Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 173 of 226
Found at i:53066142 original size:9 final size:9
Alignment explanation
Indices: 53066125--53066155 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
53066115 TCGAGTTGAT
53066125 TCGAATAAC
1 TCGAATAAC
*
53066134 TCGATTAAC
1 TCGAATAAC
53066143 TCGAATAAC
1 TCGAATAAC
53066152 TCGA
1 TCGA
53066156 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:53069570 original size:15 final size:15
Alignment explanation
Indices: 53069532--53069581 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
53069522 ATGTATGTAT
53069532 ATGATAATAAGAAG-A
1 ATGATAATAA-AAGAA
53069547 A-GA-AATAAAATGAA
1 ATGATAATAAAA-GAA
53069561 AT-ATAATAAAAGAA
1 ATGATAATAAAAGAA
53069575 ATGATAA
1 ATGATAA
53069582 GAAAGTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 10 0.33
15 12 0.40
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (15 bp):
ATGATAATAAAAGAA
Found at i:53071834 original size:22 final size:22
Alignment explanation
Indices: 53071803--53071844 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
53071793 ATAAAATAAT
53071803 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
53071824 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
53071845 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:53071886 original size:19 final size:17
Alignment explanation
Indices: 53071844--53071887 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
53071834 TAAGATTAAA
*
53071844 AAAAATAAAAGACTAAT
1 AAAAATAAAAGACCAAT
*
53071861 AATAATAATAATGACCAAT
1 AAAAATAA-AA-GACCAAT
53071880 AAAAATAA
1 AAAAATAA
53071888 CAATAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAGACCAAT
Found at i:53073854 original size:128 final size:128
Alignment explanation
Indices: 53073312--53073815 Score: 837
Period size: 128 Copynumber: 3.9 Consensus size: 128
53073302 GCAACGTCCC
* * * * *
53073312 GGAGATAGGATTTGTGGCTTAAATATGTTTCCCTACTCTTGAAGATAAGATTCACCGTCTCCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* *
53073377 CTCCTCCGCTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
* * *
53073440 GGAGATAGGACTTGTGGCTTAAATCTGTTTCCTTACTCTTGAAGATAAGATTCGCCGTATTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * * *
53073505 ATGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTTCTGACCAA
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
*
53073568 GGAGATAGGACTTGTGGCTTAAATCTACTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * *
53073633 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
53073696 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
*
53073761 CTCCTCCGCTACTGCTTTGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
53073816 TAACCAATGG
Statistics
Matches: 351, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 351 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
Found at i:53076157 original size:26 final size:26
Alignment explanation
Indices: 53076128--53076195 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
53076118 TTCCCCCTCT
*
53076128 TTTTCATTTTCATTTTTTGAC-TTTGA
1 TTTTGATTTTCATTTTTTG-CTTTTGA
*
53076154 TTTTGATTTTTC-TTTTTTGCTTTTGC
1 TTTTGA-TTTTCATTTTTTGCTTTTGA
*
53076180 TTTTGATTTTGATTTT
1 TTTTGATTTTCATTTT
53076196 GATTTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.14
26 26 0.72
27 5 0.14
ACGTcount: A:0.10, C:0.09, G:0.10, T:0.71
Consensus pattern (26 bp):
TTTTGATTTTCATTTTTTGCTTTTGA
Found at i:53076160 original size:6 final size:6
Alignment explanation
Indices: 53076142--53076201 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
53076132 CATTTTCATT
* ** * *
53076142 TTTTGA CTTTGA TTTTGA TTTTTCTT TTTTGC TTTTGC TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA -TTTT-GA TTTTGA TTTTGA TTTTGA TTTTGA
53076192 TTTTGA TTTT
1 TTTTGA TTTT
53076202 TCTTCCCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
6 37 0.82
7 8 0.18
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:53080813 original size:22 final size:22
Alignment explanation
Indices: 53080782--53080823 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
53080772 ATAAAATAAT
53080782 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
53080803 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
53080824 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:53083120 original size:55 final size:55
Alignment explanation
Indices: 53083060--53083164 Score: 210
Period size: 55 Copynumber: 1.9 Consensus size: 55
53083050 TTTGCCTCTG
53083060 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
53083115 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
53083165 TAATGTTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (55 bp):
GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
Found at i:53085762 original size:12 final size:13
Alignment explanation
Indices: 53085730--53085759 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
53085720 TGTCATGTTT
53085730 ATATTAATTTTTC
1 ATATTAATTTTTC
53085743 ATATTAATTTTTC
1 ATATTAATTTTTC
53085756 ATAT
1 ATAT
53085760 AATGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTAATTTTTC
Found at i:53089532 original size:29 final size:30
Alignment explanation
Indices: 53089473--53089530 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53089463 TCCGAGCCTT
*
53089473 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
53089503 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
53089531 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:53089761 original size:13 final size:13
Alignment explanation
Indices: 53089743--53089773 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53089733 TTCCAGCAAC
53089743 TATGAATTTATTT
1 TATGAATTTATTT
53089756 TATGAATTTATTT
1 TATGAATTTATTT
*
53089769 GATGA
1 TATGA
53089774 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:53089979 original size:50 final size:50
Alignment explanation
Indices: 53089868--53090116 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
53089858 ATTTGGGTAA
*
53089868 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-CATG
* * * *
53089924 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
53089974 AGAGGTCCCATGTAAGACCATGTCTGGGTCATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* * * *
53090024 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** *
53090074 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
53090117 TGTTATTATC
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 95 0.56
51 36 0.21
55 2 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:53098703 original size:21 final size:21
Alignment explanation
Indices: 53098621--53098703 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
53098611 CATCGTTCAT
*
53098621 AGAAGCTCGT-A-AGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * *
53098640 AGAAACTCTTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
53098661 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
53098682 AGAAGCTCGTAAGAGCTCAAC
1 AGAAGCTCGTAAGAGCTGAAC
53098703 A
1 A
53098704 AAAAGTAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.15
20 1 0.02
21 44 0.83
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:53107003 original size:36 final size:38
Alignment explanation
Indices: 53106954--53107043 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
53106944 ACCCACTACC
* **
53106954 GTGGTGTGTAGGGTGGATGGG-CTACCATATC-CCTTT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
* * *
53106990 GTGGTGTGCAGGGTGAATGGGCCTACCGTAGCTCAATT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
53107028 GTGGTGTGTAGGGTGG
1 GTGGTGTGTAGGGTGG
53107044 TCGGAGTGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 19 0.43
37 8 0.18
38 17 0.39
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.30
Consensus pattern (38 bp):
GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
Found at i:53109956 original size:16 final size:16
Alignment explanation
Indices: 53109901--53109955 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
53109891 GAACTATTAT
53109901 ATTTTCCATCTTTCTA
1 ATTTTCCATCTTTCTA
* *
53109917 TTTTTTCCATCGCTTC-A
1 -ATTTTCCATC-TTTCTA
*
53109934 ATTTTCTATCTTTCTA
1 ATTTTCCATCTTTCTA
53109950 ATTTTC
1 ATTTTC
53109956 TTTCTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 10 0.32
18 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTTCCATCTTTCTA
Found at i:53110031 original size:13 final size:13
Alignment explanation
Indices: 53110015--53110045 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53110005 TATTTTAATT
53110015 ATTTATCATTTAA
1 ATTTATCATTTAA
*
53110028 ATTTATTATTTAA
1 ATTTATCATTTAA
53110041 ATTTA
1 ATTTA
53110046 ATTTTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTATCATTTAA
Found at i:53111518 original size:48 final size:48
Alignment explanation
Indices: 53111446--53111541 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
53111436 TTTCTTTGCT
* * ** *
53111446 TAAAAATGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
*
53111494 TAAAAACGCCTAAGTCAGCTTAACTCGCAACGATAAAGAATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
53111542 AATTGCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
Found at i:53119070 original size:3 final size:3
Alignment explanation
Indices: 53119056--53119100 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
53119046 TTTATTTACG
* *
53119056 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA TGA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
53119101 GCTTCTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:53122370 original size:11 final size:11
Alignment explanation
Indices: 53122354--53122400 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 11
53122344 GAGTTCAGAC
53122354 TCAAAAAAAAA
1 TCAAAAAAAAA
53122365 TC--AAAAAAA
1 TCAAAAAAAAA
53122374 T-AAAAAAAAA
1 TCAAAAAAAAA
*
53122384 ACAAAAAAAAAA
1 TC-AAAAAAAAA
53122396 TCAAA
1 TCAAA
53122401 GTCAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 8 0.27
10 7 0.23
11 5 0.17
12 10 0.33
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:53122393 original size:20 final size:19
Alignment explanation
Indices: 53122356--53122392 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53122346 GTTCAGACTC
*
53122356 AAAAAAAAATCAAAAAAAT
1 AAAAAAAAAACAAAAAAAT
53122375 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAA
53122393 AAATCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.05, G:0.00, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAT
Found at i:53125744 original size:95 final size:95
Alignment explanation
Indices: 53124662--53125736 Score: 1630
Period size: 95 Copynumber: 11.3 Consensus size: 95
53124652 GCAGTTAAAA
* * *
53124662 AGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCT---A--GCAGTTAAAAAGATTGAAGCTACAA
*
53124727 CAGCGGATCTTACTTTCTTAGCATTGCAGTGGAAC
61 CAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* *** **
53124762 AGATTGAAGCTACAGCAGAAAATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
53124827 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
53124857 AAATTGAAGCTAAAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* **
53124922 GATCTTATTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * *
53124952 GGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAACG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
53125017 GATCTTACTTTCCTAGCATGGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
53125047 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
53125112 GATCTTACTTTCTTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* **
53125142 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
53125207 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
53125237 AGATTGAAGCTACAACAGCAGATCTTGCTTCCCCAGCAATTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
53125302 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
53125332 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* *
53125397 GATCTTATTTTCCTAGTGA-TGCAGTGGAAC
66 GATCTTACTTTCCTAG-CATTGCAGTGGAAC
* *
53125427 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
53125492 GATCTTACTTTCTTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
53125522 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
53125587 GATCTTACTTTCCTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
*
53125617 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
53125682 AATCTTACTTTCCTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
53125712 AGATTGAAGCTACAACGGCGAATCT
1 AGATTGAAGCTACAACAGCGGATCT
53125737 CACTTCCCCG
Statistics
Matches: 908, Mismatches: 65, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
94 1 0.00
95 879 0.97
100 28 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
GATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:53125841 original size:49 final size:48
Alignment explanation
Indices: 53125701--53125942 Score: 136
Period size: 50 Copynumber: 4.9 Consensus size: 48
53125691 TTCCTAGCAT
* * * * *
53125701 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC-CGATA
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACG--A
* * * * *
53125750 TTGCA-AGTTAAAAGATTAAAG-TCACAACGGCGAATCTTATTTCCCAACGA
1 -TGCAGAG-GAACATATTAAAGCT-ACGACGGCGAATCTCATTTCCC-ACGA
* *
53125800 TGCAGAGGAACATATTTAAGCTACGACGGTGAATCTCATTTCCC-CGATA
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACG--A
* * * * * *
53125849 TTGCA-AGTTAAAAGATTAAAG-TCACAACAGCGAATCTTATTTCCCAGCGA
1 -TGCAGAG-GAACATATTAAAGCT-ACGACGGCGAATCTCATTTCCCA-CGA
* * * *
53125899 TACAGAGGAACATATTGAAGCTACGACGGTGAATCTCACTTCCC
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCC
53125943 CGACATAGCA
Statistics
