Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 404 of 444
Found at i:117430525 original size:11 final size:11
Alignment explanation
Indices: 117430511--117430554 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
117430501 TTTAGGTTTG
117430511 TTTTATATAAT
1 TTTTATATAAT
*
117430522 TTTT-T-TATT
1 TTTTATATAAT
117430531 TTTTATATAAT
1 TTTTATATAAT
*
117430542 TTTTTTATAAT
1 TTTTATATAAT
117430553 TT
1 TT
117430555 GTTGTGATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATATAAT
Found at i:117430536 original size:20 final size:20
Alignment explanation
Indices: 117430511--117430549 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
117430501 TTTAGGTTTG
117430511 TTTTATATAATTTTTTTATT
1 TTTTATATAATTTTTTTATT
117430531 TTTTATATAATTTTTTTAT
1 TTTTATATAATTTTTTTAT
117430550 AATTTGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATATAATTTTTTTATT
Found at i:117431437 original size:51 final size:49
Alignment explanation
Indices: 117431348--117431444 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 49
117431338 CTTAAAACAT
*
117431348 AAAAACATAAAAATTCAAAACCTTAAATACCAAAAACCCTAACAAATAAAA
1 AAAAACATAAAAATTCAAAACCTAAAATACC-AAAACCCTAA-AAATAAAA
*
117431399 AAAAACAT-AAAATCTCAAAACCTAAAAATATCC-TAACCCTAAAAAT
1 AAAAACATAAAAAT-TCAAAACCT-AAAATA-CCAAAACCCTAAAAAT
117431445 CATAATCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
50 9 0.22
51 25 0.61
52 5 0.12
53 2 0.05
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (49 bp):
AAAAACATAAAAATTCAAAACCTAAAATACCAAAACCCTAAAAATAAAA
Found at i:117433035 original size:17 final size:18
Alignment explanation
Indices: 117433005--117433038 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
117432995 AATTTGTATT
117433005 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
117433023 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
117433039 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:117433470 original size:14 final size:15
Alignment explanation
Indices: 117433446--117433476 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
117433436 GAATGGCTTC
117433446 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
117433461 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
117433475 TG
1 TG
117433477 TATCTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.03, C:0.19, G:0.10, T:0.68
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:117433518 original size:12 final size:12
Alignment explanation
Indices: 117433503--117433530 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
117433493 GTTAATAATG
117433503 ATAATAATTATA
1 ATAATAATTATA
117433515 ATAATAATTATA
1 ATAATAATTATA
117433527 ATAA
1 ATAA
117433531 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:117433808 original size:19 final size:20
Alignment explanation
Indices: 117433784--117433836 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
117433774 TAATAAATAA
*
117433784 TAAATATATATTTACTAAT-
1 TAAATATATATTTACAAATG
*
117433803 TAAATATAAATATTACAAATG
1 TAAATATATAT-TTACAAATG
*
117433824 TACATATATATTT
1 TAAATATATATTT
117433837 TTACATTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.36
20 9 0.32
21 9 0.32
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAATATATATTTACAAATG
Found at i:117433812 original size:32 final size:31
Alignment explanation
Indices: 117433750--117433814 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
117433740 ATTATTTATC
* *
117433750 TAATAAATATCTTTTACTTAGTAATAATAAA
1 TAATAAATATATTTTACTAAGTAATAATAAA
*
