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 189 of 193
Found at i:58935092 original size:15 final size:15
Alignment explanation
Indices: 58935055--58935102 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
58935045 TAAAATATAA
*
58935055 AATAATTATAATT-AT
1 AATAATT-TTATTAAT
*
58935070 AATTATTTTATTAAT
1 AATAATTTTATTAAT
*
58935085 AATAATTTTATTATT
1 AATAATTTTATTAAT
58935100 AAT
1 AAT
58935103 GTTATCGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATAATTTTATTAAT
Found at i:58935628 original size:17 final size:17
Alignment explanation
Indices: 58935593--58935627 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58935583 GATTGTTTTC
*
58935593 TTATTTTTCTTATTATT
1 TTATTTTTCTAATTATT
58935610 TTATTTTTC-AATTATT
1 TTATTTTTCTAATTATT
58935626 TT
1 TT
58935628 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTTCTAATTATT
Found at i:58939317 original size:20 final size:18
Alignment explanation
Indices: 58939281--58939316 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
58939271 AAAACTGAAA
58939281 AATAAAATAATAATTTTG
1 AATAAAATAATAATTTTG
58939299 AATATAAATAATAATTTT
1 AATA-AAATAATAATTTT
58939317 TTTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AATAAAATAATAATTTTG
Found at i:58940874 original size:18 final size:18
Alignment explanation
Indices: 58940851--58940886 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58940841 AAACATCAAA
58940851 ACCGAACTCTACTCTGTC
1 ACCGAACTCTACTCTGTC
58940869 ACCGAACTCTACTCTGTC
1 ACCGAACTCTACTCTGTC
58940887 TTTGTTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.11, T:0.28
Consensus pattern (18 bp):
ACCGAACTCTACTCTGTC
Found at i:58949559 original size:74 final size:74
Alignment explanation
Indices: 58948816--58949558 Score: 1112
Period size: 74 Copynumber: 10.1 Consensus size: 74
58948806 GAATTACTCT
* * * * *
58948816 ATTGTTTGTTGTGTGTTTGGATAGTGAGTTAAGATTGTTAGCATTTAAAGCAGTTGATGGATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
58948881 AACACGTGG
66 AACACGTGG
* * * * *
58948890 ATTTTATGTTGTGTGTTTAGATATCGCGTTAAGGTTGTTAGCATGTAAAGAAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
58948955 AACACGTGG
66 AACACGTGG
* * *
58948964 ATCGCATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGAAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
58949029 AACACGTGG
66 AACACGTGG
** *
58949038 ATTACATGTTGCGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
* **
58949103 AACATGCAG
66 AACACGTGG
*
58949112 ATTGCATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
* **
58949176 AACATGCAG
66 AACACGTGG
*
58949185 ATTGCATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
*
58949249 AACATGTGG
66 AACACGTGG
* * * *
58949258 ATTGTATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCACGTAAAGCAGTTGATGATTTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
58949323 AACACGTGG
66 AACACGTGG
* * * * *
58949332 ATTGTATATTGTCTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGATTTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
58949397 AACACGTGG
66 AACACGTGG
* * *
58949406 ATTGTATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGATTTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
*
58949471 AACACTTGG
66 AACACGTGG
*
58949480 ATTGTTTGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
1 ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
*
58949545 AACATGTGG
66 AACACGTGG
58949554 ATTGT
1 ATTGT
58949559 TGCCTTTGTC
Statistics
Matches: 623, Mismatches: 45, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
73 143 0.23
74 480 0.77
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (74 bp):
ATTGTATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCT
AACACGTGG
Found at i:58951517 original size:112 final size:114
Alignment explanation
Indices: 58951300--58951559 Score: 404
Period size: 112 Copynumber: 2.3 Consensus size: 114
58951290 TTAAGCATGA
58951300 ATTG-AGCCCAATTTCTTTTTTTTTAATTTATTTATTAATGATTTTAACTTATATTTTTTTGGAA
1 ATTGAAGCCCAATTTC-TTTTTTTT-ATTTATTTATTAATGATTTTAACTTATATTTTTTTGGAA
*
58951364 AAAAGAAAGAAATTTATATTTGTTGACTTTTATTTTAGAAACTTCATTAAG
64 AAAAAAAAGAAATTTATATTTGTTGACTTTTATTTTAGAAACTTCATTAAG
58951415 ATTGAAGCCCAATTTCTTTCTTTTTATTTATTTATTAATGATTTTAAC-T-T-TTTTTTTGGAAG
1 ATTGAAGCCCAATTTCTTT-TTTTTATTTATTTATTAATGATTTTAACTTATATTTTTTTGGAA-
* *
58951477 AAAAAAAAGGAATTT-TATTTGTTGACTTTTATTTTAGAAACTTCATTCAG
64 AAAAAAAAGAAATTTATATTTGTTGACTTTTATTTTAGAAACTTCATTAAG
*
58951527 ATTGAAGCCCAATTTCTTTTTGTTTATCTATTT
1 ATTGAAGCCCAATTTCTTTTT-TTTATTTATTT
58951560 CTCTTGACAA
Statistics
Matches: 137, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
111 2 0.01
112 74 0.54
113 14 0.10
114 1 0.01
115 30 0.22
116 16 0.12
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (114 bp):
ATTGAAGCCCAATTTCTTTTTTTTATTTATTTATTAATGATTTTAACTTATATTTTTTTGGAAAA
AAAAAAGAAATTTATATTTGTTGACTTTTATTTTAGAAACTTCATTAAG
Found at i:58960036 original size:13 final size:13
Alignment explanation
Indices: 58960010--58960074 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
58960000 AGTTTAGCAT
* *
58960010 TGCTTTTGAGAAG
1 TGCTTTTAAAAAG
*
58960023 TGTTTTTAAAAAG
1 TGCTTTTAAAAAG
*
58960036 TGCTTTGAAAAAG
1 TGCTTTTAAAAAG
* *
58960049 TGGTTTTGAAAAG
1 TGCTTTTAAAAAG
* *
58960062 TACTTTTGAAAAG
1 TGCTTTTAAAAAG
58960075 CTTGGTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:58960039 original size:26 final size:26
Alignment explanation
Indices: 58960010--58960074 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
58960000 AGTTTAGCAT
* *
58960010 TGCTTTTGAGAAGTGTTTTTAAAAAG
1 TGCTTTTGAAAAGTGGTTTTAAAAAG
*
58960036 TGC-TTTGAAAAAGTGGTTTTGAAAAG
1 TGCTTTTG-AAAAGTGGTTTTAAAAAG
*
58960062 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
58960075 CTTGGTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 4 0.12
26 25 0.76
27 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGGTTTTAAAAAG
Found at i:58962519 original size:2 final size:2
Alignment explanation
Indices: 58962514--58962543 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58962504 ACACACACAC
58962514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58962544 TACAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58972813 original size:4 final size:4
Alignment explanation
Indices: 58972790--58972837 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
58972780 CAAACAGGTG
*
58972790 AGAA GAGAA GAGAGA AGAA AGAA AGAA AGAA AGAA A-AA AGAG AGAA AG
1 AGAA -AGAA -AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
58972838 GTAATTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
3 3 0.08
4 24 0.62
5 11 0.28
6 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:58972819 original size:19 final size:19
Alignment explanation
Indices: 58972792--58972837 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
58972782 AACAGGTGAG
* *
58972792 AAGAGAAGAGAGAAGAAAGA
1 AAGA-AAGAAAGAAAAAAGA
58972812 AAGAAAGAAAGAAAAAAGA
1 AAGAAAGAAAGAAAAAAGA
*
58972831 GAGAAAG
1 AAGAAAG
58972838 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAAGAAAAAAGA
Found at i:58972836 original size:15 final size:16
Alignment explanation
Indices: 58972792--58972837 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
58972782 AACAGGTGAG
58972792 AAGAGAAGAGAG-AAGA
1 AAGA-AAGAGAGAAAGA
*
58972808 AAGAAAGAAAGAAAGA
1 AAGAAAGAGAGAAAGA
58972824 AA-AAAGAGAGAAAG
1 AAGAAAGAGAGAAAG
58972838 GTAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAGAAAGAGAGAAAGA
Found at i:58973231 original size:42 final size:43
Alignment explanation
Indices: 58973178--58973264 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 43
58973168 AAATTAATTT
* *
58973178 GTTAGTAAGTAATTTTATTTTGTTAGTAATAGTTAGTGAGTAA
1 GTTAGTAAGTAATTTTATTTTGTTAGTAATAGTAAGTAAGTAA
58973221 GTTAGT-AGTAATTTTATTTTGTTAGTAATAGTAAGTAAGTAA
1 GTTAGTAAGTAATTTTATTTTGTTAGTAATAGTAAGTAAGTAA
58973263 GT
1 GT
58973265 AATATAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 36 0.86
43 6 0.14
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (43 bp):
GTTAGTAAGTAATTTTATTTTGTTAGTAATAGTAAGTAAGTAA
Found at i:58974028 original size:39 final size:39
Alignment explanation
Indices: 58973971--58974056 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
58973961 TTAATTTATA