Matches: 146, Mismatches: 31, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
47 2 0.01
49 67 0.46
50 73 0.50
52 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (48 bp):
TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACGA
Found at i:53125861 original size:99 final size:100
Alignment explanation
Indices: 53125179--53126035 Score: 487
Period size: 95 Copynumber: 8.8 Consensus size: 100
53125169 CTTCCCCGGC
* * * * * *
53125179 AGTTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * **
53125243 AAGCTACAACAG-CAGATCTTGCTTCCCC---A--GCA
64 AAGCTACGACGGTGA-ATCTCACTTCCCCGATATTGCA
* * * * * *
53125275 A-TTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * * **
53125338 AAGCTACAACAGCGGATCTTGCTTCCCC---A--GC-
64 AAGCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * * * *
53125369 AGTTAAAAAGATTGAAG-CTACAATAGCGGATCTTATTTTCCTAGTGATGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * ** *
53125433 AAGCTAC-AGCAGCGGATCTTGCTT-CCC----TGGC-
64 AAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * ** *
53125464 AGTTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCTTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* * * ** *
53125527 GAAGCTAC-AGCAGCGGATCTTGCTT-CCC----TGGC-
63 GAAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * * * *
53125559 AGTTAAAAAGATTGAAG-CTACAATAGCGGATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* * * **
53125622 GAAGCTAC-AGCAGCGGATCTTGCTT-CCC--TA--GC-
63 GAAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * *
53125654 AGTTAAAAAGATTGAAG-CTACAACAGCGAATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* *
53125717 GAAGCTACAACGGCGAATCTCACTTCCCCGATATTGCA
63 GAAGCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
53125755 AGTT-AAAAGATTAAAGTCACAACGGCGAATCTTATTTCCCAACGATGCAGAGGAACATATTTAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
*
53125819 GCTACGACGGTGAATCTCATTTCCCCGATATTGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* *
53125854 AGTT-AAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATACAGAGGAACATATTGAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
* *
53125918 GCTACGACGGTGAATCTCACTTCCCCGACATAGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
53125953 A-TTAAAATAGATTGAAGTCACGAA-GGCGAATCTTACTTCTCAGGCGATGCAGTA-GAACAGAT
1 AGTTAAAA-AGATTAAAGTCAC-AACAGCGAATCTTATTTCCCA-GCGATGCAG-AGGAACAGAT
**
53126015 TGAAGCTACGGTGGTGAATCT
62 TGAAGCTACGACGGTGAATCT
53126036 AATTTCTCTA
Statistics
Matches: 697, Mismatches: 42, Indels: 39
0.90 0.05 0.05
Matches are distributed among these distances:
94 6 0.01
95 433 0.62
96 5 0.01
98 4 0.01
99 151 0.22
100 56 0.08
101 41 0.06
102 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
Found at i:53126214 original size:44 final size:42
Alignment explanation
Indices: 53126060--53126366 Score: 223
Period size: 44 Copynumber: 7.1 Consensus size: 42
53126050 CACAGTTAAA
*
53126060 CAGATTGAAAATCGCAGATCTTATCTCTTTGAAGTTGCAGTAGAG
1 CAGATT-AAAAT--CAGATCTTATCTCTCTGAAGTTGCAGTAGAG
*** * *
53126105 CAGA-TCGTATCCAG-TCTTATCTCCCTGAAGTTGTAGTGGAGTAG
1 CAGATTAAAAT-CAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG
** * * *
53126149 ACAGA-GGAAACCA-ATCCTATCTCTCTAAAGTTGCAGTAGAG
1 -CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
53126190 CGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAATAGAG
1 CAGATTAAAATC--AGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
53126234 CAGA-TCACATCAG-TCTTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
53126274 CAGATAGAAGAAGTCA-ATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGAT-TAA-AA-TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
53126318 CTGATTAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
1 CAGATTAAAA--TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
53126362 CAGAT
1 CAGAT
53126367 CGCATCAGAT
Statistics
Matches: 205, Mismatches: 41, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
40 31 0.15
41 28 0.14
42 8 0.04
43 15 0.07
44 114 0.56
45 9 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
Found at i:53126293 original size:128 final size:128
Alignment explanation
Indices: 53126074--53126374 Score: 440
Period size: 128 Copynumber: 2.3 Consensus size: 128
53126064 TTGAAAATCG
* * *
53126074 CAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGT
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAGTCTTATCTCCCTGAAGTTGC
* * * *
53126139 AGTGGAGTAGACAGAGGAAACCAATCCTATCTCTCTAAAGTTGCAGTAGAGCGGATTAAAATCA
65 AGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
* * *
53126203 TAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCAGTCTTATCTCCCTGAAGTTGCA
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
* ** * * * *
53126268 GTGGAGCAGATAGAAGAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCG
66 GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
53126331 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
53126375 ATTTTATTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
128 116 0.76
129 36 0.24
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (128 bp):
CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
Found at i:53128302 original size:3 final size:3
Alignment explanation
Indices: 53128288--53128341 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
53128278 TTTATTTACG
*
53128288 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
53128334 TGA TTA TT
1 TTA TTA TT
53128342 GCTTCTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:53133685 original size:25 final size:24
Alignment explanation
Indices: 53133632--53133683 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
53133622 AATTTAATGG
* *
53133632 TAAAGTAATTAATTTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
53133656 TAAAGTAAATAAATTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
53133680 TAAA
1 TAAA
53133684 AGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TAAAGTAAATAAATTAATATTTTT
Found at i:53133865 original size:13 final size:13
Alignment explanation
Indices: 53133849--53133912 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
53133839 TTTTCTTTAT
*
53133849 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
53133862 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
53133875 TGTTTTTCAGAAG
1 TGCTTTTGAGAAG
53133888 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
53133901 TGCTTTTGAGAA
1 TGCTTTTGAGAA
53133913 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:53137302 original size:30 final size:27
Alignment explanation
Indices: 53137246--53137327 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 27
53137236 AGATAAACTC
53137246 ACCGGCAGAGGGCAGAG-GAACAAAGA
1 ACCGGCAGAGGGCAGAGAGAACAAAGA
*
53137272 ACCGGCAGAGGGCAGAGATGAGGGCAAAGA
1 ACCGGCAGAGGGCAGAGA-GA--ACAAAGA
*
53137302 ACCAGCAGAGGGCAGAGAG--CAAAGA
1 ACCGGCAGAGGGCAGAGAGAACAAAGA
53137327 A
1 A
53137328 AGGCGTTCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.14
26 17 0.34
28 2 0.04
29 1 0.02
30 23 0.46
ACGTcount: A:0.41, C:0.18, G:0.39, T:0.01
Consensus pattern (27 bp):
ACCGGCAGAGGGCAGAGAGAACAAAGA
Found at i:53139170 original size:111 final size:111
Alignment explanation
Indices: 53139034--53139258 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 111
53139024 CGAGTTTTTG
53139034 AATCTCATTTTATTATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATT
1 AATCTCATTTTATTATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATT
*
53139099 CGAATCGAATCGATTCGAATATATTTGTTCGAGTTAAATTTTAAAA
66 CGAATCGAATCGAATCGAATATATTTGTTCGAGTTAAATTTTAAAA
53139145 AATCTCATTTTATTATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATT
1 AATCTCATTTTATTATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATT
53139210 CGAATCGAATCGAATCGAATATATTTGTTCGAGTTAAATTTTAAAA
66 CGAATCGAATCGAATCGAATATATTTGTTCGAGTTAAATTTTAAAA
53139256 AAT
1 AAT
53139259 AATTTTGGGT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (111 bp):
AATCTCATTTTATTATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATT
CGAATCGAATCGAATCGAATATATTTGTTCGAGTTAAATTTTAAAA
Found at i:53140157 original size:9 final size:9
Alignment explanation
Indices: 53140143--53140179 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
53140133 TATAGTTTGA
53140143 TATTCGAAT
1 TATTCGAAT
53140152 TATTCGAAT
1 TATTCGAAT
*
53140161 TATTCGAGT
1 TATTCGAAT
53140170 TATTCGAAT
1 TATTCGAAT
53140179 T
1 T
53140180 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:53140250 original size:9 final size:9
Alignment explanation
Indices: 53140233--53140263 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
53140223 TCGAGTTGAT
53140233 TCGAATAAC
1 TCGAATAAC
*
53140242 TCGATTAAC
1 TCGAATAAC
53140251 TCGAATAAC
1 TCGAATAAC
53140260 TCGA
1 TCGA
53140264 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:53148190 original size:45 final size:44
Alignment explanation
Indices: 53148093--53148198 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
53148083 TACCCCACAG
* * * * *
53148093 ATGAAATCTGTCTTTGGCTGTGGATGCACAAAAATATCTCGTGA
1 ATGAAATTTGCCTCTGGTTGTGGATGCACAAAAATATCCCGTGA
* *
53148137 ATGAAATTTTCCTCTGGTTGTGGTTGCACAAAAAATATCCCGT-A
1 ATGAAATTTGCCTCTGGTTGTGGATGCAC-AAAAATATCCCGTGA
*
53148181 GATGGAATTTGCCTCTGG
1 -ATGAAATTTGCCTCTGG
53148199 CAGTGGATAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 24 0.47
45 27 0.53
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGAAATTTGCCTCTGGTTGTGGATGCACAAAAATATCCCGTGA
Found at i:53153426 original size:14 final size:14
Alignment explanation
Indices: 53153407--53153466 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
53153397 CTTATTCTTT
53153407 AAAAAAACAGCAAA
1 AAAAAAACAGCAAA
*
53153421 AAAAAAAAAG-AAA
1 AAAAAAACAGCAAA
**
53153434 AAAGCAAAA-AGCGTA
1 AAA--AAAACAGCAAA
*
53153449 AAAAAAACCGCAAA
1 AAAAAAACAGCAAA
53153463 AAAA
1 AAAA
53153467 TGTTGCCTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 10 0.28
14 18 0.50
15 8 0.22
ACGTcount: A:0.77, C:0.12, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAAACAGCAAA
Found at i:53165177 original size:44 final size:44
Alignment explanation
Indices: 53165127--53165736 Score: 700
Period size: 44 Copynumber: 13.9 Consensus size: 44
53165117 ATCTACTTCG
* *
53165127 AATCTTCCACCTATTCCGCTGCTGGCCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* ** * * *
53165171 AATCTTCCACCTATTCCGCTGCTAATAAGAGAGATAGGACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * **
53165215 AATCTTCAACATATTCCACTGCTGTTCAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
53165259 GATCTTCCACCTATTCCACTGCTGTTCAAGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * *
53165303 TATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * *
53165347 AATCTTCCACCTACTCCGCTGCTGATTAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
53165391 AATCTTTCACCTATTCCGCTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
53165435 AATCTTCAACCTACTCCGCTGCTGGTCAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * * *
53165479 AATCTTTCACATATTTCGCTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
53165523 AATCTTCAACCTATTCCACTACTGGTCAGGGAGATATGG-CTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATA-GGACTTAC
* * * *
53165567 AATCTTCCACCTACTCCACTACTGGTTAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * *
53165611 AATCTTTCACCTACTCCACTGCTGGTCAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * * *
53165655 AATCTTTCACCTATTCCGCTACTGTTTAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
53165699 AATCTTCAATCTATTCCACTGCTGGTCAGGGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
53165737 GCTTTGTGAT
Statistics
Matches: 479, Mismatches: 85, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
43 2 0.00
44 475 0.99
45 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:53171462 original size:6 final size:6
Alignment explanation
Indices: 53171453--53171477 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
53171443 TTTATTTTAT
53171453 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
53171478 AAATTTTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:53171499 original size:21 final size:21
Alignment explanation
Indices: 53171469--53171508 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53171459 TTAATATTAA
53171469 TATTAATATAAATTTTAAATT
1 TATTAATATAAATTTTAAATT
* **
53171490 TATTATTATATTTTTTAAA
1 TATTAATATAAATTTTAAA
53171509 AATATTTATG
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:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTAATATAAATTTTAAATT
Found at i:53171514 original size:21 final size:21
Alignment explanation
Indices: 53171467--53171514 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
53171457 TATTAATATT
53171467 AATATTAATATAAATTTTAAA
1 AATATTAATATAAATTTTAAA
** * **
53171488 TTTATTATTATATTTTTTAAA
1 AATATTAATATAAATTTTAAA
53171509 AATATT
1 AATATT
53171515 TATGTATTTT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAAATTTTAAA
Found at i:53178666 original size:17 final size:17
Alignment explanation
Indices: 53178641--53178674 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53178631 ATTATTTTAA
*
53178641 AATTAAATTAATTAATT
1 AATTAAATTAAATAATT
*
53178658 AATTCAATTAAATAATT
1 AATTAAATTAAATAATT
53178675 CACACAACCC
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:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTAAATAATT
Found at i:53185937 original size:30 final size:30
Alignment explanation
Indices: 53185903--53185970 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
53185893 AGATAAAATA
53185903 AAATTGGAAAAGTTACAGCTTATAAGAGTC
1 AAATTGGAAAAGTTACAGCTTATAAGAGTC
53185933 AAATTGGAAAAGTTACAGCTTATAAGAGTC
