Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 31 of 250
Found at i:9210878 original size:21 final size:21
Alignment explanation
Indices: 9210853--9210904 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
9210843 AAAAAAGTTC
9210853 AACTATCCAAAAAGAATATGA
1 AACTATCCAAAAAGAATATGA
9210874 AACTATCCAAAAAGAATATGA
1 AACTATCCAAAAAGAATATGA
9210895 AACTATCCAA
1 AACTATCCAA
9210905 TTATTAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.56, C:0.17, G:0.08, T:0.19
Consensus pattern (21 bp):
AACTATCCAAAAAGAATATGA
Found at i:9211636 original size:171 final size:171
Alignment explanation
Indices: 9211351--9211683 Score: 506
Period size: 171 Copynumber: 1.9 Consensus size: 171
9211341 TCATACCATA
*
9211351 ATCCCAAGAGCAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
1 ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
* * *
9211416 GACCCTGTTACACTAACCTCAATAAAAAACACTTTTTTAAGTGAAATTTCTCCACACCAAGATGG
66 GACCCTATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATGG
*
9211481 CTCAATTGAATTATTATTCAATAGGCCACCCAAAACATGAC
131 CTCAATTGAATTAATATTCAATAGGCCACCCAAAACATGAC
* *
9211522 ATCCCAAGAACAATGCAATGACATGAAATCAATCTCCTTACCAAATGAAAACTAGAAGGTGCT-T
1 ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAG-AGGTGCTAT
* * * * * *
9211586 AGCCCCTATTGCACTAACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCGACATCAAGATG
65 AGACCCTATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATG
* * *
9211651 GCTTAGTTGAATTAATATTTAATAGGCCACCCA
130 GCTCAATTGAATTAATATTCAATAGGCCACCCA
9211684 GAATGACCCC
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
171 138 0.95
172 7 0.05
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (171 bp):
ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
GACCCTATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATGG
CTCAATTGAATTAATATTCAATAGGCCACCCAAAACATGAC
Found at i:9213830 original size:13 final size:13
Alignment explanation
Indices: 9213812--9213837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9213802 AGCAACACGG
9213812 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
9213825 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
9213838 CATTCGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TGCTTAGTAAGTT
Found at i:9214632 original size:15 final size:17
Alignment explanation
Indices: 9214606--9214638 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9214596 AATATTTCAA
9214606 TAAAAATCAATAA-ATT
1 TAAAAATCAATAATATT
9214622 TAAAAAT-AATAATATT
1 TAAAAATCAATAATATT
9214638 T
1 T
9214639 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATCAATAATATT
Found at i:9217030 original size:25 final size:26
Alignment explanation
Indices: 9217002--9217053 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
9216992 TTTAGTTTCA
9217002 TGGCTTATTTACA-TTTTTTTAGAGG
1 TGGCTTATTTACATTTTTTTTAGAGG
9217027 TGGCTTATTTACATTTTTTTTAGAGG
1 TGGCTTATTTACATTTTTTTTAGAGG
9217053 T
1 T
9217054 TCACCTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (26 bp):
TGGCTTATTTACATTTTTTTTAGAGG
Found at i:9219859 original size:16 final size:17
Alignment explanation
Indices: 9219827--9219859 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9219817 TATATATGTA
9219827 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
9219844 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
9219860 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:9222473 original size:28 final size:28
Alignment explanation
Indices: 9222433--9222489 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
9222423 ATTAATTTCA
9222433 AGATCATTTATTTTATGTTATTCTTAAC
1 AGATCATTTATTTTATGTTATTCTTAAC
9222461 AGATCATTTATTTTATGTTATTCTTAAC
1 AGATCATTTATTTTATGTTATTCTTAAC
9222489 A
1 A
9222490 AACCATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (28 bp):
AGATCATTTATTTTATGTTATTCTTAAC
Found at i:9222933 original size:13 final size:14
Alignment explanation
Indices: 9222915--9222946 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
9222905 GTCATATCTG
9222915 ATTATTATT-TTTC
1 ATTATTATTCTTTC
9222928 ATTATTATTCTTTC
1 ATTATTATTCTTTC
9222942 ATTAT
1 ATTAT
9222947 ATGTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTATTCTTTC
Found at i:9226134 original size:43 final size:43
Alignment explanation
Indices: 9226069--9226174 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
9226059 AAGGGTCAGT
* *
9226069 AAAG-CATGACTTTTAGCAGCGTTTGTTG-GAAAAGCGCCGCTA
1 AAAGTCATGGCTTTTAGCGGCGTTTG-TGAGAAAAGCGCCGCTA
* *
9226111 AAGGTCATGGCTTTTAGCGGCGTTTGTGAGGAAAGCGCCGCTA
1 AAAGTCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTA
9226154 AAAGTCATGGCTTTTAGCGGC
1 AAAGTCATGGCTTTTAGCGGC
9226175 ATTTTTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 5 0.09
43 52 0.91
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
AAAGTCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTA
Found at i:9227030 original size:13 final size:14
Alignment explanation
Indices: 9227004--9227032 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9226994 ACTAACGACG
9227004 AATTAAACCATTAT
1 AATTAAACCATTAT
9227018 AATTAAA-CATTAT
1 AATTAAACCATTAT
9227031 AA
1 AA
9227033 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:9232173 original size:9 final size:9
Alignment explanation
Indices: 9232152--9232272 Score: 72
Period size: 9 Copynumber: 13.6 Consensus size: 9
9232142 TATGTATAAC
*
9232152 GTAAGTTAA
1 GTAAGTTAT
9232161 GTAAGCTT-T
1 GTAAG-TTAT
9232170 GTAAGTTAT
1 GTAAGTTAT
9232179 GTAAGTTAT
1 GTAAGTTAT
* *
9232188 GTTA-TGAT
1 GTAAGTTAT
* *
9232196 ATACATTTAT
1 GTA-AGTTAT
*
9232206 GTAAGGTAT
1 GTAAGTTAT
9232215 GTAAGTTAT
1 GTAAGTTAT
* *
9232224 GATATGATAT
1 G-TAAGTTAT
* *
9232234 AT-ATTTAT
1 GTAAGTTAT
9232242 GT-A-TTAT
1 GTAAGTTAT
*
9232249 GTAAGTTGT
1 GTAAGTTAT
9232258 GTAAGTTAT
1 GTAAGTTAT
9232267 GATAAG
1 G-TAAG
9232273 ATATATATTT
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 6 0.07
8 12 0.14
9 50 0.59
10 17 0.20
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9232216 original size:36 final size:36
Alignment explanation
Indices: 9232169--9232244 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
9232159 AAGTAAGCTT
* *
9232169 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
9232205 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
9232241 TGTA
1 TGTA
9232245 TTATGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:9232305 original size:44 final size:43
Alignment explanation
Indices: 9232202--9232329 Score: 204
Period size: 44 Copynumber: 3.0 Consensus size: 43
9232192 TGATATACAT
* *
9232202 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
9232245 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTGGA-GTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTT--ATGTA
9232289 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
9232330 AAATATATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 40 0.51
45 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:9232335 original size:13 final size:13
Alignment explanation
Indices: 9232313--9232342 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9232303 TAAGTTATGA
*
9232313 TATGATATATATT
1 TATGAAATATATT
9232326 TATGAAATATATT
1 TATGAAATATATT
9232339 TATG
1 TATG
9232343 TATTATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TATGAAATATATT
Found at i:9232342 original size:100 final size:99
Alignment explanation
Indices: 9232226--9232407 Score: 294
Period size: 100 Copynumber: 1.8 Consensus size: 99
9232216 TAAGTTATGA
* *
9232226 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTGGA-GTAT
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTT--ATGTAA
9232290 TATGTAAGTTGTGTAAGTTATGATATGATATATATT
64 TATGTAAGTTGTGTAAGTTATGATATGATATATATT
* *
9232326 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGTAATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGTAATA
*
9232391 TGTAAGTTTTGTAAGTT
66 TGTAAGTTGTGTAAGTT
9232408 TTGTAAGTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
98 1 0.01
99 21 0.28
100 54 0.71
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (99 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGTAATA
TGTAAGTTGTGTAAGTTATGATATGATATATATT
Found at i:9232349 original size:56 final size:54
Alignment explanation
Indices: 9232285--9232431 Score: 208
Period size: 56 Copynumber: 2.7 Consensus size: 54
9232275 ATATATTTGG
*
9232285 AGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGAAATATATTTA
1 AGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG-AA-ATATGTA
* * *
9232341 TGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGTAATATGTA
1 AGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGAAATATGTA
* *
9232395 AGT-TT-TGTAAGTTTTGTAAGTTATTATATGATATATA
1 AGTATTATGTAAGTTGTGTAAGTTATGATATGATATATA
9232432 ATAAACATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
52 29 0.35
53 2 0.02
54 8 0.10
55 1 0.01
56 43 0.52
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (54 bp):
AGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGAAATATGTA
