Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 296 of 316
Found at i:97595960 original size:22 final size:22
Alignment explanation
Indices: 97595935--97595991 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
97595925 GAACAGTACC
*
97595935 ACACGCCTATGTGGCTTATGTG
1 ACACGCCCATGTGGCTTATGTG
* *
97595957 ACACGCCCATGTGGTTTTTGTG
1 ACACGCCCATGTGGCTTATGTG
*
97595979 ACACGCCCGTGTG
1 ACACGCCCATGTG
97595992 CTTTACCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (22 bp):
ACACGCCCATGTGGCTTATGTG
Found at i:97599089 original size:13 final size:13
Alignment explanation
Indices: 97599071--97599099 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
97599061 AGTGCTTATC
97599071 CTCAAATATATAT
1 CTCAAATATATAT
97599084 CTCAAATATATAT
1 CTCAAATATATAT
97599097 CTC
1 CTC
97599100 CCTCTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (13 bp):
CTCAAATATATAT
Found at i:97603281 original size:23 final size:23
Alignment explanation
Indices: 97603255--97603306 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
97603245 AAAAGCTATC
*
97603255 TACAAAATCAAATC-TCTAATATT
1 TACAAAATCAAATCTTCTAAGA-T
97603278 TACAAAATCAAATCTTCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
97603301 TACAAA
1 TACAAA
97603307 TCCTATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (23 bp):
TACAAAATCAAATCTTCTAAGAT
Found at i:97603308 original size:17 final size:17
Alignment explanation
Indices: 97603286--97603337 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
97603276 TTTACAAAAT
97603286 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
* * *
97603303 CAAATCCTATAAGATTG
1 CAAATCTTCTAAGATTA
* *
97603320 CATATCTTCGAAGATTA
1 CAAATCTTCTAAGATTA
97603337 C
1 C
97603338 GTTTCATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:97604704 original size:19 final size:15
Alignment explanation
Indices: 97604658--97604699 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
97604648 CGATGAATTT
*
97604658 ATTGAATTTATATTG
1 ATTGAAATTATATTG
97604673 ATTGAAATTATATTG
1 ATTGAAATTATATTG
97604688 ATTG-AATTATAT
1 ATTGAAATTATAT
97604700 AATATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:97605132 original size:23 final size:22
Alignment explanation
Indices: 97605084--97605132 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
97605074 AGGCACTTTA
97605084 TGTGTCGTATTTCAAGCACCTCG
1 TGTGTCGTA-TTCAAGCACCTCG
*
97605107 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAAGCACCTCG
97605128 TGTGT
1 TGTGT
97605133 TGTTTTAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
23 9 0.36
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (22 bp):
TGTGTCGTATTCAAGCACCTCG
Found at i:97606879 original size:16 final size:17
Alignment explanation
Indices: 97606848--97606880 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97606838 TTCATAAGTA
97606848 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
97606865 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
97606881 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:97607228 original size:46 final size:46
Alignment explanation
Indices: 97607161--97607667 Score: 741
Period size: 46 Copynumber: 11.0 Consensus size: 46
97607151 TTATCTTTGA
* * * * * *
97607161 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
*
97607207 CATGTTGCCATGGTATTTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
97607253 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
97607299 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* * ***
97607345 CACGTTGCCATGGTATCTTTCAACCATGGCCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
97607391 CATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
97607437 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
** * *
97607483 CACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
97607529 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
**
97607575 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
**
97607621 CA-GATT-CCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
97607666 CA
1 CA
97607668 GAGAGCACAC
Statistics
Matches: 421, Mismatches: 38, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
45 46 0.11
46 375 0.89
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:97609506 original size:2 final size:2
Alignment explanation
Indices: 97609499--97609530 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
97609489 CTTTCCATTC
97609499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97609531 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97612476 original size:26 final size:26
Alignment explanation
Indices: 97612447--97612528 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
97612437 TGGTACAAAT
*
97612447 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97612473 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
97612499 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
97612525 TGAT
1 TGAT
97612529 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:97614175 original size:27 final size:26
Alignment explanation
Indices: 97614129--97614257 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 26
97614119 AAGCGTTCTA
*
97614129 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAA-TATCTGATCTG
*
97614156 GTGGCTCTGCTACATATATCTG-TCCTG
1 GTGGCTCTGCCACA-ATATCTGAT-CTG
*
97614183 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAA-TATCTGATCTG
97614210 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTG-ATCTG
* *
97614237 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
97614258 GTAGCCTCGC
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
26 9 0.10
27 78 0.88
28 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGATCTG
Found at i:97614239 original size:54 final size:54
Alignment explanation
Indices: 97614129--97614231 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
97614119 AAGCGTTCTA
*
97614129 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTGTCCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTG
97614183 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCTGT
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
97614232 ATCTGGTGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 8 0.17
54 40 0.83
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTG
Found at i:97619468 original size:26 final size:26
Alignment explanation
Indices: 97619439--97619546 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
97619429 TGGTACAAAT
97619439 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
97619465 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97619491 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
97619517 TGATAATGGCTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
97619543 TGAT
1 TGAT
97619547 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:97621184 original size:27 final size:27
Alignment explanation
Indices: 97621144--97621227 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
97621134 AGGAAGCGTC
97621144 CTAGTGGCTATGCCACAATTATCTGAT
1 CTAGTGGCTATGCCACAATTATCTGAT
*
97621171 CTAGTGGCTCTGCCAC-ATATATCTG-T
1 CTAGTGGCTATGCCACAAT-TATCTGAT
*
97621197 CCTGGTGGCTATGCCACAATTATCTGTAT
1 -CTAGTGGCTATGCCACAATTATCTG-AT
97621226 CT
1 CT
97621228 GGTGACTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.06
27 41 0.84
28 4 0.08
29 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
CTAGTGGCTATGCCACAATTATCTGAT
Found at i:97633336 original size:12 final size:13
Alignment explanation
Indices: 97633319--97633350 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
97633309 CATACATTAC
97633319 AAAAAAATA-AGA
1 AAAAAAATACAGA
97633331 AAAAAAA-ACAGA
1 AAAAAAATACAGA
97633343 AAAAAAAT
1 AAAAAAAT
97633351 TAGAGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 17 0.94
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAATACAGA
Found at i:97633963 original size:26 final size:29
Alignment explanation
Indices: 97633907--97633964 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
97633897 TTTTTAGACT
** *
97633907 TTTTTTTTAAGAAAATTGATGGATTTTAA
1 TTTTTTTTAAGAAAATTGAAAGATTTAAA
97633936 TTTTTTTTAA-AAAATT-AAAGA-TTAAA
1 TTTTTTTTAAGAAAATTGAAAGATTTAAA
97633962 TTT
1 TTT
97633965 AGCTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 3 0.12
28 6 0.23
29 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTTTTTAAGAAAATTGAAAGATTTAAA
Found at i:97644628 original size:17 final size:18
Alignment explanation
Indices: 97644608--97644648 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
97644598 AAGATTAAGC
*
97644608 TCAAAAAA-TAGGCTTAT
1 TCAAAAAATTAGGCCTAT
97644625 TCAAAAAATTAGGCCTAT
1 TCAAAAAATTAGGCCTAT
*
97644643 TTAAAA
1 TCAAAA
97644649 TATGGGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (18 bp):
TCAAAAAATTAGGCCTAT
Found at i:97650067 original size:12 final size:12
Alignment explanation
Indices: 97650027--97650060 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
97650017 CAAAACCCAA
*
97650027 TTTTTCCTT-TC
1 TTTTTCTTTCTC
97650038 TTTTTCTTTCTC
1 TTTTTCTTTCTC
97650050 TTTTTCTTTCT
1 TTTTTCTTTCT
97650061 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:97650095 original size:25 final size:25
Alignment explanation
Indices: 97650067--97650118 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
97650057 TTCTTTCTTT
*
97650067 CCCTCCTTTGTTTCGTCCCTTTCTC
1 CCCTCCTCTGTTTCGTCCCTTTCTC
97650092 CCCTCCTCTGTTTCGTCCCTTTCTC
1 CCCTCCTCTGTTTCGTCCCTTTCTC
97650117 CC
1 CC
97650119 TTCTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.00, C:0.48, G:0.08, T:0.44
Consensus pattern (25 bp):
CCCTCCTCTGTTTCGTCCCTTTCTC
Found at i:97652587 original size:194 final size:194
Alignment explanation
Indices: 97652260--97652840 Score: 1130
Period size: 194 Copynumber: 3.0 Consensus size: 194
97652250 CCGTTCAGTT
97652260 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTA--TGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
*
97652323 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCCATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
97652388 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
97652452 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
97652517 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
97652582 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
*
97652646 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAATGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
97652711 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
97652776 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
97652840 A
1 A
97652841 GGAAACAAGG
Statistics
Matches: 385, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
192 50 0.13
194 335 0.87
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (194 bp):
ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
Found at i:97657302 original size:30 final size:30
Alignment explanation
Indices: 97657266--97657326 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
97657256 TCTTTCATCA
97657266 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
97657296 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
97657326 T
1 T
97657327 CTTGAACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (30 bp):
TGTAATCAATTTAAACATGTTTTGTTTTGT
Found at i:97661275 original size:20 final size:20
Alignment explanation
Indices: 97661239--97661276 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97661229 GAAACCAAGA
*
97661239 AAGAAACTACAAATTGAACC
1 AAGAAACTAAAAATTGAACC
97661259 AAGAAAC-AAAAAGTTGAA
1 AAGAAACTAAAAA-TTGAA
97661277 TATAGACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (20 bp):
AAGAAACTAAAAATTGAACC
Found at i:97664918 original size:13 final size:13
Alignment explanation
Indices: 97664881--97664919 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
97664871 AAGCACAACT
97664881 TGAGTTTTGAA-A
1 TGAGTTTTGAATA
*
97664893 TGAGTTTTAAATA
1 TGAGTTTTGAATA
*
97664906 TGAGATTTGAATA
1 TGAGTTTTGAATA
97664919 T
1 T
97664920 TTGATCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (13 bp):
TGAGTTTTGAATA
Found at i:97682707 original size:24 final size:24
Alignment explanation
Indices: 97682676--97682753 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
97682666 AATAGTAACA
97682676 TCCCAACGGTCAAATTTCAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
* * * *
97682700 TCCTAACGATCAATTTTTAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
* ***
97682724 GCCCATTAGTCAAATTTCAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
97682748 TCCCAA
1 TCCCAA
97682754 TGGCTAGTTT
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (24 bp):
TCCCAACGGTCAAATTTCAAATCC
Found at i:97688325 original size:33 final size:34
Alignment explanation
Indices: 97688281--97688346 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
97688271 TATAGTGTAC
97688281 TTTTCCTTTTCA-AGTGGCATACAAAAAGTATACA
1 TTTTCCTTTTCATA-TGGCATACAAAAAGTATACA
* *
97688315 TTTT-CTTTTCATATGGTATACACAAAGTATAC
1 TTTTCCTTTTCATATGGCATACAAAAAGTATAC
97688347 CTAACTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTTCCTTTTCATATGGCATACAAAAAGTATACA
Found at i:97689061 original size:21 final size:22
Alignment explanation
Indices: 97689015--97689057 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
97689005 TGTAAAAGTG
*
97689015 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
97689037 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
97689057 A
1 A
97689058 ATTTATAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:97689439 original size:16 final size:17
Alignment explanation
Indices: 97689418--97689449 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
97689408 ACTTCTCACT
97689418 TTTAATCC-TATAACTA
1 TTTAATCCTTATAACTA
97689434 TTTAATCCTTATAACT
1 TTTAATCCTTATAACT
97689450 TCTAGGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATCCTTATAACTA
Found at i:97690412 original size:64 final size:64
Alignment explanation
Indices: 97690342--97690477 Score: 272
Period size: 64 Copynumber: 2.1 Consensus size: 64
97690332 AAAAATTTGA
97690342 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
1 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
97690406 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
1 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
97690470 AGGACCAA
1 AGGACCAA
97690478 ATTGAATAGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (64 bp):
AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
Found at i:97690677 original size:18 final size:20
Alignment explanation
Indices: 97690635--97690671 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97690625 ATATTTTATG
*
97690635 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
97690654 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
97690672 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:97692896 original size:46 final size:46
Alignment explanation
Indices: 97692829--97693102 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
97692819 AGTGTGCTCT
* *
97692829 CTGATATGAAATGTGTAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
97692875 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
97692921 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
97692967 ATGACGA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGA-TATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
97693013 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
97693059 ATGACA-GAAAATGAGTAACACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
97693103 TCATGTCAAA
Statistics
Matches: 204, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 201 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:97692986 original size:92 final size:91
Alignment explanation