* * *
58973971 TTACTTACTTACTTACTACTATTAACAAAATAAAATTAC
1 TTACTAACTTACTAACTACTACTAACAAAATAAAATTAC
58974010 TTACTAACTTACTAACTACTACTAACAAAATAAAATTAC
1 TTACTAACTTACTAACTACTACTAACAAAATAAAATTAC
58974049 TTACTAAC
1 TTACTAAC
58974057 AAATTAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (39 bp):
TTACTAACTTACTAACTACTACTAACAAAATAAAATTAC
Found at i:58974055 original size:21 final size:21
Alignment explanation
Indices: 58973993--58974059 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
58973983 TTACTACTAT
58973993 TAACAAAATAAAATTACTTAC
1 TAACAAAATAAAATTACTTAC
** * *
58974014 TAACTTACT--AACTAC-TAC
1 TAACAAAATAAAATTACTTAC
58974032 TAACAAAATAAAATTACTTAC
1 TAACAAAATAAAATTACTTAC
58974053 TAACAAA
1 TAACAAA
58974060 TTAATTTCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 5 0.14
21 16 0.46
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
TAACAAAATAAAATTACTTAC
Found at i:58978806 original size:16 final size:16
Alignment explanation
Indices: 58978785--58978817 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58978775 TAGCGAAAAT
*
58978785 ATAATTTATTATTTTA
1 ATAATTTATAATTTTA
58978801 ATAATTTATAATTTTA
1 ATAATTTATAATTTTA
58978817 A
1 A
58978818 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAATTTATAATTTTA
Found at i:58978837 original size:29 final size:30
Alignment explanation
Indices: 58978805--58978865 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
58978795 ATTTTAATAA
*
58978805 TTTATAATTTTAAAAAATTAAATTA-AATT
1 TTTATAATTTTAAAAAATTAAAATATAATT
* *
58978834 TTTATATTTTTTAAAAATTAAAATATAATT
1 TTTATAATTTTAAAAAATTAAAATATAATT
58978864 TT
1 TT
58978866 ATCATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTATAATTTTAAAAAATTAAAATATAATT
Found at i:58978866 original size:29 final size:29
Alignment explanation
Indices: 58978801--58978876 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
58978791 TATTATTTTA
*
58978801 ATAA-TTTATAATTTTAAAAAATTAAATT
1 ATAATTTTATAATTTTAAAAAATTAAAAT
* *
58978829 A-AATTTTTATATTTTTTAAAAATTAAAAT
1 ATAA-TTTTATAATTTTAAAAAATTAAAAT
*
58978858 ATAATTTTATCATTATTAA
1 ATAATTTTATAATT-TTAA
58978877 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.05
28 1 0.03
29 30 0.79
30 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAATTTTATAATTTTAAAAAATTAAAAT
Found at i:58980372 original size:113 final size:113
Alignment explanation
Indices: 58980242--58980464 Score: 428
Period size: 113 Copynumber: 2.0 Consensus size: 113
58980232 AAGCTTGCTA
*
58980242 AATAATAATAATAATAATAACAACAAGTGGTCCTAGATCTAAGATAGGCACTAACAGTCGCTCTA
1 AATAATAATAATAATAATAACAACAACTGGTCCTAGATCTAAGATAGGCACTAACAGTCGCTCTA
58980307 TTCATCTACACTTATGTCCTGCATTTTCCTCTAATTAATTTTCTTAAT
66 TTCATCTACACTTATGTCCTGCATTTTCCTCTAATTAATTTTCTTAAT
*
58980355 AATAATAATAGTAATAATAACAACAACTGGTCCTAGATCTAAGATAGGCACTAACAGTCGCTCTA
1 AATAATAATAATAATAATAACAACAACTGGTCCTAGATCTAAGATAGGCACTAACAGTCGCTCTA
58980420 TTCATCTACACTTATGTCCTGCATTTTCCTCTAATTAATTTTCTT
66 TTCATCTACACTTATGTCCTGCATTTTCCTCTAATTAATTTTCTT
58980465 TATTATGGAT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (113 bp):
AATAATAATAATAATAATAACAACAACTGGTCCTAGATCTAAGATAGGCACTAACAGTCGCTCTA
TTCATCTACACTTATGTCCTGCATTTTCCTCTAATTAATTTTCTTAAT
Found at i:58983206 original size:46 final size:46
Alignment explanation
Indices: 58983139--58983227 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
58983129 TTCTTGAAAC
*
58983139 AGAAAAACAAAGTCTTTGGAATCTTCAAACTGTGGAAGACACTGTT
1 AGAAAAACAAAGTCTTTGGAATCTTCAAACTGTGAAAGACACTGTT
58983185 AGAAAAACAAAGTCTTTGGAATCTTCAAACTGTGAAAGACACT
1 AGAAAAACAAAGTCTTTGGAATCTTCAAACTGTGAAAGACACT
58983228 ACTGAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (46 bp):
AGAAAAACAAAGTCTTTGGAATCTTCAAACTGTGAAAGACACTGTT
Found at i:58984280 original size:62 final size:64
Alignment explanation
Indices: 58984207--58984335 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 64
58984197 AAAAAAGTTA
** * *
58984207 AAAAAAATCATAAAAAT-TCTAA-AAATTATATAATAAACAAAACACATACTTAAAT-TTTTTTT
1 AAAAAAATCATAAAAATGTAAAAGAAATT-CATAATAAACAAAACACATACTTAAATATTTTTAT
** **
58984269 AAAAAAATCATAATTATGTAAAAGAAATTCATAATAAACAAAACATGTACTTAAATATTTTTAT
1 AAAAAAATCATAAAAATGTAAAAGAAATTCATAATAAACAAAACACATACTTAAATATTTTTAT
58984333 AAA
1 AAA
58984336 TTTTATGAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 15 0.27
63 27 0.48
64 14 0.25
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (64 bp):
AAAAAAATCATAAAAATGTAAAAGAAATTCATAATAAACAAAACACATACTTAAATATTTTTAT
Found at i:58985915 original size:2 final size:2
Alignment explanation
Indices: 58985908--58985934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58985898 TCTATATCTG
58985908 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
58985935 GAATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58997118 original size:14 final size:14
Alignment explanation
Indices: 58997099--58997127 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58997089 TTTGCAGGTG
58997099 ATTTCTAGTATTCA
1 ATTTCTAGTATTCA
58997113 ATTTCTAGTATTCA
1 ATTTCTAGTATTCA
58997127 A
1 A
58997128 ACCACTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (14 bp):
ATTTCTAGTATTCA
Found at i:59001660 original size:16 final size:17
Alignment explanation
Indices: 59001641--59001673 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59001631 ATAATAGCTA
*
59001641 TTAACAAAAAT-AAATT
1 TTAAAAAAAATCAAATT
59001657 TTAAAAAAAATCAAATT
1 TTAAAAAAAATCAAATT
59001674 CAGAATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAAAAAATCAAATT
Found at i:59001785 original size:18 final size:18
Alignment explanation
Indices: 59001755--59001799 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
59001745 AAAAGTAATT
59001755 TTTTAAAT-T-TTAAAAA
1 TTTTAAATATATTAAAAA
59001771 TTTTAAATATATTAAAAA
1 TTTTAAATATATTAAAAA
*
59001789 TTATAAA-ATAT
1 TTTTAAATATAT
59001800 GTTGTATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 5 0.19
18 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAATATATTAAAAA
Found at i:59012804 original size:68 final size:69
Alignment explanation
Indices: 59012669--59012846 Score: 247
Period size: 68 Copynumber: 2.6 Consensus size: 69
59012659 CCATAGGTGG
* * * * *
59012669 ATTTAATATTGTTATGGTAAAGATTTTTTTTTAAATGATTGATTAAAAATTTATTAAATATGGTT
1 ATTTAATATTTTTATGGT-TA-ATATTTTTTTAAATGATTAATTAAAAATTTATTAAATATGATT
59012734 GATTGA
64 GATTGA
*
59012740 ATTTAATATTTTTATGGTTAATATTTTTTTAAATGATTAATT-AAAATTTATTAGATATGATTGA
1 ATTTAATATTTTTATGGTTAATATTTTTTTAAATGATTAATTAAAAATTTATTAAATATGATTGA
59012804 TTGA
66 TTGA
*
59012808 ATTTAATATTTTTATGG-T-A-ATTTTTTTAAATAATTAATT
1 ATTTAATATTTTTATGGTTAATATTTTTTTAAATGATTAATT
59012847 GAATAAAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
65 19 0.19
66 1 0.01
67 1 0.01
68 41 0.41
69 20 0.20
70 1 0.01
71 17 0.17
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (69 bp):
ATTTAATATTTTTATGGTTAATATTTTTTTAAATGATTAATTAAAAATTTATTAAATATGATTGA
TTGA
Found at i:59015614 original size:17 final size:17
Alignment explanation
Indices: 59015592--59015627 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
59015582 AATTGTCATC
59015592 ATCCGAAGTTGTCACAA
1 ATCCGAAGTTGTCACAA
59015609 ATCCGAAGTTGTCACAA
1 ATCCGAAGTTGTCACAA
59015626 AT
1 AT
59015628 TGAAATTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (17 bp):
ATCCGAAGTTGTCACAA
Found at i:59016082 original size:24 final size:24
Alignment explanation
Indices: 59016031--59016081 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
59016021 TTCGTAAGCC
* *
59016031 AAATAAATTATGCTAATAAATGTA
1 AAATAAATTATACTAATAAATCTA
*
59016055 AAATATATTATACTAATAAATACTA
1 AAATAAATTATACTAATAAAT-CTA
59016080 AA
1 AA
59016082 TCTTCTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATCTA
Found at i:59020593 original size:15 final size:16
Alignment explanation
Indices: 59020563--59020601 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
59020553 TAATATAAAT
59020563 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
59020580 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
59020595 ATAATTT
1 ATAATTT
59020602 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:59020660 original size:30 final size:30
Alignment explanation
Indices: 59020577--59020670 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 30