Found at i:9232387 original size:43 final size:43
Alignment explanation
Indices: 9232326--9232407 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
9232316 GATATATATT
* *
9232326 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGA
1 TATGAAATATATTTATGTAATATGTAAGTTGTGTAAGTTATGA
* *
9232369 TATGATATATATTTATGTAATATGTAAGTTTTGTAAGTT
1 TATGAAATATATTTATGTAATATGTAAGTTGTGTAAGTT
9232408 TTGTAAGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (43 bp):
TATGAAATATATTTATGTAATATGTAAGTTGTGTAAGTTATGA
Found at i:9232405 original size:9 final size:9
Alignment explanation
Indices: 9232391--9232416 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9232381 TTATGTAATA
9232391 TGTAAGTTT
1 TGTAAGTTT
9232400 TGTAAGTTT
1 TGTAAGTTT
9232409 TGTAAGTT
1 TGTAAGTT
9232417 ATTATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
TGTAAGTTT
Found at i:9232581 original size:15 final size:15
Alignment explanation
Indices: 9232561--9232589 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9232551 TTGTGTCCTG
9232561 ATTAATCCAAAATAA
1 ATTAATCCAAAATAA
9232576 ATTAATCCAAAATA
1 ATTAATCCAAAATA
9232590 TGTAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAATCCAAAATAA
Found at i:9232855 original size:37 final size:37
Alignment explanation
Indices: 9232811--9232901 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
9232801 AAATTATATT
*
9232811 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGTAAATCAT-TTTAA
9232846 AATGTTGAT-AA-A-TGAAATATAAGTAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGTAAATCATTTTAA
9232882 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
9232902 CATTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGTAAATCATTTTAA
Found at i:9236025 original size:114 final size:115
Alignment explanation
Indices: 9235867--9236462 Score: 534
Period size: 114 Copynumber: 5.2 Consensus size: 115
9235857 TAACATTTGC
* * * *
9235867 GGCG-TTTTCTCCTAGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTTAACAT-AAACGCCACTA
1 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTA
* *
9235930 AAAATCAAACAAAACGACGCCGTTTTGATATAAACAGAATAAACTTTAGT
66 AAAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * *
9235980 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAATCAATTGCGGCG-TTTAACCCTAAAATGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACT
** * * *
9236044 AAAAATCCAAA-AAAGTGACGGCGTTTTCATATAAACAGAATAACATTTAGT
65 AAAAAT-CAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * * * * * *
9236095 GGCATTTTATCTCCAAGCGCCGCTAAAGGTGAAA-CTATTGCGGCGTTTTACCCTAAAACGCCAA
1 GGCGTTTT-TCCCCTAGCGCCGCTAATGG-CAAACCTATTGCGGCGTTTTAACCTAAAACGCCAC
* * * * ** * *
9236159 TAAGAATCGAATAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGT
64 TAAAAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * * * *
9236211 GGCGTTTATACCCTAGCGCCACTAAAT--CAAACCTATTGTGGCGTTTTAACCAAAAACGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCT-AATGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACT
* * * * *
9236274 AAAAATTC-ATGAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGT
65 AAAAA-TCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * ** * * *
9236325 GGCATTTATAACCTTGCGCCGATAAAT--CAATCCTATTGCGGCGTTTTAACCTAAAACGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCT-AATGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACT
** * * * *
9236388 AAAAATCCAAAGAAAACGGTGTCGTCTTG-TAT-AATAGAATAACCTTTAGC
65 AAAAAT-CAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* *
9236438 GCCGTTTATT-CCCTAACGCCGCTAA
1 GGCGTTT-TTCCCCTAGCGCCGCTAA
9236463 ATCCAATGTT
Statistics
Matches: 396, Mismatches: 73, Indels: 29
0.80 0.15 0.06
Matches are distributed among these distances:
112 2 0.01
113 41 0.10
114 174 0.44
115 85 0.21
116 87 0.22
117 7 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (115 bp):
GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTA
AAAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
Found at i:9236185 original size:116 final size:116
Alignment explanation
Indices: 9235874--9236394 Score: 543
Period size: 114 Copynumber: 4.6 Consensus size: 116
9235864 TGCGGCGTTT
* *
9235874 TCTCCTAGCGCCGCTAAAGG-CAAACCAATTGCGGCGTTTTAACAT-AAACGCCACTAAAAATCA
1 TCTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATC-
* * * * * * *
9235937 AACAAAACGACGCCGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTT-
65 AATAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGCATTTTA
* * * * *
9235988 TCCCCTAGCGCCGCTAATGG-CAAATCAATTGCGGCG-TTTAACCCTAAAATGCCACTAAAAATC
1 TCTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAAT-
* ** * *
9236051 CAA-AAAAGTGACGGCGTTTTCATATAAACAGAATAA-CATTTAGTGGCATTTTA
64 CAATAAAACT-ACACCGTTTTGATATAAACAAAATAACCA-TTAGTGGCATTTTA
* * * * *
9236104 TCTCCAAGCGCCGCTAAAGGTGAAA-CTATTGCGGCGTTTTACCCTAAAACGCCAATAAGAATCG
1 TCTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATC-
* *
9236168 AATAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGC-GTTTA
65 AATAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGCATTTTA
* * *
9236219 TAC-CCTAGCGCCACTAAA--TCAAACCTATTGTGGCGTTTTAACCAAAAACGCCACTAAAAATT
1 T-CTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAA-T
9236281 C-ATGAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGCA-TTTA
64 CAAT-AAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGCATTTTA
** * * *
9236333 TAACCTTGCGCCGATAAA--TCAATCCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATC
1 TCTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATC
9236395 CAAAGAAAAC
Statistics
Matches: 348, Mismatches: 42, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
113 13 0.04
114 169 0.49
115 74 0.21
116 78 0.22
117 14 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (116 bp):
TCTCCTAGCGCCGCTAAAGGTCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCA
ATAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGCATTTTA
Found at i:9236308 original size:230 final size:229
Alignment explanation
Indices: 9235874--9236405 Score: 603
Period size: 230 Copynumber: 2.3 Consensus size: 229
9235864 TGCGGCGTTT
* *
9235874 TCTCCTAGCGCCGCTAAAGG-CAAACCAATTGCGGCGTTTTAACAT-AAACGCCACTAAAAATCA
1 TCTCCTAGCGCCGCTAAAGGTCAAA-CTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCA
* * * * * *
9235937 AACAAAACGACGCCGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTTTCCCCTAGCGCCGC
65 AACAAAACGACACCGTTTTGATATAAACAAAATAAACATTAGTGGCGTTTATACCCTAGCGCCAC
* * * * **
9236002 TAATGGCAAATCAATTGCGGCGTTTAACCCTAAAATGCCACTAAAAATCCAAAAAAGTGACGGCG
130 TAAT-GCAAACCAATTGCGGCGTTTAACCCAAAAACGCCACTAAAAATCCAAAAAACTGACACCG
*
9236067 TTTTCATATAAACAGAATAA-CATTTAGTGGCATTTTA
194 TTTTCATATAAACAAAATAACCA-TTAGTGGCA-TTTA
* * * * * *
9236104 TCTCCAAGCGCCGCTAAAGGTGAAACTATTGCGGCGTTTTACCCTAAAACGCCAATAAGAATCGA
1 TCTCCTAGCGCCGCTAAAGGTCAAACTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAA
* * * *
9236169 ATAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATACCCTAGCGCCACT
66 ACAAAACGACACCGTTTTGATATAAACAAAATAAACATTAGTGGCGTTTATACCCTAGCGCCACT
* * * *
9236234 AAAT-CAAACCTATTGTGGCGTTTTAA-CCAAAAACGCCACTAAAAATTCATGAAAACT-ACACC
131 -AATGCAAACCAATTGCGGCG-TTTAACCCAAAAACGCCACTAAAAATCCA-AAAAACTGACACC
*
9236296 GTTTTGATATAAACAAAATAACCATTAGTGGCATTTA
193 GTTTTCATATAAACAAAATAACCATTAGTGGCATTTA
** * * *
9236333 TAACCTTGCGCCGATAAA--TCAATCCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCC
1 TCTCCTAGCGCCGCTAAAGGTCAA-ACTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAAT-C
*
9236396 AAAGAAAACG
64 AAACAAAACG
9236406 GTGTCGTCTT
Statistics
Matches: 251, Mismatches: 43, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
227 3 0.01
228 34 0.14
229 25 0.10
230 100 0.40
231 86 0.34
232 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (229 bp):
TCTCCTAGCGCCGCTAAAGGTCAAACTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAA
ACAAAACGACACCGTTTTGATATAAACAAAATAAACATTAGTGGCGTTTATACCCTAGCGCCACT
AATGCAAACCAATTGCGGCGTTTAACCCAAAAACGCCACTAAAAATCCAAAAAACTGACACCGTT
TTCATATAAACAAAATAACCATTAGTGGCATTTA
Found at i:9237283 original size:7 final size:7
Alignment explanation
Indices: 9237273--9237332 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
9237263 TTAAACCCTT
9237273 AACCCCA
1 AACCCCA
9237280 AACCCCA
1 AACCCCA
9237287 AACCCCA
1 AACCCCA
*
9237294 AATCCCA
1 AACCCCA
* *
9237301 AATCTCA
1 AACCCCA
* *
9237308 AATCCTA
1 AACCCCA
*
9237315 AACCACA
1 AACCCCA
*
9237322 AATCCCA
1 AACCCCA
9237329 AACC
1 AACC
9237333 ATAAATCTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.10
Consensus pattern (7 bp):
AACCCCA
Found at i:9237289 original size:21 final size:21
Alignment explanation
Indices: 9237265--9237337 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
9237255 ATTTACCCTT
* *
9237265 AAACCCTTAACCCCAAACCCC
1 AAACCCTAAACCCCAAATCCC
* * *
9237286 AAACCCCAAATCCCAAATCTC
1 AAACCCTAAACCCCAAATCCC
* *
9237307 AAATCCTAAACCACAAATCCC
1 AAACCCTAAACCCCAAATCCC
*
9237328 AAACCATAAA
1 AAACCCTAAA
9237338 TCTCAGACTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (21 bp):