1 AAATTGGAAAAGTTACAGCTTATAAGAGTC
53185963 AAATTGGA
1 AAATTGGA
53185971 GATTCTTGCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
AAATTGGAAAAGTTACAGCTTATAAGAGTC
Found at i:53187399 original size:6 final size:6
Alignment explanation
Indices: 53187390--53187417 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
53187380 ACAAAAGAAA
53187390 ATGGGC ATGGGC ATGGGC ATGGGC ATGG
1 ATGGGC ATGGGC ATGGGC ATGGGC ATGG
53187418 TAAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.50, T:0.18
Consensus pattern (6 bp):
ATGGGC
Found at i:53187820 original size:120 final size:120
Alignment explanation
Indices: 53187677--53187973 Score: 576
Period size: 120 Copynumber: 2.5 Consensus size: 120
53187667 TAATAAATGG
53187677 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
53187742 TTTTACAGTACCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTACCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
53187797 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
53187862 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTACCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
*
53187917 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
53187974 TAAATATGAT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 175 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
TTTTACAGTACCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
Found at i:53187950 original size:18 final size:17
Alignment explanation
Indices: 53187922--53187956 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53187912 ATTATTAAGA
*
53187922 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
53187939 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
53187957 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:53188186 original size:44 final size:45
Alignment explanation
Indices: 53188121--53188211 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
53188111 ACCTCTATTC
* * *
53188121 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
53188165 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
53188210 CA
1 CA
53188212 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:53188213 original size:16 final size:16
Alignment explanation
Indices: 53188192--53188260 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
53188182 GATTAGCTAT
53188192 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
53188208 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
53188225 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
53188241 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
53188257 TACA
1 TACA
53188261 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:53188234 original size:33 final size:32
Alignment explanation
Indices: 53188192--53188260 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
53188182 GATTAGCTAT
53188192 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
53188225 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
53188257 TACA
1 TACA
53188261 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:53189209 original size:219 final size:219
Alignment explanation
Indices: 53188823--53189265 Score: 780
Period size: 219 Copynumber: 2.0 Consensus size: 219
53188813 CCAGGTTGAC
*
53188823 AAAGGTTGAAAATATACCTTAAAAAAATCTAGTAAGAGCTAACCAATTATATTATGAAGCCTCTA
1 AAAGGTTGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCTA
53188888 TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
66 TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
*
53188953 ATGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCC-TTTATGTTAGTCAAATA
131 ACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAATA
53189017 ATGATATTTAGGTAACCACTGAAA
196 ATGATATTTAGGTAACCACTGAAA
*
53189041 AAAGGTTGGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTGTATTATGAAGCCTCT
1 AAAGGTT-GAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCT
* * * *
53189106 ATCTAAATCACAAACCACGGTGGCAACAAATCGCCCTAGGCTTTACTTGATCCACCCGAAAGAAA
65 ATCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAA
* *
53189171 AACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAATAAAACCCTTTTCTGTTAGTCAAAT
130 AACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAAT
*
53189236 AATGATCTTTAGGTAACCACTGAAA
195 AATGATATTTAGGTAACCACTGAAA
53189261 AAAGG
1 AAAGG
53189266 ATAATATCTT
Statistics
Matches: 213, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
218 7 0.03
219 162 0.76
220 44 0.21
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (219 bp):
AAAGGTTGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCTA
TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
ACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAATA
ATGATATTTAGGTAACCACTGAAA
Found at i:53191651 original size:21 final size:21
Alignment explanation
Indices: 53191627--53191669 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
53191617 TGAAATGAGA
*
53191627 AGTGAATTCTTTGATGGATTC
1 AGTGAATGCTTTGATGGATTC
53191648 AGTGAATGCTTTGATGGATTC
1 AGTGAATGCTTTGATGGATTC
53191669 A
1 A
53191670 ACTTGTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (21 bp):
AGTGAATGCTTTGATGGATTC
Found at i:53193591 original size:7 final size:7
Alignment explanation
Indices: 53193579--53193606 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
53193569 TAATTTTAGG
53193579 TTGTGAC
1 TTGTGAC
53193586 TTGTGAC
1 TTGTGAC
53193593 TTGTGAC
1 TTGTGAC
53193600 TTGTGAC
1 TTGTGAC
53193607 ATATTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (7 bp):
TTGTGAC
Found at i:53196041 original size:18 final size:18
Alignment explanation
Indices: 53196001--53196041 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
53195991 ACATTATAGA
*
53196001 ATAAATTTTAAAAATAAT
1 ATAAATTATAAAAATAAT
* *
53196019 TTAAATTATAAAAATTAT
1 ATAAATTATAAAAATAAT
53196037 ATAAA
1 ATAAA
53196042 ACCTTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAATTATAAAAATAAT
Found at i:53196081 original size:26 final size:27
Alignment explanation
Indices: 53196027--53196081 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
53196017 ATTTAAATTA
53196027 TAAAAATTATATAAAACCTTTTAATAAT
1 TAAAAATTATATAAAA-CTTTTAATAAT
* * *
53196055 TAAAAATTATTTTAAA-TTTTTATAAT
1 TAAAAATTATATAAAACTTTTAATAAT
53196081 T
1 T
53196082 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.42
28 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAAAATTATATAAAACTTTTAATAAT
Found at i:53196111 original size:21 final size:21
Alignment explanation
Indices: 53196085--53196124 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53196075 TATAATTTTT
53196085 TTAAAAAGTTAAAACAAAAAA
1 TTAAAAAGTTAAAACAAAAAA
**
53196106 TTAAAACTTTAAAACAAAA
1 TTAAAAAGTTAAAACAAAA
53196125 TATTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (21 bp):
TTAAAAAGTTAAAACAAAAAA
Found at i:53196154 original size:12 final size:11
Alignment explanation
Indices: 53196123--53196147 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53196113 TTTAAAACAA
53196123 AATATTTTTAT
1 AATATTTTTAT
53196134 AATATTTTTAT
1 AATATTTTTAT
53196145 AAT
1 AAT
53196148 TCTTTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:53197292 original size:15 final size:16
Alignment explanation
Indices: 53197274--53197303 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53197264 GGGAAAAGAA
53197274 AATAAA-TTAAAATAT
1 AATAAATTTAAAATAT
53197289 AATAAATTTAAAATA
1 AATAAATTTAAAATA
53197304 AAAAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAATTTAAAATAT
Found at i:53199868 original size:26 final size:28
Alignment explanation
Indices: 53199839--53199906 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
53199829 TTCAAAAGTC
*
53199839 TGTAGTACCTTTTTA-AATT-AAAAATA
1 TGTATTACCTTTTTATAATTAAAAAATA
**
53199865 TGTATTAAATTTTTATAATTAAAAAATA
1 TGTATTACCTTTTTATAATTAAAAAATA
*
53199893 TGCATTACCTTTTT
1 TGTATTACCTTTTT
53199907 TTTAATTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 12 0.35
27 4 0.12
28 18 0.53
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (28 bp):
TGTATTACCTTTTTATAATTAAAAAATA
Found at i:53208289 original size:10 final size:10
Alignment explanation
Indices: 53208274--53208305 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
53208264 TGTATAAACT
53208274 AATAGGACGA
1 AATAGGACGA
53208284 AATAGGACGA
1 AATAGGACGA
53208294 AATAGGACGA
1 AATAGGACGA
53208304 AA
1 AA
53208306 ATTAGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.28, T:0.09
Consensus pattern (10 bp):
AATAGGACGA
Found at i:53212766 original size:17 final size:18
Alignment explanation
Indices: 53212746--53212788 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
53212736 TAAAAAAATC
*
53212746 AAAATTTTAAAAA-ATAG
1 AAAATTATAAAAATATAG
*
53212763 AAAA-TATAAAAATATAT
1 AAAATTATAAAAATATAG
53212780 AAAATTATA
1 AAAATTATA
53212789 CAATATTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAATATAG
Found at i:53213065 original size:16 final size:15
Alignment explanation
Indices: 53213039--53213072 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
53213029 TATATATGAT
*
53213039 ATTTTCTTTAATTTA
1 ATTTTCTTTAATTAA
53213054 ATTTTACTTTAATTAA
1 ATTTT-CTTTAATTAA
53213070 ATT
1 ATT
53213073 ACATAAAAAT
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:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTCTTTAATTAA
Found at i:53216375 original size:29 final size:29
Alignment explanation
Indices: 53216331--53216386 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
53216321 CAAACTTTTG
* * * *
53216331 GGGTGTTATTGTAATTTTTCTAAAGTTAA
1 GGGTGTTACTGCAATTTTACCAAAGTTAA
53216360 GGGTGTTACTGCAATTTTACCAAAGTT
1 GGGTGTTACTGCAATTTTACCAAAGTT
53216387 GGGGCACCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (29 bp):
GGGTGTTACTGCAATTTTACCAAAGTTAA
Found at i:53219946 original size:20 final size:20
Alignment explanation
Indices: 53219923--53219965 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
53219913 TGTAGATTTT
53219923 TTTTGGATTGTATTT-TATTA
1 TTTT-GATTGTATTTGTATTA
**
53219943 TTTTTCTTGTATTTGTATTA
1 TTTTGATTGTATTTGTATTA
53219963 TTT
1 TTT
53219966 GGGAGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTGATTGTATTTGTATTA
Found at i:53224235 original size:14 final size:14
Alignment explanation
Indices: 53224216--53224246 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53224206 GTCTGTTAAG
53224216 TATTAGTTAACAGT
1 TATTAGTTAACAGT
*
53224230 TATTAGTTAGCAGT
1 TATTAGTTAACAGT
53224244 TAT
1 TAT
53224247 AAATTAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (14 bp):
TATTAGTTAACAGT
Found at i:53229195 original size:15 final size:15
Alignment explanation
Indices: 53229171--53229200 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53229161 ACACATTATA
*
53229171 TTCTATATATATAGT
1 TTCTAAATATATAGT
53229186 TTCTAAATATATAGT
1 TTCTAAATATATAGT
53229201 ATGCTAATAA
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:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (15 bp):
TTCTAAATATATAGT
Found at i:53229598 original size:12 final size:10
Alignment explanation
Indices: 53229569--53229615 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
53229559 AATCAGAAGC
53229569 AAAATTTATT
1 AAAATTTATT
53229579 AAAATTTATT
1 AAAATTTATT
*
53229589 ATATAATTTATA
1 A-A-AATTTATT
53229601 AAAATTTTATT
1 AAAA-TTTATT
53229612 AAAA
1 AAAA
53229616 AATAACAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 13 0.41
11 11 0.34
12 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AAAATTTATT
Found at i:53233153 original size:20 final size:21
Alignment explanation
Indices: 53233110--53233159 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
53233100 TGTCAATCCA
*
53233110 GTATCGATA-CTTTTCTTAAC
1 GTATCGATATATTTTCTTAAC
*
53233130 GTATCGATATATTTTC-TAAG
1 GTATCGATATATTTTCTTAAC
*
53233150 GTATCAATAT
1 GTATCGATAT
53233160 TCCTGCTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (21 bp):
GTATCGATATATTTTCTTAAC
Found at i:53234470 original size:50 final size:51
Alignment explanation
Indices: 53234345--53234591 Score: 189
Period size: 50 Copynumber: 4.8 Consensus size: 51
53234335 ATTTGGGTAA
* * *
53234345 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG--TATG
* * *
53234401 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG-ATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* * * *
53234451 TGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC-AATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
** * * * * * * *
53234501 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTA--GTA-CAGG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGTATG
* ** * *
53234550 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
53234592 TGTTATTATC
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
49 37 0.24
50 77 0.49
53 3 0.02
55 1 0.01
56 39 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:53234808 original size:12 final size:12
Alignment explanation
Indices: 53234791--53234842 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
53234781 ATGAGTTATT
53234791 TAAGT-AAGCAAG
1 TAAGTAAAG-AAG
53234803 TAAGTAAAGAAG
1 TAAGTAAAGAAG
53234815 TAAG---AG-AG
1 TAAGTAAAGAAG
53234823 TAAGTAAAGAAG
1 TAAGTAAAGAAG
*
53234835 AAAGTAAA
1 TAAGTAAA
53234843 TATCATGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
11 2 0.06
12 21 0.62
13 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (12 bp):
TAAGTAAAGAAG
Found at i:53234817 original size:20 final size:20
Alignment explanation
Indices: 53234792--53234834 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
53234782 TGAGTTATTT
53234792 AAGTAAGCA-AGTAAGTAAAG
1 AAGTAAG-AGAGTAAGTAAAG
53234812 AAGTAAGAGAGTAAGTAAAG