59020567 TTTTATTATT
*
59020577 TTAATAATTTATATTTTTATAATTTTAAAAAAA
1 TTAA-AATTTAT-TTTTT-TATTTTTAAAAAAA
* * * * *
59020610 TT-AAATTAAAATTTTATATTTTTAGAAGAA
1 TTAAAATT-TATTTTTTTATTTTTAAAAAAA
*
59020640 TTAAAATTTATTTTTTTATTTTTCAAAAAA
1 TTAAAATTTATTTTTTTATTTTTAAAAAAA
59020670 T
1 T
59020671 ATAATTTTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
30 30 0.64
31 13 0.28
32 2 0.04
33 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAAAATTTATTTTTTTATTTTTAAAAAAA
Found at i:59022667 original size:13 final size:13
Alignment explanation
Indices: 59022642--59022678 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
59022632 TTGTTTAAGA
*
59022642 TTTAAGATTTAGG
1 TTTAAGTTTTAGG
*
59022655 TTTGAGTTTTAGG
1 TTTAAGTTTTAGG
59022668 TTTAAGTTTTA
1 TTTAAGTTTTA
59022679 TGGTAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (13 bp):
TTTAAGTTTTAGG
Found at i:59026253 original size:12 final size:12
Alignment explanation
Indices: 59026234--59026285 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
59026224 ATCCAAACAG
59026234 CAAAAATAATAA
1 CAAAAATAATAA
* *
59026246 CCAAAATAATAG
1 CAAAAATAATAA
*
59026258 CAAAAATAACAA
1 CAAAAATAATAA
*
59026270 CAAAAACAATAA
1 CAAAAATAATAA
59026282 CAAA
1 CAAA
59026286 GACAACAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (12 bp):
CAAAAATAATAA
Found at i:59026342 original size:68 final size:69
Alignment explanation
Indices: 59026234--59026375 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 69
59026224 ATCCAAACAG
* * * * *
59026234 CAAAAATAATAACCAAAATAATAGCAAAAATAACAACAAAAACAATAACAAA-GACAACAAAATA
1 CAAAAACAATAACCAAAATAACAGCAAAAACAACAAC-AAAACAATAAAAAACAACAACAAAATA
59026298 GCAA-
65 GCAAT
* * * *
59026302 CAAAAACAA-AACCAAAAATAACAGTAAAAGCAACACCAAAACAATAAAAAACAACACCAAAATA
1 CAAAAACAATAACC-AAAATAACAGCAAAAACAACAACAAAACAATAAAAAACAACAACAAAATA
59026366 GCAAT
65 GCAAT
59026371 CAAAA
1 CAAAA
59026376 CAACAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
67 17 0.27
68 40 0.65
69 5 0.08
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.08
Consensus pattern (69 bp):
CAAAAACAATAACCAAAATAACAGCAAAAACAACAACAAAACAATAAAAAACAACAACAAAATAG
CAAT
Found at i:59026375 original size:24 final size:24
Alignment explanation
Indices: 59026291--59026380 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
59026281 ACAAAGACAA
*
59026291 CAAAATAGCAA-CAAAAACAAAAC
1 CAAAATAGCAATCAAAAACAACAC
* * *
59026314 CAAAAATAACAGT-AAAAGCAACAC
1 C-AAAATAGCAATCAAAAACAACAC
*
59026338 C-AAA-A-CAATAAAAAACAACAC
1 CAAAATAGCAATCAAAAACAACAC
59026359 CAAAATAGCAATC-AAAACAACA
1 CAAAATAGCAATCAAAAACAACA
59026381 AAAAAAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.06
21 12 0.22
22 6 0.11
23 11 0.20
24 22 0.41
ACGTcount: A:0.67, C:0.22, G:0.04, T:0.07
Consensus pattern (24 bp):
CAAAATAGCAATCAAAAACAACAC
Found at i:59026411 original size:35 final size:36
Alignment explanation
Indices: 59026341--59026418 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
59026331 GCAACACCAA
*
59026341 AACAATAAAAAACAACACCAAAATAGCAATCAAAAC
1 AACAATAAAAAACAACACCAAAATAGCAATAAAAAC
59026377 AACAA-AAAAAA-ATACACCAGAAATAGCAA-AAAAAC
1 AACAATAAAAAACA-ACACCA-AAATAGCAATAAAAAC
59026412 AACAATA
1 AACAATA
59026419 TATTTTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
34 1 0.03
35 22 0.58
36 15 0.39
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.08
Consensus pattern (36 bp):
AACAATAAAAAACAACACCAAAATAGCAATAAAAAC
Found at i:59026411 original size:68 final size:65
Alignment explanation
Indices: 59026261--59026413 Score: 161
Period size: 68 Copynumber: 2.3 Consensus size: 65
59026251 ATAATAGCAA
* * *
59026261 AAATAACAACAAAAACAATAACAAAGACAACAAAATAGCAACAAAAACAAAACCAAAAATAACAG
1 AAATAGCAACAAAAACAATAAAAAAAACAACAAAATAGCAACAAAAACAAAA-CAAAAATAACAG
59026326 T
65 T
*
59026327 AAA-AGCAACACCAAAACAATAAAAAACAACACCAAAATAGCAATCAAAACAACAAAA-AAAAAT
1 AAATAGCAACA--AAAACAATAAAAAA-AACAACAAAATAGCAA-C-AAA-AACAAAACAAAAAT
59026390 ACACCAG-
60 A-A-CAGT
59026397 AAATAGCAA-AAAAACAA
1 AAATAGCAACAAAAACAA
59026414 CAATATATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
65 6 0.08
66 3 0.04
67 13 0.18
68 21 0.28
69 8 0.11
70 8 0.11
71 15 0.20
ACGTcount: A:0.69, C:0.20, G:0.05, T:0.07
Consensus pattern (65 bp):
AAATAGCAACAAAAACAATAAAAAAAACAACAAAATAGCAACAAAAACAAAACAAAAATAACAGT
Found at i:59040132 original size:1 final size:1
Alignment explanation
Indices: 59040126--59040150 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
59040116 AACTGAACCT
59040126 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
59040151 GGCCTCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:59048714 original size:3 final size:3
Alignment explanation
Indices: 59048706--59048736 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
59048696 CTAGAAAGAG
59048706 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
59048737 TTTATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:59053920 original size:26 final size:25
Alignment explanation
Indices: 59053891--59053939 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
59053881 TTTTTTCCAA
*
59053891 CTTTTAAGAGGTCCCAAATTTTTTTT
1 CTTTTAAG-GGTCCAAAATTTTTTTT
*
59053917 CTTTTAAGGGTTCAAAATTTTTT
1 CTTTTAAGGGTCCAAAATTTTTT
59053940 ACTAACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (25 bp):
CTTTTAAGGGTCCAAAATTTTTTTT
Found at i:59082964 original size:2 final size:2
Alignment explanation
Indices: 59082957--59083004 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
59082947 AAAGTCTAAC
59082957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59082999 AT AT AT
1 AT AT AT
59083005 TCTATTTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59090011 original size:18 final size:19
Alignment explanation
Indices: 59089970--59090013 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
59089960 GTAAAAGTTG
* *
59089970 AATCCTTCTTTCATTTCTT
1 AATCTTTCTTTCATCTCTT
*
59089989 TATCTTTCTTTC-TCTCTT
1 AATCTTTCTTTCATCTCTT
59090007 AATCTTT
1 AATCTTT
59090014 GTATTCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (19 bp):
AATCTTTCTTTCATCTCTT
Found at i:59095868 original size:24 final size:24
Alignment explanation
Indices: 59095841--59095895 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
59095831 TATATTCTCA
59095841 ATAAAAATAAGAAAAATA-TTTTTT
1 ATAAAAATAA-AAAAATATTTTTTT
** *
59095865 ATAAATTTTTAAAAAATATTTTTTT
1 ATAAA-AATAAAAAAATATTTTTTT
59095890 ATAAAA
1 ATAAAA
59095896 TTTTATAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATAAAAATAAAAAAATATTTTTTT
Found at i:59095887 original size:25 final size:24
Alignment explanation
Indices: 59095852--59095900 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
59095842 TAAAAATAAG
*
59095852 AAAAATATTTTTTATAAATTTTTA
1 AAAAATATTTTTTATAAAATTTTA
59095876 AAAAATATTTTTTTATAAAATTTTA
1 AAAAATA-TTTTTTATAAAATTTTA
59095901 TAGTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAAATATTTTTTATAAAATTTTA
Found at i:59096117 original size:32 final size:32
Alignment explanation
Indices: 59096057--59096117 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
59096047 AATCTATTAT
* * **
59096057 ATGTAGCACTACTACATTAGCATTCAATGATG
1 ATGTAGCACTACCACATTAACAAACAATGATG
*
59096089 ATGTGGCACTACCACATTAACAAACAATG
1 ATGTAGCACTACCACATTAACAAACAATG
59096118 CAGACCTGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTAGCACTACCACATTAACAAACAATGATG
Found at i:59096655 original size:14 final size:14
Alignment explanation
Indices: 59096615--59096655 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
59096605 AAAATACATT
59096615 TTTC-TTAAAAATA
1 TTTCATTAAAAATA
* *
59096628 TTTAATT-AATATA
1 TTTCATTAAAAATA
59096641 TTTCATTAAAAATA
1 TTTCATTAAAAATA
59096655 T
1 T
59096656 AATCACTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTCATTAAAAATA
Found at i:59111848 original size:3 final size:3
Alignment explanation
Indices: 59111842--59111870 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59111832 TTTATTGTTG
59111842 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59111871 GTAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:59116184 original size:2 final size:2
Alignment explanation
Indices: 59116130--59116167 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