AAACCCTAAACCCCAAATCCC
Found at i:9237333 original size:14 final size:14
Alignment explanation
Indices: 9237273--9237339 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
9237263 TTAAACCCTT
* *
9237273 AACCCCAAACCCCA
1 AACCACAAATCCCA
*
9237287 AACCCCAAATCCCA
1 AACCACAAATCCCA
* * *
9237301 AATCTCAAATCCTA
1 AACCACAAATCCCA
9237315 AACCACAAATCCCA
1 AACCACAAATCCCA
*
9237329 AACCATAAATC
1 AACCACAAATC
9237340 TCAGACTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 45 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (14 bp):
AACCACAAATCCCA
Found at i:9238288 original size:278 final size:278
Alignment explanation
Indices: 9237791--9238345 Score: 1049
Period size: 278 Copynumber: 2.0 Consensus size: 278
9237781 ATAATTAATT
*
9237791 ATAGGGTTTAGGATTTAATTATTGAATATGGTTCACTTGAGATTAACATACTATATACCCATGGC
1 ATAGGGTTTAGGATTTAATTATTGAATATGATTCACTTGAGATTAACATACTATATACCCATGGC
9237856 CATTAAACTTAAACCATAAAACCCTAAACCATAGACCTTAAACCTTTAATATTAAACCTTAAACC
66 CATTAAACTTAAACCATAAAACCCTAAACCATAGACCTTAAACCTTTAATATTAAACCTTAAACC
9237921 CAAAAATAAATTTAATCAATATTAAGTATTGCTTCCATAATTTATTATGAACATAAGCTTTTACA
131 CAAAAATAAATTTAATCAATATTAAGTATTGCTTCCATAATTTATTATGAACATAAGCTTTTACA
*
9237986 TTAATATCTATGTATATACACATCAACATCCATATGATGTTTTTTGGGGTTTAGAGTTTTAAATG
196 TTAATATCTATGTATATACACATCAACATCCATATGATGTTTTTTGGGGGTTAGAGTTTTAAA-G
9238051 -TTATAGTTTAGTGTTTAG
260 ATTATAGTTTAGTGTTTAG
9238069 ATAGGGTTTAGGATTTAATTATTGAATATGATTCACTTGAGATTAACATACTATATACCCATGGC
1 ATAGGGTTTAGGATTTAATTATTGAATATGATTCACTTGAGATTAACATACTATATACCCATGGC
9238134 CATTAAACTTAAACCATAAAACCCTAAACCATAGACCTTAAACCTTTAATATTAAACCTTAAACC
66 CATTAAACTTAAACCATAAAACCCTAAACCATAGACCTTAAACCTTTAATATTAAACCTTAAACC
*
9238199 CAAAAATAAATTTAATCAATATTAAGTATTGCTTCCATAATTTATTATTAACATAAGCTTTTACA
131 CAAAAATAAATTTAATCAATATTAAGTATTGCTTCCATAATTTATTATGAACATAAGCTTTTACA
*
9238264 TTAATATTTATGTATATACACATCAACATCCATATGATGTTTTTTGGGGGTTAGAGTTTTAAAGA
196 TTAATATCTATGTATATACACATCAACATCCATATGATGTTTTTTGGGGGTTAGAGTTTTAAAGA
*
9238329 TTGTAGTTTAGTGTTTA
261 TTATAGTTTAGTGTTTA
9238346 AGGTTTAAGG
Statistics
Matches: 271, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
277 1 0.00
278 270 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (278 bp):
ATAGGGTTTAGGATTTAATTATTGAATATGATTCACTTGAGATTAACATACTATATACCCATGGC
CATTAAACTTAAACCATAAAACCCTAAACCATAGACCTTAAACCTTTAATATTAAACCTTAAACC
CAAAAATAAATTTAATCAATATTAAGTATTGCTTCCATAATTTATTATGAACATAAGCTTTTACA
TTAATATCTATGTATATACACATCAACATCCATATGATGTTTTTTGGGGGTTAGAGTTTTAAAGA
TTATAGTTTAGTGTTTAG
Found at i:9238549 original size:40 final size:41
Alignment explanation
Indices: 9238413--9238569 Score: 219
Period size: 41 Copynumber: 3.9 Consensus size: 41
9238403 TTATATGACA
* *
9238413 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTTTGGTT
* * *
9238454 TTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATTCTTTAGTT
1 TTTAGCGGCGTTTTACCA-AAAGCGCCACTAATGCTTTGGTT
* * *
9238495 TTTAGCGGCATTTTACCAAAAGCACCACTAATGC-CTGGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTTTGGTT
9238535 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCT
1 TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCT
9238570 CTAGCTTTTA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.36
41 63 0.62
42 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTTTGGTT
Found at i:9238559 original size:81 final size:82
Alignment explanation
Indices: 9238413--9238581 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 82
9238403 TTATATGACA
* * * * *
9238413 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGTTTTTAGCGGCGTTTTACAGAAAGCG
1 TTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGCG
* * * *
9238478 CCGCTAATTCTTTAGTT
66 CCACTAATGCTCTAGCT
9238495 TTTAGCGGCATTTTACCAAAAGCACCACTAATGC-CTGGTTTTTAGCGGCGTTTTACCA-AAAGC
1 TTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGTTTTA-CAGAAAGC
9238558 GCCACTAATGCTCTAGCT
65 GCCACTAATGCTCTAGCT
9238576 TTTAGC
1 TTTAGC
9238582 AACGTTTTTG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 45 0.58
82 32 0.42
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (82 bp):
TTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGCG
CCACTAATGCTCTAGCT
Found at i:9239791 original size:14 final size:14
Alignment explanation
Indices: 9239750--9239793 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
9239740 TTAAACCATA
*
9239750 AACTCCTAACCCCT
1 AACTCCTAACCCTT
* *
9239764 AACCCCTAATCCTT
1 AACTCCTAACCCTT
9239778 AACTCCTAACCCTT
1 AACTCCTAACCCTT
9239792 AA
1 AA
9239794 ATCTTAAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.25
Consensus pattern (14 bp):
AACTCCTAACCCTT
Found at i:9241358 original size:28 final size:28
Alignment explanation
Indices: 9241327--9241427 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
9241317 GATCAATAAA
9241327 GTTTATTCTCTATTTCTCTGATATTTTT
1 GTTTATTCTCTATTTCTCTGATATTTTT
* * * * ***
9241355 GTTTGTTCTTTATTCTCTTTTGATTAATAAA
1 GTTTATTCTCTATT-TC-TCTGA-TATTTTT
9241386 GTTTATTCTCTATTTCTCTGATATTTTT
1 GTTTATTCTCTATTTCTCTGATATTTTT
* *
9241414 GTTTGTTCTTTATT
1 GTTTATTCTCTATT
9241428 CTCCCCATCT
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
28 27 0.50
29 6 0.11
30 6 0.11
31 15 0.28
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (28 bp):
GTTTATTCTCTATTTCTCTGATATTTTT
Found at i:9241384 original size:59 final size:59
Alignment explanation
Indices: 9241309--9241430 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
9241299 CATTATAATA
9241309 TCTCTTTTGATCAATAAAGTTTATTCTCTATTTCTCTGATATTTTTGTTTGTTCTTTAT
1 TCTCTTTTGATCAATAAAGTTTATTCTCTATTTCTCTGATATTTTTGTTTGTTCTTTAT
*
9241368 TCTCTTTTGATTAATAAAGTTTATTCTCTATTTCTCTGATATTTTTGTTTGTTCTTTAT
1 TCTCTTTTGATCAATAAAGTTTATTCTCTATTTCTCTGATATTTTTGTTTGTTCTTTAT
9241427 TCTC
1 TCTC
9241431 CCCATCTCTC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.60
Consensus pattern (59 bp):
TCTCTTTTGATCAATAAAGTTTATTCTCTATTTCTCTGATATTTTTGTTTGTTCTTTAT
Found at i:9241458 original size:21 final size:21
Alignment explanation
Indices: 9241434--9241477 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9241424 TATTCTCCCC
9241434 ATCTCTCTTCTCTCTTTATGA
1 ATCTCTCTTCTCTCTTTATGA
9241455 ATCTCTCTTCTCTCTTTATGA
1 ATCTCTCTTCTCTCTTTATGA
9241476 AT
1 AT
9241478 GTAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.52
Consensus pattern (21 bp):
ATCTCTCTTCTCTCTTTATGA
Found at i:9244912 original size:29 final size:29
Alignment explanation
Indices: 9244876--9244934 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
9244866 TAATTTTAAT
* *
9244876 AAATTATAAAATTTTTATAAACAACTAAA
1 AAATTATAAAATTTTTATAAAAAAATAAA
*
9244905 AAATTATATAATTTTTATAAAAAAATAAA
1 AAATTATAAAATTTTTATAAAAAAATAAA
9244934 A
1 A
9244935 CCCTATAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATTATAAAATTTTTATAAAAAAATAAA
Found at i:9244941 original size:29 final size:29
Alignment explanation
Indices: 9244880--9244943 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
9244870 TTTAATAAAT
* * *
9244880 TATAAAATTTTTATAAACAACTAAAAAAT
1 TATAAAATTTTTATAAAAAAATAAAAAAC
* **
9244909 TATATAATTTTTATAAAAAAATAAAACCC
1 TATAAAATTTTTATAAAAAAATAAAAAAC
9244938 TATAAA
1 TATAAA
9244944 GCAGAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TATAAAATTTTTATAAAAAAATAAAAAAC
Found at i:9245570 original size:19 final size:19
Alignment explanation
Indices: 9245548--9245589 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9245538 AATTATATTT
9245548 TTAAGAAAATATAAA-AAAA
1 TTAA-AAAATATAAAGAAAA
**
9245567 TTAAAGTATATAAAGAAAA
1 TTAAAAAATATAAAGAAAA
9245586 TTAA
1 TTAA
9245590 TAATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
TTAAAAAATATAAAGAAAA
Found at i:9246776 original size:18 final size:18
Alignment explanation
Indices: 9246749--9246785 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9246739 GTTTGATAAA
*
9246749 TTATTAAAAATTTTCATT
1 TTATTAAAAATTTTAATT
*
9246767 TTATTGAAAATTTTAATT
1 TTATTAAAAATTTTAATT
9246785 T
1 T
9246786 GATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTATTAAAAATTTTAATT
Found at i:9252731 original size:48 final size:48
Alignment explanation
Indices: 9252679--9252852 Score: 215
Period size: 48 Copynumber: 3.6 Consensus size: 48
9252669 AAATCCCGTA
* * *
9252679 TAAGACCATATCTGGGATATGGCATCGATATCAATATGAGATCCCTTG
1 TAAGACCATATCTGGGATATGACATCGACATCAATATGAGATCCCATG
* * * *
9252727 TAAGACCGTATCTGGGATATGACAT-AAGCATCGACATGAGATCCCATG
1 TAAGACCATATCTGGGATATGACATCGA-CATCAATATGAGATCCCATG
* * *
9252775 TAAGACCATATCTGGGATATGACATCGGCATCAATATGAGGTCCCATA
1 TAAGACCATATCTGGGATATGACATCGACATCAATATGAGATCCCATG
* * *
9252823 TAAGACCATGTCTGGGACATGGCATCGACA
1 TAAGACCATATCTGGGATATGACATCGACA
9252853 CTATTATGAG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.99
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGACATCGACATCAATATGAGATCCCATG
Found at i:9259592 original size:27 final size:28
Alignment explanation
Indices: 9259508--9259605 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
9259498 CATGAGATTG
* * * *