117433781 TAATAAATATATATTTACTAATTAA-ATATAAA
1 TAATAAATATAT-TTTACTAAGTAATA-ATAAA
117433813 TA
1 TA
117433815 TTACAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (31 bp):
TAATAAATATATTTTACTAAGTAATAATAAA
Found at i:117435758 original size:21 final size:22
Alignment explanation
Indices: 117435734--117435784 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
117435724 AGCACTATAC
117435734 AACACAAA-GTAATAATTCAT-A
1 AACACAAATGTAATAA-TCATGA
*
117435755 AACA-AAATGTTATAATCATGA
1 AACACAAATGTAATAATCATGA
*
117435776 ATCACAAAT
1 AACACAAAT
117435785 AACAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (22 bp):
AACACAAATGTAATAATCATGA
Found at i:117435827 original size:22 final size:23
Alignment explanation
Indices: 117435792--117435837 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
117435782 AATAACAAAT
117435792 AAATAAAAAGTAAAA-AAATCTA
1 AAATAAAAAGTAAAACAAATCTA
*
117435814 AAATAAAATA-TAAAACAATTCTA
1 AAATAAAA-AGTAAAACAAATCTA
117435837 A
1 A
117435838 GCAAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (23 bp):
AAATAAAAAGTAAAACAAATCTA
Found at i:117435979 original size:21 final size:23
Alignment explanation
Indices: 117435932--117435985 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
117435922 CATTCAAGAT
**
117435932 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
117435955 AAAATAATATAT-AAA-TAATTC
1 AAAATAATATATAAAACTAATTA
117435976 AAAAT-ATATA
1 AAAATAATATA
117435986 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 3 0.11
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:117436038 original size:25 final size:24
Alignment explanation
Indices: 117435933--117436118 Score: 76
Period size: 25 Copynumber: 7.6 Consensus size: 24
117435923 ATTCAAGATA
* * *
117435933 AAATAATATATAAAACTCTTTAA-
1 AAATAATATATAAAAATATTAAAT
*
117435956 AAATAATATATAAATAAT-TCAAAAT
1 AAATAATATATAAA-AATAT-TAAAT
* * * *
117435981 ATATAATGTGTAAAAAAAGTTTGAAAT
1 AAATAATATATAAAAATA--TT-AAAT
*
117436008 ACATAATATATAAAAATATTAAAGT
1 AAATAATATATAAAAATATTAAA-T
* *
117436033 AAATAATGTATAAAAAT-TTGAATT
1 AAATAATATATAAAAATATT-AAAT
**** *
117436057 AAGCGCTATATAAAAAGT-TAAAAT
1 AAATAATATATAAAAA-TATTAAAT
* * *
117436081 AGATAATA-ACAAAAATATAAAAT
1 AAATAATATATAAAAATATTAAAT
*
117436104 AAATAAATAAATAAA
1 AAAT-AATATATAAA
117436119 TAGAATATTA
Statistics
Matches: 120, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 30 0.25
24 33 0.28
25 37 0.31
27 19 0.16
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (24 bp):
AAATAATATATAAAAATATTAAAT
Found at i:117436197 original size:35 final size:34
Alignment explanation
Indices: 117436158--117436238 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
117436148 TATATAAGAA
*
117436158 AAATAATAATGAAAATAATATTAG-TATATAAAT-AT
1 AAATAATAAT-AAAATAA-A-TAGAAATATAAATAAT
* *
117436193 AAATAAAAATATAATAAATAGAAATATAAATAGAT
1 AAATAATAATAAAATAAATAGAAATATAAATA-AT
117436228 AAATAATAATA
1 AAATAATAATA
117436239 GTATTAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 3 0.08
33 9 0.23
34 6 0.15
35 21 0.54
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (34 bp):
AAATAATAATAAAATAAATAGAAATATAAATAAT
Found at i:117436211 original size:15 final size:16
Alignment explanation
Indices: 117436191--117436235 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
117436181 GTATATAAAT
117436191 ATAAATAAAAATAT-A
1 ATAAATAAAAATATAA
*
117436206 ATAAATAGAAATATAA
1 ATAAATAAAAATATAA
*
117436222 ATAGATAAATAATA
1 ATAAATAAA-AATA
117436236 ATAGTATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 8 0.32