Indices: 97692829--97693102 Score: 386
Period size: 92 Copynumber: 3.0 Consensus size: 91
97692819 AGTGTGCTCT
* * * *
97692829 CTGATATGAAATGTGTAAGACCATGGCTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAGTAAG
97692894 ACCATGGTTGAAAGATACCATGGCAGC
65 ACCATGGTTGAAAGATACCATGGCAGC
* * *
97692921 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAGTAAG
97692986 ACCATGGTTGAAAGATACCATGGCAGC
65 ACCATGGTTGAAAGATACCATGGCAGC
* * ** *
97693013 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAGTAAG
* * *
97693078 ACCATAGTTGAAAGACACTATGGCA
65 ACCATGGTTGAAAGATACCATGGCA
97693103 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
91 2 0.01
92 159 0.98
93 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (91 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAGC
Found at i:97693088 original size:138 final size:137
Alignment explanation
Indices: 97692844--97693125 Score: 370
Period size: 138 Copynumber: 2.1 Consensus size: 137
97692834 ATGAAATGTG
* **
97692844 TAAGACCATGGCTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGCTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * * *
97692909 TACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
66 TACCATGGCAACATGACATGAAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATGAC-A
97692974 GAA-ATAAA
130 -AAGATAAA
* * *
97692982 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGCTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
97693047 TACCATGGCAACATGACA-GAAAATGAGTAACACCATAGTTGAAAGACACTATGGCATCATGTCA
66 TACCATGGCAACATGACATG-AAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATGACA
97693111 AAGATAAA
130 AAGATAAA
97693119 TAAGACC
1 TAAGACC
97693126 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.02
137 14 0.11
138 109 0.87
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGCTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATGACAA
AGATAAA
Found at i:97698359 original size:30 final size:30
Alignment explanation
Indices: 97698323--97698379 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
97698313 TGGCTTGGGA
97698323 CATGGCCGTGTGGCCAGCCCGTGGGGATCC
1 CATGGCCGTGTGGCCAGCCCGTGGGGATCC
97698353 CATGGCCGTGTGGCCAGCCCGTGGGGA
1 CATGGCCGTGTGGCCAGCCCGTGGGGA
97698380 ATTCTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.11, C:0.32, G:0.42, T:0.16
Consensus pattern (30 bp):
CATGGCCGTGTGGCCAGCCCGTGGGGATCC
Found at i:97699479 original size:32 final size:32
Alignment explanation
Indices: 97699391--97699569 Score: 117
Period size: 33 Copynumber: 5.4 Consensus size: 32
97699381 TGCACATTCT
* *
97699391 CTTTTCAAGTGGTACACACGA-AGTGTACATACC
1 CTTTTCAAAT-GTACACAC-ATAGTGTACATAAC
* *
97699424 CTTTTCAATTTGTACACACATAGTGCACATAAC
1 CTTTTCAA-ATGTACACACATAGTGTACATAAC
* * **
97699457 CTTTTCAAATGTACACATATAGTGTACTTTTC
1 CTTTTCAAATGTACACACATAGTGTACATAAC
* * * * **
97699489 CTTTTCAAATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
* * * * *
97699522 CTTTTCATATGGTATACACAAAGTATACCTAAC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
*
97699555 ATTTTCAAATTGTAC
1 CTTTTCAAA-TGTAC
97699570 CATTTGGGTC
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
32 29 0.24
33 91 0.75
34 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (32 bp):
CTTTTCAAATGTACACACATAGTGTACATAAC
Found at i:97699527 original size:33 final size:33
Alignment explanation
Indices: 97699456--97699551 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
97699446 GTGCACATAA
* * * * *
97699456 CCTTTTCAAAT-GTACACATATAGTGTACTTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
97699488 CCTTTTCAAATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
*
97699521 CCTTTTCATATGGTATACACAAAGTATACCT
1 CCTTTTCAAATGGTATACACAAAGTATACCT
97699552 AACATTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 11 0.19
33 46 0.81
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTTT
Found at i:97700293 original size:21 final size:22
Alignment explanation
Indices: 97700247--97700289 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
97700237 TGTAAAAGTG
*
97700247 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
97700269 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
97700289 A
1 A
97700290 ATTTACAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:97710896 original size:20 final size:20
Alignment explanation
Indices: 97710871--97710910 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
97710861 TTTGTTATTT
*
97710871 TTTTATTGGAAAGAGATAAA
1 TTTTATTAGAAAGAGATAAA
97710891 TTTTATTAGAAAGAGATAAA
1 TTTTATTAGAAAGAGATAAA
97710911 GATAACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (20 bp):
TTTTATTAGAAAGAGATAAA
Found at i:97711474 original size:17 final size:16
Alignment explanation
Indices: 97711445--97711493 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
97711435 GAGTAAAAAT
97711445 ATAGTTTTATATTTTA
1 ATAGTTTTATATTTTA
*
97711461 ATAGTTTATATATTTTT
1 ATAGTTT-TATATTTTA
*
97711478 ATATTTTTATAATTTT
1 ATAGTTTTAT-ATTTT
97711494 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATAGTTTTATATTTTA
Found at i:97711480 original size:8 final size:8
Alignment explanation
Indices: 97711444--97711495 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
97711434 AGAGTAAAAA
*
97711444 TATAGTTT
1 TATATTTT
97711452 TATATTTT
1 TATATTTT
* *
97711460 AATAGTTTA
1 TATA-TTTT
97711469 TATATTTT
1 TATATTTT
97711477 TATATTTT
1 TATATTTT
97711485 TATAATTTT
1 TAT-ATTTT
97711494 TA
1 TA
97711496 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TATATTTT
Found at i:97711528 original size:31 final size:31
Alignment explanation
Indices: 97711480--97711551 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
97711470 ATATTTTTAT
*
97711480 ATTTTTA-TAATTTTTAAAAAATTAAAT-TAA
1 ATTTTTATTATTTTTTAAAAAATTAAATAT-A
97711510 ATTTTTATTATTTTTTAAAAAATTAAATATA
1 ATTTTTATTATTTTTTAAAAAATTAAATATA
97711541 A-TTTTATTATT
1 ATTTTTATTATT
97711552 AATAATTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 17 0.44
31 21 0.54
32 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTTTATTATTTTTTAAAAAATTAAATATA
Found at i:97724575 original size:13 final size:13
Alignment explanation
Indices: 97724553--97724594 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
97724543 TATTATTGAA
97724553 TTTTTATTTTG-T
1 TTTTTATTTTGCT
*
97724565 TATTTTGTTTTGCT
1 T-TTTTATTTTGCT
*
97724579 TTTTTATTTTGGT
1 TTTTTATTTTGCT
97724592 TTT
1 TTT
97724595 GGTATGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTGCT
Found at i:97724585 original size:18 final size:20
Alignment explanation
Indices: 97724559--97724595 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
97724549 TGAATTTTTA
97724559 TTTTGTTATTTT-GTTTTGC
1 TTTTGTTATTTTGGTTTTGC
97724578 TTTT-TTATTTTGGTTTTG
1 TTTTGTTATTTTGGTTTTG
97724596 GTATGGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.03, G:0.16, T:0.76
Consensus pattern (20 bp):
TTTTGTTATTTTGGTTTTGC
Found at i:97740075 original size:43 final size:43
Alignment explanation
Indices: 97740028--97740122 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
97740018 TCCTTCACAG
* ** *
97740028 GGTCTTACACAAAATCATAATATGATGTCAATGTCCCAAACAT
1 GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
** * *
97740071 GGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
97740114 GGTCTTACA
1 GGTCTTACA
97740123 TGTAATCACA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
Found at i:97744548 original size:26 final size:26
Alignment explanation
Indices: 97744512--97744564 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
97744502 GAATTTCACA
*
97744512 TAGTTTAAGTTAATTACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
*
97744538 TAGTTTGAGTTAATAACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
97744564 T
1 T
97744565 CCTAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (26 bp):
TAGTTTAAGTTAATAACACCAGGCAT
