATGAAAACAATTGCCAAA
51313529 TTCA
1 TTCA
51313533 AGAACTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (31 bp):
TTCAGGCCCCAATATGAAAACAATTGCCAAA
Found at i:51316471 original size:17 final size:16
Alignment explanation
Indices: 51316432--51316483 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
51316422 TAACAATTAA
**
51316432 TTAA-TTTTTAAAAAT
1 TTAATTTTTTAAATTT
51316447 TT-ATTTTTTATAATTTT
1 TTAATTTTTTA-AA-TTT
51316464 TTAATTTTTTAAATTT
1 TTAATTTTTTAAATTT
51316480 TTAA
1 TTAA
51316484 AAATTAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 8 0.26
16 9 0.29
17 5 0.16
18 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTTTAAATTT
Found at i:51326955 original size:189 final size:187
Alignment explanation
Indices: 51326735--51327090 Score: 437
Period size: 189 Copynumber: 1.9 Consensus size: 187
51326725 TTATTTGTTT
*
51326735 TATATTTTGAAAGTTTAAAATTTTAGTTGGATAATGAAATACTAAACGCAGAATTTGGTTTACTA
1 TATATTTTGAAACTTTAAAATTTTAGTTGGATAATGAAATACTAAACGCAGAATTTGGTTTACTA
* * * * * * *
51326800 GTTATT-GTGGTGGTAAGAATGGCTTT-TTATTTCTCAAATTTGTTAGATTCTATTTGTGTTTGG
66 GTAATTGGT-GCGGAAAGAATGG-TTTCTT-GTTCTCAAATTTGTTAGATTCAATTTGTGCTCGG
* * *
51326863 TCACTGAGAACACAAATTCCAGGAAAAGTAATCAATTAATTTTTTAACTGATTTATGACTA
128 TCACTGAGAAAACAAACTACAGGAAAA-TAATCAATTAATTTTTTAACTGATTTATGACTA
* * * * * * * * *
51326924 TATATTTTGAGACTTTCAATTTTTGGTTGGATAATGAAGTAGTAAATGCATAATTTGGTTTTCTA
1 TATATTTTGAAACTTTAAAATTTTAGTTGGATAATGAAATACTAAACGCAGAATTTGGTTTACTA
* * * *
51326989 GTAATTGGTGCGGAAAGGATGGTTTCTTGTTCTTAAATTTGTTTGATTCAATTTGTGCTCGGTTA
66 GTAATTGGTGCGGAAAGAATGGTTTCTTGTTCTCAAATTTGTTAGATTCAATTTGTGCTCGGTCA
*
51327054 CTGAGAAAAGAAACTACAGGAAAATAATCAATTAATT
131 CTGAGAAAACAAACTACAGGAAAATAATCAATTAATT
51327091 ACATTTTTTT
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
187 13 0.09
188 53 0.38
189 72 0.51
190 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (187 bp):
TATATTTTGAAACTTTAAAATTTTAGTTGGATAATGAAATACTAAACGCAGAATTTGGTTTACTA
GTAATTGGTGCGGAAAGAATGGTTTCTTGTTCTCAAATTTGTTAGATTCAATTTGTGCTCGGTCA
CTGAGAAAACAAACTACAGGAAAATAATCAATTAATTTTTTAACTGATTTATGACTA
Found at i:51327168 original size:195 final size:195
Alignment explanation
Indices: 51326628--51327191 Score: 529
Period size: 188 Copynumber: 3.0 Consensus size: 195
51326618 GAAGTGGTGT
* * * * * *
51326628 GAATGGCTTTTTATTTCTTAAATTT-TCTAGATTCAA-CTGTGTTTGATTACTGAGAAAATGAAA
1 GAATGGCTTTTTAGTTCTCAAATTTGT-TAGATTCAATTTGTGCTCGGTTACTGAGAAAA-GAAA
* *
51326691 ATACAGGAAAATAATCAATCAATTACATTTTATTTT-A----TT-TG-TTTTATATTTTGAAAGT
64 ATACAGGAAAATAATCAAT-AATTACATTTTTTTTTAACTGTTTATGACTTTATATTTTGAAAGT
* * * * * *
51326749 TTAAAATTTTAGTTGGATAATGAAATACTAAACGCAGAATTTGGTTTACTAGTTATT-GTGGTGG
128 TTCAAATTTTAGTTGGATAATGAAATAGTAAATGCAGAATTTGGTTTTCTAGTAATTGGTGGCGG
*
51326813 TAA
193 AAA
* * * * * * * *
51326816 GAATGGCTTTTTATTTCTCAAATTTGTTAGATTCTATTTGTGTTTGGTCACTGAGAACACAAATT
1 GAATGGCTTTTTAGTTCTCAAATTTGTTAGATTCAATTTGTGCTCGGTTACTGAGAAAAGAAAAT
* * * *
51326881 CCAGGAAAAGTAATC---AATTA-A---TTTTTTAACTGATTTATGACTATATATTTTGAGACTT