17 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAAATAAAAATATAA
Found at i:117436211 original size:21 final size:20
Alignment explanation
Indices: 117436185--117436232 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
117436175 ATATTAGTAT
*
117436185 ATAAATATAAATAAAAATATA
1 ATAAATAGAAATAAAAATA-A
* *
117436206 ATAAATAGAAATATAAATAG
1 ATAAATAGAAATAAAAATAA
117436226 ATAAATA
1 ATAAATA
117436233 ATAATAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
ATAAATAGAAATAAAAATAA
Found at i:117436216 original size:58 final size:57
Alignment explanation
Indices: 117436154--117436298 Score: 137
Period size: 58 Copynumber: 2.6 Consensus size: 57
117436144 ACCATATATA
*
117436154 AGAAAAATAATAAT-GA-AAATAATATTAGTATATA-AATATA-AATAAAAATATAATAAAT
1 AGAAAAATAATAATAGATAAATAATAATAGTAT-TAGAATA-ACAA-AAAAA-AT-ATAAAT
* *
117436212 AGAAATAT-A-AATAGATAAATAATAATAGTATTAGAATAACAAAATAAATATAAAT
1 AGAAAAATAATAATAGATAAATAATAATAGTATTAGAATAACAAAAAAAATATAAAT
* *
117436267 AGAAACATAATAATA-AT-AGTAATAATA-TATTA
1 AGAAAAATAATAATAGATAAATAATAATAGTATTA
117436299 AATTAGTTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
54 5 0.07
55 22 0.29
56 8 0.11
57 14 0.18
58 27 0.36
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.29
Consensus pattern (57 bp):
AGAAAAATAATAATAGATAAATAATAATAGTATTAGAATAACAAAAAAAATATAAAT
Found at i:117441274 original size:2 final size:2
Alignment explanation
Indices: 117441267--117441301 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
117441257 AGATAAAAGT
117441267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117441302 GCATCTTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117444593 original size:14 final size:14
Alignment explanation
Indices: 117444570--117444603 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
117444560 TACCTTTTCG
*
117444570 CTATTATATTGTTA
1 CTATTTTATTGTTA
117444584 CTATTTTATTGTTA
1 CTATTTTATTGTTA
*
117444598 TTATTT
1 CTATTT
117444604 GGATATCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (14 bp):
CTATTTTATTGTTA
Found at i:117448226 original size:21 final size:21
Alignment explanation
Indices: 117448202--117448241 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
117448192 TTCAATATCT
* *
117448202 ATCATCAAGCTTTCAAAATTC
1 ATCAACAAGCATTCAAAATTC
*
117448223 ATCAACAATCATTCAAAAT
1 ATCAACAAGCATTCAAAAT
117448242 CTCAAGCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (21 bp):
ATCAACAAGCATTCAAAATTC
Found at i:117448725 original size:13 final size:13
Alignment explanation
Indices: 117448707--117448731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117448697 TTAAACAAGA
117448707 AAATTTTCACACG
1 AAATTTTCACACG
117448720 AAATTTTCACAC
1 AAATTTTCACAC
117448732 ATACATATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:117455002 original size:43 final size:43
Alignment explanation
Indices: 117454952--117455102 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 43
117454942 TATCCTAGAT
* *
117454952 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
117454995 AGGGTCTTACATGAAATCGA-TTAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAGAC
* * *
117455038 ATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
117455081 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
117455103 CTCGGTAACC
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.98
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:117455089 original size:86 final size:85
Alignment explanation