59116120 TTAAAATTTG
59116130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59116168 TAAATTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59116815 original size:192 final size:194
Alignment explanation
Indices: 59116479--59116868 Score: 694
Period size: 192 Copynumber: 2.0 Consensus size: 194
59116469 TTCATATGTG
**
59116479 ATTTGAATTTGAGTTACGCTAGTAGCGTTGCTGTTAGAGCTTTATCCTTCTCTTAAAATTCACAA
1 ATTTGAATTTGAGTTACGCTAGTAGCGTTGCCATTAGAGCTTTATCCTTCTCTTAAAATTCAC-A
*
59116544 AAAAAAAAATAACTAAATTGTTATAAATGAAGACCTCTTGGAAATCTAAAAGACTTAAAACACAA
65 AAAAAAAAATAACTAAATTGTTATAAATGAAGACCTCTTGGAAACCTAAAAGACTTAAAACACAA
59116609 ATACTATTATTTTAGGGAAAAATTTTGGTATATTGTTAGTGGAATTTTTAGATTTCATAAGTAGT
130 ATACTATTATTTTAGGGAAAAATTTTGGTATATTGTTAGTGGAATTTTTAGATTTCATAAGTAGT
* * * *
59116674 ATTTGGATTTGAGTTACGCTAGTAGCGTTGCCATTAGGGTTTTATCCTTCTCTTATAATTCAC-A
1 ATTTGAATTTGAGTTACGCTAGTAGCGTTGCCATTAGAGCTTTATCCTTCTCTTAAAATTCACAA
59116738 AAAAAAAA-AACTAAATTGTTATAAATGAAGACCTCTTGGAAACCTAAAAGACTTAAAACACAAA
66 AAAAAAAATAACTAAATTGTTATAAATGAAGACCTCTTGGAAACCTAAAAGACTTAAAACACAAA
59116802 TACTATTATTTTAGGGAAAAATTTTGGTATATTGTTAGTGGAATTTTTAGATTTCATAAGTAGT
131 TACTATTATTTTAGGGAAAAATTTTGGTATATTGTTAGTGGAATTTTTAGATTTCATAAGTAGT
59116866 ATT
1 ATT
59116869 AGAGGGTTGA
Statistics
Matches: 188, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
192 122 0.65
193 9 0.05
195 57 0.30
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (194 bp):
ATTTGAATTTGAGTTACGCTAGTAGCGTTGCCATTAGAGCTTTATCCTTCTCTTAAAATTCACAA
AAAAAAAATAACTAAATTGTTATAAATGAAGACCTCTTGGAAACCTAAAAGACTTAAAACACAAA
TACTATTATTTTAGGGAAAAATTTTGGTATATTGTTAGTGGAATTTTTAGATTTCATAAGTAGT
Found at i:59119253 original size:17 final size:17
Alignment explanation
Indices: 59119228--59119261 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59119218 ATTACTAAAG
*
59119228 TTATGATAAAAAATTTA
1 TTATAATAAAAAATTTA
*
59119245 TTATAATAAATAATTTA
1 TTATAATAAAAAATTTA
59119262 CTTGTTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTATAATAAAAAATTTA
Found at i:59120575 original size:16 final size:15
Alignment explanation
Indices: 59120549--59120597 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
59120539 ATACTTTGGG
59120549 TTTATTTTTTGGTAACT
1 TTTA-TTTTTGGTAA-T
59120566 TTTATTTTTGGATAAT
1 TTTATTTTTGG-TAAT
* *
59120582 TTCATTTTTAGTAAT
1 TTTATTTTTGGTAAT
59120597 T
1 T
59120598 ATTCGGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.17
16 17 0.59
17 7 0.24
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTATTTTTGGTAAT
Found at i:59142398 original size:2 final size:2
Alignment explanation
Indices: 59142391--59142425 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
59142381 CACTAAAAGC
*
59142391 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59142426 CAGAGAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:59142432 original size:2 final size:2
Alignment explanation
Indices: 59142427--59142458 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59142417 ATATATATAC
59142427 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59142459 TTAAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59152424 original size:18 final size:18
Alignment explanation
Indices: 59152403--59152452 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
59152393 TTGGTATAAA
*
59152403 AATTATTCGAATTAA-TCG
1 AATTATCCGAATTAACT-G
*
59152421 AATTACCCGAATTAACTG
1 AATTATCCGAATTAACTG
59152439 AATTATCCGAATTA
1 AATTATCCGAATTA
59152453 CCCAAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (18 bp):
AATTATCCGAATTAACTG
Found at i:59152635 original size:36 final size:36
Alignment explanation
Indices: 59152584--59152653 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
59152574 AAAACAACTT
59152584 ACTTACACCGATGTAAGTATGATTGCTTTAATCATA
1 ACTTACACCGATGTAAGTATGATTGCTTTAATCATA
*
59152620 ACTTACACCGGTGTAAGTATGATTGCTTTAATCA
1 ACTTACACCGATGTAAGTATGATTGCTTTAATCA
59152654 AGTTTAGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (36 bp):
ACTTACACCGATGTAAGTATGATTGCTTTAATCATA
Found at i:59152951 original size:15 final size:15
Alignment explanation
Indices: 59152931--59152960 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59152921 GGTAGTGGGC
59152931 TAATATTATATATTA
1 TAATATTATATATTA
*
59152946 TAATATTATTTATTA
1 TAATATTATATATTA
59152961 ATTCGATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTATATATTA
Found at i:59160652 original size:8 final size:8
Alignment explanation
Indices: 59160639--59160664 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
59160629 TACTTTCTAA
59160639 ATTTTAAT
1 ATTTTAAT
59160647 ATTTTAAT
1 ATTTTAAT
59160655 ATTTTAAT
1 ATTTTAAT
59160663 AT
1 AT
59160665 CACTTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTAAT
Found at i:59161861 original size:20 final size:20
Alignment explanation
Indices: 59161823--59161861 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59161813 AAAAAATTAT
* *
59161823 AAATTTTGATTGTTAATAAA
1 AAATTATGATTATTAATAAA
*
59161843 AAATTATGATTATTTATAA
1 AAATTATGATTATTAATAA
59161862 TAATGAGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
AAATTATGATTATTAATAAA
Found at i:59174796 original size:24 final size:23
Alignment explanation
Indices: 59174718--59174804 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
59174708 TAATGTTCAC
**
59174718 GAACATGTTCATTTAAC-TTAATT
1 GAACATGTTCA-CGAACATTAATT
**
59174741 GAACATGTTCACGAACATTAAAC
1 GAACATGTTCACGAACATTAATT
* * *
59174764 GAACATGTTTATGAATATATAATT
1 GAACATGTTCACGAACAT-TAATT
59174788 GAACATGTTCACGAACA
1 GAACATGTTCACGAACA
59174805 ATGTTAATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 3 0.06
23 30 0.60
24 17 0.34
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAATT
Found at i:59175819 original size:29 final size:28
Alignment explanation
Indices: 59175784--59175846 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
59175774 GATTTAAAAT
59175784 TATTTTTTAAAAT-ATAAAATTATTAATA
1 TATTTTTTAAAATAATAAAATTATTAA-A
*
59175812 TATTTTTTGAAATAATAAAATTATTAAA
1 TATTTTTTAAAATAATAAAATTATTAAA
*
59175840 TAATTTT
1 TATTTTT
59175847 AATTTCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATTTTTTAAAATAATAAAATTATTAAA
Found at i:59176850 original size:23 final size:23
Alignment explanation
Indices: 59176820--59176873 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
59176810 ATGAATTTAG
59176820 AAAAAAAACCCAGATTTTTTGAA
1 AAAAAAAACCCAGATTTTTTGAA
59176843 AAAAAAAACCCAGATTTTTTGAA
1 AAAAAAAACCCAGATTTTTTGAA
59176866 AAAAAAAA
1 AAAAAAAA
59176874 AGTTTCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (23 bp):
AAAAAAAACCCAGATTTTTTGAA
Found at i:59180951 original size:89 final size:89
Alignment explanation
Indices: 59180771--59180952 Score: 190
Period size: 89 Copynumber: 2.0 Consensus size: 89
59180761 CTTTTTGGTA
* * ** *
59180771 CAAGTTAGGTCCTAAACATGGCACTTGTTCCCACATTGAGACCTGGATTTGGCAATTTTTCTCAC
1 CAAGTTAGGTCCTAAACATGACAATTGTTCCCACATTGAGACCTAAACTTGGCAATTTTTCTCAC
* ***
59180836 ATTAGGGCTTGAATTTTTTTTATC
66 ATTAAGGCTTGAATTTAGGTTATC
* ** *
59180860 CAAGTTAGGTCCTAAACTTGACAATTGTTCTTACA-TGAGGCCTAAACTTGGCAATTGTTTC-CA
1 CAAGTTAGGTCCTAAACATGACAATTGTTCCCACATTGAGACCTAAACTTGGCAATT-TTTCTCA
*
59180923 TATTAAGGCTTGAACTTTAAGGTT-TC
65 CATTAAGGCTTGAA-TTT-AGGTTATC
59180949 CAAG
1 CAAG
59180953 GACTAGCTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
88 31 0.41
89 43 0.57
90 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (89 bp):
CAAGTTAGGTCCTAAACATGACAATTGTTCCCACATTGAGACCTAAACTTGGCAATTTTTCTCAC
ATTAAGGCTTGAATTTAGGTTATC
Found at i:59181140 original size:36 final size:36
Alignment explanation
Indices: 59181093--59181164 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
59181083 AAAAAAAATA
59181093 TATTTTAATCTCAATATAATAAATGTTACCAAGTTT
1 TATTTTAATCTCAATATAATAAATGTTACCAAGTTT
59181129 TATTTTAATCTCAATATAATAAATGTTACCAAGTTT
1 TATTTTAATCTCAATATAATAAATGTTACCAAGTTT
59181165 AAGTCCTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (36 bp):
TATTTTAATCTCAATATAATAAATGTTACCAAGTTT
Found at i:59187428 original size:22 final size:22
Alignment explanation
Indices: 59187377--59187457 Score: 108
Period size: 23 Copynumber: 3.6 Consensus size: 22
59187367 TGCTGGGAAA
*