Found at i:97744907 original size:30 final size:30
Alignment explanation
Indices: 97744852--97744931 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
97744842 ATTTTTAGTT
*
97744852 TTTACTTTTAAAAGTTATGTGACAATGTTTTAC
1 TTTA-TTTTAAAA-TT-TTTGACAATGTTTTAC
97744885 TTTATTTTAAAATTTTTGACAATGTTTTAC
1 TTTATTTTAAAATTTTTGACAATGTTTTAC
97744915 TTTATTTTAAAATTTTT
1 TTTATTTTAAAATTTTT
97744932 ATCTTAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 32 0.70
31 2 0.04
32 8 0.17
33 4 0.09
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTATTTTAAAATTTTTGACAATGTTTTAC
Found at i:97745356 original size:15 final size:16
Alignment explanation
Indices: 97745325--97745360 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
97745315 TTAAATTATA
97745325 TATTAAATAATTATTT
1 TATTAAATAATTATTT
*
97745341 TATTAAATGATT-TTT
1 TATTAAATAATTATTT
97745356 TATTA
1 TATTA
97745361 TTCATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTAAATAATTATTT
Found at i:97749219 original size:16 final size:16
Alignment explanation
Indices: 97749170--97749230 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
97749160 TATAACCTTT
97749170 TTTTATAATATATAAA
1 TTTTATAATATATAAA
*
97749186 TTAGGTTAGAAATAATATAAA
1 TT---TTA-TAAT-ATATAAA
* *
97749207 TTTTATAATATATTAC
1 TTTTATAATATATAAA
97749223 TTTTATAA
1 TTTTATAA
97749231 AGGGTACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 15 0.42
17 3 0.08
18 3 0.08
19 3 0.08
20 3 0.08
21 9 0.25
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
TTTTATAATATATAAA
Found at i:97749659 original size:32 final size:30
Alignment explanation
Indices: 97749602--97749660 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
97749592 TGTTTATAAT
*
97749602 ATAATTTTTATAACTTAAACTTGTATAAAA
1 ATAATTTTTATAACTTAAACATGTATAAAA
* *
97749632 ATAATTTTTTTAAAGTTAAATCATGTATA
1 ATAATTTTTAT-AACTTAAA-CATGTATA
97749661 TGTGTTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.42
31 7 0.29
32 7 0.29
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
ATAATTTTTATAACTTAAACATGTATAAAA
Found at i:97751630 original size:24 final size:24
Alignment explanation
Indices: 97751586--97751631 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
97751576 TTCAATTGCT
* *
97751586 TTTAGTTTAACTAATTTATTTTAA
1 TTTAATTTAACTAATTGATTTTAA
97751610 TTTAATTTAACATAA-TGATTTT
1 TTTAATTTAAC-TAATTGATTTT
97751632 TCCGGAGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATTTAACTAATTGATTTTAA
Found at i:97754941 original size:18 final size:18
Alignment explanation
Indices: 97754914--97755006 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
97754904 TACGACTGTT
97754914 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
97754932 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
97754950 TAAGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
97754968 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
97754986 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
97755004 TAC
1 TAC
97755007 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:97760541 original size:30 final size:30
Alignment explanation
Indices: 97760505--97760573 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
97760495 CTAGCCTTTG
*
97760505 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
97760535 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
97760565 CCACCACCA
1 CCACCACCA
97760574 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:97761088 original size:24 final size:24
Alignment explanation
Indices: 97761040--97761169 Score: 88
Period size: 23 Copynumber: 5.5 Consensus size: 24
97761030 CTTTTTTTGT
*
97761040 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATTTCTTAATAATA
*
97761063 TATTATGTATATATTCTT-TTAATA
1 TATTATGTATAT-TTCTTAATAATA
* * **
97761087 TATTAGGTATA-TTCTAAATTCTA
1 TATTATGTATATTTCTTAATAATA
* * * *
97761110 TATTACGTATATATATT-ATACTA
1 TATTATGTATATTTCTTAATAATA
* * *
97761133 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATTTC-TTAATAATA
*
97761158 TATTATTTATAT
1 TATTATGTATAT
97761170 ATATATATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.05
23 36 0.43
24 23 0.27
25 21 0.25
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATGTATATTTCTTAATAATA
Found at i:97761145 original size:25 final size:26
Alignment explanation
Indices: 97761054--97761175 Score: 82
Period size: 25 Copynumber: 5.0 Consensus size: 26
97761044 ATTATATTTC
* *
97761054 TTAATATTATATTATGTATATAT-TC
1 TTAATACTATATTATGTATATATATA
* * * *
97761079 TT-TTAATATATTAGGTATAT-TCTA
1 TTAATACTATATTATGTATATATATA
* *
97761103 --AATTCTATATTACG--TATATATA
1 TTAATACTATATTATGTATATATATA
* *
97761125 TT-ATACTATTTTATGTATATATCT-
1 TTAATACTATATTATGTATATATATA
*
97761149 TTAATACTATATTATTTATATATATA
1 TTAATACTATATTATGTATATATATA
97761175 T
1 T
97761176 ATTTTCTACA
Statistics
Matches: 72, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 20 0.28
24 18 0.25
25 27 0.38
26 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAATACTATATTATGTATATATATA
Found at i:97761167 original size:29 final size:28
Alignment explanation
Indices: 97761134--97761244 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
97761124 ATTATACTAT
97761134 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
97761163 TTTATATATATATATTTTCTAC-ATGTTA
1 TTTATGTATATAT-TTTAATACTATATTA
97761191 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* * *
97761218 TGTATGTAT-T-TTTTTACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
97761244 T
1 T
97761245 GTACATATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
24 5 0.08
25 1 0.02
26 15 0.23
27 6 0.09
28 10 0.15
29 29 0.44
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:97761218 original size:22 final size:22
Alignment explanation
Indices: 97761188--97761229 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
97761178 TTTCTACATG
*
97761188 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
97761210 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
97761230 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:97761274 original size:25 final size:26
Alignment explanation
Indices: 97761224--97761277 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
97761214 ATTATGTATG
*
97761224 TATTTTTTTACACTATATTATGTACA
1 TATTTTTTTACACTATATTATATACA
*
97761250 TATTTTTTTATATCTAT-TT-TATACA
1 TATTTTTTTACA-CTATATTATATACA
97761275 TAT
1 TAT
97761278 GTATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 13 0.52
27 4 0.16
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (26 bp):
TATTTTTTTACACTATATTATATACA
Found at i:97762309 original size:20 final size:21
Alignment explanation
Indices: 97762277--97762321 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
97762267 ATTTTAATTT
*
97762277 AATTTTTTATAAT-AT-ATAA
1 AATTTTTAATAATAATGATAA
97762296 AATTTTTAATTAATAATGATAA
1 AATTTTTAA-TAATAATGATAA
97762318 AATT
1 AATT
97762322 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 2 0.09
22 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTTTTAATAATAATGATAA
Found at i:97764563 original size:16 final size:17
Alignment explanation
Indices: 97764534--97764567 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
97764524 ATCACAATAA
97764534 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
*
97764551 AATAAACTT-TAATATT
1 AATAAAATTCTAATATT
97764567 A
1 A
97764568 CGATATTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:97765991 original size:24 final size:27
Alignment explanation
Indices: 97765960--97766018 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
97765950 TAAAGTAAAG
97765960 TAAAT-AAATA-AAATAATAA-TATTT
1 TAAATAAAATATAAATAATAAGTATTT
97765984 TAAATAAAATATTAAATAATAAGTA-TT
1 TAAATAAAATA-TAAATAATAAGTATTT
97766011 T-AATAAAA
1 TAAATAAAA
97766019 ATATTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.16
25 5 0.16
26 7 0.23
27 12 0.39