Indices: 117454936--117455098 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
117454926 AGCTCGTACA
* * * * *
117454936 ATGCCATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTC
1 ATGCCATATCCTAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTC
117455001 TTACATGAAATCGATTAACG
66 TTACATGAAATCGATTAACG
* * *
117455021 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGACATGG
1 ATGCC-ATATCCTAGACATGGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACAGGG
*
117455085 TCTTACATGTAATC
64 TCTTACATGAAATC
117455099 ACATCTCGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 7 0.10
86 60 0.90
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCTAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTC
TTACATGAAATCGATTAACG
Found at i:117457721 original size:31 final size:31
Alignment explanation
Indices: 117457683--117457761 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
117457673 GGACCTCAAA
*
117457683 AAGTTTAAGTACCAACTTAAGAAAAAGTGAC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGAC
* *
117457714 AAGTTTAAGTACCAAATTAATAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGAC
* *
117457745 AAGTTCAAATACCAAAT
1 AAGTTTAAGTACCAAAT
117457762 GTTATATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGAC
Found at i:117462133 original size:15 final size:15
Alignment explanation
Indices: 117462096--117462133 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
117462086 TTTCTCACTA
117462096 TTATTATTATTTTAT
1 TTATTATTATTTTAT
*
117462111 TTTTTATTA-TTTAT
1 TTATTATTATTTTAT
117462125 TTATGTATT
1 TTAT-TATT
117462134 TTATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTATTATTTTAT
Found at i:117462326 original size:15 final size:12
Alignment explanation
Indices: 117462297--117462345 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
117462287 ATTTTGTCAC
117462297 TATTA-TTATTGT
1 TATTATTTATT-T
*
117462309 TATTA-TCATTGT
1 TATTATTTATT-T
117462321 TATTATTTATTT
1 TATTATTTATTT
117462333 TATTATTTATTT
1 TATTATTTATTT
117462345 T
1 T
117462346 TTTCTTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 30 0.88
13 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:117462345 original size:12 final size:12
Alignment explanation
Indices: 117462297--117462339 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
117462287 ATTTTGTCAC
117462297 TATTATTATTGT
1 TATTATTATTGT
*
117462309 TATTATCATTGT
1 TATTATTATTGT
117462321 TATTATTTATT-T
1 TATTA-TTATTGT
117462333 TATTATT
1 TATTATT
117462340 TATTTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 22 0.79
13 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
TATTATTATTGT
Found at i:117465326 original size:33 final size:33
Alignment explanation
Indices: 117465289--117465428 Score: 147
Period size: 33 Copynumber: 4.2 Consensus size: 33
117465279 GGAGAAGATA
117465289 GAGAAGGAGAAGAAGAAGAAGGAAGAGGAGGAG
1 GAGAAGGAGAAGAAGAAGAAGGAAGAGGAGGAG
*
117465322 GAGAAGGAGAAGAAGAAGAAAGAGGAGGAGGAGGAG
1 GAGAAGGAGAAGAAGAAG--A-AGGAAGAGGAGGAG
* * * * *
117465358 GAGAAGGAGGAGGAGGAGAAAGAGGAGGAGGAG
1 GAGAAGGAGAAGAAGAAGAAGGAAGAGGAGGAG
* * *
117465391 GGGAAGGAGAAGGAGGAGGAAGGAA-AGGAGGAG
1 GAGAAGGAGAA-GAAGAAGAAGGAAGAGGAGGAG
*
117465424 AAGAA
1 GAGAA
117465429 AGAGGAGGAA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
33 51 0.58
34 8 0.09
35 1 0.01
36 28 0.32
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (33 bp):
GAGAAGGAGAAGAAGAAGAAGGAAGAGGAGGAG
Found at i:117465349 original size:3 final size:3
Alignment explanation
Indices: 117465308--117465452 Score: 96