59187377 CAGTAAGCACACATAGTGCAAT
1 CAGTAGGCACACATAGTGCAAT
*
59187399 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACATAGTGCAAT
* *
59187422 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACATAGTGC-AAT
59187445 CAGTAGGCACACA
1 CAGTAGGCACACA
59187458 AGGTGCGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
22 16 0.31
23 35 0.69
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (22 bp):
CAGTAGGCACACATAGTGCAAT
Found at i:59187497 original size:23 final size:23
Alignment explanation
Indices: 59187352--59187498 Score: 99
Period size: 23 Copynumber: 6.3 Consensus size: 23
59187342 AAGTACTTAA
59187352 CAGTAAGCACAC-AAGTGCTGGGAAA-
1 CAGTAAGCACACAAAGTGC----AAAT
*
59187377 CAGTAAGCACACATAGTGC-AAT
1 CAGTAAGCACACAAAGTGCAAAT
* *
59187399 CCAGTAGGCACACACAGTGC-AAT
1 -CAGTAAGCACACAAAGTGCAAAT
* * * *
59187422 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACAAAGTGCAAAT
* *
59187445 CAGTAGGCACACAAGGTGCGAAA-
1 CAGTAAGCACACAAAGTGC-AAAT
*
59187468 CAATAAGCACACAAAGTGCGAAAT
1 CAGTAAGCACACAAAGTGC-AAAT
59187492 -AGTAAGC
1 CAGTAAGC
59187499 GCTAACGCGT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.02
22 16 0.16
23 64 0.63
24 3 0.03
25 12 0.12
26 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (23 bp):
CAGTAAGCACACAAAGTGCAAAT
Found at i:59196271 original size:9 final size:9
Alignment explanation
Indices: 59196257--59196287 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
59196247 AATATTATCT
59196257 AATAAATAA
1 AATAAATAA
59196266 AATAAATAA
1 AATAAATAA
59196275 AATAAAATAA
1 AAT-AAATAA
59196285 AAT
1 AAT
59196288 CTCTAACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAAATAA
Found at i:59196604 original size:28 final size:28
Alignment explanation
Indices: 59196573--59196626 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
59196563 TTTTAGTGTA
* *
59196573 ATTTCA-ACTTTAATCCTTTAACTTTTAT
1 ATTTCAGA-TTTAACCCTTCAACTTTTAT
*
59196601 ATTTTAGATTTAACCCTTCAACTTTT
1 ATTTCAGATTTAACCCTTCAACTTTT
59196627 GCATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 21 0.95
29 1 0.05
ACGTcount: A:0.28, C:0.19, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTCAGATTTAACCCTTCAACTTTTAT
Found at i:59202435 original size:43 final size:43
Alignment explanation
Indices: 59202388--59202477 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
59202378 TGTTGGTGGT
* * * * *
59202388 GTTTGTAAGAAAAATGTCGCTAAATATCATGTTCTATAGCGGC
1 GTTTGTAAGAAAAACGCCGCTAAAGATCATGTTCTATAACGAC
**
59202431 GTTTGTGGGAAAAACGCCGCTAAAGATCATGTTCTATAACGAC
1 GTTTGTAAGAAAAACGCCGCTAAAGATCATGTTCTATAACGAC
59202474 GTTT
1 GTTT
59202478 TCCCACATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
GTTTGTAAGAAAAACGCCGCTAAAGATCATGTTCTATAACGAC
Found at i:59206273 original size:21 final size:21
Alignment explanation
Indices: 59206235--59206274 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59206225 TCCAACTTGA
*
59206235 TGTCATTCCCAATTAGTAAGT
1 TGTCATTCCCAATAAGTAAGT
**
59206256 TGTCATTCTTAATAAGTAA
1 TGTCATTCCCAATAAGTAA
59206275 ATTTGATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
TGTCATTCCCAATAAGTAAGT
Found at i:59207299 original size:48 final size:48
Alignment explanation
Indices: 59207167--59207336 Score: 205
Period size: 48 Copynumber: 3.5 Consensus size: 48
59207157 GCCAACTCTA
*
59207167 TCGAAGGTGCAACCGTTGACCTGATGGCTCGGGATTATGCTTGTTATG
1 TCGAAGGTGCAACCATTGACCTGATGGCTCGGGATTATGCTTGTTATG
* * * * * *
59207215 CCAAAAGTGCAACCATTGACCTGATGACCCGAGATTATGCTTGTTATG
1 TCGAAGGTGCAACCATTGACCTGATGGCTCGGGATTATGCTTGTTATG
* * * * *
59207263 TCGAAGGGGCAATCATTGACCTGATGGCTTGGGATTATGCTTATCATG
1 TCGAAGGTGCAACCATTGACCTGATGGCTCGGGATTATGCTTGTTATG
* * *
59207311 TCGAAGGTGTAATCATTGACTTGATG
1 TCGAAGGTGCAACCATTGACCTGATG
59207337 ACTCAAGATT
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (48 bp):
TCGAAGGTGCAACCATTGACCTGATGGCTCGGGATTATGCTTGTTATG
Found at i:59207336 original size:96 final size:96
Alignment explanation
Indices: 59207167--59207347 Score: 236
Period size: 96 Copynumber: 1.9 Consensus size: 96
59207157 GCCAACTCTA
* * * *
59207167 TCGAAGGTGCAACCGTTGACCTGATGGCTCGGGATTATGCTTGTTATGCCAAAAGTGCAACCATT
1 TCGAAGGGGCAACCATTGACCTGATGGCTCGGGATTATGCTTATCATGCCAAAAGTGCAACCATT
*
59207232 GACCTGATGACCCGAGATTATGCTTGTTATG
66 GACCTGATGACCCAAGATTATGCTTGTTATG
* * * * * * *
59207263 TCGAAGGGGCAATCATTGACCTGATGGCTTGGGATTATGCTTATCATGTCGAAGGTGTAATCATT
1 TCGAAGGGGCAACCATTGACCTGATGGCTCGGGATTATGCTTATCATGCCAAAAGTGCAACCATT
* *
59207328 GACTTGATGACTCAAGATTA
66 GACCTGATGACCCAAGATTA
59207348 CATTATTATA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (96 bp):
TCGAAGGGGCAACCATTGACCTGATGGCTCGGGATTATGCTTATCATGCCAAAAGTGCAACCATT
GACCTGATGACCCAAGATTATGCTTGTTATG
Found at i:59209638 original size:36 final size:36
Alignment explanation
Indices: 59209591--59209691 Score: 166
Period size: 36 Copynumber: 2.8 Consensus size: 36
59209581 TGGTAACAGG
* *
59209591 CATGATCTTTGGGTCAATAGGGAGTAAATTGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAATTGAGCAT
* *
59209627 CATGACCTTTGGGTCAACAGGGAGGAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAATTGAGCAT
59209663 CATGACCTTTGGGTCAACAGGGAGTAAAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAT
59209692 CAAATATCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAATTGAGCAT
Found at i:59217313 original size:24 final size:23
Alignment explanation
Indices: 59217269--59217313 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
59217259 GTCAAGAAAA
**
59217269 TTCAAATATTCTTATTTTTCTTC
1 TTCAAATATTCTTATCATTCTTC
*
59217292 TTCAATATATTTTTATCATTCT
1 TTCAA-ATATTCTTATCATTCT
59217314 CATCGTCGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (23 bp):
TTCAAATATTCTTATCATTCTTC
Found at i:59223283 original size:21 final size:20
Alignment explanation
Indices: 59223258--59223297 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59223248 GATAAAATAG
*
59223258 AATTGAGAATTAGAAATGTTT
1 AATTGA-AATAAGAAATGTTT
*
59223279 AATTGAAGTAAGAAATGTT
1 AATTGAAATAAGAAATGTT
59223298 AGAAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
AATTGAAATAAGAAATGTTT
Found at i:59225050 original size:23 final size:23
Alignment explanation
Indices: 59225008--59225180 Score: 183
Period size: 23 Copynumber: 7.4 Consensus size: 23
59224998 ACCACGTCTC
*
59225008 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTTTGT
*
59225033 GTGCTATCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
59225056 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
59225079 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * *
59225102 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
59225125 GTGCTCTCTG-TTGCCCAGCAC-TTAT
1 GTGCTCTCTGATT----AGCACTTTGT
*
59225150 GTGCTCTCTG-TTAGTACTTTG-
1 GTGCTCTCTGATTAGCACTTTGT
*
59225171 GTACTCTCTG
1 GTGCTCTCTG
59225181 TTTGTTCCGC
Statistics
Matches: 129, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.10
22 4 0.03
23 84 0.65
25 23 0.18
26 5 0.04
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:59225126 original size:69 final size:68
Alignment explanation
Indices: 59225008--59225183 Score: 205
Period size: 69 Copynumber: 2.5 Consensus size: 68
59224998 ACCACGTCTC
* * * * * *
59225008 GTGCTCTCTGTTATTAGCACTGTGTGTGCTATCTGATTAGCACTTTGTGTGCTCTCTGATT-AGC
1 GTGCTCTCTG--ATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTCAGC
*
59225072 ACTTTGT
63 AC-TTAT
59225079 GTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGC
1 GTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT---CAGC
59225144 ACTTAT
63 ACTTAT
59225150 GTGCTCTCTG-TTAGTACTTTG-GTACTCTCTGTTT
1 GTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTT
59225184 GTTCCGCATA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
68 2 0.02
69 53 0.56
70 11 0.12
71 23 0.24
72 5 0.05
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (68 bp):
GTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTCAGCACT
TAT
Found at i:59229151 original size:305 final size:306
Alignment explanation
Indices: 59228465--59229743 Score: 1992
Period size: 305 Copynumber: 4.2 Consensus size: 306
59228455 GAAAGATGAG
*
59228465 GGGCAGAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
1 GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
* *