9259508 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
9259537 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9259565 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9259592 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9259606 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9259616 original size:27 final size:27
Alignment explanation
Indices: 9259536--9259618 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
9259526 TAAATTGTAC
* *
9259536 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9259564 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9259591 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9259618 A
1 A
9259619 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:9259619 original size:29 final size:27
Alignment explanation
Indices: 9259508--9259619 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
9259498 CATGAGATTG
** * *
9259508 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
9259537 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
9259565 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
9259592 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
9259620 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:9261551 original size:18 final size:19
Alignment explanation
Indices: 9261528--9261565 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9261518 CCAAATGTAC
9261528 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
9261546 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
9261565 T
1 T
9261566 AATTTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:9261820 original size:41 final size:42
Alignment explanation
Indices: 9261752--9261862 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 42
9261742 TCTTACTTGC
* * * *
9261752 AATCACATATTGATGCCACTGTCCCAGACAGGGTCTTAAACG-
1 AATCAAATATCGATGCCAATGTCCCAGAC-GGATCTTAAACGT
* * *
9261794 AATCAAATA-CGATGCCAATGTACCAGACTGATCTTATACGT
1 AATCAAATATCGATGCCAATGTCCCAGACGGATCTTAAACGT
* *
9261835 AATCACATATCGATGCCAACGTCCCAGA
1 AATCAAATATCGATGCCAATGTCCCAGA
9261863 TGTGGTCTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 9 0.16
41 24 0.42
42 24 0.42
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCAAATATCGATGCCAATGTCCCAGACGGATCTTAAACGT
Found at i:9261862 original size:42 final size:42
Alignment explanation
Indices: 9261752--9261862 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
9261742 TCTTACTTGC
* *
9261752 AATCACATATTGATGCC-ACTGTCCCAGACAGGGTCTTAAACG
1 AATCACATATCGATGCCAAC-GTCCCAGACAGGATCTTAAACG
* * * * *
9261794 AATCAAATA-CGATGCCAATGTACCAGAC-TGATCTTATACG
1 AATCACATATCGATGCCAACGTCCCAGACAGGATCTTAAACG
9261834 TAATCACATATCGATGCCAACGTCCCAGA
1 -AATCACATATCGATGCCAACGTCCCAGA
9261863 TGTGGTCTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 9 0.16
41 22 0.39
42 25 0.45
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCACATATCGATGCCAACGTCCCAGACAGGATCTTAAACG
Found at i:9261875 original size:41 final size:40
Alignment explanation
Indices: 9261721--9261875 Score: 102
Period size: 42 Copynumber: 3.7 Consensus size: 40
9261711 ATATCGTACA
* * * *
9261721 ATGCCAACATCCTAGACGTGGTCTTACTTGCAATCACATATTG
1 ATGCCAACGTCCCAGA-GTGGTCTTAC--GTAATCACATATCG
*
9261764 ATGCC-ACTGTCCCAGACAG-GGTCTTAAACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAG--AGTGGTCTT--ACGTAATCACATATCG
* * * *
9261805 ATGCCAATGTACCAGACTGATCTTATACGTAATCACATATCG
1 ATGCCAACGTCCCAGAGTGGTC-T-TACGTAATCACATATCG
9261847 ATGCCAACGTCCCAGATGTGGTCTTACGT
1 ATGCCAACGTCCCAGA-GTGGTCTTACGT
9261876 GAGAACACAT
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
39 1 0.01
40 6 0.07
41 26 0.30
42 29 0.33
43 21 0.24
44 1 0.01
45 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
ATGCCAACGTCCCAGAGTGGTCTTACGTAATCACATATCG
Found at i:9262750 original size:16 final size:15
Alignment explanation
Indices: 9262729--9262766 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9262719 TTATAATAAC
*
9262729 ATATTTAACATTTTAT
1 ATATTTAAC-CTTTAT
9262745 ATATTTAACCTTTAT
1 ATATTTAACCTTTAT
9262760 A-ATTTAA
1 ATATTTAA
9262767 TAACTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTAACCTTTAT
Found at i:9265349 original size:4 final size:4
Alignment explanation
Indices: 9265342--9265367 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9265332 AAGGATTCAA
9265342 GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT
9265368 GCTATGACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:9266915 original size:48 final size:48
Alignment explanation
Indices: 9266855--9267028 Score: 190
Period size: 48 Copynumber: 3.6 Consensus size: 48
9266845 AAATCCTGTA
* *
9266855 TAAGACCATATCTGGGATATGGCATCGGCATCAATATGAGATCCCTTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
* ** *
9266903 TAAGACCGTATCTGGGATATGATATAC-GCATCGACATGAGATCCCATG
1 TAAGACCATATCTGGGATATGGCAT-CGGCATCGATATGAGATCCCATG
* * * *
9266951 TAAGACCATATCTGGGATATGGCATTGGCATCGATATTG-GGTCCCGTA
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATA-TGAGATCCCATG
* * * *
9266999 CAAGACCATGTTTGGGACATGGCATCGGCA
1 TAAGACCATATCTGGGATATGGCATCGGCA
9267029 CTGTTATGAG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
48 101 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
Found at i:9283197 original size:27 final size:27
Alignment explanation
Indices: 9283167--9283220 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
9283157 TCATACAACC
*
9283167 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
9283194 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
9283221 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:9295406 original size:10 final size:10
Alignment explanation
Indices: 9295391--9295419 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9295381 TATTCTTATC
9295391 TTTTAATTTA
1 TTTTAATTTA
9295401 TTTTAATTTA
1 TTTTAATTTA
9295411 TTTTAATTT
1 TTTTAATTT
9295420 TTCTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:9300962 original size:11 final size:11
Alignment explanation
Indices: 9300946--9300971 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9300936 GTCAATACAC
9300946 TTTCATGACAT
1 TTTCATGACAT
9300957 TTTCATGACAT
1 TTTCATGACAT
9300968 TTTC
1 TTTC
9300972 TCCACCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCATGACAT
Found at i:9301144 original size:27 final size:27
Alignment explanation
Indices: 9301087--9301144 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
9301077 CAAAGATAAT
* * *
9301087 TTGATTAATGATTGATATTGTGCTTAT
1 TTGATTAATGATCGATATTATGCTTAA
*
9301114 TTGATTAATGATCGATATTATGTTTAA
1 TTGATTAATGATCGATATTATGCTTAA
9301141 TTGA
1 TTGA
9301145 CATTATGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.50
Consensus pattern (27 bp):
TTGATTAATGATCGATATTATGCTTAA
Found at i:9302096 original size:18 final size:20
Alignment explanation
Indices: 9302060--9302098 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9302050 TATTTTTTTA
9302060 TAATTTAATAAAAATATAAT
1 TAATTTAATAAAAATATAAT
9302080 TAATTT-ATAAAAA-ATAAT
1 TAATTTAATAAAAATATAAT
9302098 T
1 T
9302099 TATCAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATTTAATAAAAATATAAT
Found at i:9305298 original size:15 final size:15
Alignment explanation
Indices: 9305260--9305316 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
9305250 AAGAAAACCA
*
9305260 AATAAAGAAATCCAAG
1 AATAAAGAAA-CCTAG
*
9305276 -ATAGAGAAACCTAG
1 AATAAAGAAACCTAG
9305290 AATAAAGAAACCTAG
1 AATAAAGAAACCTAG
* *
9305305 AGTAAAAAAACC
1 AATAAAGAAACC
9305317 CAAGATACGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 4 0.11
15 31 0.89
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (15 bp):
AATAAAGAAACCTAG
Found at i:9305316 original size:30 final size:28
Alignment explanation
Indices: 9305253--9305316 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
9305243 AGATAACAAG
*
9305253 AAAACCAAATAAAGAAATCCAAGATAGA
1 AAAACCAAATAAAGAAATCCAAGATAAA
* *
9305281 GAAACCTAGAATAAAGAAA-CCTAGAGTAAA
1 AAAACC-A-AATAAAGAAATCCAAGA-TAAA
9305311 AAAACC
1 AAAACC
9305317 CAAGATACGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
29 6 0.21
30 18 0.62
ACGTcount: A:0.61, C:0.16, G:0.12, T:0.11
Consensus pattern (28 bp):
AAAACCAAATAAAGAAATCCAAGATAAA
Found at i:9308395 original size:49 final size:49
Alignment explanation
Indices: 9308315--9308559 Score: 265
Period size: 49 Copynumber: 4.9 Consensus size: 49
9308305 TAGCCAAAGC
* * * *
9308315 TATCTGGTACGCGTAGTAGCCTGCACGTAGTACTACACATGCGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
9308364 TATCCGGTACACGTGGTAGCCTGCACTTAGTACTACACATGTGGCCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* ** *
9308413 TATCCGGTACACGTAGTAGCCTGCACTTTGTACTACACACATGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * ** * *
9308463 CATCTGAAACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * * * *
9308514 TTTCGGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
9308560 TCACAATAGA
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 85 0.52
50 41 0.25
51 36 0.22