66 ACAGGAAAA-TAATCAATAATTACATTTTTTTTTAACTG-TTTATGACTTTATATTTTGAAAGTT
* * * *
51326939 TCAATTTTTGGTTGGATAATGAAGTAGTAAATGCATAATTTGGTTTTCTAGTAATTGGT-GCGGA
129 TCAAATTTTAGTTGGATAATGAAATAGTAAATGCAGAATTTGGTTTTCTAGTAATTGGTGGCGGA
51327003 AA
194 AA
* * * *
51327005 GGATGG-TTTCTT-GTTCTTAAATTTGTTTGATTCAATTTGTGCTCGGTTACTGAGAAAAGAAAC
1 GAATGGCTTT-TTAGTTCTCAAATTTGTTAGATTCAATTTGTGCTCGGTTACTGAGAAAAGAAAA
*
51327068 TACAGGAAAATAATCAATTAATTACATTTTTTTTTAACTGTTTATGACTTTATACTTTGAAAAGT
65 TACAGGAAAATAATCAA-TAATTACATTTTTTTTTAACTGTTTATGACTTTATATTTTG-AAAGT
* * ** * * *
51327133 TTCTAGTTTTAGTTGGATAATGACTTGGTAAATGCAGAATTCGGTTTTCTTGTAATTGG
128 TTCAAATTTTAGTTGGATAATGAAATAGTAAATGCAGAATTTGGTTTTCTAGTAATTGG
51327192 GCACGAGTTT
Statistics
Matches: 304, Mismatches: 50, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
181 5 0.02
182 1 0.00
184 1 0.00
185 5 0.02
187 7 0.02
188 99 0.33
189 97 0.32
190 2 0.01
191 5 0.02
192 1 0.00
194 17 0.06
195 64 0.21
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (195 bp):
GAATGGCTTTTTAGTTCTCAAATTTGTTAGATTCAATTTGTGCTCGGTTACTGAGAAAAGAAAAT
ACAGGAAAATAATCAATAATTACATTTTTTTTTAACTGTTTATGACTTTATATTTTGAAAGTTTC
AAATTTTAGTTGGATAATGAAATAGTAAATGCAGAATTTGGTTTTCTAGTAATTGGTGGCGGAAA
Found at i:51336053 original size:15 final size:16
Alignment explanation
Indices: 51336033--51336066 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51336023 ATTGACAAAA
51336033 TTTTA-TTTATATATT
1 TTTTATTTTATATATT
*
51336048 TTTTATTTTTTATATT
1 TTTTATTTTATATATT
51336064 TTT
1 TTT
51336067 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATATATT
Found at i:51339579 original size:18 final size:18
Alignment explanation
Indices: 51339556--51339591 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51339546 TTAAATCAAG
*
51339556 TTTTATAATTTTTTAAAT
1 TTTTATAAATTTTTAAAT
51339574 TTTTATAAATTTTTAAAT
1 TTTTATAAATTTTTAAAT
51339592 AATTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATAAATTTTTAAAT
Found at i:51343393 original size:30 final size:30
Alignment explanation
Indices: 51343357--51343454 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
51343347 TAACATATGT
51343357 TACTTAAATTTGACA-TTTTTCTTAACTTGG
1 TACTTAAATTTGACATTTTTTC-TAACTTGG
*
51343387 TACTTAAAATTTG---TTTTTGGTCTAATTTGG
1 TACTT-AAATTTGACATTTTT--TCTAACTTGG
* * * *
51343417 TACTCAAACTTGACATTTTTTGTAAGTTGG
1 TACTTAAATTTGACATTTTTTCTAACTTGG
51343447 TACTTAAA
1 TACTTAAA
51343455 CTTTTTGGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
29 10 0.18
30 31 0.56
31 9 0.16
32 5 0.09
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (30 bp):
TACTTAAATTTGACATTTTTTCTAACTTGG
Found at i:51343518 original size:58 final size:58
Alignment explanation
Indices: 51343357--51343512 Score: 143
Period size: 60 Copynumber: 2.6 Consensus size: 58
51343347 TAACATATGT
* * * * * * ** *
51343357 TACTTAAATTTGACATTTTTCTTAACTTGGTACTTAAAATTTGTTTTTGGTCTAATTTGG
1 TACTCAAACTTGACATTTTTCCTAAGTTGGTACCT-AAACTT-TTTGGGGTCCAATTTGG