59228530 AAAAATATCATAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGCTCCT
66 AAAAATATCACAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGATCCT
59228595 TCATTTAACATATAAAGATTATCTTATATAA-TTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
131 TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
* *
59228659 ATAATAAAGGGACGGAGATAGTAATTTTATCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
196 ATAATAAAGGGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
* *
59228724 CCCTATCCCCATCCTCAT-CCATCTGAAAGATGAGGATAATATTAA
261 TCCTATCCCCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
* * *
59228769 GGGCAAAAGTTTCAAACTGCCCCAAAATATGAATAATTTATATGCCATGTCAACTATGAATTGAA
1 GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
* * * *
59228834 AAAATTATCACAAATAGAAATAGATACCCGTATAAGGACATTAACAGATTAACTATTTTAATCCT
66 AAAAATATCACAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGATCCT
*
59228899 TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGACTAAAATGAAATCTAAAGT
131 TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
*
59228964 ATAATAAAGGGACGGATATAGAAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
196 ATAATAAAGGGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
59229029 CTCC-ATCCCCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
261 -TCCTATCCCCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
* *
59229075 GGGCAAAAGTTCCAAATTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTACGAATT-AA
1 GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
* * *
59229139 AAAAAAATCACAAATAGAAATAAATACCCATATAAGGACATTAACTGATAAACTATTTTG---C-
66 AAAAATATCACAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGATCCT
* *
59229200 TC-CTT--CATATAAAGATTATCTTATATAATTTTTTATAAAGGGGCTAAAATGAAATCTAAAGT
131 TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
*
59229262 ATAATAAAGGGATGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAG-------
196 ATAATAAAGGGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
59229320 ---TAT--CCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
261 TCCTATCCCCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
* * * *
59229361 GGGCAGAAGTTTCAAACTGCCCCAAAATATGAACAATTTATATTCCATGTCAACTATGAATTGAA
1 GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
* * *
59229426 AACAATATCACAAATAGAAATAGATACCCATATAAAGACATTAACAGATCAACTATTTTGATCCT
66 AAAAATATCACAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGATCCT
* *
59229491 TCATTTAACATATGAAGACTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
131 TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
* **
59229556 ATAATAAAGAGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAATATCCAT
196 ATAATAAAGGGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
* *
59229621 TCCTATCCCCGTCCCCATCCCCGTCTGAAAGATGAGGATAATATTAA
261 TCCTATCCCCATCCCCAT-CCCATCTGAAAGATGAGGATAATATTAA
* * * *
59229668 GGGCAAAAGTTCCATATTACCCCAAAATATGAACAATTTACATGCCACGTCAACTATGAATTAGA
1 GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATT-GA
59229733 AAAAAATATCA
65 AAAAAATATCA
59229744 GTAGAGAAAT
Statistics
Matches: 886, Mismatches: 63, Indels: 48
0.89 0.06 0.05
Matches are distributed among these distances:
286 94 0.11
287 56 0.06
288 2 0.00
290 1 0.00
291 2 0.00
292 2 0.00
294 109 0.12
298 111 0.13
300 2 0.00
301 2 0.00
302 1 0.00
304 154 0.17
305 162 0.18
306 95 0.11
307 81 0.09
308 12 0.01
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (306 bp):
GGGCAAAAGTTCCAAACTGCCCCAAAATATGAACAATTTATATGCCACGTCAACTATGAATTGAA
AAAAATATCACAAATAGAAATAGATACCCATATAAGGACATTAACAGATAAACTATTTTGATCCT
TCATTTAACATATAAAGATTATCTTATATAATTTTTTATAAAGAGGCTAAAATGAAATCTAAAGT
ATAATAAAGGGACGGATATAGTAATTTTACCATGGTGGTTCATTGATGAAAATTAAAGCATCCAT
TCCTATCCCCATCCCCATCCCATCTGAAAGATGAGGATAATATTAA
Found at i:59230787 original size:28 final size:27
Alignment explanation
Indices: 59230747--59230808 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
59230737 CAAAAGATAA
**
59230747 TTTATTATTTTAATTTATATTG-TTATAT
1 TTTA-TATTTTAATAAATATTGATT-TAT
59230775 TTTATATTATTAATAAATATTGATTTAT
1 TTTATATT-TTAATAAATATTGATTTAT
59230803 TTTATA
1 TTTATA
59230809 AATATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.13
28 24 0.80
29 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTATATTTTAATAAATATTGATTTAT
Found at i:59230816 original size:28 final size:28
Alignment explanation
Indices: 59230763--59230817 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
59230753 ATTTTAATTT
*
59230763 ATATTGTTATATTTTATATTATTAATAA
1 ATATTGTTATATTTTATAATATTAATAA
59230791 ATATTGATT-TATTTTATAA-ATATAATA
1 ATATTG-TTATATTTTATAATAT-TAATA
59230818 TAATCATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 20 0.83
29 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATATTGTTATATTTTATAATATTAATAA
Found at i:59240479 original size:29 final size:28
Alignment explanation
Indices: 59240434--59240502 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
59240424 TTAGTGGTTT
*
59240434 AATATAAATATATATAATT-ATTATTTAAC
1 AATATAATTATATATAATTAATT-TTT-AC
59240463 ATATATAATTA-ATATAATTAATTTTTAC
1 A-ATATAATTATATATAATTAATTTTTAC
59240491 AATATAA-TATAT
1 AATATAATTATAT
59240503 TTGAGCCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 2 0.06
27 8 0.22
28 3 0.08
29 12 0.33
30 11 0.31
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
AATATAATTATATATAATTAATTTTTAC
Found at i:59243655 original size:18 final size:18
Alignment explanation
Indices: 59243611--59243645 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
59243601 TTCAGCTAAC
59243611 CGATCGATTAACCAAATT
1 CGATCGATTAACCAAATT
59243629 CGATCGATTAACCAAAT
1 CGATCGATTAACCAAAT
59243646 CTTTTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (18 bp):
CGATCGATTAACCAAATT
Found at i:59259712 original size:28 final size:28
Alignment explanation
Indices: 59259681--59259741 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
59259671 ATTATATGTG
* * *
59259681 ATTTAGATTTAG-TTATTTGTTCTTTTT
1 ATTTAGAATTAGTTTAATTCTTCTTTTT
59259708 AATTTA-AATTAGTTTAATTCTTCTTTTT
1 -ATTTAGAATTAGTTTAATTCTTCTTTTT
59259736 ATTTAG
1 ATTTAG
59259742 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (28 bp):
ATTTAGAATTAGTTTAATTCTTCTTTTT
Found at i:59261308 original size:23 final size:22
Alignment explanation
Indices: 59261269--59261312 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
59261259 TTAATGATTT
59261269 GATTTTTAATGAAATATTATTA
1 GATTTTTAATGAAATATTATTA
* *
59261291 GATTTTATTATGAGATATTATT
1 GATTTT-TAATGAAATATTATT
59261313 TTTTAGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
GATTTTTAATGAAATATTATTA
Found at i:59265909 original size:18 final size:18
Alignment explanation
Indices: 59265873--59265922 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
59265863 AAAATTATGA
*
59265873 AAAT-TTAAAAAATGTAT
1 AAATATTAAAAAATGCAT
59265890 AAATTATTAAAAAA-GCAT
1 AAA-TATTAAAAAATGCAT
59265908 AAATATTATAAAAAT
1 AAATATTA-AAAAAT
59265923 TTATTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.29
18 12 0.43
19 8 0.29
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATATTAAAAAATGCAT
Found at i:59268870 original size:8 final size:8
Alignment explanation
Indices: 59268857--59268882 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
59268847 AATCCAAATC
59268857 TTTAATTA
1 TTTAATTA
59268865 TTTAATTA
1 TTTAATTA
59268873 TTTAATTA
1 TTTAATTA
59268881 TT
1 TT
59268883 AAAAATAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAATTA
Found at i:59268886 original size:42 final size:40
Alignment explanation
Indices: 59268827--59268940 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 40
59268817 TAGGAAAAAT
*
59268827 ATTATTTAATTATTAAAAACAATCCAAATCTTTAATT-ATTTA
1 ATTATTTAATTATTAAAAACAATCCAAATATTTAATTCA---A
* *
59268869 ATTATTTAATTATTAAAAATAACCCAAATATTTAATTCAA
1 ATTATTTAATTATTAAAAACAATCCAAATATTTAATTCAA
* * *
59268909 AATATTTAATTATTAAAAGCAATCTAAATATT
1 ATTATTTAATTATTAAAAACAATCCAAATATT
59268941 CGGTTCAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.44
42 34 0.54
43 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (40 bp):
ATTATTTAATTATTAAAAACAATCCAAATATTTAATTCAA
Found at i:59269175 original size:6 final size:6
Alignment explanation