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:9308553 original size:99 final size:96
Alignment explanation
Indices: 9308315--9308554 Score: 264
Period size: 99 Copynumber: 2.4 Consensus size: 96
9308305 TAGCCAAAGC
* * ** ** *
9308315 TATCTGGTACGCGTAGTAGCCTGCACGTAGTACTACACATGCGACCAATTATCCGGTACACGTGG
1 TATCCGGTACGCGTAGTAGCCTGCACCTAGTACTACACAT--GACCAACCATCCGAAACACGTAG
*
9308380 TAGCCTGCACTTAGTACTACACATGTGGCCAAT
64 TAGCCTGCACTTAGTACTACACACGTGGCCAAT
* * * *
9308413 TATCCGGTACACGTAGTAGCCTGCACTTTGTACTACACACATGACCTAACCATCTGAAACACGTA
1 TATCCGGTACGCGTAGTAGCCTGCACCTAGTACT--ACACATGACC-AACCATCCGAAACACGTA
* *
9308478 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
63 GTAGCCTGCACTTAGTACTACACACGTG-GC-CAAT
* * *
9308514 TTTCGGGTACGCATAGTAGCCTGCACCTAGTACTACACATG
1 TATCCGGTACGCGTAGTAGCCTGCACCTAGTACTACACATG
9308555 CGACCTCACA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
98 34 0.29
99 46 0.39
100 7 0.06
101 31 0.26
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (96 bp):
TATCCGGTACGCGTAGTAGCCTGCACCTAGTACTACACATGACCAACCATCCGAAACACGTAGTA
GCCTGCACTTAGTACTACACACGTGGCCAAT
Found at i:9310720 original size:15 final size:15
Alignment explanation
Indices: 9310682--9310738 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
9310672 AAGAAAACCA
*
9310682 AATAAAGAAATCCAAG
1 AATAAAGAAA-CCTAG
*
9310698 -ATAGAGAAACCTAG
1 AATAAAGAAACCTAG
9310712 AATAAAGAAACCTAG
1 AATAAAGAAACCTAG
* *
9310727 AGTAAAAAAACC
1 AATAAAGAAACC
9310739 CAAGATACGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 4 0.11
15 31 0.89
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (15 bp):
AATAAAGAAACCTAG
Found at i:9310738 original size:30 final size:28
Alignment explanation
Indices: 9310675--9310738 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
9310665 AGATAACAAG
*
9310675 AAAACCAAATAAAGAAATCCAAGATAGA
1 AAAACCAAATAAAGAAATCCAAGATAAA
* *
9310703 GAAACCTAGAATAAAGAAA-CCTAGAGTAAA
1 AAAACC-A-AATAAAGAAATCCAAGA-TAAA
9310733 AAAACC
1 AAAACC
9310739 CAAGATACGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
29 6 0.21
30 18 0.62
ACGTcount: A:0.61, C:0.16, G:0.12, T:0.11
Consensus pattern (28 bp):
AAAACCAAATAAAGAAATCCAAGATAAA
Found at i:9321061 original size:14 final size:13
Alignment explanation
Indices: 9321032--9321073 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9321022 TTAAAAAAAT
9321032 AAAAATAATTAGA
1 AAAAATAATTAGA
*
9321045 AAAAATAATTTATA
1 AAAAATAA-TTAGA
*
9321059 AAAAATTATTAGA
1 AAAAATAATTAGA
9321072 AA
1 AA
9321074 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAATAATTAGA
Found at i:9329148 original size:34 final size:34
Alignment explanation
Indices: 9329074--9329154 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
9329064 TTGCAAAGTG
* *
9329074 AGGGTTCGCATAACATATAGGCTCTCATAGACCT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
* * *
9329108 AGGGTTCACATAACATGTAAGCTCACATAGACTT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
**
9329142 TTGGTTCGCATAA
1 AGGGTTCGCATAA
9329155 TACATAGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAAGCTCACATAGACCT
Found at i:9329397 original size:28 final size:28
Alignment explanation
Indices: 9329339--9329397 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
9329329 TTATGACTTA
* * ***
9329339 CATGTATTGACTCTCAAGTATTAATTTG
1 CATGTATTAACTCACAAGTATTAACCCG
*
9329367 CATGTATTAACTCACAAGTGTTAACCCG
1 CATGTATTAACTCACAAGTATTAACCCG
9329395 CAT
1 CAT
9329398 ATTTTGACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (28 bp):
CATGTATTAACTCACAAGTATTAACCCG
Found at i:9329638 original size:16 final size:15
Alignment explanation
Indices: 9329609--9329647 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
9329599 GGGTCGTAGT
*
9329609 AGGGGTTCGTATACA
1 AGGGGTTCGCATACA
9329624 AGGGGATTCGCATACA
1 AGGGG-TTCGCATACA
9329640 AGGGGTTC
1 AGGGGTTC
9329648 ACATGTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (15 bp):
AGGGGTTCGCATACA
Found at i:9332047 original size:46 final size:46
Alignment explanation
Indices: 9331980--9332158 Score: 180
Period size: 46 Copynumber: 3.9 Consensus size: 46
9331970 ATTTTTGCCC
* * * * *
9331980 AGGTTCCGAGCTCTTGCATATGTTCCGGGCTCAAGAATATAGGAAT
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * *
9332026 AGGTTCTAAGCTCCTGCATATGTTGCAGACTCAAGAATACAGGAAC
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * * * **
9332072 AAGTT-TCGAGCTCCTGCATGTGTTGCAAACTCAAAAATATAGGTTT
1 AGGTTCT-GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * * *
9332118 AGTTTCTGAGCTCTTGCATATGTTGGAGACTCGAGAATATA
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATA
9332159 TCAATATTAA
Statistics
Matches: 106, Mismatches: 25, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
45 1 0.01
46 104 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (46 bp):
AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
Found at i:9336090 original size:32 final size:32
Alignment explanation
Indices: 9336054--9336119 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9336044 TGGGCCACGT
9336054 TTTTTCCTTGATTTTGCATTTGAGAGAGCTTA
1 TTTTTCCTTGATTTTGCATTTGAGAGAGCTTA
9336086 TTTTTCCTTGATTTTGCATTTGAGAGAGCTTA
1 TTTTTCCTTGATTTTGCATTTGAGAGAGCTTA
9336118 TT
1 TT
9336120 CCAACAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (32 bp):
TTTTTCCTTGATTTTGCATTTGAGAGAGCTTA
Found at i:9338650 original size:34 final size:32
Alignment explanation
Indices: 9338612--9338725 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 32
9338602 GGTTCGCATC
9338612 TAGGGTTCACATAACATATAGGCTCGCATAGACT
1 TAGGGTTCACATAACATATAGGCTCGCA-A-ACT
** *
9338646 TAGGGTTTGCATAACATGTAGGCTCGCACAACCT
1 TAGGGTTCACATAACATATAGGCTCGCA-AA-CT
** * * *
9338680 TAGGGTTTGCATAATATATAGGCTTGCACACT
1 TAGGGTTCACATAACATATAGGCTCGCAAACT
9338712 TAGTGGTTCACATA
1 TAG-GGTTCACATA
9338726 GGTAGGGCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.07
33 10 0.15
34 53 0.78
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (32 bp):
TAGGGTTCACATAACATATAGGCTCGCAAACT
Found at i:9338922 original size:14 final size:14
Alignment explanation
Indices: 9338879--9338940 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
9338869 ATGTGATTTA
*
9338879 TGACTCGCAAGTAT
1 TGACTCGCATGTAT
* **
9338893 TGATTCGCATACAT
1 TGACTCGCATGTAT
9338907 TGACTCGCATGTAT
1 TGACTCGCATGTAT
* * *
9338921 TGACTTGCAGGTGT
1 TGACTCGCATGTAT
9338935 TGACTC
1 TGACTC
9338941 ACATATACTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (14 bp):
TGACTCGCATGTAT
Found at i:9341224 original size:21 final size:22
Alignment explanation
Indices: 9341200--9341244 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
9341190 GTATAATTTA
9341200 TATGAATGAAGTATG-AAATAT
1 TATGAATGAAGTATGAAAATAT
* * *
9341221 TATGATTGAATTGTGAAAATAT
1 TATGAATGAAGTATGAAAATAT
9341243 TA
1 TA
9341245 ATTATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (22 bp):
TATGAATGAAGTATGAAAATAT
Found at i:9358478 original size:33 final size:34
Alignment explanation
Indices: 9358416--9358482 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
9358406 TTTCATTGAG
9358416 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
*
9358450 AACAAACAATAAATGAGAA-TTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
9358483 GAATCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (34 bp):
AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
Found at i:9359832 original size:17 final size:16
Alignment explanation
Indices: 9359796--9359847 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
9359786 ATAACAATTC
*
9359796 TATATATATATATTTAT
1 TATATTTATATATTT-T
9359813 TATATTTATATATGTTT
1 TATATTTATATAT-TTT
* *
9359830 TATGTTTCTAATATTTT
1 TATATTTAT-ATATTTT
9359847 T
1 T
9359848 TATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (16 bp):
TATATTTATATATTTT
Found at i:9370574 original size:21 final size:21
Alignment explanation
Indices: 9370549--9370607 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
9370539 CCATTTATCA
9370549 TTTATTTTTATTGTTTTT-TAT
1 TTTATTTTTA-TGTTTTTATAT
*
9370570 TTTATTTTTA-GTTTTTATTT
1 TTTATTTTTATGTTTTTATAT
*
9370590 TTTATTGTTATGTTTTTA
1 TTTATTTTTATGTTTTTA
9370608 GACTTCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 11 0.32
21 17 0.50
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATGTTTTTATAT
Found at i:9372599 original size:42 final size:42
Alignment explanation
Indices: 9372539--9372646 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
9372529 ATATGTGTTA
*
9372539 TCGTGTAAGACCACGTCTGGGACAATTGCATCG-TACTTGATT
1 TCGTGTAAGACC-CGTCTGGGACAATGGCATCGATACTTGATT
* *
9372581 TCGTGTAAGACCCTGTCTGGGACAATGGTATCGATATTTGATT
1 TCGTGTAAGACCC-GTCTGGGACAATGGCATCGATACTTGATT
* * *
9372624 ACATGTAAGAACACGTCTGGGAC
1 TCGTGTAAG-ACCCGTCTGGGAC
9372647 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.51
43 24 0.42
44 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTGGGACAATGGCATCGATACTTGATT
Found at i:9372642 original size:43 final size:42
Alignment explanation
Indices: 9372542--9372646 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