1 AAGTAAGAGAGTAAGTAAAG
53234832 AAG
1 AAG
53234835 AAAGTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.56, C:0.02, G:0.28, T:0.14
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAG
Found at i:53237962 original size:31 final size:32
Alignment explanation
Indices: 53237927--53237989 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
53237917 ATCTTTATAC
* *
53237927 CTTAAATTGAAAAGGATTTTTA-TATAGGGGG
1 CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
*
53237958 CTTAAATTGAAAATGACTTTTATTAAAGGGGG
1 CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
53237990 AGCAACCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.35
Consensus pattern (32 bp):
CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
Found at i:53239889 original size:25 final size:25
Alignment explanation
Indices: 53239809--53239890 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
53239799 TAAACTCCTC
* *
53239809 CGAGCTGAATATC-AGTACGCTCATA
1 CGAGCTGAAAATCGA-TAAGCTCATA
** *
53239834 CGAGCTGAGTATCGGTAAGCTC-TCA
1 CGAGCTGAAAATCGATAAGCTCAT-A
*
53239859 CAAGCT-ACAAATCGATAAGCTCATA
1 CGAGCTGA-AAATCGATAAGCTCATA
53239884 CGAGCTG
1 CGAGCTG
53239891 CGGTTAGTCC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 2 0.05
25 41 0.93
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
CGAGCTGAAAATCGATAAGCTCATA
Found at i:53247570 original size:25 final size:24
Alignment explanation
Indices: 53247542--53247621 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
53247532 TGAACTCCTC
53247542 CGAGCTAAATATCGGTAAGCTCATA
1 CGAGCTAAA-ATCGGTAAGCTCATA
* * *
53247567 CGAGCTGAGATCAGTAAGCTC-TCA
1 CGAGCTAAAATCGGTAAGCTCAT-A
* *
53247591 TGAGCTACAAATTGGTAAGCTCATA
1 CGAGCTA-AAATCGGTAAGCTCATA
*
53247616 CAAGCT
1 CGAGCT
53247622 GCGATGAGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 23 0.55
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
CGAGCTAAAATCGGTAAGCTCATA
Found at i:53249561 original size:373 final size:373
Alignment explanation
Indices: 53248869--53249623 Score: 1420
Period size: 373 Copynumber: 2.0 Consensus size: 373
53248859 ACACTCCCTA
*
53248869 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCTTTTACATTTTGAGGGTTCTTGGT
1 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
53248934 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
66 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
*
53248999 TAAAATTACATTTGCTTGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
131 TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
53249064 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
196 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
* *
53249129 AGGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGTAGCAATAAGGTT
261 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
53249194 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
326 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
53249242 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
1 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
*
53249307 TTTTGGGTTTTGGGGTTTAGTTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
66 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
* * * *
53249372 TAAAATTACATTTGCTCGTGGTTTTTTATGCTCTTTAGAGGGGGTTTTCCGTGTTTAATTTTTGT
131 TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
53249437 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
196 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
53249502 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
261 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
53249567 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
326 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
53249615 TCGAATGAT
1 TCG-ATGAT
53249624 GGCAATTTTA
Statistics
Matches: 372, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
373 367 0.99
374 5 0.01
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (373 bp):
TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
Found at i:53253584 original size:20 final size:20
Alignment explanation
Indices: 53253559--53253598 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53253549 AATATTTTTC
*
53253559 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
53253579 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
53253599 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:53253600 original size:34 final size:35
Alignment explanation
Indices: 53253547--53253613 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53253537 CAAACACCAG
* * *
53253547 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
53253582 AAAACATTTTCCAG-AAATCATTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
53253614 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:53260788 original size:40 final size:40
Alignment explanation
Indices: 53260737--53261080 Score: 539
Period size: 40 Copynumber: 8.6 Consensus size: 40
53260727 CATTTGAATG
53260737 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
53260777 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
53260817 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
53260856 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
53260896 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
53260936 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
53260976 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
53261016 ATATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
53261056 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
53261081 ATTGAGCTTG
Statistics
Matches: 280, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
39 39 0.14
40 240 0.86
41 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:53270258 original size:45 final size:45
Alignment explanation
Indices: 53270197--53270358 Score: 243
Period size: 45 Copynumber: 3.6 Consensus size: 45
53270187 TTGAAAAAAC
**
53270197 GAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
* * *
53270242 AAATAAGACCATAGTTGAAAGACATTATGGCACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
* * *
53270287 GAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
*
53270332 GAATAAGACCTTAGTTGAAAGACACTA
1 GAATAAGACCATAGTTGAAAGACACTA
53270359 AGGCAACATG
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (45 bp):
GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
Found at i:53270377 original size:45 final size:44
Alignment explanation
Indices: 53270197--53270398 Score: 226
Period size: 45 Copynumber: 4.5 Consensus size: 44
53270187 TTGAAAAAAC
** *
53270197 GAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTATA-CGGAAAT
* *
53270242 AAATAAGACCATAGTTGAAAGACATTATGGCACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTATA-CGGAAAT
* * *
53270287 GAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTAT-ACGGAAAT
* * *
53270332 GAATAAGACCTTAGTTGAAAGACACTAAGGCAAC-ATGACGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGC-ACTAT-ACGGAAAT
* * *
53270377 GAATAGGACCATAATGGAAAGA
1 GAATAAGACCATAGTTGAAAGA
53270399 TCCAGCGTCC
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 131 0.98
46 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (44 bp):
GAATAAGACCATAGTTGAAAGACACTATGGCACTATACGGAAAT
Found at i:53270388 original size:90 final size:90
Alignment explanation
Indices: 53270192--53270398 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
53270182 TTCGCTTGAA
* * *
53270192 AAAACGAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAATAAATAAGACCATAGT
1 AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
* *
53270257 TGAAAGACATTATGGCACTATACCG
66 TGAAAGACACTAAGGCACTATACCG
* * * * * *
53270282 GAAATGAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAATGAATAAGACCTTAGT
1 AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
53270347 TGAAAGACACTAAGGCAAC-ATGA-CG
66 TGAAAGACACTAAGGC-ACTAT-ACCG
* * *
53270372 AAAATGAATAGGACCATAATGGAAAGA
1 AAAATGAATAAGACCATAGTTGAAAGA
53270399 TCCAGCGTCC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
90 95 0.97
91 3 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (90 bp):
AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
TGAAAGACACTAAGGCACTATACCG
Found at i:53271252 original size:16 final size:17
Alignment explanation
Indices: 53271233--53271267 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
53271223 GATTAAAAAT
53271233 TTAAGGGTTTTGA-AGG
1 TTAAGGGTTTTGAGAGG
53271249 TTAAGGGTTTTGAGAGG
1 TTAAGGGTTTTGAGAGG
53271266 TT
1 TT
53271268 TTAGAGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (17 bp):
TTAAGGGTTTTGAGAGG
Found at i:53274991 original size:19 final size:18
Alignment explanation
Indices: 53274967--53275019 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
53274957 TTTATTAAAG
53274967 AAAGGAAACAAAATAACTA
1 AAAGGAAACAAAATAA-TA
* *
53274986 AAAGGAATCTAAATCAATA
1 AAAGGAAACAAAAT-AATA
*
53275005 AAATGAAA-AAAATAA
1 AAAGGAAACAAAATAA
53275020 AAAGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 20 0.71
20 2 0.07
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAGGAAACAAAATAATA
Found at i:53279416 original size:40 final size:40
Alignment explanation
Indices: 53279333--53279502 Score: 168
Period size: 41 Copynumber: 4.2 Consensus size: 40
53279323 CAAACACATC
* * *
53279333 CCTTTTCATTTGTTATCCTTTCCGGAT-A-TCAC-TTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAACTC-CTTTTCAA
* * * *
53279371 ACTTTTCATTTGATATCCTTTTTGAATATA-TCCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATA-ACTCCTTTTCAA
* *
53279411 CCTTTTCATGTGTTATCCTTTTCGGATAACTTTCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAAC-TCCTTTTCAA
* *
53279452 CATTTTCATGTGTTATTCTTTTCGAATAACTTCCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAAC-TCCTTTTCAA
*
53279493 CCATTTCATG
1 CCTTTTCATG
53279503 GATTCGAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 22 0.20
39 2 0.02
40 32 0.29
41 54 0.49
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.50
Consensus pattern (40 bp):
CCTTTTCATGTGTTATCCTTTTCGAATAACTCCTTTTCAA
Found at i:53280528 original size:21 final size:21
Alignment explanation
Indices: 53280502--53280544 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
53280492 GATATGGTAT
53280502 ATTTATTCATTAAATCCGTTA
1 ATTTATTCATTAAATCCGTTA
*
53280523 ATTTATTCATTAAATTCGTTA
1 ATTTATTCATTAAATCCGTTA
53280544 A
1 A
53280545 CTTAAGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTATTCATTAAATCCGTTA
Found at i:53283602 original size:15 final size:15
Alignment explanation
Indices: 53283582--53283618 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
53283572 GTGAAGTGTT
*
53283582 AAATGTTGATAAAAC
1 AAATGTCGATAAAAC
53283597 AAATGTCGATAAAAC
1 AAATGTCGATAAAAC
53283612 AAATGTC
1 AAATGTC
53283619 AAGTGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (15 bp):
AAATGTCGATAAAAC
Found at i:53283867 original size:23 final size:23
Alignment explanation
Indices: 53283794--53283876 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
53283784 ATTATTTCTA
53283794 TACG-TGCAAGTGATAATGGCAC
1 TACGATGCAAGTGATAATGGCAC
* * *
53283816 TACGTTGCAAGTGAAAATGACAC
1 TACGATGCAAGTGATAATGGCAC
* *
53283839 TACGATGCAAGTGTTAGTGGCAC
1 TACGATGCAAGTGATAATGGCAC
* *
53283862 TTCGATACAAAGTGA
1 TACGATGC-AAGTGA
53283877 CATCCTCATA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
22 4 0.08
23 40 0.82
24 5 0.10
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
TACGATGCAAGTGATAATGGCAC
Found at i:53285215 original size:29 final size:29
Alignment explanation
Indices: 53285186--53285259 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
53285176 TATTAATATA
*
53285186 AATAATATTA-GAATATTTTTATTTTTAT
1 AATAATATTATAAATATTTTTATTTTTAT
* *
53285214 AATTATTTTATAAATATTTTTATTTTT-T
1 AATAATATTATAAATATTTTTATTTTTAT
* *
53285242 GAATTATTTTATAAATAT
1 -AATAATATTATAAATAT
53285260 AATAAGGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.22
29 32 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
AATAATATTATAAATATTTTTATTTTTAT
Found at i:53285221 original size:12 final size:12
Alignment explanation
Indices: 53285204--53285236 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
53285194 TAGAATATTT
53285204 TTATTTTTATAA
1 TTATTTTTATAA
53285216 TTA-TTTTATAA
1 TTATTTTTATAA
*
53285227 ATATTTTTAT
1 TTATTTTTAT
53285237 TTTTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTTTATAA
Found at i:53285224 original size:11 final size:11
Alignment explanation
Indices: 53285208--53285255 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
53285198 ATATTTTTAT
53285208 TTTTATAATTA
1 TTTTATAATTA
*
53285219 TTTTATAAATA
1 TTTTATAATTA
53285230 TTTT-T-ATT-
1 TTTTATAATTA
*
53285238 TTTT-GAATTA
1 TTTTATAATTA
53285248 TTTTATAA
1 TTTTATAA
53285256 ATATAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
8 4 0.13
9 5 0.17
10 5 0.17
11 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTATAATTA
Found at i:53303438 original size:44 final size:44
Alignment explanation
Indices: 53303390--53303478 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
53303380 TTAGAAAACT
*
53303390 ATGAAGTTTTACTGAAAAATATGCAAAA-TCTATAAACAAAACCC
1 ATGAAATTTTACTGAAAAATATGCAAAACT-TATAAACAAAACCC
* * *
53303434 ATGAAATTTTACTGAATAATGTTCAAAACTTATAAACAAAACCC
1 ATGAAATTTTACTGAAAAATATGCAAAACTTATAAACAAAACCC
53303478 A
1 A
53303479 GAATAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (44 bp):
ATGAAATTTTACTGAAAAATATGCAAAACTTATAAACAAAACCC
Found at i:53308484 original size:34 final size:34
Alignment explanation
Indices: 53308445--53308514 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
53308435 TATTCTGTTG
53308445 TGCGGAAGCGTGTAAAAGAGTAAAATTATTGTAC