** *
51343417 TACTCAAACTTGACATTTTTTGTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGG
1 TACTCAAACTTGACATTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTGG
* *
51343475 TAC-CTGAACTTGACTATTTTTCCTAATTTGGTACCTAA
1 TACTC-AAACTTGAC-ATTTTTCCTAAGTTGGTACCTAA
51343513 TTTTTTTTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 1 0.01
58 25 0.31
59 24 0.30
60 30 0.38
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (58 bp):
TACTCAAACTTGACATTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTGG
Found at i:51343758 original size:59 final size:57
Alignment explanation
Indices: 51343660--51343847 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 57
51343650 TAATAAATTT
* * * *
51343660 AAGTGCCAAATTGGATCTAAAAAAAAGCTTAGGTACCAAATTAGGAAAAATGTCAAGTTC
1 AAGTACCAAATTGG-TC-AAAAAAAA-TTTTGGTACCAAATTAGAAAAAATGTCAAGTTC
*
51343720 AAATACCAAATTAGGTTCAAAAAAAATTTTGGTACCAAATTAGAAAAAAATGTCAAGTTC
1 AAGTACCAAATT-GG-TCAAAAAAAATTTTGGTACCAAATTAG-AAAAAATGTCAAGTTC
* * * *
51343780 AGGTACTAAATTGAGT-AAAAAAAATTAT-GTACCAAATTAAGAAAAAATATCAAGTTC
1 AAGTACCAAATTG-GTCAAAAAAAATTTTGGTACCAAATT-AGAAAAAATGTCAAGTTC
*
51343837 AAGTATCAAAT
1 AAGTACCAAAT
51343848 GTTATATTAA
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
57 33 0.30
58 13 0.12
59 17 0.15
60 43 0.39
61 4 0.04
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (57 bp):
AAGTACCAAATTGGTCAAAAAAAATTTTGGTACCAAATTAGAAAAAATGTCAAGTTC
Found at i:51343827 original size:57 final size:57
Alignment explanation
Indices: 51343677--51343847 Score: 184
Period size: 57 Copynumber: 2.9 Consensus size: 57
51343667 AAATTGGATC
* *
51343677 TAAAAAAAAGCTTAGGTACCAAATTAGGAAAAATGTCAAGTTCAAATACCAAATTAGGT
1 TAAAAAAAA--TTATGTACCAAATTAGAAAAAATGTCAAGTTCAAATACCAAATTAGGT
* ** *
51343736 TCAAAAAAAATTTTGGTACCAAATTAGAAAAAAATGTCAAGTTCAGGTACTAAATT-GAG-
1 T-AAAAAAAATTAT-GTACCAAATTAG-AAAAAATGTCAAGTTCAAATACCAAATTAG-GT
* * *
51343795 TAAAAAAAATTATGTACCAAATTAAGAAAAAATATCAAGTTCAAGTATCAAAT
1 TAAAAAAAATTATGTACCAAATT-AGAAAAAATGTCAAGTTCAAATACCAAAT
51343848 GTTATATTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
57 33 0.34
58 15 0.16
59 15 0.16
60 33 0.34
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (57 bp):
TAAAAAAAATTATGTACCAAATTAGAAAAAATGTCAAGTTCAAATACCAAATTAGGT
Found at i:51349732 original size:17 final size:17
Alignment explanation
Indices: 51349710--51349744 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51349700 TGCATGCAAC
* *
51349710 TTTCGGATATGTTTATG
1 TTTCGGACATGGTTATG
51349727 TTTCGGACATGGTTATG
1 TTTCGGACATGGTTATG
51349744 T
1 T
51349745 CCGATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.49
Consensus pattern (17 bp):
TTTCGGACATGGTTATG
Found at i:51351964 original size:3 final size:3
Alignment explanation
Indices: 51351947--51351997 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
51351937 ATATTCAAAC
51351947 TAT T-T TAT CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51351992 TAT TAT
1 TAT TAT
51351998 CACCCTATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.