9372532 TGTGTTATCG
* * * *
9372542 TGTAAGACCACGTCTGGGACAATTGCATCGTACTTGATTTCG
1 TGTAAGAACACGTCTGGGACAATGGCATCGTACTTGATTACA
* * *
9372584 TGTAAG-ACCCTGTCTGGGACAATGGTATCGATATTTGATTACA
1 TGTAAGAACAC-GTCTGGGACAATGGCATCG-TACTTGATTACA
9372627 TGTAAGAACACGTCTGGGAC
1 TGTAAGAACACGTCTGGGAC
9372647 GTTGGCATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.04
42 23 0.44
43 24 0.46
44 3 0.06
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACAATGGCATCGTACTTGATTACA
Found at i:9378756 original size:14 final size:14
Alignment explanation
Indices: 9378737--9378764 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9378727 ACTAGGAATG
9378737 CTATGACAAAGATA
1 CTATGACAAAGATA
9378751 CTATGACAAAGATA
1 CTATGACAAAGATA
9378765 GAAGGTCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
CTATGACAAAGATA
Found at i:9382802 original size:25 final size:25
Alignment explanation
Indices: 9382774--9382837 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
9382764 ACTAATATTA
9382774 GAACATAGAACTTAG-CTTAAGTTTG
1 GAACATAGAA-TTAGACTTAAGTTTG
* * **
9382799 GAACTTAGGATTAGACTTAAGTTAA
1 GAACATAGAATTAGACTTAAGTTTG
*
9382824 GAACTTAGAATTAG
1 GAACATAGAATTAG
9382838 GTTTAGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
GAACATAGAATTAGACTTAAGTTTG
Found at i:9382861 original size:31 final size:31
Alignment explanation
Indices: 9382803--9382862 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
9382793 AGTTTGGAAC
9382803 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
1 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
* * *
9382834 TTAGGTTTAGTCTTAGGATTAAG-ACTTAG
1 TTAGGATTAGACTTAAG-TTAAGAACTTAG
9382863 GACTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (31 bp):
TTAGGATTAGACTTAAGTTAAGAACTTAGAA
Found at i:9389267 original size:11 final size:11
Alignment explanation
Indices: 9389231--9389286 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
9389221 CATGGTATGT
9389231 ATGATATGCAC
1 ATGATATGCAC
* *
9389242 ATGACATG--T
1 ATGATATGCAC
9389251 ATGATATGCAC
1 ATGATATGCAC
*
9389262 ATGATATG--T
1 ATGATATGCAC
9389271 ATGATATGCAC
1 ATGATATGCAC
9389282 ATGAT
1 ATGAT
9389287 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:9389286 original size:20 final size:20
Alignment explanation
Indices: 9389220--9389286 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
9389210 ATTTTGATAA
*
9389220 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9389240 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9389260 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9389280 ACATGAT
1 ACATGAT
9389287 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9389395 original size:24 final size:24
Alignment explanation
Indices: 9389336--9389454 Score: 170
Period size: 24 Copynumber: 4.9 Consensus size: 24
9389326 GAGGAAGTGT
*
9389336 AAAGGGCTTATGCCCCAGTTATGA
1 AAAGGGCTTATGCCCCAGTTATTA
*
9389360 TAAAGGGATTATGCCCCAGTTATTA
1 -AAAGGGCTTATGCCCCAGTTATTA
9389385 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
9389409 AAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
9389432 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
9389455 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
23 19 0.22
24 38 0.44
25 30 0.34
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:9389683 original size:31 final size:31
Alignment explanation
Indices: 9389648--9389710 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
9389638 CGTTTACAGT
9389648 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9389679 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9389710 A
1 A
9389711 GTATGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9390793 original size:83 final size:83
Alignment explanation
Indices: 9390701--9390866 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
9390691 AAGCACATAA
* * * *
9390701 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGGTTATTTGCTTGCACCTTTTTAAGAA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
9390766 TCATGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
* *
9390784 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTTATGATGTACTTGCACCTTTTTAAGGA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
*
9390849 TCTTGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
9390867 GTGTTTATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (83 bp):
CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
TCATGTGCAGCCAATCTT
Found at i:9393248 original size:17 final size:17
Alignment explanation
Indices: 9393226--9393335 Score: 66
Period size: 17 Copynumber: 6.6 Consensus size: 17
9393216 TACACTTAGT
*
9393226 ATAGCTCGCAGTTCAGC
1 ATAGCTCGCAATTCAGC
*
9393243 ATAGCTCGCAATTTAGC
1 ATAGCTCGCAATTCAGC
* * **
9393260 AGAGCTCACACA-T-ATT
1 ATAGCTCGCA-ATTCAGC
*
9393276 ATAGCTCGCAATTTAGC
1 ATAGCTCGCAATTCAGC
* *
9393293 AGAGCTCGCATAAT-AGC
1 ATAGCTCGCA-ATTCAGC
* * *
9393310 ATAGTTCTCAATACA-C
1 ATAGCTCGCAATTCAGC
9393326 ATAGCTCGCA
1 ATAGCTCGCA
9393336 TATCATAGTT
Statistics
Matches: 69, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
15 1 0.01
16 20 0.29
17 45 0.65
18 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (17 bp):
ATAGCTCGCAATTCAGC
Found at i:9395285 original size:18 final size:18
Alignment explanation
Indices: 9395264--9395302 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9395254 GCATATTCAG
9395264 ATTCAGACACATAAT-CAA
1 ATTCAGACACA-AATGCAA
*
9395282 ATTCAGATACAAATGCAA
1 ATTCAGACACAAATGCAA
9395300 ATT
1 ATT
9395303 TTGATACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (18 bp):
ATTCAGACACAAATGCAA
Found at i:9401249 original size:102 final size:101
Alignment explanation
Indices: 9401130--9401318 Score: 324
Period size: 102 Copynumber: 1.9 Consensus size: 101
9401120 CCTATATATA
*
9401130 TGAAATATGCTTTGGTAATTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
* *
9401195 ATAGGGAAAAGAAAAGAAAAAAAACGATACCCATCAT
66 AT-GGAAAAAAAAAAGAAAAAAAACGATACCCATCAT
* *
9401232 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGATTTTTTGGAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
9401297 ATGGAAAAAAAAAAGAAAAAAA
66 ATGGAAAAAAAAAAGAAAAAAA
9401319 TAATAGCCGC
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 18 0.22
102 64 0.78
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (101 bp):
TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
ATGGAAAAAAAAAAGAAAAAAAACGATACCCATCAT
Found at i:9408223 original size:6 final size:6
Alignment explanation
Indices: 9408212--9408246 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9408202 CCAATATGAT
9408212 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
9408247 AAAAGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:9412595 original size:3 final size:3
Alignment explanation
Indices: 9412589--9412613 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9412579 ATAAAAAATA
9412589 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
9412614 TACCACCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9413984 original size:24 final size:24
Alignment explanation
Indices: 9413957--9414005 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9413947 CTTTTCTGAT
*
9413957 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
9413981 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
9414005 A
1 A
9414006 AGTCCAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:9417839 original size:23 final size:24
Alignment explanation
Indices: 9417797--9417843 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9417787 GCAAGAAGTT
9417797 AAAGAAAAACAGAAAGGAAAGAAA
1 AAAGAAAAACAGAAAGGAAAGAAA
**
9417821 AAAGAAAAAGGGAAA-GAAAGAAA
1 AAAGAAAAACAGAAAGGAAAGAAA
9417844 GGCGAAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.00
Consensus pattern (24 bp):
AAAGAAAAACAGAAAGGAAAGAAA
Found at i:9418771 original size:37 final size:38
Alignment explanation
Indices: 9418724--9418826 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 38
9418714 CTTCGAGTCG
* * *
9418724 ATGAGGCACTGGATGCCAATTTACTTCGG-TTTAACCA
1 ATGAGACACTGGGTGTCAATTTACTTCGGATTTAACCA
** *
9418761 ATGAGACACTGGGTGTCAATTTACTATTTCGGATTTATTCG
1 ATGAGACACTGGGTGTCAATTTAC---TTCGGATTTAACCA
9418802 ATGAGACACTGGGTGTCAATTTACT
1 ATGAGACACTGGGTGTCAATTTACT
9418827 ACTTCGAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 21 0.38
38 1 0.02
40 5 0.09
41 29 0.52
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (38 bp):
ATGAGACACTGGGTGTCAATTTACTTCGGATTTAACCA
Found at i:9418855 original size:40 final size:40
Alignment explanation
Indices: 9418745--9418856 Score: 152
Period size: 41 Copynumber: 2.8 Consensus size: 40
9418735 GATGCCAATT
* * *
9418745 TACTTCGGTTTAACCAATGAGACACTGGGTGTCAATTTAC
1 TACTTCGATTTATCCGATGAGACACTGGGTGTCAATTTAC
* *
9418785 TATTTCGGATTTATTCGATGAGACACTGGGTGTCAATTTAC
1 TACTTC-GATTTATCCGATGAGACACTGGGTGTCAATTTAC
* *
9418826 TACTTCGAATTATCCGATGAGGCACTGGGTG
1 TACTTCGATTTATCCGATGAGACACTGGGTG
9418857 CCAAACTTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 27 0.44