1 TGCGGAAGCGTGTAAAAGAGTAAAATTATTGTAC
53308479 TGCGGAAGCGTGTAAAAGAGTAAAATTATTGTAC
1 TGCGGAAGCGTGTAAAAGAGTAAAATTATTGTAC
53308513 TG
1 TG
53308515 AAAAATTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.27
Consensus pattern (34 bp):
TGCGGAAGCGTGTAAAAGAGTAAAATTATTGTAC
Found at i:53314170 original size:42 final size:42
Alignment explanation
Indices: 53314123--53314206 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
53314113 TGGTAGTCTT
53314123 TGTATATCTATTAGGTGGATAGATAAAAAAAAATATTATTAA
1 TGTATATCTATTAGGTGGATAGATAAAAAAAAATATTATTAA
53314165 TGTATATCTATTAGGTGGATAGATAAAAAAAAATATTATTAA
1 TGTATATCTATTAGGTGGATAGATAAAAAAAAATATTATTAA
53314207 GTAATAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (42 bp):
TGTATATCTATTAGGTGGATAGATAAAAAAAAATATTATTAA
Found at i:53318288 original size:43 final size:43
Alignment explanation
Indices: 53318241--53318340 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
53318231 TTAGGGTCTT
*
53318241 TAGCGGCAC-TTTTCCTACAAATGCCGCTAAAGAACATGATCTG
1 TAGCGGCACTTTTTCC-ACAAACGCCGCTAAAGAACATGATCTG
* * * *
53318284 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACCTT
1 TAGCGGCACTTTTTCCACAAACGCCGCTAAAGAACATGATCTG
* *
53318327 TAGTGGCGCTTTTT
1 TAGCGGCACTTTTT
53318341 TAAAAATGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 44 0.88
44 6 0.12
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
TAGCGGCACTTTTTCCACAAACGCCGCTAAAGAACATGATCTG
Found at i:53318719 original size:21 final size:21
Alignment explanation
Indices: 53318674--53318722 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
53318664 TCTACGCTGC
*
53318674 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCA
*
53318695 TCTGCTTCTCTCGCTGTC-GCA
1 TCTGCTTCCCTCGCTG-CAGCA
53318716 TCTGCTT
1 TCTGCTT
53318723 TAAGCTACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCA
Found at i:53319061 original size:29 final size:29
Alignment explanation
Indices: 53319029--53319132 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
53319019 CTATCACTGG
53319029 AAGTTATTTATGTAGGCTATGTATTATGC
1 AAGTTATTTATGTAGGCTATGTATTATGC
* * *
53319058 AAGTTATTTATGTAAG-TGGTGTATTATGT
1 AAGTTATTTATGTAGGCT-ATGTATTATGC
53319087 AAGTTATGTAAGTTATGTAGGCTATGTATTAT-C
1 AAGTTA--T---TTATGTAGGCTATGTATTATGC
53319120 TAAGTT-TTTATGT
1 -AAGTTATTTATGT
53319133 TATTATGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
28 7 0.11
29 30 0.49
31 2 0.03
34 21 0.34
35 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (29 bp):
AAGTTATTTATGTAGGCTATGTATTATGC
Found at i:53319093 original size:9 final size:9
Alignment explanation
Indices: 53319081--53319154 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
53319071 AAGTGGTGTA
53319081 TTATGTAAG
1 TTATGTAAG
53319090 TTATGTAAG
1 TTATGTAAG
*
53319099 TTATGTAGG
1 TTATGTAAG
*
53319108 CTATGT-A-
1 TTATGTAAG
*
53319115 TTATCTAAG
1 TTATGTAAG
*
53319124 TTTTTATGTTA-
1 ---TTATGTAAG
53319135 TTATGTAAG
1 TTATGTAAG
*
53319144 TTATGCAAG
1 TTATGTAAG
53319153 TT
1 TT
53319155 TCTATATAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
7 4 0.08
8 8 0.16
9 32 0.64
12 6 0.12
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:53319105 original size:25 final size:25
Alignment explanation
Indices: 53319065--53319154 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 25
53319055 TGCAAGTTAT
**
53319065 TTATGTAAGTGGTGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
*
53319090 TTATGTAAGTTATGTAGGCTATGT-A-
1 TTATGTAAGTTATGTA--TTATGTAAG
*
53319115 TTATCTAAGTTTTTATGTTATTATGTAAG
1 TTATGTAAG---TTATG-TATTATGTAAG
*
53319144 TTATGCAAGTT
1 TTATGTAAGTT
53319155 TCTATATAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
25 22 0.44
26 3 0.06
27 10 0.20
28 6 0.12
29 9 0.18
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:53319148 original size:63 final size:63
Alignment explanation
Indices: 53319036--53319154 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
53319026 TGGAAGTTAT
* *
53319036 TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGGTGTATTATGTAAGTTATGTAAG
1 TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTTATGTAAG
* *
53319099 TTATGTAGGCTATGTATTAT-CTAAGTT-TTTATGTTA-TTATGTAAGTTATGCAAGTT
1 TTATGTAGGCTATGTATTATGC-AAGTTATTTATGTAAGTGATGT-A-TTATGCAAGTT
53319155 TCTATATAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
61 4 0.08
62 10 0.20
63 35 0.71
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (63 bp):
TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTTATGTAAG
Found at i:53319252 original size:16 final size:17
Alignment explanation
Indices: 53319228--53319261 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53319218 AATAAAAATT
*
53319228 TTATTTAAGT-TATGTA
1 TTATGTAAGTGTATGTA
53319244 TTATGTAAGTGTATGTA
1 TTATGTAAGTGTATGTA
53319261 T
1 T
53319262 AAGTTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (17 bp):
TTATGTAAGTGTATGTA
Found at i:53319329 original size:19 final size:19
Alignment explanation
Indices: 53319307--53319348 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
53319297 TGATATGATT
*
53319307 TATAAGTTTTGAAA-AAATA
1 TATAAATTTT-AAATAAATA
*
53319326 TATAAATTTTAAATATATA
1 TATAAATTTTAAATAAATA
53319345 TATA
1 TATA
53319349 TTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TATAAATTTTAAATAAATA
Found at i:53323467 original size:115 final size:114
Alignment explanation
Indices: 53323256--53323753 Score: 590
Period size: 114 Copynumber: 4.4 Consensus size: 114
53323246 TTAGGTTTTT
* * * * * * *
53323256 GCGGCGCTTTACTT-AAAACGCCGCTAAATAACCCGAAAACTAAGAAAACGGCGTCGTTGCGTTT
1 GCGGCGCTTTA-TTAAAAACGCCGCTAAAT-CCCCGAAAGCTCACAAAACGGCATCGTTGGGCTT
* * * **
53323320 A-GTTTTTTTAGTGGCGCTTT-TGAGCAAACGCCGCTAAAAGGTCTGAGCATTA
64 ATGTTTTTTT-GCGGCGCTTTCTCA-AAAACGCCGCT-AAAGCCCTGAGCATTA
* * *
53323372 GCGGCGCTTTATTAGAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCATTGGGCTTAG
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAT
* * * * *
53323437 GTTTTTTTGCGGCGCTTTATCAAAACCGCCGCCAAAACACTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
53323486 GCGGCGCTTTACTAAAAACGCCGCTAAATTCCCGAAAGCTCACAAAACGACATCGTTGGGCATAT
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAT
*
53323551 GTTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
53323600 GCGGCGCTTTATAAAAAACGCCGCTAAATCCCC-AAATGCTCAGAGAATGGCATCGTTGGGATTA
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAA-GCTCACAAAACGGCATCGTTGGGCTTA
* *
53323664 TGTTTTTTTGCGGCGCTTGCTTAAAAACGCCGCTAAAGCCCTGAGCATTA
65 TGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
53323714 GCGGCGATTTCTTACAAACGCCGCTAAATCCCCAAAAGCT
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCT
53323754 GAGGGAATGC
Statistics
Matches: 331, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
113 3 0.01
114 244 0.74
115 49 0.15
116 35 0.11
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAT
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:53325569 original size:42 final size:44
Alignment explanation
Indices: 53325522--53325632 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 44
53325512 GTCTTAAACT
* *
53325522 GTGTAACTCACTGACTTAGTTCACACAACAG-TATGT-CAGGCC
1 GTGTAACTCACTGACTTAGTTCACACAACAGCCATGTCCAGACC
* *
53325564 GTGTAACTCTCTGACTT-GAT-ACAC-ACAGCCATGTCGCAGACC
1 GTGTAACTCACTGACTTAGTTCACACAACAGCCATGTC-CAGACC
* * *
53325606 GTGTAACTCACTAACTTAATACACACA
1 GTGTAACTCACTGACTTAGTTCACACA
53325633 GCCTTGTCGC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 4 0.07
40 8 0.15
41 2 0.04
42 36 0.67
44 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
GTGTAACTCACTGACTTAGTTCACACAACAGCCATGTCCAGACC
Found at i:53325633 original size:42 final size:42
Alignment explanation
Indices: 53325562--53325649 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
53325552 GTATGTCAGG
* * * *
53325562 CCGTGTAACTCTCTGACTTGATACACACAGCCATGTCGCAGA
1 CCGTGTAACTCACTAACTTAATACACACAGCCATGTCGCAAA
*
53325604 CCGTGTAACTCACTAACTTAATACACACAGCCTTGTCGCAAA
1 CCGTGTAACTCACTAACTTAATACACACAGCCATGTCGCAAA
53325646 CCGT
1 CCGT
53325650 ATACGGGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (42 bp):
CCGTGTAACTCACTAACTTAATACACACAGCCATGTCGCAAA
Found at i:53328432 original size:21 final size:22
Alignment explanation
Indices: 53328408--53328449 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
53328398 ATGAGGTCTT
*
53328408 AAAATCGATGGA-AACAAGAAG
1 AAAATCGATGGAGAAAAAGAAG
*
53328429 AAAATTGATGGAGAAAAAGAA
1 AAAATCGATGGAGAAAAAGAA
53328450 TTTAGTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.05, G:0.24, T:0.12
Consensus pattern (22 bp):
AAAATCGATGGAGAAAAAGAAG
Found at i:53329894 original size:10 final size:10
Alignment explanation
Indices: 53329862--53329886 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53329852 CTCAATAAAC
53329862 AAAAAAAGAA
1 AAAAAAAGAA
53329872 AAAAAAAGAA
1 AAAAAAAGAA
53329882 AAAAA
1 AAAAA
53329887 GGGAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:53330135 original size:3 final size:3
Alignment explanation
Indices: 53330127--53330156 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
53330117 TCTCTGATTC
53330127 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
53330157 CTCTATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:53336172 original size:26 final size:28
Alignment explanation
Indices: 53336161--53336727 Score: 112
Period size: 26 Copynumber: 20.4 Consensus size: 28
53336151 CCCCTTTCTC
53336161 CCCCTT-TCCTCTCCCCTCCCTCTCCCT
1 CCCCTTCTCCTCTCCCCTCCCTCTCCCT
* *
53336188 CCCCTTCTCCTCTCCCTCTTCCTCCCCCCT
1 CCCCTTCTCCTCTCCC-CTCCCT-CTCCCT
*
53336218 CCCCTAACTTCCGTCCCTCCTCCTCCC-CTACCCT
1 CCCCT-TC-TCC-T--CTCC-CCTCCCTCT-CCCT
* *
53336252 CCCCCCTCTCCTACTTCCCT--C-CTCCCT
1 -CCCCTTCTCCT-CTCCCCTCCCTCTCCCT
* *
53336279 -CCCTTCCCCCTCTCCCC-CCCTTTCCCCT
1 CCCCTT-CTCCTCTCCCCTCCCTCT-CCCT
**
53336307 CCCCCCCTCC-CTCCATCCTCTCCTCCTCCC-
1 CCCCTTCTCCTCTCC--CCTC-CCT-CTCCCT
53336337 CCCC-TCTCC-CT-CCCTCCCTTCTCTCCT
1 CCCCTTCTCCTCTCCCCTCCC-TCTC-CCT
*
53336364 CCCC-CCTCC-CTCCCTCTCCC-CTCCCT
1 CCCCTTCTCCTCTCCC-CTCCCTCTCCCT
53336390 -CCC-T-TCCTACT--CCTCCCTCT-CCT
1 CCCCTTCTCCT-CTCCCCTCCCTCTCCCT
** * * *
53336413 CTTCTTCCCCCCTCCTCTCCCTCTACCCTT
1 CCCCTTCTCCTCTCCCCTCCCTCT-CCC-T
* *
53336443 CCCCTTCCCTCTCTCCCCCTCCCTC-CCGT
1 CCCCTTCTC-CTCT-CCCCTCCCTCTCCCT
* *
53336472 -CCC-TCTCCCCCTCCCC-CCCAC-CCC-
1 CCCCTTCT-CCTCTCCCCTCCCTCTCCCT
* *
53336496 CCCCTCCTCC-C-CCCCTCCCCCTTTCCCCCCT
1 CCCCTTCTCCTCTCCCCT--CCC--T-CTCCCT
* *
53336527 CCCCTCCCCCTCTTCCCC-CCCTCTCCCTTT
1 CCCCTTCTCCTC-TCCCCTCCCTCTCCC--T
* * *
53336557 CTCCTCCTCCTC-CCTCC-CCCTCCCCCT
1 CCCCTTCTCCTCTCC-CCTCCCTCTCCCT
53336584 CCCC-TCTTCC-C-CCCCTCCCTAC-CCCT
1 CCCCTTC-TCCTCTCCCCTCCCT-CTCCCT
*
53336610 CCCC-TCTCCTC-CCTCTCCC-CTCCCCT
1 CCCCTTCTCCTCTCCCCTCCCTCT-CCCT
* * **
53336636 CCCCTCCTCTTCTCCTCCTCTTCC-CTCTTT
1 CCCCTTCTCCTCTCC-CCTC--CCTCTCCCT
53336666 CCCTCTTCTCC-CTCTCCCTCCC-C-CCCT
1 CCC-CTTCTCCTCTC-CCCTCCCTCTCCCT
* *
53336693 -CCC-T-TCCTCTCCCC-CTCCTCCCCCC
1 CCCCTTCTCCTCTCCCCTC-CCTCTCCCT
53336718 CCCCTTCTCC
1 CCCCTTCTCC
53336728 CACCCCCCTC
Statistics
Matches: 409, Mismatches: 54, Indels: 153
0.66 0.09 0.25
Matches are distributed among these distances:
22 1 0.00
23 20 0.05
24 14 0.03
25 40 0.10
26 67 0.16
27 57 0.14
28 40 0.10
29 39 0.10
30 54 0.13
31 35 0.09
32 15 0.04
33 5 0.01
34 9 0.02
35 12 0.03
36 1 0.00
ACGTcount: A:0.02, C:0.69, G:0.00, T:0.29
Consensus pattern (28 bp):
CCCCTTCTCCTCTCCCCTCCCTCTCCCT
Found at i:53336187 original size:6 final size:6
Alignment explanation
Indices: 53336168--53337491 Score: 137
Period size: 6 Copynumber: 223.3 Consensus size: 6
53336158 CTCCCCCTTT
*
53336168 CCTCTC CC-CTC CCTCTC CCTC-C CCT-TC TCCTCTC CCTCTT CCTC-C
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC -CCTCTC CCTCTC CCTCTC
* * * * * *
53336213 CCCCTC CC-CTA ACT-TC CGTCCC TCCTCCTC CC-CTAC CCTC-C CCCCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC -CCT-CTC CCTCT-C CCTCTC CCTCTC
* * * *
53336260 TCCTACTTC CCTCCTC CCTC-C CTTCCC CCTCTC CC-C-C CCTTTCC CCTCCC
1 -CCT-C-TC CCT-CTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT-C CCTCTC
*
53336310 CCCCTC CCTC-C ATCCTCT- CCTCCTC CC-C-C CCTCTC CCTCCCTC CCTTCTC
1 CCTCTC CCTCTC --CCTCTC CCT-CTC CCTCTC CCTCTC CCT--CTC CC-TCTC
*
53336360 TCCTC-C CCCCT- CC-CTC CCTCTC CC-CT- CC-CTC CCT-TC CTACTCCTC
1 -CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C--CT-CTC
* * *
53336405 CCTCT- CCTCTT CTTC-C CCCCT- CCTCTC CCTCTAC CCT-TC CC-CTTCC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT-C CCTCTC CCTC-T-C
* * *
53336451 CTCTCTC CCCCTC CCTCCCGTC CCTCTC CCCCTC CC-C-C CCAC-C CC-C-C
1 C-CTCTC CCTCTC CCT--C-TC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
* * * *
53336498 CCTCCTC CC-C-C CCTCCC CCTTTCC CCCCTCC CCTCCC CCTCTTC CC-C-C
1 CCT-CTC CCTCTC CCTCTC CCTCT-C CCTCT-C CCTCTC CCTC-TC CCTCTC
* * * * *
53336546 CCTCTC CCTTTC TC-CT- CCTCCTC CCTCCC CCTCCC CCTC-C CCTCTT
1 CCTCTC CCTCTC CCTCTC CCT-CTC CCTCTC CCTCTC CCTCTC CCTCTC
*
53336592 CC-C-C CC-CTC CCTAC-C CCTCCC CTCTCCTC CCTCTC CC-CTC CC-CTC
1 CCTCTC CCTCTC CCT-CTC CCTCTC C-CT-CTC CCTCTC CCTCTC CCTCTC
53336637 CC-CTC CTCTTCTCC TCCTCTTC CCTCTTTC CCTCT- --TCTC CCTCTC
1 CCTCTC C-C-TCT-C -CCTC-TC CCTC--TC CCTCTC CCTCTC CCTCTC
* * * * *
53336682 CCTCCC CCCCTC CCT-T- CCTCTC CCCCT- CCTC-C CCCCCC CCTTCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CC-TCTC
* * * * *
53336727 CCACCCC CCTCTT CCTCT- CCTCTC CCGTCTC TCTCTC CTACTCCCC CCTCCTC
1 CC-TCTC CCTCTC CCTCTC CCTCTC CC-TCTC CCTCTC C--CT-CTC CCT-CTC
* * * *
53336780 CC-CT- CTTCTC CCACCC CCTGTTCTC CCTCTC CCTCTC TCCTCTCC TCCTCTT
1 CCTCTC CCTCTC CCTCTC CC---TCTC CCTCTC CCTCTC -CCTCT-C -CCTCTC