28 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATAAAATATAAATAATAAGTATTT
Found at i:97766010 original size:14 final size:13
Alignment explanation
Indices: 97765970--97766023 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
97765960 TAAATAAATA
97765970 AAATAATAATATTTT
1 AAATAATAATA--TT
97765985 AAATAA-AATATT
1 AAATAATAATATT
97765997 AAATAATAAGTATT
1 AAATAATAA-TATT
* *
97766011 TAATAAAAATATT
1 AAATAATAATATT
97766024 GTTTAAAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.23
13 6 0.17
14 15 0.43
15 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AAATAATAATATT
Found at i:97766012 original size:27 final size:27
Alignment explanation
Indices: 97765970--97766023 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
97765960 TAAATAAATA
97765970 AAATAATAATATTTTAA-ATAAAATATT
1 AAATAATAATATTTTAATA-AAAATATT
97765997 AAATAATAAGTA-TTTAATAAAAATATT
1 AAATAATAA-TATTTTAATAAAAATATT
97766024 GTTTAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATAATAATATTTTAATAAAAATATT
Found at i:97768945 original size:42 final size:42
Alignment explanation
Indices: 97768886--97768969 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
97768876 TTCTTGCCTT
97768886 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
1 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
97768928 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
1 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
97768970 AAACTTTCAA
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:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (42 bp):
TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
Found at i:97779114 original size:20 final size:20
Alignment explanation
Indices: 97779091--97779133 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
97779081 AACTATTTAA
** *
97779091 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
97779111 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
97779131 ATA
1 ATA
97779134 TGTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:97782331 original size:19 final size:20
Alignment explanation
Indices: 97782290--97782331 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
97782280 AAATTTTTTA
* *
97782290 ATATTAGAATTGATATGTGC
1 ATATTAGAATTGAAATGTAC
*
97782310 ATATTAGTA-TGAAATGTAC
1 ATATTAGAATTGAAATGTAC
97782329 ATA
1 ATA
97782332 GATTGCCGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATTAGAATTGAAATGTAC
Found at i:97791196 original size:29 final size:29
Alignment explanation
Indices: 97791163--97791232 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
97791153 TAAAAAAAAT
97791163 TAATTACAAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
*
97791192 TAATTACGAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
97791221 TAATTACAAAAA
1 TAATTACAAAAA
97791233 GAGGCATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.21
Consensus pattern (29 bp):
TAATTACAAAAAAGGTATAGAAAATAGAA
Found at i:97798366 original size:23 final size:23
Alignment explanation
Indices: 97798316--97798366 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
97798306 TATTTATATT
* * *
97798316 ATTTTGTCTGTCTATTGACACGG
1 ATTTTGTCTGCCCATTGACACAG
* *
97798339 GTTTTGTCTGCCCATTGATACAG
1 ATTTTGTCTGCCCATTGACACAG
97798362 ATTTT
1 ATTTT
97798367 TCCTTTTCTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (23 bp):
ATTTTGTCTGCCCATTGACACAG
Found at i:97801478 original size:43 final size:43
Alignment explanation
Indices: 97801430--97801517 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
97801420 TGTAAAAAAC
* *
97801430 ATATGAAACAATATACTCAAAATACAAATAACCTTGTTTAGCA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
97801473 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
97801516 AT
1 AT
97801518 CATTGTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (43 bp):
ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
Found at i:97803631 original size:10 final size:9
Alignment explanation
Indices: 97803630--97803669 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
97803620 TTTTGGTTTA
*
97803630 TTTTTTTGT
1 TTTTTTTGG
**
97803639 TTTTTTTTA
1 TTTTTTTGG
97803648 TTTTTTTGG
1 TTTTTTTGG
97803657 TTTTTTTGG
1 TTTTTTTGG
97803666 TTTT
1 TTTT
97803670 CTAACATGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:97803641 original size:18 final size:18
Alignment explanation
Indices: 97803607--97803660 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
97803597 CTAATGGACT
*
97803607 TTTATTGTTTTTATTTTGG
1 TTTATT-TTTTTGTTTTGG
**
97803626 TTTATTTTTTTGTTTTTT
1 TTTATTTTTTTGTTTTGG
97803644 TTTATTTTTTTGGTTTT
1 TTTATTTTTTT-GTTTT
97803661 TTTGGTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (18 bp):
TTTATTTTTTTGTTTTGG
Found at i:97803661 original size:18 final size:18
Alignment explanation
Indices: 97803626--97803663 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
97803616 TTTATTTTGG
*
97803626 TTTATTTTTTTGTTTTTT
1 TTTATTTTTTTGGTTTTT
97803644 TTTATTTTTTTGGTTTTT
1 TTTATTTTTTTGGTTTTT
97803662 TT
1 TT
97803664 GGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTATTTTTTTGGTTTTT
Found at i:97805805 original size:35 final size:35
Alignment explanation
Indices: 97805766--97805896 Score: 118
Period size: 35 Copynumber: 3.6 Consensus size: 35
97805756 CATGGCAAAG
*
97805766 TGTGAAATGTAGGTATCGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
97805801 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
97805841 TAAGAAATGTAGGTATGGCATTGCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
97805876 TGTAAAATGTAGGTATAGTAT
1 TGTGAAATGTAGGTATGGTAT
97805897 TTCAATGAGG
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
35 42 0.55
37 2 0.03
38 4 0.05
40 28 0.37
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:97807513 original size:40 final size:40
Alignment explanation
Indices: 97807452--97807548 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
97807442 TTTCTCAACC
97807452 TCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
** *
97807491 TTCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAA
1 -TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
*
97807532 ACGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
97807549 AACATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
Found at i:97808019 original size:29 final size:29
Alignment explanation
Indices: 97807955--97808020 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
97807945 CTTTGATTTA
* *
97807955 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
97807984 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
97808012 TTTACTCAA
1 TTT-CTCAA
97808021 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:97818268 original size:42 final size:42
Alignment explanation
Indices: 97818219--97818333 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
97818209 CTTCATTTTC
** * *
97818219 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTTACATA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAT-ATT-CATATA
* *
97818262 T-GATGCCATAGCCCGGCTATGGTCTTCCACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
97818303 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
97818334 GAATCACATA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 53 0.85
43 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:97818440 original size:31 final size:31
Alignment explanation
Indices: 97818413--97818553 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
97818403 TTGTAGCCAA
*
97818413 AGCTACCACTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
97818444 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* * *
97818475 AGCTACCATTTTTCACTGATTAGGTAGCAGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
97818506 AGCTACCACTTTTCACTGATCAGGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
97818537 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