41 35 0.56
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (40 bp):
TACTTCGATTTATCCGATGAGACACTGGGTGTCAATTTAC
Found at i:9439722 original size:50 final size:51
Alignment explanation
Indices: 9439603--9439935 Score: 374
Period size: 50 Copynumber: 6.6 Consensus size: 51
9439593 TTTGTGAGAA
* * * * *
9439603 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGAT--TGTTAGGT
9439655 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTGTTAGGT
* * * * * * *
9439705 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CTGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTG-TTAGGT
* *
9439756 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGGA-TGATTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTG-TTAGGT
* * * *
9439806 CACGTGTGTAGCACTAAGTGTAGGCTACTACGTGTA-TCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTGTTAGGT
*
9439856 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTGTTAGGT
* * * *
9439906 CACATTTTTAGTTCTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
9439936 TGCGTGCTAG
Statistics
Matches: 243, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
50 165 0.68
51 40 0.16
52 37 0.15
53 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATTGTTAGGT
Found at i:9439883 original size:151 final size:153
Alignment explanation
Indices: 9439607--9439885 Score: 420
Period size: 151 Copynumber: 1.8 Consensus size: 153
9439597 TGAGAACACA
* * * * *
9439607 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGCACTAA
* *
9439672 GTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
9439737 CGTACCTGATAGCTTCGATCACG
131 CGTACCTGATAGCTTCGATCACG
** *
9439760 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAT-G-ATTAGGTCACGTGTGTAGCACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGCACTAA
* *
9439823 GTGTAGGCTACTACGTGTA-TCAGATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
66 GTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
9439886 CGTGTACCAG
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
150 1 0.01
151 78 0.69
152 1 0.01
153 33 0.29
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGCACTAA
GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
CGTACCTGATAGCTTCGATCACG
Found at i:9450981 original size:61 final size:58
Alignment explanation
Indices: 9450916--9451031 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
9450906 AGTAATTATC
* *
9450916 TTAATATAAAATTAAATTTAATATTTATCTTTTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATAAAATTAAATCTAATATTTATC--TT-GATAAATATTATATTAATTTAATAGAT
* * *
9450977 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATAAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
9451032 TTAACGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.44
59 2 0.04
61 26 0.52
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATAAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:9456108 original size:6 final size:6
Alignment explanation
Indices: 9456079--9456140 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
9456069 AGAGGAAAAC
* * * *
9456079 AAAATA AACATA ACAAGA AGAATA AAAATA AAAATA AAAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
*
9456128 AACATA AAAATA A
1 AAAATA AAAATA A
9456141 TCGGACTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:9459551 original size:5 final size:5
Alignment explanation
Indices: 9459541--9459565 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9459531 TTTTTCTTGC
9459541 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
9459566 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:9472408 original size:15 final size:15
Alignment explanation
Indices: 9472373--9472419 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
9472363 AGGAAAAAGA
9472373 AAAGAAAGGAAAGGG
1 AAAGAAAGGAAAGGG
**
9472388 -AAGAAAGGAGGGGG
1 AAAGAAAGGAAAGGG
*
9472402 AAAGAAA-GAAAGAG
1 AAAGAAAGGAAAGGG
9472416 AAAG
1 AAAG
9472420 GTGGAGATAG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
AAAGAAAGGAAAGGG
Found at i:9475285 original size:46 final size:47
Alignment explanation
Indices: 9475177--9475292 Score: 180
Period size: 47 Copynumber: 2.5 Consensus size: 47
9475167 TATGGAATGT
* *
9475177 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAAACGA
*
9475224 ATAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAACGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAAACGA
* *
9475270 GTAAAACCATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
9475293 TATGACATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 27 0.43
47 36 0.57
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAAACGA
Found at i:9481396 original size:10 final size:10
Alignment explanation
Indices: 9481381--9481414 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9481371 CGGGGAAAAG
*
9481381 AGAAAAGAAA
1 AGAAAAGAGA
*
9481391 AGAAAAGAGG
1 AGAAAAGAGA
9481401 AGAAAAGAGA
1 AGAAAAGAGA
9481411 AGAA
1 AGAA
9481415 GATAGGGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:9481444 original size:58 final size:58
Alignment explanation
Indices: 9481382--9481498 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
9481372 GGGGAAAAGA
*
9481382 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGAGGGCAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGAGGGAAGTACGATGAAG
*
9481440 GAAAAGAAAAGAAAATAGGAGAAAAGAGAAGAAGATAGGGGAGGGAAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGAGGGAAGTACGATGAAG
9481498 G
1 G
9481499 GCGAGGGGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.54, C:0.03, G:0.38, T:0.06
Consensus pattern (58 bp):
GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGAGGGAAGTACGATGAAG
Found at i:9481465 original size:20 final size:20
Alignment explanation
Indices: 9481440--9481478 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9481430 TACGATGAAG
9481440 GAAAAGAAAAGAAAATAGGA
1 GAAAAGAAAAGAAAATAGGA
* *
9481460 GAAAAGAGAAGAAGATAGG
1 GAAAAGAAAAGAAAATAGG
9481479 GGAGGGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (20 bp):
GAAAAGAAAAGAAAATAGGA
Found at i:9481681 original size:13 final size:13
Alignment explanation
Indices: 9481663--9481688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9481653 CGTGTTGGGC
9481663 CACACGCCCGTGT
1 CACACGCCCGTGT
9481676 CACACGCCCGTGT
1 CACACGCCCGTGT
9481689 GGCTCGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACGCCCGTGT
Found at i:9489400 original size:17 final size:17
Alignment explanation
Indices: 9489378--9489421 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
9489368 ACTGAAAATG
9489378 GGTCCACACGTTCATGT
1 GGTCCACACGTTCATGT
9489395 GGTCCACACGTTCATGT
1 GGTCCACACGTTCATGT
*
9489412 GGCCCACACG
1 GGTCCACACG
9489422 GTCTGGACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (17 bp):
GGTCCACACGTTCATGT
Found at i:9492097 original size:43 final size:42
Alignment explanation
Indices: 9492050--9492144 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
9492040 TCCCGGACGT
* * ** *
9492050 GGTCTTATATGTAATTCA-ATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTATACGAAATT-AGATA-CGATGCCAATGTCCCAAACAA
* *
9492093 GGTCTTACACGAAATTAGATACGATGCCAATGTCCCAGACAA
1 GGTCTTATACGAAATTAGATACGATGCCAATGTCCCAAACAA
9492135 GGTCTTATAC
1 GGTCTTATAC
9492145 ATAAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTATACGAAATTAGATACGATGCCAATGTCCCAAACAA
Found at i:9492283 original size:32 final size:32
Alignment explanation
Indices: 9492242--9492306 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9492232 TTTCAGATAC
9492242 TATCCTATTAACAGAATTTACTCAAAATTCAT
1 TATCCTATTAACAGAATTTACTCAAAATTCAT
9492274 TATCCTATTAACAGAATTTACTCAAAATTCAT
1 TATCCTATTAACAGAATTTACTCAAAATTCAT
9492306 T
1 T
9492307 CATCAGGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (32 bp):
TATCCTATTAACAGAATTTACTCAAAATTCAT
Found at i:9516432 original size:21 final size:21
Alignment explanation
Indices: 9516394--9516434 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9516384 ATTACTCCAA
*
9516394 AGAAGCCGATTGATTCATCAC
1 AGAAGCCGATTCATTCATCAC
9516415 AGAAGCCGGATTCA-TCATCA
1 AGAAGCC-GATTCATTCATCA
9516435 AGACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCAC
Found at i:9516500 original size:47 final size:47
Alignment explanation
Indices: 9516431--9516524 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
9516421 CGGATTCATC
9516431 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
9516478 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
9516525 TTTCTTTATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (47 bp):
ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
Found at i:9517484 original size:20 final size:19
Alignment explanation
Indices: 9517450--9517488 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9517440 ATCAGACAAG
* *
9517450 TCATAAACGATTACAGATGC
1 TCATAAACAAGTACA-ATGC
9517470 TCATAAACAAGTACAATGC
1 TCATAAACAAGTACAATGC
9517489 CGACGTCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (19 bp):
TCATAAACAAGTACAATGC
Found at i:9517613 original size:85 final size:85