* * *
53336832 CCTGCTTCC CCCCTT CCTCTTC CCTCTC CC-C-C CCTC-C TCCTCCC CCTC-C
1 CCT-C-T-C CCTCTC CCTC-TC CCTCTC CCTCTC CCTCTC -CCTCTC CCTCTC
* *
53336881 TCCTACT- CC-CTC CCTCCTC CC-CTC CC-C-C CCTCCC CCTCCTA CCTC-C
1 -CCT-CTC CCTCTC CCT-CTC CCTCTC CCTCTC CCTCTC CCT-CTC CCTCTC
* * * * *
53336927 CCGCCTC CCCCCC CCCCT- CCT-TC CCTCTC TTTTCTCTC CTCTTCTC
1 CC-TCTC CCTCTC CCTCTC CCTCTC CCTCTC ---CCTCTC C-C-TCTC
*
53336973 CC-CT- CCTCTC CCTC-C CC-CTC CC-CCC CCATCCTC CC-CT- CCTCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CC-T-CTC CCTCTC CCTCTC
*
53337016 TCTC-C CCT-TAC CC-CT- CC-CTC CCTC-C TCCTCTC CCTCT- -C-CTC
1 CCTCTC CCTCT-C CCTCTC CCTCTC CCTCTC -CCTCTC CCTCTC CCTCTC
* * *
53337057 CCTCTTC CC-CTC CCCCTC CC-CTC CTCCCTC CC-CTC CCTCCTC CTCTTTC
1 CCTC-TC CCTCTC CCTCTC CCTCTC C-CTCTC CCTCTC CCT-CTC C-CTCTC
* *
53337106 CCT-TC CC-C-C CC-CTC CCTTACTC CCCCTC CCTCCC CCGTC-C CCTCCTC
1 CCTCTC CCTCTC CCTCTC CC-T-CTC CCTCTC CCTCTC CC-TCTC CCT-CTC
* * * * *
53337153 CCCCTTC CCCCTC CC-C-C CCTC-C CCTTTC CTTCCC CCTCTC CC-C-C
1 CCTC-TC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
* * *
53337197 CCTC-C CCT-TC CTCTCTT CCTCCCC CCTCTTC CCTCCTC CC-CTT CCTCTC
1 CCTCTC CCTCTC C-CTCTC CCT-CTC CCTC-TC CCT-CTC CCTCTC CCTCTC
* * *
53337246 TCC-CTC CCTCCTCC CCTCTC TCCTCCC CCTTTT CC-C-C CCTCTC CCTCCTTC
1 -CCTCTC CCT-CT-C CCTCTC -CCTCTC CCTCTC CCTCTC CCTCTC CCT-C-TC
* * *
53337297 CC-C-C CCCCT- CCTCTC CTTCT- TCTCTC CCTCTTC CC-CTTC CCTCCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTC-TC CCTC-TC CCT-CTC
* * * * * *
53337343 TCTCTTT CTTCTC CCTCTA CCT-TT CCTTTC CCTCTC CCT-T- CCTCTC
1 CCTC-TC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
* * * *
53337389 CCTCTC CCTCTC TCCCCT- CCTCCC CCT-TC TCTC-C CCTCTC CCTTCCCC
1 CCTCTC CCTCTC -CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CC-T-CTC
* * *
53337437 CCTCTAC CTTCTT CCTCTT CCTCT- CCTCTC CCTC-C CCT-TC CTCTCTC
1 CCTCT-C CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C-CTCTC
53337484 CCTCTC CC
1 CCTCTC CC
53337492 CCCTACCCCC
Statistics
Matches: 980, Mismatches: 140, Indels: 396
0.65 0.09 0.26
Matches are distributed among these distances:
3 5 0.01
4 70 0.07
5 235 0.24
6 372 0.38
7 195 0.20
8 73 0.07
9 29 0.03
10 1 0.00
ACGTcount: A:0.01, C:0.68, G:0.01, T:0.30
Consensus pattern (6 bp):
CCTCTC
Found at i:53336271 original size:20 final size:20
Alignment explanation
Indices: 53336196--53336279 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
53336186 CTCCCCTTCT
53336196 CCTCTCCCT-CTT-CCTCCCC
1 CCTCT-CCTACTTCCCTCCCC
* * *
53336215 CCTCCCCTAACTTCCGTCCCT
1 CCTCTCCT-ACTTCCCTCCCC
* *
53336236 CCTCCTCC-CCTACCCTCCCC
1 CCT-CTCCTACTTCCCTCCCC
*
53336256 CCTCTCCTACTTCCCTCCTC
1 CCTCTCCTACTTCCCTCCCC
53336276 CCTC
1 CCTC
53336280 CCTTCCCCCT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
18 3 0.06
19 8 0.16
20 27 0.55
21 8 0.16
22 3 0.06
ACGTcount: A:0.05, C:0.65, G:0.01, T:0.29
Consensus pattern (20 bp):
CCTCTCCTACTTCCCTCCCC
Found at i:53336331 original size:16 final size:16
Alignment explanation
Indices: 53336182--53338148 Score: 261
Period size: 16 Copynumber: 123.0 Consensus size: 16
53336172 TCCCCTCCCT
* *
53336182 CTCCCTCCCCTTCTCC
1 CTCCCTCCTCTCCTCC
* *
53336198 TCTCCCTCTTCCTCCCCC
1 -CTCCCTCCT-CTCCTCC
*
53336216 CTCCCCTAACT-TCCGTCC
1 CT-CCCT-CCTCTCC-TCC
*
53336234 CT-CCTCCTCCCCTACC
1 CTCCCTCCTCTCCT-CC
* *
53336250 CTCCCCCCTCTCCTAC
1 CTCCCTCCTCTCCTCC
*
53336266 TTCCCTCCTC-CCTCC
1 CTCCCTCCTCTCCTCC
*
53336281 CTTCCC-CCTCTCCCCCC
1 C-TCCCTCCTCT-CCTCC
* *
53336298 CTTTCCCCTCCCCCCCTCC
1 C--T-CCCTCCTCTCCTCC
*
53336317 CTCCATCCTCTCCT-C
1 CTCCCTCCTCTCCTCC
*
53336332 CTCCCCCCCTCTCCCTCC
1 CT-CCCTCCTCT-CCTCC
*
53336350 CTCCCTTCTCTCCTCCCCC
1 CTCCC-TC-CT-CTCCTCC
53336369 CTCCCTCCCTCTCCCCTCC
1 CTCCCT-CCTCT--CCTCC
53336388 CTCCCTTCCTACTCCTCC
1 CTCCC-TCCT-CTCCTCC
*
53336406 CT--CTCCTCTTCTTCC
1 CTCCCTCCTC-TCCTCC
*
53336421 C-CCCTCCTCTCC-CT
1 CTCCCTCCTCTCCTCC
*
53336435 CTACCCTTCC-C-CTTCC
1 CT-CCC-TCCTCTCCTCC
*
53336451 CTCTCTCC-C-CCTCC
1 CTCCCTCCTCTCCTCC
53336465 CTCCCGTCCCTCTCC-CC
1 CTCCC-T-CCTCTCCTCC
* *
53336482 CTCCC-CCCCACC-CC
1 CTCCCTCCTCTCCTCC
*
53336496 C-CCCTCCTC-CCCCC
1 CTCCCTCCTCTCCTCC
* *
53336510 CTCCC-CCTTTCCCCC
1 CTCCCTCCTCTCCTCC
53336525 CTCCCCTCC-C-CCT-C
1 CT-CCCTCCTCTCCTCC
* *
53336539 TTCCC-CCCCT-CTCC
1 CTCCCTCCTCTCCTCC
**
53336553 CTTTCTCCTCCTCCTCC
1 CTCCCTCCT-CTCCTCC
*
53336570 CTCCC-CCTCCCCCTCC
1 CTCCCTCCT-CTCCTCC
* * *
53336586 C-CTCTTCCCCCCCTCC
1 CTC-CCTCCTCTCCTCC
* *
53336602 CTACC-CCTCCCCTCTC
1 CTCCCTCCTCTCCTC-C
*
53336618 CTCCCT-CTCCCCTCCC
1 CTCCCTCCTCTCCT-CC
*
53336634 CTCCCCTCCTCTTCT-C
1 CT-CCCTCCTCTCCTCC
* *
53336650 CT-CCTCTTC-CCTCT
1 CTCCCTCCTCTCCTCC
* * *
53336664 TTCCCTCTTCTCC-CT
1 CTCCCTCCTCTCCTCC
* *
53336679 CTCCCTCCCCCCCTCC
1 CTCCCTCCTCTCCTCC
*
53336695 CTTCCTCTCCCCCTCCTCC
1 C-TCC-CT-CCTCTCCTCC
* *
53336714 C-CCC-CCCCTTCTCC
1 CTCCCTCCTCTCCTCC
* *
53336728 CACCC-CC-CT-CTTC
1 CTCCCTCCTCTCCTCC
*
53336741 CT--CTCCTCTCCCGTCT
1 CTCCCTCCTCT-CC-TCC
* *
53336757 CTCTCTCCTACTCCCCC
1 CTCCCTCCT-CTCCTCC
* *
53336774 CTCCTCCCCTCTTCTCC
1 CTCC-CTCCTCTCCTCC
* * *
53336791 CACCC-CCTGTTCTCC
1 CTCCCTCCTCTCCTCC
*
53336806 CTCTC-CCTCT-CT-C
1 CTCCCTCCTCTCCTCC
*
53336819 CTCTCCTCCTCTTCCTGC
1 CTC-CCTCCTC-TCCTCC
* * *
53336837 TTCCCCCCTTCCTCTTCC
1 CTCCCTCC-T-CTCCTCC
* *
53336855 CTCTCCCCCCCTCCTCC
1 CTC-CCTCCTCTCCTCC
* *
53336872 TCCCCCTCCTCCTACTCC
1 -CTCCCTCCT-CTCCTCC
*
53336890 CTCCCTCCTCCCCTCC
1 CTCCCTCCTCTCCTCC
*
53336906 CCCCCTCC-C-CCT-C
1 CTCCCTCCTCTCCTCC
* * *
53336919 CTACCTCCCCGCCTCC
1 CTCCCTCCTCTCCTCC
53336935 C-CCC-CC-C-CCTCC
1 CTCCCTCCTCTCCTCC
* ** *
53336947 TTCCCT-CTCTTTTCT
1 CTCCCTCCTCTCCTCC
* *
53336962 CTCCTCTTCTCCCCTCC
1 CTCC-CTCCTCTCCTCC
53336979 TCTCCCTCC-C-CCTCCC
1 -CTCCCTCCTCTCCT-CC
* *
53336995 CCCCCATCCTCCCCTCC
1 CTCCC-TCCTCTCCTCC
* * *
53337012 TCTCTCTCCCCTTAC-CC
1 -CTCCCTCCTC-TCCTCC
53337029 CTCCCTCC-CTCCT-C
1 CTCCCTCCTCTCCTCC
*
53337043 CTCTC-CCTCTCCTCC
1 CTCCCTCCTCTCCTCC
* *
53337058 CT-CTTCCCCTCC-CC
1 CTCCCTCCTCTCCTCC
53337072 CTCCCCTCCTC-CCTCCC
1 CT-CCCTCCTCTCCT-CC
*
53337089 CTCCCTCCTCCTCTTTCC
1 CTCCCTCCT-CTC-CTCC
* * **
53337107 CTTCCCCCCCCTCCCTTA
1 C-TCCCTCCTCT-CCTCC
53337125 CTCCC-CCTC-CCTCC
1 CTCCCTCCTCTCCTCC
* *
53337139 C-CCGTCCCCTCCTCC
1 CTCCCTCCTCTCCTCC
*
53337154 C-CCTTCC-C-CCTCC
1 CTCCCTCCTCTCCTCC
* * *
53337167 CCCCCTCCCCT-TTCC
1 CTCCCTCCTCTCCTCC
* *
53337182 TTCCC-CCTCTCCCCCC
1 CTCCCTCCTCT-CCTCC
*
53337198 CTCCCCTTCCTCT-CTTC
1 CT-CCC-TCCTCTCCTCC
*
53337215 CTCCCCCCTCTTCC-CTC
1 CTCCCTCCTC-TCCTC-C
53337232 CTCCCCTTCCTCT-CTCC
1 CT-CCC-TCCTCTCCTCC
*
53337249 CTCCCTCCTCCCCTCTCTC
1 CTCCCTCCT-CTC-CTC-C
* *
53337268 CTCCC-CCTTTTCCCCCC
1 CTCCCTCC-TCT-CCTCC
53337285 TCTCCCTCCT-TCC-CC
1 -CTCCCTCCTCTCCTCC
* *
53337300 CCCCCTCCTCTCCTTC
1 CTCCCTCCTCTCCTCC
* *
53337316 TTCTCTCCCTCTTCC-CC
1 CTCCCT-CCTC-TCCTCC
* *
53337333 TTCCCTCCTCT-CTCT
1 CTCCCTCCTCTCCTCC
* *
53337348 TTCTTCTCCCTCTACCTTTCC
1 CTC-CCT-CCTCT-CC--TCC
*
53337369 TTTCCCT-CTC-CCTTCC
1 -CTCCCTCCTCTCC-TCC
*
53337385 TCTCCCT-CTC-CCTCT
1 -CTCCCTCCTCTCCTCC
53337400 CTCCCCTCCTC-CC-CC
1 CT-CCCTCCTCTCCTCC
* * *
53337415 TTCTCTCCCCT-CTCC
1 CTCCCTCCTCTCCTCC
* *
53337430 CTTCCCCCCTCTACCTTC
1 C-TCCCTCCTCT-CCTCC
*
53337448 TTCCTCTTCCTCTCCT--
1 CTCC-C-TCCTCTCCTCC
* *
53337464 CTCCCTCCCCTTCCTCT
1 CTCCCTCCTC-TCCTCC
* * *
53337481 CTCCCTCTCCCCCCTAC
1 CTCCCTC-CTCTCCTCC
*
53337498 C-CCCTCCTCCCCTTCC
1 CTCCCTCCTCTCC-TCC
*
53337514 CTTCCTCCTCT-C-CC
1 CTCCCTCCTCTCCTCC
**
53337528 C-CCCTCCTCTTTTTTCC
1 CTCCCTCCTC--TCCTCC
*
53337545 C-CTTCTCC-CTCCT-C
1 CTC-CCTCCTCTCCTCC
* *
53337559 CTCCCTTCTCTACC-CT
1 CTCCCTCCTCT-CCTCC
53337575 CTCCCTCCT-T-CT-C
1 CTCCCTCCTCTCCTCC
*
53337588 TTCTCCTCCTC-CCTCCC
1 CTC-CCTCCTCTCCT-CC
53337605 CTCTCC-CCTCCTCC-CC
1 CTC-CCTCCT-CTCCTCC
* *
53337621 CTCCCCTCCTCCCCCCC
1 CT-CCCTCCTCTCCTCC
*
53337638 TCTTCCCCCCTCTCGCTCC
1 -C-TCCCTCCTCTC-CTCC
53337657 CTCTCCTCC-CTCCTCCC
1 CTC-CCTCCTCTCCT-CC
*
53337674 CTCCCCCCTTCTCC-CC
1 CTCCCTCC-TCTCCTCC
* *
53337690 C-CCCTACTCCCCTCC
1 CTCCCTCCTCTCCTCC
*
53337705 TCTCCC-CC-CCCCT-C
1 -CTCCCTCCTCTCCTCC
*
53337719 CTCCC-CCTCCCCTTCC
1 CTCCCTCCTCTCC-TCC
*
53337735 C-CCCT-CTCTCTCTCT
1 CTCCCTCCTCTC-CTCC
*
53337750 CTCCC-CTTCTCCTCC
1 CTCCCTCCTCTCCTCC
53337765 C-CCCT-C-C-CCTCC
1 CTCCCTCCTCTCCTCC
53337777 CT-CCTCCT-TCCTCC
1 CTCCCTCCTCTCCTCC
* **
53337791 CTCTCCTCCCCTTTTTCC
1 CTC-CCTCCTC-TCCTCC
*
53337809 C-CCC-CCCCT-CTCC
1 CTCCCTCCTCTCCTCC
53337822 C-CCCTTCCTCTCCTCC
1 CTCCC-TCCTCTCCTCC
53337838 AC-CCCTCCCTCTCCTCC
1 -CTCCCT-CCTCTCCTCC
53337855 CTACCCTCC-CTCCT-C
1 CT-CCCTCCTCTCCTCC
* *
53337870 C-CCCTCCTACCCCCCC
1 CTCCCTCCT-CTCCTCC
* *
53337886 CTACCTCCCCTCTCCTCT
1 CT-CC-CTCCTCTCCTCC
53337904 CTCCC-CCTCTCCCTCC
1 CTCCCTCCTCT-CCTCC
*
53337920 C-CCTTCTCC-CCCCGTCC
1 CTCC--CTCCTCTCC-TCC
* * *
53337937 C-CCCCCCCCCCCTCTC
1 CTCCCTCCTCTCCTC-C
* *
53337953 CTTCC-CCTCCTCCGCC
1 CTCCCTCCT-CTCCTCC
53337969 CTCTCCTCCTCT-CT-C
1 CTC-CCTCCTCTCCTCC
*
53337984 CT-CCTCCTACCCCTTCC
1 CTCCCTCCT-CTCC-TCC
*
53338001 CCCCCTCCTACTCCTCC
1 CTCCCTCCT-CTCCTCC
*
53338018 CTCACCCTCCCCTCC-CC
1 CT--CCCTCCTCTCCTCC
*
53338035 CCCCCTCC-CTCCTCCC
1 CTCCCTCCTCTCCT-CC
*
53338051 CTTCC-CCTCTCCTTCTC
1 CTCCCTCCTCTCC-TC-C
*
53338068 CCCCCTCCTCTCCCTCCC
1 CTCCCTCCTCT-CCT-CC
53338086 CTCCCTCCCTCTCC-CC
1 CTCCCT-CCTCTCCTCC
*
53338102 CCCCCTCCTC-CC-CC
1 CTCCCTCCTCTCCTCC
53338116 CTCCCTCCCCTCTCC-CC
1 CTCCCT--CCTCTCCTCC
53338133 CTTCCCTCC-CTCCTCC
1 C-TCCCTCCTCTCCTCC
53338149 TCCTTCAACC
Statistics
Matches: 1448, Mismatches: 249, Indels: 507
0.66 0.11 0.23
Matches are distributed among these distances:
11 1 0.00
12 18 0.01
13 83 0.06
14 169 0.12
15 263 0.18
16 323 0.22
17 271 0.19
18 196 0.14
19 109 0.08
20 8 0.01
21 4 0.00
22 3 0.00
ACGTcount: A:0.01, C:0.68, G:0.01, T:0.30
Consensus pattern (16 bp):
CTCCCTCCTCTCCTCC
Found at i:53336337 original size:42 final size:38
Alignment explanation
Indices: 53336283--53338124 Score: 255
Period size: 39 Copynumber: 47.7 Consensus size: 38
53336273 CTCCCTCCCT
* *
53336283 TCCCCCTCTCCCCCCCTTTCCCCTCCCCCCCTCCCTCCATCC
1 TCCCCC-CTCCCCCCCTCTCCCCTCCCTCCCT-CCT-C-TCC
* *
53336325 TCTCCTCCTCCCCCCCTCT-CCCTCCCTCCCTTCTCTCC
1 TC-CCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
*
53336363 TCCCCCCTCCCTCCCTCTCCCCTCCCTCCCTTCCTACTCC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCC-TCCT-CTCC
* ** * *
53336403 T-CCCTCTCCTCTTCTTCCCCCCTCCTCTCCCT-CTAC-CC
1 TCCCCCCTCC-CCCCCTCTCCCCTCC-CTCCCTCCT-CTCC
* * * *
53336441 TTCCCCTTCCCTCTCTC-CCCCTCCCTCCCGTCC-CT-C
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCC-TCCTCTCC
* * *
53336477 T-CCCCCTCCCCCCCAC-CCCC-CCCT-CCTCCCCCCC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
**
53336511 T-CCCCCTTTCCCCC-CTCCCCT-CC-CCCT-CT-T-C
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
* **
53336542 -CCCCCCTCTCCCTTTCTCCTCCT-CCTCCCTCC-C-CC
1 TCCCCCCTCCCCCCCTCTCC-CCTCCCTCCCTCCTCTCC
* *
53336577 T-CCCCCT-CCCCTCT-TCCCC-CCCTCCCTACCCCTCC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCT-CCTCTCC
* *
53336612 -CCTCTCCTCCCTCTCCC-CTCCCCTCCC-CTCCTCTTCTCC
1 TCC-CCCCTCCC-C-CCCTCTCCCCTCCCTC-CCTCCTCTCC
*** * *
53336651 TCCTCTTCCCTCTTTCCCTCTTCTCCCT--CTCCCTCCCCCCC
1 TCC-C--CCCTCCCCCCCTC-TC-CCCTCCCTCCCTCCTCTCC
* * *
53336692 TCCCTTCCTCTCCCCCTCCTCCCC-CCC-CCCTTCTC-CC
1 TCCC-CCCTCCCCCCCT-CTCCCCTCCCTCCCTCCTCTCC
* * * * *
53336729 ACCCCCCTCTTCCTCTCCTCTCCCGTCTCTCTCTCCTACTCC
1 TCCCCCCTC--CC-CCCCTCTCCCCTCCCTCCCTCCT-CTCC
* * * **
53336771 -CCCCTCCTCCCCTCTTCTCCCACCCCCTGTTCTCCCTCTCCC
1 TCCCC-CCTCCCCCCCTCTCCC-CTCCCT-CCCT-CCTCT-CC
* * * * * * * *
53336813 TCTCTCCTCTCCTCCTCT-TCCTGCTTCCCCCCT-TCC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
*
53336849 TCTTCCCTCTCCCCCCCTCCTCCTCC-CCCT-CCTCCTACTCCC
1 TC--CCCCCTCCCCCCCT-CTCC-CCTCCCTCCCTCCT-CT-CC
* * *
53336891 TCCCTCCTCCCCTCC-C-CCCCT-CC-CCCTCCT-ACC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
* *
53336924 TCCCCGCCT-CCCCCC-C-CCCCTCCTTCCCTCTCTTTTCTC
1 TCCCC-CCTCCCCCCCTCTCCCCTCCCTCCCTC-C-TCTC-C
** * * * *
53336963 TCCTCTTCTCCCCTCCTCTCCCTCCCCCTCCCCCCCCATCC
1 TCC-CCCCTCCCCCCCTCTCCC-CTCCCTCCCTCCTC-TCC
53337004 TCCCCTCCTCTCTCTCCCCT-TACCCCTCCCTCCCT-C-CTCC
1 TCCCC-CCTC-C-C-CCCCTCT-CCCCTCCCTCCCTCCTCTCC
* * *
53337044 T-CTCCCTCTCCTCCCTCTTCCCCT-CC-CCCTCCCCTCC
1 TCCCCCCTC-CCCCCCTC-TCCCCTCCCTCCCTCCTCTCC
*
53337081 TCCCTCCCCTCCCTCCTCCTCTTTCCCTTCCC-CCC-CCTC-CC
1 T-CC-CCCCTCCC-CC-CCTC--TCCCCTCCCTCCCTCCTCTCC
** * *
53337122 TTACTCC-CCCTCCCTC-CCCCGTCCC-CTCCTCC-C-CC
1 TCCCCCCTCCCCCCCTCTCCCC-TCCCTC-CCTCCTCTCC
* * *
53337157 TTCCCCCTCCCCCCCTC-CCCTTTCCTTCCC-CCTCT-C
1 TCCCCCCTCCCCCCCTCTCCC-CTCCCTCCCTCCTCTCC
* * *
53337193 -CCCCCCTCCCCTTCCTCTCTTCCTCCC-CCCTCTTC-CC
1 TCCCCCCTCCCC-CCCTCTC-CCCTCCCTCCCTCCTCTCC
* * * *
53337230 TCCTCCCCTTCCTCTCTCCCTCCCT-CCTCCC-CTCTCTCC
1 TCC-CCCCTCCCCCCCTCTC-CCCTCCCTCCCTC-CTCTCC
* * * * *
53337269 TCCCCCTTTTCCCCCCTCT-CCCTCCTTCCCCCCCCCTCC
1 TCCCCC-CTCCCCCCCTCTCCCCTCCCT-CCCTCCTCTCC
* * * *
53337308 TCTCCTTCTTCTCTCCCTCTTCCCCT---TCCCTCCTCTCTC
1 TC-CC-CCCTCCCCCCCTC-TCCCCTCCCTCCCTCCTCTC-C
** ** * * ** *
53337347 TTTCTTCTCCCTCTACCTTTCCTTTCCCTCTC-CCT-TCC
1 TCCCCCCTCCC-C-CCCTCTCCCCTCCCTCCCTCCTCTCC
* * * * *
53337385 T-CTCCCTCTCCCTCTCTCCCCTCCTCCCCCTTCTCTCC
1 TCCCCCCTCCCCCCCTCTCCCCTCC-CTCCCTCCTCTCC
* * * *
53337423 -CCTCTCCCTTCCCCCCTCTACCTTCTTCCT-CTTCCTCTCC
1 TCC-C-CCCTCCCCCCCTCT-CC-CCTCCCTCCCTCCTCTCC
*
53337463 T-CTCCCTCCCCTTCCTCTCTCCCTCTCCC-CCCTACC-C-CC
1 TCCCCCCTCCCC--CC-CTCTCCC-CTCCCTCCCT-CCTCTCC
** *
53337502 TCCTCCCCTTCCCTTCCTCCTCTCCCC-CCCTCCTCTTTTTTCC