97818554 TGTCATTTGT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:97818635 original size:50 final size:51
Alignment explanation
Indices: 97818529--97818657 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
97818519 CACTGATCAG
* * *
97818529 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
97818580 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
97818630 GTAGCCTAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
97818658 TGTCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:97827166 original size:54 final size:54
Alignment explanation
Indices: 97827082--97827191 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
97827072 AAAAAAAGTC
97827082 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
*
97827136 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATGCGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
97827190 AA
1 AA
97827192 CTGCTGCAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (54 bp):
AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
Found at i:97830649 original size:21 final size:21
Alignment explanation
Indices: 97830624--97830668 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
97830614 AAAATCCTTC
97830624 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
97830645 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
97830666 TAA
1 TAA
97830669 CTCTATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATCATAATGAAACTTTTCT
Found at i:97831031 original size:15 final size:15
Alignment explanation
Indices: 97831011--97831039 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97831001 TGATCCTCAT
97831011 GGACCATATTCAAAA
1 GGACCATATTCAAAA
97831026 GGACCATATTCAAA
1 GGACCATATTCAAA
97831040 TACTCTTTTC
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:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (15 bp):
GGACCATATTCAAAA
Found at i:97833310 original size:25 final size:25
Alignment explanation
Indices: 97833288--97833344 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
97833278 TCCAATGTGC
*
97833288 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
*
97833313 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
97833338 AAGCTGC
1 AAGCTGC
97833345 GAGCCTGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGCAAAATGTCA
Found at i:97833618 original size:31 final size:31
Alignment explanation
Indices: 97833580--97833641 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
97833570 GTCCACTTTT
*
97833580 ATACTCCTCTGTCTACAAAGGGAAGAAAACC
1 ATACTCCTCTGTCTACAAAGGGAAAAAAACC
* *
97833611 ATACTCCTTTGTCTACAAGGGGAAAAAAACC
1 ATACTCCTCTGTCTACAAAGGGAAAAAAACC
97833642 TGGAAAGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (31 bp):
ATACTCCTCTGTCTACAAAGGGAAAAAAACC
Found at i:97834452 original size:26 final size:26
Alignment explanation
Indices: 97834423--97834500 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
97834413 TGAGCTTTCC
97834423 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTCAGCAAA
* *
97834449 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTCAGCAAA
*
97834474 AATGT-CAAAGCTGCAAGCTGAGCAAA
1 AATGTGC-AAGCTGCAAGCTCAGCAAA
97834500 A
1 A
97834501 TATCGAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 21 0.46
26 24 0.52
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTCAGCAAA
Found at i:97834484 original size:25 final size:24
Alignment explanation
Indices: 97834423--97834512 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 24
97834413 TGAGCTTTCC
97834423 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGT-CAAGCTGCAAGCTCAG-AAA
* *
97834449 AATGTGCAAGCTGCAAGCTTAGTAA
1 AATGT-CAAGCTGCAAGCTCAGAAA
* *
97834474 AATGTCAAAGCTGCAAGCTGAGCAA
1 AATGTC-AAGCTGCAAGCTCAGAAA
*
97834499 AATATCGAAGCTGC
1 AATGTC-AAGCTGC
97834513 GAGCCTGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.02
25 35 0.61
26 21 0.37
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (24 bp):
AATGTCAAGCTGCAAGCTCAGAAA
Found at i:97834534 original size:13 final size:13
Alignment explanation
Indices: 97834516--97834541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97834506 AAGCTGCGAG
97834516 CCTGTTGAAGACA
1 CCTGTTGAAGACA
97834529 CCTGTTGAAGACA
1 CCTGTTGAAGACA
97834542 GTATGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:97834790 original size:31 final size:31
Alignment explanation
Indices: 97834748--97834807 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
97834738 GTCCACTTTT
97834748 ATACTCATCTGTCTACAAGGAGAAAAAAACC
1 ATACTCATCTGTCTACAAGGAGAAAAAAACC
* *
97834779 ATACTCCTCTGTCTACAAGGGGAAAAAAA
1 ATACTCATCTGTCTACAAGGAGAAAAAAA
97834808 ACCTGGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (31 bp):
ATACTCATCTGTCTACAAGGAGAAAAAAACC
Found at i:97835622 original size:26 final size:26
Alignment explanation
Indices: 97835593--97835670 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
97835583 TGAGCTTTCC
*
97835593 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
97835619 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
97835644 AATGT-CAAAGCTGCAAGCTTAGCAAA
1 AATGTGC-AAGCTGCAAGCTTAGCAAA
97835670 A
1 A
97835671 TATCAAAGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
24 1 0.02
25 22 0.47
26 24 0.51
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTTAGCAAA
Found at i:97835654 original size:25 final size:25
Alignment explanation
Indices: 97835600--97835682 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
97835590 TCCAATGTGC
*
97835600 AAGCTGCAAGCTCAGCAAAAATGTGC-
1 AAGCTGCAAGCTTAG-AAAAATGT-CA
*
97835626 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGAAAAATGTCA
* *
97835651 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGAAAAATGTCA
97835676 AAGCTGC
1 AAGCTGC
97835683 GAGCCTGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.02
25 37 0.71
26 14 0.27
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGAAAAATGTCA
Found at i:97835956 original size:31 final size:31
Alignment explanation
Indices: 97835918--97835979 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
97835908 GTCCACTTTT
*
97835918 ATACTCCTCTGTCTACAAGGAGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
*
97835949 ATACTCCTCTATCTACAAGGGGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
97835980 TGGAAAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (31 bp):
ATACTCCTCTATCTACAAGGAGAAAAAAACC
Found at i:97839309 original size:90 final size:89
Alignment explanation
Indices: 97839139--97839318 Score: 229
Period size: 89 Copynumber: 2.0 Consensus size: 89
97839129 CTCTTTGTTT
* * * **
97839139 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTTAAAATGCATAAAAAAGGCCCTCAAACTTTTT
1 TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAACTTTTT
*
97839204 CACAAAAAGCAATTAAGCCCCTAC
66 CACAAAAAACAATTAAGCCCCTAC
** * *
97839228 TTTTTTTTCCACTCAATTGGGTACTTGAACATTCAAAATTCATAAAAAAAAACCCTCAAAAAC-T
1 TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCAT-AAAAAAAACCCTC--AAACTT
97839292 TTTCA-AAAAAACAATTAAGCCCCTAC
63 TTTCACAAAAAACAATTAAGCCCCTAC
97839318 T
1 T
97839319 CTTATTAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 36 0.46
90 32 0.41
91 6 0.08
92 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (89 bp):
TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAACTTTTT
CACAAAAAACAATTAAGCCCCTAC
Found at i:97839401 original size:10 final size:10
Alignment explanation
Indices: 97839320--97839406 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
97839310 GCCCCTACTC
97839320 TTATTAAAAA
1 TTATTAAAAA
**
97839330 TTAGAAAAAA
1 TTATTAAAAA
97839340 TTATATAAATAA
1 TTAT-TAAA-AA
* * *
97839352 TAAATAATAAG
1 TTATTAA-AAA
97839363 TT-TTAGAAAA
1 TTATTA-AAAA
**
97839373 TTTATTAAATT
1 -TTATTAAAAA
*
97839384 TTAATAAAAA
1 TTATTAAAAA
97839394 TTATTAAAAA
1 TTATTAAAAA
97839404 TTA
1 TTA
97839407 GATTGTCTCG