Alignment explanation
Indices: 9517481--9517643 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
9517471 CATAAACAAG
* * * * * *
9517481 TACAATGCCGACGTCCCAGACGTGGTCTTATATGTAATTCAATATCGATGCCTCTATCCTAGAGA
1 TACAATGCCAACGTCCCAGACATGGTCTTATATGTAATTCAATATCGAGGCCTATATCCCAGACA
*
9517546 GGGTCTTACACGAAATCAGA
66 CGGTCTTACACGAAATCAGA
* *
9517566 TACAATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTC-A-ATCGAGGCCTATGTCCCAGA
1 TACAATGCCAACGTCCCAGACATGGTCTTATATGT-AAT-TCAATATCGAGGCCTATATCCCAGA
9517629 CACGGTCTTACACGA
64 CACGGTCTTACACGA
9517644 TGTCTCAGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 61 0.91
86 4 0.06
87 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
TACAATGCCAACGTCCCAGACATGGTCTTATATGTAATTCAATATCGAGGCCTATATCCCAGACA
CGGTCTTACACGAAATCAGA
Found at i:9521348 original size:225 final size:225
Alignment explanation
Indices: 9520957--9521408 Score: 805
Period size: 225 Copynumber: 2.0 Consensus size: 225
9520947 GGAAAAACTA
* *
9520957 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTGTTTGTAGAC
1 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
** *
9521022 ACTATTCATTGTGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCTAAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
9521087 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
9521152 GTTGTGATAATGTGACATGTAATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
*
9521182 GTTTAAGCTTTCAGCAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
1 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
* * *
9521247 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCGAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
*
9521312 AGCTTCCTTATACCCTTTGTTTAATTTCAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
*
9521377 GTTGTGATAATGTGACATGTGATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
9521407 GT
1 GT
9521409 GATAGCTCTT
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
225 216 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (225 bp):
GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
GTTGTGATAATGTGACATGTAATATATATT
Found at i:9521844 original size:13 final size:13
Alignment explanation
Indices: 9521826--9521852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9521816 ATTTGAAGTT
9521826 AGGAAAAATTTTG
1 AGGAAAAATTTTG
9521839 AGGAAAAATTTTG
1 AGGAAAAATTTTG
9521852 A
1 A
9521853 AATAGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
AGGAAAAATTTTG
Found at i:9524142 original size:7 final size:7
Alignment explanation
Indices: 9524129--9524182 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
9524119 AAGTACTCAC
9524129 CTTTGTG
1 CTTTGTG
*
9524136 TTTTGTG
1 CTTTGTG
*
9524143 TTTTGTG
1 CTTTGTG
*
9524150 TTTTGTG
1 CTTTGTG
9524157 CTTTGTG
1 CTTTGTG
9524164 CTTTGTG
1 CTTTGTG
9524171 CTTTGTG
1 CTTTGTG
9524178 CTTTG
1 CTTTG
9524183 GGCAATGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.00, C:0.09, G:0.28, T:0.63
Consensus pattern (7 bp):
CTTTGTG
Found at i:9533523 original size:29 final size:30
Alignment explanation
Indices: 9533459--9533550 Score: 100
Period size: 29 Copynumber: 3.1 Consensus size: 30
9533449 TCTGCCACGT
*
9533459 AGGCATTCCTTTTGATAGAGATA-GCGACAC
1 AGGCA-TCCTTTTGATAGAGATAGGCGACAA
* *
9533489 AGGCATCTTTTTGATAGAGATAGGC-ATAA
1 AGGCATCCTTTTGATAGAGATAGGCGACAA
* * *
9533518 ATGCATCCTTTTGAAAGAGATAGAC-ACAA
1 AGGCATCCTTTTGATAGAGATAGGCGACAA
9533547 AGGC
1 AGGC
9533551 TTTCTTATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 45 0.87
30 7 0.13
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
AGGCATCCTTTTGATAGAGATAGGCGACAA
Found at i:9550762 original size:54 final size:54
Alignment explanation
Indices: 9550680--9550785 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
9550670 AAAGCTGTTC
*
9550680 GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAAACCCCGATAAAGTTAAGGCT
1 GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAAACCCCGACAAAGTTAAGGCT
*
9550734 GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAGACCCCGACAAAGTTAAGG
1 GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAAACCCCGACAAAGTTAAGG
9550786 TTATACAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (54 bp):
GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAAACCCCGACAAAGTTAAGGCT
Found at i:9554223 original size:134 final size:133
Alignment explanation
Indices: 9554110--9554357 Score: 297
Period size: 134 Copynumber: 1.9 Consensus size: 133
9554100 GGTGAATCTT
* *
9554110 ATCTCCATGTAGCGGCA-ATGGAGCAGACTAAAAATAGTAGATCTTATCTCCCTAG-AGTTGCAG
1 ATCTCCATGAAGCGGCAGATGGAGCAGACTAAAAATAGCAGATCTTATCT-CCTAGAAGTTGCAG
* * *
9554173 TGGAGCAGATC-AAAGATAGCAAACCATATCTCTCTGAAA-TTACAGAGAGCAGGTTTAAGTTAC
65 CGGAGCAGATCGAAA-ATAGCAAACCATATCTCTCT-AAAGTTACAGAGAGCAGGATCAAG-TAC
9554236 AGGTCTC
127 AGGTCTC
* ** * * * *
9554243 ATCTCCCTGAAGTTGCAGTTGGAGCAGACTGAAGATAGCAGATCTTATCTCCTTGAAGTTGCAGC
1 ATCTCCATGAAGCGGCAGATGGAGCAGACTAAAAATAGCAGATCTTATCTCCTAGAAGTTGCAGC
* * *
9554308 GGAGCAGATCGAAAATGGCAAACCTTATCTCTCTAAAGTTGCAGAGAGCA
66 GGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAGTTACAGAGAGCA
9554358 TGTTGAAATT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
133 20 0.20
134 75 0.77
135 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (133 bp):
ATCTCCATGAAGCGGCAGATGGAGCAGACTAAAAATAGCAGATCTTATCTCCTAGAAGTTGCAGC
GGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAGTTACAGAGAGCAGGATCAAGTACAGGT
CTC
Found at i:9554313 original size:45 final size:45
Alignment explanation
Indices: 9554105--9554351 Score: 162
Period size: 45 Copynumber: 5.5 Consensus size: 45
9554095 ACGACGGTGA
* * ** * * *
9554105 ATCTTATCTCCATGTAGCGGCAATGGAGCAGACTAAAAATAGTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAG
*
9554150 ATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGA-TCAAAGATAGCAA
1 ATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACT-AAAGATAGCAG
* * * * * * ** * *
9554195 ACCATATCTCTCTGAAATTACAG-AGAGCAGGTTTAAGTTA-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAG
* * *
9554238 GTCTCATCTCCCTGAAGTTGCAGTTGGAGCAGACTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTAAAGATAGCAG
* * * * *
9554284 ATCTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAA-ATGGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAGATAGCAG
* * *
9554329 ACCTTATCTCTCTAAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAG
9554352 AGAGCATGTT
Statistics
Matches: 152, Mismatches: 42, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
43 18 0.12
44 12 0.08
45 95 0.62
46 27 0.18
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAG
Found at i:9555703 original size:3 final size:3
Alignment explanation
Indices: 9555695--9555889 Score: 101
Period size: 3 Copynumber: 65.7 Consensus size: 3
9555685 GAGTTTATGT
* * *
9555695 TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT- TCTG TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * **
9555740 TTA TTG TTA CTA TTA TTT TTA TTA GTA TTA TTA TTA TTG TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *** * *
9555788 CTA TTA TTG TTC TT- TTA TCA CTA CCG TCA TTA TTA TTA -TA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
9555834 TTA GTA TTA TTA TTG CTA TTA TTT TTA TTA TCA TTA TTT TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9555882 TTA TTA TT
1 TTA TTA TT
9555890 TTTTTAAACC
Statistics
Matches: 142, Mismatches: 44, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
2 7 0.05
3 132 0.93
4 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9556018 original size:20 final size:21
Alignment explanation
Indices: 9555981--9556022 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9555971 ATTTCCTTTG
9555981 TTATTTCATTTATTATTTTAT
1 TTATTTCATTTATTATTTTAT
*
9556002 TTATTTCGTTT-TTATTTTAT
1 TTATTTCATTTATTATTTTAT
9556022 T
1 T
9556023 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTCATTTATTATTTTAT
Found at i:9556055 original size:15 final size:14
Alignment explanation
Indices: 9556027--9556065 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
9556017 TTTATTCTTG
9556027 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
9556042 TCTTATTATATATTA
1 TCCTATTAT-TATTA
9556057 TCCTATTAT
1 TCCTATTAT
9556066 GTACATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:9559007 original size:13 final size:14
Alignment explanation
Indices: 9558983--9559011 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9558973 AATTATAAAA
9558983 AATATGTAATATAT
1 AATATGTAATATAT
9558997 AATAT-TAATATAT
1 AATATGTAATATAT
9559010 AA
1 AA
9559012 ACAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATGTAATATAT
Found at i:9559517 original size:14 final size:15
Alignment explanation
Indices: 9559483--9559518 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9559473 CTTAACAAAT
9559483 ATTTTTACAAGATTC
1 ATTTTTACAAGATTC
*
9559498 ATTTTTACAATATTC
1 ATTTTTACAAGATTC
9559513 ATTTTT
1 ATTTTT
9559519 CTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTTACAAGATTC
Done.