1 TCC-CCCC-TCCC--CC-CCTCTCCCCTCCCTCC-CTCCTCTCC
*
53337545 -CCTTCTCCCTCCTCCTCCCTTCTCTACCCT--CTCCCTCCTTCTCT
1 TCC--C-CCCTCC-CC-CCC-TCTC--CCCTCCCTCCCTCC-TCTCC
* * *
53337589 TCTCCTCCTCCCTCCCCTCTCCCCTCCTCCCCCTCCCCTCC
1 TC-CCCCCTCCC-CCCCTCTCCCCTCC-CTCCCTCCTCTCC
*
53337630 TCCCCCCCTCTTCCCCCCTCT-CGCTCCCT--CTCCTC-CC
1 T-CCCCCCTC--CCCCCCTCTCCCCTCCCTCCCTCCTCTCC
* *
53337667 TCCTCCCCTCCCCCCTTCTCCCCCCCCTACTCCCCTCCTCTCC
1 TCC-CCCCTCCCCCCCTCT-CCCCTCC--CT-CCCTCCTCTCC
* *
53337710 CCCCCCCTCCTCCCCCTC-CCCTTCCC-CCCTCTCTCTCTC
1 TCCCCCCTCC-CCCCCTCTCCCCTCCCTCCCTC-CTCTC-C
53337749 TCTCCCCTTCTCCTCCCCC-CTCCCCTCCCT-CCTCCT-TCC
1 TC-CCCC--CTCC-CCCCCTCTCCCCTCCCTCCCTCCTCTCC
* * *
53337788 TCCCTCTCCTCCCCTTTTTCCCCCCCCCCTCTCCCCCCTTCCTCTCC
1 TCCC-C-CCTCCCC-----CCCTCTCCCCTC-CCTCCC-TCCTCTCC
* * *
53337835 TCCACCCCTCCCTCTC-CT-CCCTACCCTCCCTCCTCCCCC
1 TCC-CCCCTCCCCCCCTCTCCCCT-CCCTCCCTCCT-CTCC
* *
53337874 TCCTACCCC-CCCCTACCTC-CCCTCTCCTCTCTCCCCCTCTCCC
1 TCC--CCCCTCCCC-CCCTCTCCC-CTCC-CTC-CCTCCTCT-CC
* *
53337917 TCCCCCTTCTCCCCCCGTC-CCCC-CCC-CCCCCCTCTCC
1 TCCCCC--CTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
* *
53337954 TTCCCCTCCT-CCGCCCTCT--CCT-CCTCTCTCCTCCTCC
1 -TCCCC-CCTCCCCCCCTCTCCCCTCCCTCCCTCCT-CTCC
* * * * *
53337991 TACCCCTTCCCCCCCTCCTACTCCTCCCTCAC-CCTCCCC
1 TCCCCCCTCCCCCCCT-CT-CCCCTCCCTCCCTCCTCTCC
* *
53338030 TCCCCCC-CCCTCCCTCCTCCCCTTCCC-CTCTCCT-T-C
1 TCCCCCCTCCCCCCCT-CTCCCC-TCCCTCCCTCCTCTCC
* *
53338066 TCCCCCCTCCTCTCC-CTCCCCTCCCTCCCT-CTC-CC
1 TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
53338101 -CCCCCCTCCTCCCCC-CT-CCCTCCC
1 TCCCCCCTCC-CCCCCTCTCCCCTCCC
53338125 CTCTCCCCCT
Statistics
Matches: 1327, Mismatches: 239, Indels: 476
0.65 0.12 0.23
Matches are distributed among these distances:
31 11 0.01
32 16 0.01
33 35 0.03
34 67 0.05
35 94 0.07
36 104 0.08
37 110 0.08
38 161 0.12
39 166 0.13
40 149 0.11
41 122 0.09
42 152 0.11
43 89 0.07
44 26 0.02
45 6 0.00
46 11 0.01
47 7 0.01
48 1 0.00
ACGTcount: A:0.01, C:0.69, G:0.00, T:0.30
Consensus pattern (38 bp):
TCCCCCCTCCCCCCCTCTCCCCTCCCTCCCTCCTCTCC
Found at i:53336339 original size:29 final size:28
Alignment explanation
Indices: 53336231--53338150 Score: 248
Period size: 28 Copynumber: 68.4 Consensus size: 28
53336221 CTAACTTCCG
* * *
53336231 TCCCTCCTCCTCCCCTAC-CCTCCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
*
53336258 TCTCCTACTTCC-CTCCTCCCTCCCTTCCCCCTC
1 TC-CCT-CCTCCTCTCCT-CCTCCC--CCCCC-C
*
53336291 TCCC-CC-CCTTTCC-CCT--CCCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
*
53336314 TCCCTCCATCCTCTCCTCCTCCCCCCCTC
1 TCCCTCC-TCCTCTCCTCCTCCCCCCCCC
* *
53336343 TCCCTCCCTCC-CTTCT-CTCCTCCCCCC
1 TCCCT-CCTCCTCTCCTCCTCCCCCCCCC
*
53336370 TCCCT-C-CCTCTCC-CCTCCCTCCCTTCC
1 TCCCTCCTCCTCTCCTCCTCCC-CCC-CCC
* * **
53336397 T-ACTCCTCCCTCTCCTCTTCTTCCCCCC
1 TCCCTCCT-CCTCTCCTCCTCCCCCCCCC
* **
53336425 T-CCT-CTCCCTCTACC-CTTCCCCTTCCC
1 TCCCTCCT-CCTCT-CCTCCTCCCCCCCCC
* *
53336452 TCTCTCCCCCTC-CCTCCCGTCCCTCTCCCCC
1 TCCCTCCTCCTCTCCT-CC-TCCC-C-CCCCC
* * * *
53336483 TCCCCCCCACCCCCCCCTCCTCCCCCCCTCC
1 T-CCCTCC-TCCTCTCCTCCTCCCCCCC-CC
*
53336514 -CCCTTTCC-CCCCTCC-CCTCCCCCTCTTCCC
1 TCCC--TCCTCCTCTCCTCCTCCCCC-C--CCC
* * *
53336544 CCCCT-CTCCCTTTCTCCTCCTCCTCCCTCC
1 TCCCTCCT-CC--TCTCCTCCTCCCCCCCCC
* * *
53336574 -CCCTCCCCCTCCCCTCTTCCCCCCCTCCC
1 TCCCTCCTCCTCTCCTCCT-CCCCCC-CCC
53336603 TACCCCTCC-CCTCTCCTCCCTCTCCCCTCCCC
1 T--CCCTCCTCCTCTCCT-CCTC-CCCC-CCCC
* * * **
53336635 TCCCCTCCTCTTCTCCTCCTCTTCCCTCTT
1 T-CCCTCCTCCTCTCCTCCTC-CCCCCCCC
*
53336665 TCCCTCTTCTCC-CT-CTCC-CTCCCCCCC
1 TCCCTC--CTCCTCTCCTCCTCCCCCCCCC
*
53336692 TCCCT--TCCTCTCCCCCTCCTCCCCCCC
1 TCCCTCCTCCTCTCCTCCTCC-CCCCCCC
* * * * *
53336719 -CCCTTCTCC-CACCCCCCTCTTCCTCTCCTC
1 TCCCTCCTCCTC-TCCTCCTC--CC-CCCCCC
* *
53336749 TCCCGT-CTCTCTCTCCTACTCCCCCCTCC
1 TCCC-TCCTC-CTCTCCTCCTCCCCCCCCC
* * ** * *
53336778 TCCCCTCTTCTCC-CACCCCCTGTTCTCCCTC
1 T-CCCTC--CTCCTCTCCTCCT-CCCCCCCCC
** ** *
53336809 TCCCTCTCTCCTCTCCTCCTCTTCCTGCT
1 TCCCTC-CTCCTCTCCTCCTCCCCCCCCC
* * *
53336838 TCCCCCCTTCCTCTTC-CCTCTCCCCCCC
1 TCCCTCC-TCCTCTCCTCCTCCCCCCCCC
** *
53336866 T-CCTCCTCC-C-CCTCCTCCTACTCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53336891 TCCCTCCTCCCCTCC-CC-CCCTCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53336917 T-CCTACCTCCCCGCCTCC-CCCCCCCCC
1 TCCCT-CCTCCTCTCCTCCTCCCCCCCCC
* * ** *
53336944 TCCTTCCCTCTCTTTTCTCTCCTCTTCTCCCC
1 TCCCT-CCTC-C-TCTC-CTCCTCCCCCCCCC
*
53336976 TCCTCTCCCTCC-C-CCTCC-CCCCCCATCC
1 TCC-CT-CCTCCTCTCCTCCTCCCCCC-CCC
* *
53337004 TCCCCTCCTCTCTCTCC-CCTTACCCCTCCC
1 T-CCCTCCTC-CTCTCCTCC-TCCCCCCCCC
* * *
53337034 TCCCTCCTCCTCTCC-CTCTCCTCCCTCT
1 TCCCTCCTCCTCTCCTC-CTCCCCCCCCC
* * *
53337062 TCCCCTCCCCCTCCCCTCCT-CCCTCCCC
1 T-CCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53337090 TCCCTCCTCCTCT-TTCCCTTCCCCCCCC
1 TCCCTCCTCCTCTCCT-CCTCCCCCCCCC
*
53337118 TCCCTTACTCC-C-CCTCCCTCCCCCGTCCCC
1 TCCC-TCCTCCTCTCCT-CCTCCCCC--CCCC
* * *
53337148 T-CCTCCCCCT-TCCCCCTCCCCCCCTC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* * *
53337174 -CCCT-TTCCT-TCCCCCTCTCCCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* * * *
53337199 TCCC-CTTCCTCTCTTCCTCCCCCCTCT
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* * *
53337226 TCCCTCCTCCCCTTCCT-CTCTCCCTCCC
1 TCCCTCCTCCTC-TCCTCCTCCCCCCCCC
*
53337254 T-CCTCC-CCTCT-CTCCTCCCCCTTTTCCC
1 TCCCTCCTCCTCTCCTCCTCCCCC---CCCC
53337282 -CCCT-CTCC-CTCCTTCC-CCCCCCCTCC
1 TCCCTCCTCCTCTCC-TCCTCCCCCCC-CC
* * ** *
53337308 TCTCCTTCTTCTCT-C-CCT-CTTCCCCT
1 TC-CCTCCTCCTCTCCTCCTCCCCCCCCC
* * * * *
53337334 TCCCTCCT-CTCTCTTTCT-TCTCCCTC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* * *
53337360 TACCT-TTCCTTTCC-CTCTCCCTTCCTCTCCC
1 TCCCTCCTCCTCTCCTC-CTCCC--CC-C-CCC
* * *
53337391 TCTC-CCT-CTCTCC-CCTCCTCCCCCT
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53337416 TCTCTCC-CCTCTCC-CTTCCCCCCTCTACC
1 TCCCTCCTCCTCTCCTCCTCCCCCC-C--CC
* *
53337445 TTCTTCCTCTTCCTCTCCT-CT-CCCTCCCC
1 -TC--CCTCCTCCTCTCCTCCTCCCCCCCCC
* * * *
53337474 TTCCTCTCTCCCTCTCCCCCCTACCCCCTCC
1 TCCCTC-CT-CCTCT-CCTCCTCCCCCCCCC
* *
53337505 TCCC-CTTCC-CTTCCTCCTCTCCCCCCC
1 TCCCTCCTCCTC-TCCTCCTCCCCCCCCC
* ** * * * *
53337532 T-CCTCTTTTTTCCCCTTCTCCCTCCTCC
1 TCCCTC-CTCCTCTCCTCCTCCCCCCCCC
* * **
53337560 TCCCTTCT-CTAC-CCT-CTCCCTCCTTC
1 TCCCTCCTCCT-CTCCTCCTCCCCCCCCC
* * *
53337586 TCTTCTCCTCCTC-CCTCC-CCTCTCCCC
1 TC-CCTCCTCCTCTCCTCCTCCCCCCCCC
* * *
53337613 T-CCTCCCCCTCCCCTCCTCCCCCCCTC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* * *
53337640 TTCC-CC-CCTCTCGCTCC-CTCTCCTCCC
1 TCCCTCCTCCTCTC-CTCCTC-CCCCCCCC
* * *
53337667 T-CCTCC-CCTC-CCCCCT-TCTCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53337691 -CCCTACTCCCCTCCT-CTCCCCCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
*
53337717 T-CCTCC-CC-CTCC-CCTTCCCCCCTCTC
1 TCCCTCCTCCTCTCCTCC-TCCCCCC-CCC
* * *
53337743 TCTCTCTCTCCCCTTCTCCTCCCCCCTCCCC
1 TCCCTC-CTCCTCTCCTCCT-CCCCC-CCCC
* *
53337774 TCCCTCCTCCT-TCCTCCCTCTCCTCCCC
1 TCCCTCCTCCTCTCCT-CCTCCCCCCCCC
*** * * *
53337802 TTTTTCC-CC-C-CCCCCTCTCCCCCCT
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53337827 TCCTCTCCTCCACCCCTCCCTCTCCTCCCTACCC
1 TCC-CTCCTCCTCTCCT-CCTC-CC-CCC--CCC
*
53337861 TCCCTCCTCC-C-CCTCCTACCCCCCCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
*
53337887 TACCTCC-CCTCTCCTCTCTCCCCCTCTCCC
1 TCCCTCCTCCTCTCCTC-CTCCCCC-C-CCC
* *
53337917 TCCC-CCTTCTC-CCCCCGTCCCCCCCCC
1 TCCCTCCTCCTCTCCTCC-TCCCCCCCCC
* * *
53337944 -CCCCCTCTCCT-TCC-CCTCCTCCGCCC
1 TCCCTC-CTCCTCTCCTCCTCCCCCCCCC
** *
53337970 TCTCCTCCT-CTCTCCTCCTCCTACCCCT
1 TC-CCTCCTCCTCTCCTCCTCCCCCCCCC
* *
53337998 TCCCCCCCTCCTACTCCTCCCTCACCCTCCCC
1 T-CCCTCCTCCT-CTCCT-CCTC-CCCCCCCC
* * *
53338030 TCCCCCCCCCTC-CCTCCTCCCCTTCCCC
1 TCCCTCCTCCTCTCCTCCTCCCC-CCCCC
* * *
53338058 TCTCCTTCTCC-CCCCTCCTCTCCCTCCCC
1 TC-CCTCCTCCTCTCCTCCTC-CCCCCCCC
*
53338087 TCCCT-C-CCTCT-C-CC-CCCCCCTCC
1 TCCCTCCTCCTCTCCTCCTCCCCCCCCC
*
53338110 TCCCCCCTCC-CTCC-CCTCTCCCCCTTCCC
1 TCCCTCCTCCTCTCCTCCTC-CCCCC--CCC
53338139 TCCCTCCTCCTC
1 TCCCTCCTCCTC
53338151 CTTCAACCTT
Statistics
Matches: 1379, Mismatches: 286, Indels: 453
0.65 0.14 0.21
Matches are distributed among these distances:
23 18 0.01
24 35 0.03
25 106 0.08
26 180 0.13
27 227 0.16
28 253 0.18
29 213 0.15
30 115 0.08
31 105 0.08
32 80 0.06
33 39 0.03
34 8 0.01
ACGTcount: A:0.01, C:0.69, G:0.00, T:0.30
Consensus pattern (28 bp):
TCCCTCCTCCTCTCCTCCTCCCCCCCCC
Found at i:53336352 original size:134 final size:134
Alignment explanation
Indices: 53336150--53336400 Score: 291
Period size: 134 Copynumber: 1.9 Consensus size: 134
53336140 CCCCTCTCCA
* * * * * * *
53336150 CCCCCTTTCTCCCCCTTTCCTCTCCCCTCCCTCTCCCTCCCCTTCTCCTCTCCCTCTTCCTCCCC
1 CCCCCTCTCCCCCCCTTTCCCCTCCCCTCCCTCTCCATCCCCTCCTCCTCTCCCCCCTCCTCCCC
*
53336215 CCTCCCCTAACT-TCCGTCCCTCCT-CCTCCC-CTACCCTCCC-CCCTCTCCTACTTCCCTCCTC
66 CCT-CCCT-ACTCTCC-TCCCCCCTCCCTCCCTCTACCCTCCCTCCCT-TCCTACTTCCCTCCTC
53336276 CCTCCCTT
127 CCTCCCTT
*
53336284 CCCCCTCTCCCCCCCTTTCCCCTCCCC-CCCTCCCTCCATCCTCTCCTCCTC-CCCCCCT-CTCC
1 CCCCCTCTCCCCCCCTTTCCCCTCCCCTCCCT--CTCCATCCCCTCCTCCTCTCCCCCCTCCTCC
* *
53336346 CTCCCTCCCTTCTCTCCTCCCCCCTCCCTCCCTCTCCCCTCCCTCCCTTCCTACT
64 C-CCCTCCCTACTCTCCTCCCCCCTCCCTCCCTCTACCCTCCCTCCCTTCCTACT
53336401 CCTCCCTCTC
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
132 9 0.09
133 22 0.22
134 49 0.49
135 19 0.19
ACGTcount: A:0.02, C:0.68, G:0.00, T:0.29
Consensus pattern (134 bp):
CCCCCTCTCCCCCCCTTTCCCCTCCCCTCCCTCTCCATCCCCTCCTCCTCTCCCCCCTCCTCCCC
CCTCCCTACTCTCCTCCCCCCTCCCTCCCTCTACCCTCCCTCCCTTCCTACTTCCCTCCTCCCTC
CCTT
Found at i:53336355 original size:37 final size:36
Alignment explanation
Indices: 53336268--53336638 Score: 131
Period size: 37 Copynumber: 10.2 Consensus size: 36
53336258 TCTCCTACTT
* **
53336268 CCCTCCTCCCTCCCTTCCCCCTCT-C-CCCCCCT-TTC
1 CCCT-CTCCCTCCC-TCCCTCTCTCCTCCCCCCTCCCC
*
53336303 CCCTC-CCC-CCCTCCCTC-CATCCTCTCCTCCTCCCC
1 CCCTCTCCCTCCCTCCCTCTC-TCCTC-CCCCCTCCCC
*
53336338 CCCTCTCCCTCCCTCCCTTCTCTCCTCCCCCCTCCCT
1 CCCTCTCCCTCCCTCCC-TCTCTCCTCCCCCCTCCCC
* * *
53336375 CCCTCTCCCCTCCCTCCCT-TCCTACTCCTCCCTCTCC
1 CCCTCT-CCCTCCCTCCCTCT-CTCCTCCCCCCTCCCC
* * * *
53336412 TCTTCTTCCC-CCCT-CCTCTC-CCTCTACCCTTCCCC
1 CCCTC-TCCCTCCCTCCCTCTCTCCTC-CCCCCTCCCC
*
53336447 TTCCCTCTCTCC-CCCTCCCTCCCGTCCCTCTCCCCCTCCCC
1 --CCCTCTC-CCTCCCTCCCTCTC-T-CCTC-CCCCCTCCCC
* * * * * *
53336488 CCCAC-CCCCCCCT-CCTCCCCCCCTCCCCCTTTCCC
1 CCCTCTCCCTCCCTCCCT-CTCTCCTCCCCCCTCCCC
53336523 CCCTC-CCCT-CC-CCCTCT-TCC-CCCCCTCTCCCTTTC
1 CCCTCTCCCTCCCTCCCTCTCTCCTCCCCC-CTCCC---C
* * * * *
53336558 TCCTC-CTCCTCCCTCCCCCTCCCCCTCCCCTCTTCCC
1 CCCTCTC-CCTCCCTCCCTCT-CTCCTCCCCCCTCCCC
*
53336595 CCC-CTCCCTACCCCTCCC-CTCTCCT-CCCTCTCCCC
1 CCCTCTCCCT--CCCTCCCTCTCTCCTCCCCCCTCCCC
53336630 TCCC-CTCCC
1 -CCCTCTCCC
53336639 CTCCTCTTCT
Statistics
Matches: 258, Mismatches: 40, Indels: 75
0.69 0.11 0.20
Matches are distributed among these distances:
30 1 0.00
31 11 0.04
32 9 0.03
33 5 0.02
34 14 0.05
35 50 0.19
36 34 0.13
37 62 0.24
38 44 0.17
39 5 0.02
40 6 0.02
41 17 0.07
ACGTcount: A:0.01, C:0.72, G:0.00, T:0.27
Consensus pattern (36 bp):
CCCTCTCCCTCCCTCCCTCTCTCCTCCCCCCTCCCC
Found at i:53336383 original size:33 final size:33
Alignment explanation
Indices: 53336239--53338148 Score: 260
Period size: 33 Copynumber: 56.9 Consensus size: 33
53336229 CGTCCCTCCT
* * *
53336239 CCTCCCCTACCCTCCCCCCTCTCCTACTTCCCT-
1 CCTCCCCT-CCCTCCCTCCTCTCCTCCTCCCCTC
*
53336272 CCT-CCCTCCCTTCCC-CCTCTCCCCCCCTTTCCCCTC
1 CCTCCCCTCCC-TCCCTCCTCT--CCTCC--TCCCCTC
*
53336308 CC-CCCCTCCCTCCATCCTCTCCTCCTCCCC-C
1 CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
*
53336339 CCTCTCCCTCCCTCCCTTCTCTCCTCC-CCCCTC
1 CCTC-CCCTCCCTCCCTCCTCTCCTCCTCCCCTC
*
53336372 CCTCCCTCTCCCCTCCCTCC-CT--TCCTACTCCTC
1 CCTCCC-CT-CCCTCCCTCCTCTCCTCCT-CCCCTC
* *
53336405 CCTCTCCTCTTCTTCCC-CC-CTCCT-CTCCCTCTAC
1 CCTC-CC-CTCCCTCCCTCCTCTCCTCCTCCC-CT-C
* *
53336439 CCTTCCCCTTCCCTCTCTCC-C-CCTCCCTCCCGTC
1 CC-TCCCC-TCCCTCCCTCCTCTCCT-CCTCCCCTC
* * *
53336473 CCTCTCC-CCCTCCC-CCCCACC-CC-CCCCT-
1 CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
* *
53336501 CCTCCCC-CCCTCCC-CCTTTCCCCCCTCCCCTC
1 CCTCCCCTCCCTCCCTCCTCT-CCTCCTCCCCTC
* * * *
53336533 CC-CCTCTTCCCCCCCTCTCCCTTTCTCCTCCTCCTC
1 CCTCC-CCTCCCTCCCTC-CTC-TCCTCCTCC-CCTC
* * *
53336569 CCTCCCC-CTCC-CCCTCCCCTCTTCCCCCCCTC
1 CCTCCCCTC-CCTCCCTCCTCTCCTCCTCCCCTC
*
53336601 CCTACCCCTCCC-CTCTCCTC-CCT-CTCCCCTCC
1 CCT-CCCCTCCCTCCCTCCTCTCCTCCTCCCCT-C
* *
53336633 CCTCCCCTCCTCTTCTCCTCCTCTTCCCTCTTTCCCTC
1 CCTCCCCTCC-C-TC-CCTCCTC-T-CCTCCTCCCCTC
* * *
53336671 TTCTCCCTCTCCCTCCC-CCCCTCCCTTCCTCTCCCCC
1 -CCTCCC-CTCCCTCCCTCCTCT-CC-TCCTC-CCCTC
* *
53336708 TCCTCCCC-CCC-CCCTTCTC-CCACC-CCCCTC
1 -CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
* * *
53336738 TTCCTCTCCTCTCCCGTCTCT-CTCTCCTACTCCCCCC
1 --CCTC-CC-CTCCC-TCCCTCCTCTCCTCCTCCCCTC
* * **
53336775 TCCTCCCCTCTTCTCCCACC-C-CCTGTTCTCCCT-
1 -CCTCCCCTC-CCTCCCTCCTCTCCTCCTC-CCCTC
*
53336808 -CTCCCTCTCTCCTCTCCTCCTCTTCCTGCTTCCCC-C
1 CCTCCC-CTC-CCTC-CCTCCTC-TCCT-CCTCCCCTC
* * * *
53336844 CTTCCTCTTCCCTCTCCCCCCCTCCTCCTCCCC-C
1 CCTCC-CCTCCCTC-CCTCCTCTCCTCCTCCCCTC
* * *
53336878 TCCTCCTACTCCCTCCCTCCTCCCCTCCCCCCCTC
1 -CCTCC-CCTCCCTCCCTCCTCTCCTCCTCCCCTC
* * * *
53336913 CC-CCTCCTACCTCCCCGCCTC-CCCCCCCCCCTC
1 CCTCC-CCTCCCT-CCCTCCTCTCCTCCTCCCCTC
* * * *
53336946 CTTCCCTCTCTTTTCTCTCCTCTTCTCC-CCTCCTCTC
1 CCTCCC-CTC---CCTC-CCTCCTCTCCTCCTCCCCTC
*
53336983 CCTCCCCCTCCC-CCC-CCATCCTCC-CCTCCTCTC
1 CCT-CCCCTCCCTCCCTCC-T-CTCCTCCTCCCCTC
*
53337016 TCTCCCCTTACCCCTCCCTCC-CTCCTCCTCTCCCTC
1 CCTCCCC-T--CCCTCCCTCCTCTCCTCCTC-CCCTC
*