Indices: 59269164--59269190 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
59269154 TAGGATGATA
59269164 AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA
59269191 CATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:59269930 original size:23 final size:23
Alignment explanation
Indices: 59269902--59269970 Score: 138
Period size: 23 Copynumber: 3.0 Consensus size: 23
59269892 TTAAAATGCT
59269902 TTTACCGAAACGAGAATAAGTGC
1 TTTACCGAAACGAGAATAAGTGC
59269925 TTTACCGAAACGAGAATAAGTGC
1 TTTACCGAAACGAGAATAAGTGC
59269948 TTTACCGAAACGAGAATAAGTGC
1 TTTACCGAAACGAGAATAAGTGC
59269971 ATCTGATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
TTTACCGAAACGAGAATAAGTGC
Found at i:59272872 original size:43 final size:43
Alignment explanation
Indices: 59272703--59272874 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
59272693 TTAATGTTAA
* * * * * *
59272703 TGGCGCTTGTGGGTAAAGTGCTGTTAAAGACCATATTTTATAG
1 TGGCGCTTGTGAGAAAAGCGCCGCTAAAGACCATATTCTATAG
* * * * * *
59272746 TGGCGTTTGTGAGAAAAGCGTCGTTAAAGATCATGTTCTATAA
1 TGGCGCTTGTGAGAAAAGCGCCGCTAAAGACCATATTCTATAG
* ** * *
59272789 CGGCATTTGTGAGAAAAGCGCTGCTAAAGACCATTTTCTATAG
1 TGGCGCTTGTGAGAAAAGCGCCGCTAAAGACCATATTCTATAG
* * * *
59272832 TGACGCTTGTGGGAAAAGCGCCGCTAAAGATCATAATCTATAG
1 TGGCGCTTGTGAGAAAAGCGCCGCTAAAGACCATATTCTATAG
59272875 GCGGCGTTAT
Statistics
Matches: 102, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
TGGCGCTTGTGAGAAAAGCGCCGCTAAAGACCATATTCTATAG
Found at i:59274964 original size:23 final size:22
Alignment explanation
Indices: 59274921--59274965 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
59274911 ATAGAATTTT
* *
59274921 GCAAATTGGATGTGTCAACTTG
1 GCAAATTGGATCTCTCAACTTG
*
59274943 GCAAATATGGATCTCTCCACTTG
1 GCAAAT-TGGATCTCTCAACTTG
59274966 TTCTCCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (22 bp):
GCAAATTGGATCTCTCAACTTG
Found at i:59275845 original size:29 final size:31
Alignment explanation
Indices: 59275813--59275889 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
59275803 ACAATTTGAT
59275813 ACATGAACTTTAATTTGGTGC-AAT-TATAC
1 ACATGAACTTTAATTTGGTGCAAATGTATAC
* *
59275842 ACATGAAACTTTGATTGTGGTTCAAATGTATAC
1 ACATG-AACTTTAATT-TGGTGCAAATGTATAC
* *
59275875 ATA-AAACTTTAATTT
1 ACATGAACTTTAATTT
59275890 AGATTCAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 5 0.13
30 10 0.26
31 14 0.36
32 3 0.08
33 7 0.18
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (31 bp):
ACATGAACTTTAATTTGGTGCAAATGTATAC
Found at i:59301153 original size:2 final size:2
Alignment explanation
Indices: 59301146--59301171 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59301136 AAAAGATGTA
59301146 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59301172 TTGAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59301707 original size:6 final size:6
Alignment explanation
Indices: 59301696--59301721 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59301686 CTCTGCTCTC
59301696 CCTATG CCTATG CCTATG CCTATG CC
1 CCTATG CCTATG CCTATG CCTATG CC
59301722 ACTAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (6 bp):
CCTATG
Found at i:59303448 original size:13 final size:13
Alignment explanation
Indices: 59303430--59303454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59303420 TAGATTGAAT
59303430 TTGATTATGTAAA
1 TTGATTATGTAAA
59303443 TTGATTATGTAA
1 TTGATTATGTAA
59303455 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:59313755 original size:20 final size:21
Alignment explanation
Indices: 59313719--59313760 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
59313709 TTTCAAATTT
*
59313719 TTAATGTAATTTCATAT-AAA
1 TTAATGTAATATCATATCAAA
59313739 TTAATGCTAATAT-ATATCAAA
1 TTAATG-TAATATCATATCAAA
59313760 T
1 T
59313761 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
TTAATGTAATATCATATCAAA
Found at i:59313890 original size:13 final size:14
Alignment explanation
Indices: 59313870--59313901 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59313860 CGCGTCATAT
59313870 ATAT-TTATTTT-G
1 ATATGTTATTTTAG
59313882 ATATGTTATTTTAG
1 ATATGTTATTTTAG
59313896 ATATGT
1 ATATGT
59313902 CTCACATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 7 0.39
14 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (14 bp):
ATATGTTATTTTAG
Found at i:59318353 original size:6 final size:6
Alignment explanation
Indices: 59318342--59318382 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
59318332 TTATTTATTA
59318342 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
59318383 TAAAGAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTC
Found at i:59318866 original size:29 final size:31
Alignment explanation
Indices: 59318820--59318886 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
59318810 TGTATTATTG
*
59318820 GAATTTAGTTTTCATA-TTTTT-ATTTTAAA
1 GAATTTAGTTTTCATATTTTTTAAATTTAAA
*
59318849 GAATTTAGTTATT-TTATTTTTTAAATTTAAA
1 GAATTTAGTT-TTCATATTTTTTAAATTTAAA
59318880 -AATTTAG
1 GAATTTAG
59318887 GTTCAATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 12 0.36
30 14 0.42
31 7 0.21
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.57
Consensus pattern (31 bp):
GAATTTAGTTTTCATATTTTTTAAATTTAAA
Found at i:59322901 original size:24 final size:23
Alignment explanation
Indices: 59322828--59322898 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
59322818 GTTTGATTCG
* *
59322828 AAAAAGAAATAAAAAGAAAAAATC
1 AAAAA-AATTAAAAAGAAAAAATT
* *
59322852 AAATAAATTAAAAAAAAGAAAATT
1 AAAAAAATTAAAAAGAA-AAAATT
59322876 AAAAAAATTAAAAAGAAAAAATT
1 AAAAAAATTAAAAAGAAAAAATT
59322899 TAATAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 16 0.40
24 24 0.60
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAAAAATTAAAAAGAAAAAATT
Found at i:59329436 original size:30 final size:27
Alignment explanation
Indices: 59329368--59329436 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
59329358 ACTAATTTAT
59329368 TTTTTAATATTTAAAAAATAAAAAAATTA
1 TTTTTAA-A-TTAAAAAATAAAAAAATTA
** *
59329397 TTTAAAAATTAAAAATTAATAAAATATATA
1 TTTTTAAATTAAAAAATAA-AAAA-AT-TA
59329427 TTTTTAAATT
1 TTTTTAAATT
59329437 TTTAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 7 0.22
30 10 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TTTTTAAATTAAAAAATAAAAAAATTA
Found at i:59329448 original size:30 final size:28
Alignment explanation
Indices: 59329365--59329448 Score: 80
Period size: 32 Copynumber: 2.9 Consensus size: 28
59329355 ACAACTAATT
*
59329365 TATTTTTTAATATTTAAAAAATAAAAAA
1 TATTTTTAAATATTTAAAAAATAAAAAA
* *
59329393 -ATTATTTAAAAATTAAAAATTAATAAAATATA
1 TATT-TTTAAATATTTAAAA--AATAAAA-A-A
*
59329425 TATTTTTAAATTTTTAAAAAATAA
1 TATTTTTAAATATTTAAAAAATAA
59329449 TTAATTGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
27 3 0.07
28 12 0.27
30 12 0.27
31 1 0.02
32 13 0.30
33 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTTTTAAATATTTAAAAAATAAAAAA
Found at i:59335080 original size:16 final size:16
Alignment explanation
Indices: 59335046--59335078 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59335036 TTAAAAAATT
*
59335046 AATTATGTTTAATTTA
1 AATTATCTTTAATTTA
59335062 AATTATCTTT-ATTTA
1 AATTATCTTTAATTTA
59335077 AA
1 AA
59335079 ATGTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTATCTTTAATTTA
Found at i:59336124 original size:13 final size:13
Alignment explanation
Indices: 59336108--59336135 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59336098 CCACTTAATC
59336108 AATTTATGGATTT
1 AATTTATGGATTT
59336121 AATTTATGGATTT
1 AATTTATGGATTT
59336134 AA
1 AA
59336136 AATATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
AATTTATGGATTT
Found at i:59341408 original size:238 final size:237
Alignment explanation
Indices: 59340991--59341465 Score: 851
Period size: 238 Copynumber: 2.0 Consensus size: 237
59340981 TATGGACTTG
*
59340991 ATCCTTTATTATTTCACTTCTGCCTTTCTTTTCAAAACGGAAAAAATTCCATTTTTTAATTATTG
1 ATCCTTTATTATTTCACTTCTGCCTTTCTTTTCAAAACGGAAAAAAATCCATTTTTTAATTATTG
* * *
59341056 GTAGGATTGTTTTTCTCAACTAGAATTTCATACAAACCACAGTTGGTTTTTTTCAGTTTAATGGT
66 GTAGGATTGTTTTTCTCAACTAGAATTCCATACAAACCACAGTTGGTTTTGTCCAGTTTAATGGT
*
59341121 TCAACTCATTCTACTTCTAACAGAGGGGATAATATAATTATTATTTGTGTGACAATTATTCATTT
131 TCAACTCATTCTACTTCTAACAGAGGGGATAATATAATTATTATTTGTGTGACAATTATACATTT