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
10 34 0.62
11 13 0.24
12 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:97839541 original size:17 final size:18
Alignment explanation
Indices: 97839519--97839567 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
97839509 TTTAAAACTT
*
97839519 AAATTTTGA-AAACTTAA
1 AAATTTGGAGAAACTTAA
*
97839536 AAATTTGGAGACACTTAA
1 AAATTTGGAGAAACTTAA
97839554 AAATTTGGAGAAAC
1 AAATTTGGAGAAAC
97839568 GAGTTTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (18 bp):
AAATTTGGAGAAACTTAA
Found at i:97839744 original size:24 final size:21
Alignment explanation
Indices: 97839687--97839733 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
97839677 ATCCCTTACA
97839687 TCATTACATAA-TTGAAACTT
1 TCATTACATAATTTGAAACTT
97839707 TCATTACATAATTTGAAACTT
1 TCATTACATAATTTGAAACTT
97839728 TCATTA
1 TCATTA
97839734 TTATCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (21 bp):
TCATTACATAATTTGAAACTT
Found at i:97839793 original size:9 final size:9
Alignment explanation
Indices: 97839779--97839833 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
97839769 TAATTTTTAT
97839779 ATAAAAATC
1 ATAAAAATC
*
97839788 ATAAAAA-A
1 ATAAAAATC
97839796 ATAAAAAATC
1 AT-AAAAATC
*
97839806 ATAAAAATTTT
1 ATAAAAA--TC
97839817 ATAAAAATC
1 ATAAAAATC
97839826 ATAAAAAT
1 ATAAAAAT
97839834 TAATTACCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 26 0.68
10 2 0.05
11 8 0.21
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (9 bp):
ATAAAAATC
Found at i:97839824 original size:20 final size:20
Alignment explanation
Indices: 97839775--97839835 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
97839765 TTTTTAATTT
97839775 TTATATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
*
97839795 -AATA-AAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
*
97839813 TTTTATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
97839833 TTA
1 TTA
97839836 ATTACCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 16 0.46
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TTATATAAAAATCATAAAAA
Found at i:97840069 original size:57 final size:57
Alignment explanation
Indices: 97840007--97840130 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
97839997 TCTTTACATG
* *
97840007 TATAATTTTCTTACGA-CTTTAT-AAAATTTTATAATTTTTT-TGTATTTTTAT-ATATTT
1 TATAATTTT-TTACAATCTTTATAAAAATTTTA-AATTTTTTATAT-TTTTTATGAT-TTT
* *
97840064 TATAATTTTTTACAATTTTTATAAAAATTTTACATTTTTTATATTTTTTATGATTTT
1 TATAATTTTTTACAATCTTTATAAAAATTTTAAATTTTTTATATTTTTTATGATTTT
*
97840121 TATGATTTTT
1 TATAATTTTT
97840131 ATTTTTTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.09
57 40 0.69
58 13 0.22
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (57 bp):
TATAATTTTTTACAATCTTTATAAAAATTTTAAATTTTTTATATTTTTTATGATTTT
Found at i:97840073 original size:9 final size:9
Alignment explanation
Indices: 97840033--97840162 Score: 83
Period size: 9 Copynumber: 14.6 Consensus size: 9
97840023 CTTTATAAAA
97840033 TTTTATAAT
1 TTTTATAAT
* *
97840042 TTTTTTGTAT
1 TTTTAT-AAT
97840052 TTTTAT-AT
1 TTTTATAAT
97840060 ATTTTATAATT
1 -TTTTATAA-T
*
97840071 TTTTACAAT
1 TTTTATAAT
*
97840080 TTTTATAAAAA
1 TTTTAT--AAT
* *
97840091 TTTTACATT
1 TTTTATAAT
*
97840100 TTTTATATT
1 TTTTATAAT
*
97840109 TTTTATGAT
1 TTTTATAAT
*
97840118 TTTTATGAT
1 TTTTATAAT
97840127 TTTTAT--T
1 TTTTATAAT
*
97840134 TTTTCT-AT
1 TTTTATAAT
97840142 TTTT-TAAT
1 TTTTATAAT
97840150 TTTT-TAAT
1 TTTTATAAT
97840158 TTTTA
1 TTTTA
97840163 ATTAAAATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.07
8 21 0.21
9 48 0.48
10 15 0.15
11 8 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:97840145 original size:25 final size:25
Alignment explanation
Indices: 97840100--97840162 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
97840090 ATTTTACATT
*
97840100 TTTTATATTTTTTATGA-TTTTTATGA
1 TTTT-TATTTTTTAT-ATTTTTTAAGA
* *
97840126 TTTTTATTTTTTCTATTTTTTAA-T
1 TTTTTATTTTTTATATTTTTTAAGA
*
97840150 TTTTTAATTTTTA
1 TTTTTATTTTTTA
97840163 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 12 0.39
25 15 0.48
26 4 0.13
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTTTATATTTTTTAAGA
Found at i:97840189 original size:79 final size:81
Alignment explanation
Indices: 97840044--97840199 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 81
97840034 TTTATAATTT
*
97840044 TTTTGTATTTTTATATATTTTATAATTTTTTACAATTTTTATAAAAATTTTACATTTTTTATATT
1 TTTTGTATTTTTATATATTTTATAATTTTTTA-AATTTTTATAAAAATTTAACATTTTTTATATT
97840109 TTT-TATGATTTTTATGA
65 TTTAT-TGATTTTTATGA
* * * *
97840126 TTTT-TATTTTT-TCTATTTTTTAATTTTTT-AATTTTTAATTAAAATTTAATATTTTTTATATT
1 TTTTGTATTTTTATATATTTTATAATTTTTTAAATTTTT-ATAAAAATTTAACATTTTTTATATT
97840188 TTTATTGATTTT
65 TTTATTGATTTT
97840200 ACTTTTATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
78 7 0.10
79 32 0.48
80 17 0.25
81 7 0.10
82 4 0.06
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (81 bp):
TTTTGTATTTTTATATATTTTATAATTTTTTAAATTTTTATAAAAATTTAACATTTTTTATATTT
TTATTGATTTTTATGA
Found at i:97840206 original size:23 final size:24
Alignment explanation
Indices: 97840179--97840223 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
97840169 ATTTAATATT
97840179 TTTTAT-ATTTTTATTG-ATTTTAC
1 TTTTATAATTTTT-TTGTATTTTAC
97840202 TTTTATAATTTTTTTGTATTTT
1 TTTTATAATTTTTTTGTATTTT
97840224 TATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTATAATTTTTTTGTATTTTAC
Found at i:97840238 original size:11 final size:10
Alignment explanation
Indices: 97840033--97840242 Score: 71
Period size: 9 Copynumber: 22.3 Consensus size: 10
97840023 CTTTATAAAA
97840033 TTTTATA-AT
1 TTTTATATAT
* *
97840042 TTTTTTGTAT
1 TTTTATATAT
97840052 TTTTATATA-
1 TTTTATATAT
97840061 TTTTATA-AT
1 TTTTATATAT
*
97840070 TTTT-TACAAT
1 TTTTATA-TAT
* *
97840080 TTTTATAAAAA
1 TTTTAT-ATAT
*
97840091 TTTTACAT-T
1 TTTTATATAT
97840100 TTTTATAT-T
1 TTTTATATAT
*
97840109 TTTTAT-GAT
1 TTTTATATAT
*
97840118 TTTTAT-GA-
1 TTTTATATAT
97840126 TTTT-TAT-T
1 TTTTATATAT
*
97840134 TTTTCTAT-T
1 TTTTATATAT
97840143 TTTTA-AT-T
1 TTTTATATAT
97840151 TTTTA-AT-T
1 TTTTATATAT
* * *
97840159 TTTAATTAAAA
1 TTTTA-TATAT
*
97840170 TTTAATAT-T
1 TTTTATATAT
*
97840179 TTTTATATTT
1 TTTTATATAT
* *
97840189 TTATTGATTTTAC
1 TT-TT-A-TATAT
97840202 TTTTATA-AT
1 TTTTATATAT
* *
97840211 TTTTTTGTAT
1 TTTTATATAT
97840221 TTTTATATA-
1 TTTTATATAT
97840230 TTTTATATAT
1 TTTTATATAT
97840240 TTT
1 TTT
97840243 GTGATTTTTA
Statistics
Matches: 155, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 26 0.17
9 69 0.45
10 35 0.23
11 16 0.10
12 4 0.03
13 4 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:97840323 original size:16 final size:16
Alignment explanation
Indices: 97840287--97840321 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
97840277 TTTTTTACCA
*
97840287 TTTTAATTTTTCTAAT
1 TTTTAATATTTCTAAT
97840303 TTTTAATATTT-TAAT
1 TTTTAATATTTCTAAT
97840318 TTTT
1 TTTT
97840322 TATTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATATTTCTAAT
Found at i:97845691 original size:17 final size:17
Alignment explanation
Indices: 97845661--97845694 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97845651 GAATTTGGTA
**
97845661 ATTTTTTTTTATTTAAT
1 ATTTTTTTGGATTTAAT
97845678 ATTTTTTTGGATTTAAT
1 ATTTTTTTGGATTTAAT
97845695 TTGCATCTAA
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:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTTGGATTTAAT
Found at i:97849634 original size:44 final size:45
Alignment explanation
Indices: 97849539--97849672 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
97849529 ACAGGACAGA
* *
97849539 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
97849585 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
97849629 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