53337052 TCCT-CCCT-CTTCCCCTCC-C-CCTCC-CCTCCTC
1 -CCTCCCCTCCCT-CCCTCCTCTCCTCCTCC-CCTC
* *
53337083 CCTCCCCTCCCT-CCTCCTCTTTCC-CTTCCCCCC
1 CCTCCCCTCCCTCCCTCCTC--TCCTCCTCCCCTC
* *
53337116 CCTCCCTTACTCC-CCCTCC-CTCCCCCGTCCCCT-
1 CCTCCCCT-C-CCTCCCTCCTCTCCTCC-TCCCCTC
*
53337149 CCTCCCCCTTCC-CCCTCC-C-CC-CCTCCCCTTTC
1 CCT-CCCCTCCCTCCCTCCTCTCCTCCTCCCC--TC
* * * *
53337181 CTTCCCCCTCTCC-CCC-CCTCCCCTTCCT-CTCTT
1 CCT-CCCCTC-CCTCCCTCCTCTCC-TCCTCCCCTC
* *
53337214 CCTCCCC-CCTCTTCCCTCCTCCCCTTCCT-CTCTC
1 CCTCCCCTCC-C-TCCCTCCTCTCC-TCCTCCCCTC
* *
53337248 CCT-CCCT-CCTCCCCT-CTCTCCTCC-CCCTTTT
1 CCTCCCCTCCCT-CCCTCCTCTCCTCCTCCC-CTC
*
53337279 CC-CCCCT--CTCCCTCCT-TCC-CCCCCCCTC
1 CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
* * * *
53337307 CTCTCCTTCTTCTCTCCCTCTTCCCCTTCCCTCCTCTCTC
1 C-CTCC--CCTCCCTCCCTCCTCTCC-T-CCTCC-C-CTC
** ** * *
53337347 TTTCTTCTCCCTCTACCTTTCCTTTCC-CTCTCCCTTC
1 CCTCCCCTCCCTC--CC--TCCTCTCCTC-CTCCCCTC
* * *
53337384 CTCTCCCTCTCCCTCTCTCCCCTCCTCC-CCCTTC
1 C-CTCCC-CTCCCTCCCTCCTCTCCTCCTCCCCTC
* * * *
53337418 TCTCCCCTCTCCCTTCCCCCCTCTACCTTCTTCCTCTTC
1 CCTCCC--CTCCC-TCCCTCCTCT-CC-TCCTCC-CCTC
*
53337457 CTCTCCTCTCCCT-CC-CCT-TCCT-CTCTCCCTC
1 C-CTCCCCTCCCTCCCTCCTCTCCTCCTC-CCCTC
* * *
53337488 TCC-CCCCTACC-CCCT-C-CTCC-CCTTCCCTT
1 -CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
* * ** *
53337517 CCTCCTCTCCCCCCCTCCTCTTTTTTCC-CCTTCTC
1 CCTCCCCTCCCTCCCTCCTC--TCCTCCTCC-CCTC
* * *
53337552 CCTCCTCCTCCCTTCTCTACCCTCTCCCTCCTTCTCT-
1 CCTCC-CCTCCC-TCCCT--CCTCT-CCTCCTCCCCTC
*
53337589 TCTCCTCCTCCCT-CC-CCTCTCC-CCTCCTCC-C
1 CCTCC-CCTCCCTCCCTCCTCTCCTCCTCC-CCTC
* *
53337620 CCTCCCCT-CCTCCC-CCCCTCTTCC-CCCCTC
1 CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
* *
53337650 TCGCT-CCCTCTCCTCCCTCCTCCCCTCCCCCCTTCTC
1 -C-CTCCCCTC-CCTCCCTCCTCTCCTCCTCCC--CTC
* * *
53337687 CCCCCCCT-ACTCCCCTCCTCTCC-CCCCCCCT-
1 CCTCCCCTCCCT-CCCTCCTCTCCTCCTCCCCTC
* *
53337718 CCTCCCCCTCCCCTTCCCCCCTCTCTCTCTCTCTCC-C
1 CCT-CCCCT-CCC-TCCCTCCTCTC-CTC-CTCCCCTC
* * * *
53337755 CTTCTCCTCCC-CCCTCCCCT-C-CCTCCTCCTT
1 CCTCCCCTCCCTCCCTCCTCTCCTCCTCC-CCTC
* * * *
53337786 CCT-CCCTCTCCTCCC-CTTTTTCCCCCCCCCCTC
1 CCTCCCCTC-CCTCCCTC-CTCTCCTCCTCCCCTC
* * * *
53337819 TCC-CCCCTTCCTCTCCTCCACCCCTCCCTCTCCTC
1 -CCTCCCCTCCCTC-CCTCCTCTCCT-CCTCCCCTC
* * *
53337854 CCTACCCTCCCT-CCTCCCCCTCCTAC-CCCC-C
1 CCTCCCCTCCCTCCCT-CCTCTCCTCCTCCCCTC
* *
53337885 CCTACCTC-CCCTCTCCT-CTCTCCCCCTCTCCCTC
1 CCT-CCCCTCCCTC-CCTCCTCTCCTCCTC-CCCTC
* * * *
53337919 CC-CCTTCTCCC-CCCGTCC-CCCCCCCCCCCCTC
1 CCTCC-CCTCCCTCCC-TCCTCTCCTCCTCCCCTC
53337951 TCCTTCCCCT-CCTCCGC-CCTCTCCTCCTCTCTCCTCC
1 -CC-TCCCCTCCCTCC-CTCCTCTCCTCCTC-C-CCT-C
*
53337988 TCCTACCCCTTCCCCCCCTCCTACTCCTCCCTCACCCTCC
1 -CCT-CCCC-TCCCTCCCTCCT-CTCCT-CCTC-CCCT-C
* *
53338028 CCTCCCCCCCCCTCCCTCCTC-CC-CTTCCCCT-
1 CCT-CCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
*
53338059 -CTCCTTCTCCC-CCCTCCTCT-C-CCTCCCCTC
1 CCTCC-CCTCCCTCCCTCCTCTCCTCCTCCCCTC
53338089 CCTCCCTCTCCC-CCC-CC-CTCCTCC-CCCCTC
1 CCTCCC-CTCCCTCCCTCCTCTCCTCCTCCCCTC
53338119 CCTCCCCTCTCC-CCCTTCC-CTCCCTCCTCC
1 CCTCCCCTC-CCTCCC-TCCTCT-CCTCCTCC
53338149 TCCTTCAACC
Statistics
Matches: 1400, Mismatches: 226, Indels: 501
0.66 0.11 0.24
Matches are distributed among these distances:
28 21 0.01
29 63 0.05
30 100 0.07
31 138 0.10
32 146 0.10
33 234 0.17
34 225 0.16
35 149 0.11
36 104 0.07
37 94 0.07
38 45 0.03
39 50 0.04
40 21 0.01
41 10 0.01
ACGTcount: A:0.01, C:0.69, G:0.00, T:0.29
Consensus pattern (33 bp):
CCTCCCCTCCCTCCCTCCTCTCCTCCTCCCCTC
Found at i:53336516 original size:21 final size:21
Alignment explanation
Indices: 53336481--53336642 Score: 59
Period size: 21 Copynumber: 7.6 Consensus size: 21
53336471 TCCCTCTCCC
*
53336481 CCTCCCCCCC-ACCCCCCCCT
1 CCTCCCCCCCTCCCCCCCCCT
53336501 CCTCCCCCCCTCCCCCTTTCCCC-
1 CCTCCCCCCCTCCCCC---CCCCT
*
53336524 CCTCCCCTCCC-CCTCTTCCCCC-
1 CCTCCCC-CCCTCC-C-CCCCCCT
* ** * *
53336546 CCTCTCCCTTTCTCCTCCTCCT
1 CCTCCCCCCCTC-CCCCCCCCT
*
53336568 CC-CTCCCCCTCCCCCTCCCCT
1 CCTCCCCCCCTCCCCC-CCCCT
* **
53336589 CTTCCCCCCCTCCCTACCCCT
1 CCTCCCCCCCTCCCCCCCCCT
* * *
53336610 CC-CCTCTCCTCCCTCTCCCCT
1 CCTCCCCCCCTCCC-CCCCCCT
*
53336631 CC-CCTCCCCTCC
1 CCTCCCCCCCTCC
53336643 TCTTCTCCTC
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
20 22 0.20
21 44 0.40
22 24 0.22
23 10 0.09
24 8 0.07
25 1 0.01
ACGTcount: A:0.01, C:0.75, G:0.00, T:0.23
Consensus pattern (21 bp):
CCTCCCCCCCTCCCCCCCCCT
Found at i:53336692 original size:52 final size:50
Alignment explanation
Indices: 53336523--53336699 Score: 164
Period size: 55 Copynumber: 3.4 Consensus size: 50
53336513 CCCCTTTCCC
*
53336523 CCCTCCCCTCCCCCTCTTCCCCCCCTC-T-CCCTTTCTCCTCCTCCTCCCTCC
1 CCCTCCCC-CCCCCTCTTCCCCCCCTCTTCCCCTTTC-CCT-CTCCTCCCTCT
* *
53336574 CCCTCCCCCTCCCCTCTTCCCCCCCTCCCTACCCC-TCCCCTCTCCTCCCTCT
1 CCCTCCCCC-CCCCTCTTCCCCCCCT--CTTCCCCTTTCCCTCTCCTCCCTCT
* * *
53336626 CCCCTCCCCTCCCCTCCTCTTCTCCTCCTCTTCCCTCTTTCCCTCTTCTCCCTCT
1 -CCCT-CCC-CCCC-CCTCTTCCCCCCCTCTTCCC-CTTTCCCTCTCCTCCCTCT
53336681 CCCTCCCCCCCTCC-CTTCC
1 CCCTCCCCCCC-CCTCTTCC
53336700 TCTCCCCCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
50 1 0.01
51 28 0.26
52 17 0.16
53 16 0.15
54 12 0.11
55 32 0.30
ACGTcount: A:0.01, C:0.69, G:0.00, T:0.30
Consensus pattern (50 bp):
CCCTCCCCCCCCCTCTTCCCCCCCTCTTCCCCTTTCCCTCTCCTCCCTCT
Found at i:53336701 original size:49 final size:45
Alignment explanation
Indices: 53336542--53338148 Score: 240
Period size: 47 Copynumber: 35.5 Consensus size: 45
53336532 CCCCCTCTTC
* *
53336542 CCCCCCTCTCCCTTTCTCCTCCTCCTC-CCTCCCCCTCCCCCTCCCCTCTT
1 CCCCCC-CTCCCTTCCTCCTCC-CCTCTCCTCCCTCT-CCCCT-CCC-C-T
*
53336592 CCCCCCCTCCCTACC-CCTCCCCTCTCCTCCCTCTCCCCTCCCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
* * *
53336636 CCCCTCCT-CTTCTCCTCCTCTTCCCTCT-TTCCCTCTTCTCCCTCTCCCT
1 CCCCCCCTCCCT-TCCTCCTC--CCCTCTCCTCCCTC-TC-CCCTC-CCCT
* * *
53336685 CCCCCCCTCCCTTCCT-CTCCCC-CTCCTCCCCCCCCCCTTCTCCCA
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTCTCCCC-TC-CCCT
* *
53336730 CCCCCCTCTTCCTCTCCT-CTCCCGTCTCTCTCTCCTACT--CC-CCCCT
1 CCCCCC-CTCCCT-TCCTCCTCCCCTCTC-CTC-CCT-CTCCCCTCCCCT
* * * * *
53336776 CCTCCCCT--CTT-CTCCCACCCCCTGTTCTCCCTCT-CCCT-CTCT
1 CCCCCCCTCCCTTCCT-CC-TCCCCTCTCCTCCCTCTCCCCTCCCCT
* * * * * *
53336818 CCTCTCCTCCTCTTCCTGCTTCCC-C-CCTTCCTCTTCCCT---CT
1 CCCCCCCTCC-CTTCCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
* * * *
53336859 CCCCCCCTCCTCCTCCCCCTCCTC-CTACTCCCTC-CCTCCTCCCCT
1 CCCCCCCTCC-CTTCCTCCTCCCCTCTCCTCCCTCTCC-CCTCCCCT
* * *
53336904 CCCCCCCTCCC--CCTCCT-ACCTC-CC-CGCCTCCCCCCCCCCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTC-CCTCTCCCCTCCCCT
** * * * * *
53336945 CCTTCCCTCTCTT--TTCTCTCCTCTTCTCCC-CTCCTCT-CCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
* *
53336986 CCCCCTCC-CCC-CCCATCCT-CCC-CTCCTCTCTCTCCCCTTACCCCT
1 CCCCC-CCTCCCTTCC-TCCTCCCCTCTCCTCCCTCTCCCC-T-CCCCT
*
53337031 CCCTCCCT-CC-TCCT-CT-CCCTCTCCTCCCTCTTCCCCTCCCCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTC-TCCCCT-CCCCT
* * *
53337074 CCCCTCCTCCCTCCCCTCCCTCCTCCTCT-TTCCCT-TCCCC-CCCCT
1 CCCCCCCTCCCT-TCCT-CCTCC-CCTCTCCTCCCTCTCCCCTCCCCT
*** *
53337119 CCCTTACTCCC--CCTCCCTCCCC-CGTCCCCTCCTC-CCCCTTCCCCCT
1 CCCCCCCTCCCTTCCT-CCTCCCCTC-TCCTC-CCTCTCCCC-T-CCCCT
* *
53337165 CCCCCCCTCCCCTTTCCTTC-CCCCTCTCC-CCCCCTCCCCTTCCTCTCTT
1 CCCCCCCT-CCC-TTCCTCCTCCCCTCTCCTCCCTCTCCCC-TCC-C-C-T
*
53337214 CCTCCCCC-CTCTTCCCTCCTCCCCT-TCCT--CTCT-CCCT-CCCT
1 CC-CCCCCTCCCTT-CCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
* * * * *
53337255 CCTCCCCTCTC-TCCTCC-CCCTTTTCCCCCCTCT-CCCT--CCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
* * *
53337295 TCCCCCC-CCC-TCCT-CT-CCTTCTTCTCTCCCTCTTCCCCTTCCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTC-TC-CTCCCTC-TCCCCTCCCCT
* * * * * * *
53337339 ---CCTCTCTCTTTCTTCT-CCCTCTACCTTTCCTTTCCCTCTCCCTT
1 CCCCCCCTCCCTTCCTCCTCCCCTCT-CC-TCCCTCTCCC-CTCCCCT
*
53337383 CCTCTCCCTCTCCC-T-CT-CTCCCCTCCTCCCCCTTCTCTCCCCTCTCCCTT
1 CC-C-CCC-CTCCCTTCCTCCTCCCCT-CTCCTCC--CTCTCCCCTC-CCC-T
* * * *
53337433 CCCCCCTCTACCTTCTTCCTCTTCCTCTCCTCTCC-CTCCCCTTCCTCT
1 CCCCCC-CTCCCTTCCTCCTC-CCCTCTCCTC-CCTCTCCCC-TCCCCT
* * * * * *
53337481 CTCCCTCTCCC-CCCTAC-CCCCTCCTCC-CCTTC-CCTTCCTCCTCT
1 CCCCCCCTCCCTTCCTCCTCCCCT-CTCCTCCCTCTCC--CCTCCCCT
*
53337525 CCCCCCCTCCTCTTTTTTCC-CCTTCTCCCTCCTCCTCCCT-T-CTCTACCCTCT
1 CCCCCCCTCC-C----TTCCTCC-TC-CCCT-CTCCTCCCTCTCCCCT-CCC-CT
* * * *
53337577 CCCTCCTTCTCTT-CTCCTCCTCC-CTCC-CCTCTCCCCTCCTCCCCCT
1 CCCCCCCTCCCTTCCTCCTCC-CCTCTCCTCC-CTCTCC-CCT-CCCCT
* ** * *
53337623 CCCCTCCTCCCCCCCTCTTCCCCCCTCTCGCTCCCTCTCCTCC-CTCCT
1 CCCCCCCTCCCTTCCTC--CTCCCCTCTC-CTCCCTCTCC-CCTCCCCT
* * *
53337671 CCCCTCCC-CCCTT-CTCCCCCCCCTACTCCCCTCCTCTCCCCCCCCCT
1 CCCC-CCCTCCCTTCCT-CCTCCCCT-CTCCTC-CCTCTCCCCTCCCCT
* * *
53337718 CCTCCCCCTCCC--CTTCC-CCCCTCTCTCTCTCTCTCCCCTTCTCCT
1 CC-CCCCCTCCCTTCCTCCTCCCCTCTC-CTCCCTCTCCCC-TCCCCT
*
53337763 -CCCCCCTCCCCT-C-CCTCCTCCT-TCCTCCCTCT--CCTCCCCTTTTT
1 CCCCCCCTCCCTTCCTCCTCC-CCTCTCCTCCCTCTCCCCTCCCC----T
*
53337807 CCCCCCC-CCC-T-CTCC-CCCCT-TCCTCTCCTCCACCCCT-CCCT
1 CCCCCCCTCCCTTCCTCCTCCCCTCTCCTC-CCT-CTCCCCTCCCCT
* * *
53337848 CTCCTCCCTACCCTCCCTCCTCCCC-CTCCTACCC-C-CCCCT-ACCT
1 C-CCCCCCT-CCCTTCCTCCTCCCCTCTCCT-CCCTCTCCCCTCCCCT
* * *
53337892 -CCCCTCTCCTCTCTCCCCCTCTCCCTC-CC-CCTTCTCCCC-CCGTCC-
1 CCCCCCCTCC-CT-TCCTCCTC-CCCTCTCCTCCCTCTCCCCTCC--CCT
* * * *
53337937 CCCCCCCCCCCCT-CTCCTTCCCCTCCTCCGCCCTCTCCTCCT-CTCT
1 CCCCCCCTCCCTTCCTCC-TCCCCT-CTCCTCCCTCTCC-CCTCCCCT
* * *
53337983 CCTCCTCCTACCCCTTCC-CCCCCTCCTACTCCTCCCTC-ACCCTCCCCT
1 CC-CCCCCT--CCCTTCCTCCTCC-CCT-CTCCTCCCTCTCCCCTCCCCT
* * *
53338031 CCCCCCCCCTCCC-TCCTCCCCTTCCCCTCTCCT-TCTCCCCCCTCCTCT
1 --CCCCCCCTCCCTTCCT--CC-TCCCCTCTCCTCCCTCTCCCCTCCCCT
* * * *
53338079 CCCTCCCCTCCCTCCCTCTCCCCCCCCCTCCTCCC-CCCTCCCTCCCCT
1 CCC-CCCCTCCCT-TC-CTCCTCCCCTCTCCTCCCTCTC-CCCTCCCCT
* *
53338127 CTCCCCCTTCCCTCCCTCCTCC
1 C-CCCCCCTCCCTTCCTCCTCC
53338149 TCCTTCAACC
Statistics
Matches: 1156, Mismatches: 190, Indels: 426
0.65 0.11 0.24
Matches are distributed among these distances:
38 9 0.01
39 16 0.01
40 25 0.02
41 91 0.08
42 101 0.09
43 102 0.09
44 128 0.11
45 99 0.09
46 121 0.10
47 137 0.12
48 126 0.11
49 106 0.09
50 54 0.05
51 15 0.01
52 23 0.02
53 3 0.00
ACGTcount: A:0.01, C:0.68, G:0.00, T:0.30
Consensus pattern (45 bp):
CCCCCCCTCCCTTCCTCCTCCCCTCTCCTCCCTCTCCCCTCCCCT
Found at i:53336702 original size:31 final size:26
Alignment explanation
Indices: 53336672--53336724 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
53336662 CTTTCCCTCT
*
53336672 TCTCCCTCTCCCTCCCCCCCTCCCTTCC
1 TCTCCCCCT-CCTCCCCCCC-CCCTTCC
53336700 TCTCCCCCTCCTCCCCCCCCCCTTC
1 TCTCCCCCTCCTCCCCCCCCCCTTC
53336725 TCCCACCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
28 8 0.33
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (26 bp):
TCTCCCCCTCCTCCCCCCCCCCTTCC
Found at i:53336733 original size:27 final size:27
Alignment explanation
Indices: 53336682--53336734 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53336672 TCTCCCTCTC
* *
53336682 CCTCCCCCCCTCCCTTCCTCTCCCCCT
1 CCTCCCCCCCTCCCTTCCCCACCCCCT
53336709 CCTCCCCCCC-CCCTTCTCCCACCCCC
1 CCTCCCCCCCTCCCTTC-CCCACCCCC
53336735 CTCTTCCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.02, C:0.77, G:0.00, T:0.21
Consensus pattern (27 bp):
CCTCCCCCCCTCCCTTCCCCACCCCCT
Found at i:53336759 original size:78 final size:77
Alignment explanation
Indices: 53336287--53336512 Score: 66
Period size: 83 Copynumber: 3.0 Consensus size: 77
53336277 CTCCCTTCCC
* * * * *
53336287 CCTCTCC-CCCCCTTTC-CCCTCCCCCCCTCCC-TCC-AT-CCTCTCCTCCTCCCCCCC-TCTCC
1 CCTCTCCTCCCCGTCTCTCCCTCCCCCCCTCCCTTCCTCTCCCCCTCCTCCCCCCCCCCTTCTCC
53336346 CTCCCTCCCT-TCT
66 C-CCC-CCCTCTCT
* * * ** * * *
53336359 -CTCCTCC-CCCC-TCCCTCCCT-CTCCCCTCCCTCCCT-TCCTACTCCTCCCTCTCCTCTTCTT
1 CCT-CTCCTCCCCGTCTCTCCCTCCCCCCCTCCCTTCCTCTCCCCCTCCTCCCCCCCCCCTTC-T
*
53336419 CCCCCCTCCTCTC-
64 CCCCCCCCCTCTCT
* * * *
53336432 CCTCTACCCTTCCCCTTCCCTCTCTCCCCCTCCCTCCCGTCCCTCTCCCCCTCC-CCCCCACCCC
1 CCTCT--CC-TCCCCGTCTCTCCCT-CCCC-CCCTCCC-TTCCTCTCCCCCTCCTCCCCC-CCCC
**
53336496 CCCCTCCTCCCCCCCTC
59 CTTCTCC-CCCCCCCTC
53336513 CCCCTTTCCC
Statistics
Matches: 112, Mismatches: 21, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
71 13 0.12
72 15 0.13
73 17 0.15
74 9 0.08
75 6 0.05
77 4 0.04
78 8 0.07
80 2 0.02
81 7 0.06
82 12 0.11
83 19 0.17
ACGTcount: A:0.02, C:0.71, G:0.00, T:0.27
Consensus pattern (77 bp):
CCTCTCCTCCCCGTCTCTCCCTCCCCCCCTCCCTTCCTCTCCCCCTCCTCCCCCCCCCCTTCTCC
CCCCCCCTCTCT
Found at i:53336763 original size:60 final size:60
Alignment explanation
Indices: 53336610--53336829 Score: 168
Period size: 60 Copynumber: 3.6 Consensus size: 60
53336600 CCCTACCCCT
* * * * * *
53336610 CCCCTCTCCTCCCTCTCCC-CTCCCCTCCCCTCCTCTTCTCCTCCTCTTCCCTCTT-TCCCTC
1 CCCCTCTTCTCCCTCTCCCTCTCTCCTCTCCTCCTC-CCCCCTCCTC--CCCTCTTCTCCCAC
* * * *
53336671 TTCTCCCTCTCCCTCCC-C-CCCTCCCTTCCTCTCCCCCTCCTCCC-CC-CCCC-CTTCTCCCAC
1 --C-CCCTCT-TCTCCCTCTCCCTCTC-TCCTCTCCTCCTCCCCCCTCCTCCCCTCTTCTCCCA-
53336731 C
60 C
*
53336732 CCCCTCTTCCTCTCCTCTCCCGTCTCT-CTCTCCTACTCCCCCCTCCTCCCCTCTTCTCCCAC
1 CCCCTCTT-CTC-CCTCTCCC-TCTCTCCTCTCCTCCTCCCCCCTCCTCCCCTCTTCTCCCAC
*
53336794 CCCCTGTTCTCCCTCTCCCTCTCTCCTCTCCTCCTC
1 CCCCTCTTCTCCCTCTCCCTCTCTCCTCTCCTCCTC
53336830 TTCCTGCTTC
Statistics
Matches: 127, Mismatches: 15, Indels: 33
0.73 0.09 0.19
Matches are distributed among these distances:
58 9 0.07
59 11 0.09
60 39 0.31
61 10 0.08
62 16 0.13
63 15 0.12
64 11 0.09
65 16 0.13
ACGTcount: A:0.01, C:0.66, G:0.01, T:0.32
Consensus pattern (60 bp):
CCCCTCTTCTCCCTCTCCCTCTCTCCTCTCCTCCTCCCCCCTCCTCCCCTCTTCTCCCAC
Done.