*
59341186 GAACTTTTACTGTGATCTGTTTTTGTGTGTTGACTTCTTTTT
196 GAACTTTTACTGTGATCTGTTTTTGTGTGTTGACTCCTTTTT
*
59341228 ATCCTTTATTATTTCACTTCTGCCTTTCTTTTCAAAACGGAAAAAAAATCCATTTTTTCATTATT
1 ATCCTTTATTATTTCACTTCTGCCTTTCTTTTCAAAACGG-AAAAAAATCCATTTTTTAATTATT
* * *
59341293 GGTAGGATTGTTTTTCTCAGCTAGAATTCCATACAAACCTCCGTTGGTTTTGTCCAGTTTAATGG
65 GGTAGGATTGTTTTTCTCAACTAGAATTCCATACAAACCACAGTTGGTTTTGTCCAGTTTAATGG
59341358 TTCAACTCATTCTACTTCTAACAGAGGGGATAATATAATTATTATTTGTGTGACAATTATACATT
130 TTCAACTCATTCTACTTCTAACAGAGGGGATAATATAATTATTATTTGTGTGACAATTATACATT
59341423 TGAACTTTTACTGTGATCTGTTTTTGTGTGTTGACTCCTTTTT
195 TGAACTTTTACTGTGATCTGTTTTTGTGTGTTGACTCCTTTTT
59341466 GTTCCTAAGT
Statistics
Matches: 227, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
237 40 0.18
238 187 0.82
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (237 bp):
ATCCTTTATTATTTCACTTCTGCCTTTCTTTTCAAAACGGAAAAAAATCCATTTTTTAATTATTG
GTAGGATTGTTTTTCTCAACTAGAATTCCATACAAACCACAGTTGGTTTTGTCCAGTTTAATGGT
TCAACTCATTCTACTTCTAACAGAGGGGATAATATAATTATTATTTGTGTGACAATTATACATTT
GAACTTTTACTGTGATCTGTTTTTGTGTGTTGACTCCTTTTT
Found at i:59343512 original size:3 final size:3
Alignment explanation
Indices: 59343506--59343549 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
59343496 TATCATCATC
59343506 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
59343550 CTGTGTTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:59345436 original size:21 final size:22
Alignment explanation
Indices: 59345411--59345456 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
59345401 TTTGATTAAA
*
59345411 ATTTCGATATATTTT-AATTGT
1 ATTTCGATATATTTTGAATAGT
* *
59345432 ATTTCTATTTATTTTGAATAGT
1 ATTTCGATATATTTTGAATAGT
59345454 ATT
1 ATT
59345457 GACTTATACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (22 bp):
ATTTCGATATATTTTGAATAGT
Found at i:59351259 original size:6 final size:6
Alignment explanation
Indices: 59351248--59351283 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
59351238 ATGTAAAGAG
59351248 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT
59351284 AATTTCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
GAGGGT
Found at i:59365961 original size:6 final size:7
Alignment explanation
Indices: 59365912--59365958 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
59365902 AAAAATGGGC
59365912 ATGGGAA
1 ATGGGAA
59365919 ATGGGAA
1 ATGGGAA
59365926 ATGGGAA
1 ATGGGAA
59365933 ATGGGAA
1 ATGGGAA
59365940 ATGGG-A
1 ATGGGAA
59365946 ATGGG-A
1 ATGGGAA
59365952 ATGGGAA
1 ATGGGAA
59365959 TGGTACAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.15
Consensus pattern (7 bp):
ATGGGAA
Found at i:59370157 original size:17 final size:18
Alignment explanation
Indices: 59370135--59370169 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59370125 TTAACATAAT
59370135 TGAGAT-AATTTAAGTAA
1 TGAGATAAATTTAAGTAA
59370152 TGAGATACAATTTAAGTA
1 TGAGATA-AATTTAAGTA
59370170 TCATTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (18 bp):
TGAGATAAATTTAAGTAA
Found at i:59370176 original size:30 final size:30
Alignment explanation
Indices: 59370142--59370205 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
59370132 AATTGAGATA
*
59370142 ATTTAAGTAATGAGA-TACAATTTAAGTATC
1 ATTTAAGTAA-GAGAGTACAATTTAAGTAAC
* *
59370172 ATTTAGGTAAGAGAGTATAATTTAAGTAAC
1 ATTTAAGTAAGAGAGTACAATTTAAGTAAC
59370202 ATTT
1 ATTT
59370206 TATGGTTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.38
Consensus pattern (30 bp):
ATTTAAGTAAGAGAGTACAATTTAAGTAAC
Found at i:59370802 original size:52 final size:52
Alignment explanation
Indices: 59370738--59370856 Score: 229
Period size: 52 Copynumber: 2.3 Consensus size: 52
59370728 ATGAATATCT
59370738 ATCAAGAAGATTTCATTGATTCAACCAATTGACGGGTTGAACAATATACAAA
1 ATCAAGAAGATTTCATTGATTCAACCAATTGACGGGTTGAACAATATACAAA
*
59370790 ATCAAGAAGATTTCATTGATTCAACCAATTGATGGGTTGAACAATATACAAA
1 ATCAAGAAGATTTCATTGATTCAACCAATTGACGGGTTGAACAATATACAAA
59370842 ATCAAGAAGATTTCA
1 ATCAAGAAGATTTCA
59370857 CATGCCGGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (52 bp):
ATCAAGAAGATTTCATTGATTCAACCAATTGACGGGTTGAACAATATACAAA
Found at i:59371991 original size:4 final size:4
Alignment explanation
Indices: 59371982--59372025 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
59371972 GCCGTTCATA
59371982 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC
1 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC
59372026 GAGGTTAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
ACTC
Found at i:59375600 original size:31 final size:34
Alignment explanation
Indices: 59375564--59375627 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
59375554 TTATTTTAAA
* *
59375564 AAAAATCTATTTAA-ATATATAATT-AATTTCAT
1 AAAATTCTATTTAATATATAAAATTAAATTTCAT
*
59375596 AAAATTCTTTTTAATATATAAAATTAAATTTC
1 AAAATTCTATTTAATATATAAAATTAAATTTC
59375628 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 12 0.44
33 9 0.33
34 6 0.22
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATTCTATTTAATATATAAAATTAAATTTCAT
Found at i:59384635 original size:14 final size:15
Alignment explanation
Indices: 59384618--59384646 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59384608 TTTTTTATTT
59384618 TTAA-TTATAAAAAA
1 TTAAGTTATAAAAAA
59384632 TTAAGTTATAAAAAA
1 TTAAGTTATAAAAAA
59384647 ATACTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAGTTATAAAAAA
Found at i:59388421 original size:19 final size:19
Alignment explanation
Indices: 59388399--59388437 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59388389 GTTTAAAATG
59388399 AAATAATTGTAATAAAACT
1 AAATAATTGTAATAAAACT
59388418 AAATAATTGTAATAAAACT
1 AAATAATTGTAATAAAACT
59388437 A
1 A
59388438 CTGTTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAATAATTGTAATAAAACT
Found at i:59391481 original size:19 final size:19
Alignment explanation
Indices: 59391445--59391480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59391435 AAACAAAATT
59391445 GTTTATACTATGAGTTTTG
1 GTTTATACTATGAGTTTTG
*
59391464 GTTTATAGTATGA-TTTT
1 GTTTATACTATGAGTTTT
59391481 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (19 bp):
GTTTATACTATGAGTTTTG
Found at i:59400545 original size:6 final size:6
Alignment explanation
Indices: 59400535--59400564 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
59400525 TGGCTTAAGC
*
59400535 TTCTAA CTCTAA TTCTAA TTCTAA TTCTAA
1 TTCTAA TTCTAA TTCTAA TTCTAA TTCTAA
59400565 AGCAGCAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (6 bp):
TTCTAA
Found at i:59408444 original size:6 final size:6
Alignment explanation
Indices: 59408433--59408457 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59408423 GCGGAAACCC
59408433 ACAGAA ACAGAA ACAGAA ACAGAA A
1 ACAGAA ACAGAA ACAGAA ACAGAA A
59408458 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
ACAGAA
Found at i:59411245 original size:15 final size:15
Alignment explanation
Indices: 59411227--59411268 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
59411217 CCAATAATAA
59411227 ATTAATTAATAAAAT
1 ATTAATTAATAAAAT
59411242 ATTAA--AATAAAAT
1 ATTAATTAATAAAAT
* *
59411255 ATTATTTTATAAAA
1 ATTAATTAATAAAA
59411269 ATAAGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
15 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAATTAATAAAAT
Found at i:59412188 original size:24 final size:26
Alignment explanation
Indices: 59412160--59412210 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
59412150 GGTATAATTT
*
59412160 TATTTTATATT-AAGGT-AATTATTA
1 TATTTTATATTAAACGTAAATTATTA
*
59412184 TATTTTTTATTAAACGTAAATTATTA
1 TATTTTATATTAAACGTAAATTATTA
59412210 T
1 T
59412211 CAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 4 0.17
26 9 0.39
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (26 bp):
TATTTTATATTAAACGTAAATTATTA
Found at i:59412981 original size:25 final size:26
Alignment explanation
Indices: 59412933--59412981 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
59412923 AAATTTAAAT
*
59412933 TTAATATTAATATAATCACTTTAATA
1 TTAATATTAATAAAATCACTTTAATA
59412959 TTAA-ATTAATAAAAT-ACTATTAA
1 TTAATATTAATAAAATCACT-TTAA
59412982 GATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAATATTAATAAAATCACTTTAATA
Done.