97849673 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:97857031 original size:44 final size:45
Alignment explanation
Indices: 97856936--97857069 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
97856926 ACAGGACAGA
* *
97856936 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
97856982 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
97857026 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
97857070 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:97866407 original size:86 final size:87
Alignment explanation
Indices: 97866216--97866411 Score: 217
Period size: 88 Copynumber: 2.3 Consensus size: 87
97866206 ATTTTTTTTT
* * * *
97866216 AAAAAAAGCAATTAAG--TCTA--TTTTTTCACTCATTTGGATATTTGAACTTTCAAAATATATC
1 AAAAAAAGCAATTAAGCCCCTATTTTTTTTCACCCAATTGGATACTTGAACTTTCAAAATATATC
***
97866277 AAAAAAATCCTTAAACCTTGTC
66 AAAAAAATCCTTAAACCTTAAA
*
97866299 AAAAAAAGCAATTAAGCCCCTATCTTTTTTTCACCCAATTGGATACTTGAGCTTTCAAAAT-TCA
1 AAAAAAAGCAATTAAGCCCCTAT-TTTTTTTCACCCAATTGGATACTTGAACTTTCAAAATAT-A
* * *
97866363 TCAAAAAGA-CCTTCAA-TTTAAA
64 TCAAAAAAATCCTTAAACCTTAAA
*
97866385 AAAAAAAGCATTTAAGCCCCTATTTTT
1 AAAAAAAGCAATTAAGCCCCTATTTTT
97866412 ATTAAAAATA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
83 16 0.17
85 7 0.07
86 24 0.25
87 7 0.07
88 41 0.43
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTATTTTTTTTCACCCAATTGGATACTTGAACTTTCAAAATATATC
AAAAAAATCCTTAAACCTTAAA
Found at i:97866927 original size:19 final size:18
Alignment explanation
Indices: 97866879--97866930 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
97866869 TTTGAAATTT
97866879 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
*
97866897 TTTAATAATTTTT-CTAAAA
1 TTT-AT-ATTTTTATTAAAA
97866916 TTTATTATTTTTATT
1 TTTA-TATTTTTATT
97866931 TTTTCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:97867128 original size:90 final size:91
Alignment explanation
Indices: 97866962--97867143 Score: 206
Period size: 90 Copynumber: 2.0 Consensus size: 91
97866952 TTTTTATAAG
* * * *
97866962 AGCAAGGGTTTAATTGCTTTTTTGAAAAATTTTGAAGGTCTTTTTTTAATGTATTCTGAAAGTTC
1 AGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTTC
* * * *
97867027 AAGTACCCAATTGAGTGGAATAAAAA
66 AAATACCCAATTAAGTGCAAAAAAAA
* * * *
97867053 AGCAGGGGCTTAATTGCTTTTCTTGAAGAAGTTTG-AGGAC-TTTTTTGATGCATTTTGAAAGTT
1 AGCAAGGGCTTAATTGCTTTT-TTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTT
* * *
97867116 TAAATGCTCAATTAAGTGCAAAAAAAA
65 CAAATACCCAATTAAGTGCAAAAAAAA
97867143 A
1 A
97867144 AAGTAACTTA
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
90 41 0.55
91 23 0.31
92 11 0.15
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (91 bp):
AGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTTC
AAATACCCAATTAAGTGCAAAAAAAA
Found at i:97873990 original size:17 final size:16
Alignment explanation
Indices: 97873952--97873989 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
97873942 TTCTATATGG
97873952 ATTTTACATTTATTTT
1 ATTTTACATTTATTTT
97873968 ATTTTACCATTGTATTTT
1 ATTTTA-CATT-TATTTT
97873986 ATTT
1 ATTT
97873990 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTTACATTTATTTT
Found at i:97876819 original size:45 final size:45
Alignment explanation
Indices: 97876767--97876853 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
97876757 TATGTAATCT
* *
97876767 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACATCC
* *
97876812 GAACTCATTGAGTTGTAGCCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACA
97876854 CATGTTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACATCC
Found at i:97881058 original size:18 final size:18
Alignment explanation
Indices: 97881035--97881079 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
97881025 AGGAAGAGAA
97881035 AGTGATAGTTGCATCACC
1 AGTGATAGTTGCATCACC
97881053 AGTGATAGTTGCATCACC
1 AGTGATAGTTGCATCACC
*
97881071 AGTAATAGT
1 AGTGATAGT
97881080 AAAACTCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (18 bp):
AGTGATAGTTGCATCACC
Found at i:97889822 original size:20 final size:20
Alignment explanation
Indices: 97889784--97889831 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
97889774 TAAATTCTAA
**
97889784 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
97889804 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
97889824 AAA-ATAAA
1 AAAGATAAA
97889832 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:97889842 original size:19 final size:18
Alignment explanation
Indices: 97889818--97889861 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
97889808 ATAAATAGAG
97889818 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
97889838 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
97889855 ATAATTA
1 ATAATTA
97889862 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:97889877 original size:15 final size:15
Alignment explanation
Indices: 97889857--97889889 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
97889847 TAATCCTAAT
97889857 AATTATCCTAATATA
1 AATTATCCTAATATA
97889872 AATTATCCTAATATA
1 AATTATCCTAATATA
97889887 AAT
1 AAT
97889890 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:97890843 original size:18 final size:18
Alignment explanation
Indices: 97890801--97890836 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
97890791 GCAAAGGTAC
97890801 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
97890819 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
97890837 TTTATCGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (18 bp):
GTCATCGACCTTGCCTAT
Found at i:97905992 original size:16 final size:16
Alignment explanation
Indices: 97905948--97905990 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
97905938 AAAAACAACC
*
97905948 AAATTAAAGTTTAAAA
1 AAATTAAGGTTTAAAA
97905964 AAATTAAGGTTTAAAA
1 AAATTAAGGTTTAAAA
97905980 AAA-TAAGGTTT
1 AAATTAAGGTTT
97905991 TAGTCAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AAATTAAGGTTTAAAA
Found at i:97907006 original size:3 final size:3
Alignment explanation
Indices: 97906998--97907023 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
97906988 TTCACTTCCC
97906998 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
97907024 GGTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:97909604 original size:13 final size:14
Alignment explanation
Indices: 97909569--97909605 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
97909559 TATTTTTAAC
*
97909569 AAATATTT-AGATT
1 AAATATTTAATATT
97909582 AAATATTTAATATT
1 AAATATTTAATATT
97909596 AAA-ATTTAAT
1 AAATATTTAAT
97909606 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AAATATTTAATATT
Found at i:97913462 original size:4 final size:4
Alignment explanation
Indices: 97913455--97913486 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
97913445 CAGAGGGAGG
97913455 AAGA AAGA AAGA AAGA AAGA AAGAA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAG-A AAGA AAG
97913487 GAAAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:97914996 original size:20 final size:20
Alignment explanation
Indices: 97914959--97914997 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97914949 AAGTTAGTTT
* * *
97914959 AAATGATTTTATATTTTAAA
1 AAATGATTTAAAAGTTTAAA
97914979 AAATGATTTAAAAGTTTAA
1 AAATGATTTAAAAGTTTAA
97914998 GTATATTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATGATTTAAAAGTTTAAA
Found at i:97918172 original size:30 final size:30
Alignment explanation
Indices: 97918126--97918249 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
97918116 TTTTATTATG
*
97918126 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
97918157 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
97918187 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
97918217 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
97918247 CCA
1 CCA
97918250 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Done.