Period size: 3 Copynumber: 48.3 Consensus size: 3
117465298 AAGAAGAAGA
* * * * * * *
117465308 AGG AAG AGG AGG AGG AGA AGG AGA AGA AGA AGA AAG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
* * * *
117465356 AGG AGA AGG AGG AGG AGG AGA AAG AGG AGG AGG AGG -GG AAGG AGA
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG -AGG AGG
* * * * **
117465401 AGG AGG AGG AAGG A-A AGG AGG AGA AGA AAG AGG AGG AAA AGG AGG
1 AGG AGG AGG -AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
*
117465446 AGA AGG A
1 AGG AGG A
117465453 AAAGGAGGGA
Statistics
Matches: 110, Mismatches: 28, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
2 3 0.03
3 102 0.93
4 5 0.05
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:117465406 original size:36 final size:36
Alignment explanation
Indices: 117465313--117465423 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
117465303 GAAGAAGGAA
* *
117465313 GAGGAGGAGGAGAAGGAGAA-GA--AGAAGAAAGAG
1 GAGGAGGAGGGGAAGGAGAAGGAGGAGGAGAAAGAG
* *
117465346 GAGGAGGAGGAGG-AGAAGGAGGAGGAGGAGAAAGAG
1 GAGGAGGAGG-GGAAGGAGAAGGAGGAGGAGAAAGAG
*
117465382 GAGGAGGAGGGGAAGGAGAAGGAGGAGGAAGGAA-AG
1 GAGGAGGAGGGGAAGGAGAAGGAGGAGG-AGAAAGAG
117465418 GAGGAG
1 GAGGAG
117465424 AAGAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
33 15 0.23
34 3 0.05
35 2 0.03
36 41 0.63
37 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (36 bp):
GAGGAGGAGGGGAAGGAGAAGGAGGAGGAGAAAGAG
Found at i:117465458 original size:24 final size:26
Alignment explanation
Indices: 117465293--117465460 Score: 101
Period size: 24 Copynumber: 6.8 Consensus size: 26
117465283 AAGATAGAGA
* * **
117465293 AGGAGAAGAAGAAGAAGGAAGAGGAGG
1 AGGAGAAGGAGAAG-AGGAGGAAAAGG
* *
117465320 AGGAGAAGGAGAAGAAGAAGAAAGAGG
1 AGGAGAAGGAGAAGAGGAGGAAA-AGG
* *
117465347 AGGAGGAGGAGGAGAAGGAGG---AGG
1 AGGAGAAGGAGAAG-AGGAGGAAAAGG
* **
117465371 AGGAGAA--AGAGGAGGAGG-AGGGG
1 AGGAGAAGGAGAAGAGGAGGAAAAGG
117465394 AAGGAGAAGGAG--GAGGAAGG-AAAGG
1 -AGGAGAAGGAGAAGAGG-AGGAAAAGG
117465419 AGGAGAA-GA-AAGAGGAGGAAAAGG
1 AGGAGAAGGAGAAGAGGAGGAAAAGG
117465443 AGGAGAAGGA-AA-AGGAGG
1 AGGAGAAGGAGAAGAGGAGG
117465461 GAGTTGAAGA
Statistics
Matches: 115, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
21 6 0.05
22 3 0.03
23 7 0.06
24 49 0.43
25 10 0.09
26 8 0.07
27 28 0.24
28 4 0.03
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (26 bp):
AGGAGAAGGAGAAGAGGAGGAAAAGG
Found at i:117469076 original size:20 final size:20
Alignment explanation
Indices: 117469051--117469099 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
117469041 CTTTATAAAA
117469051 TTTTATAATTTTTT-CTATAT
1 TTTTATAATTTTTTACTAT-T
*
117469071 TTTTAT-TTTTTTTACTATT
1 TTTTATAATTTTTTACTATT
*
117469090 TTTTCTAATT
1 TTTTATAATT
117469100 ACTAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATAATTTTTTACTATT
Found at i:117470293 original size:16 final size:16
Alignment explanation
Indices: 117470272--117470304 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
117470262 AAATTACATA
*
117470272 AATAAACACTTAGCCC
1 AATAAACACTTAACCC
117470288 AATAAACACTTAACCC
1 AATAAACACTTAACCC
117470304 A
1 A
117470305 TAAGGTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAACACTTAACCC
Found at i:117489489 original size:24 final size:24
Alignment explanation
Indices: 117489457--117489511 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
117489447 AGAAACTGTA
*
117489457 AGAGTCATTGTCCTTTGCATCTTT
1 AGAGCCATTGTCCTTTGCATCTTT
117489481 AGAGCCATTGTCCTTTGCATCTTT
1 AGAGCCATTGTCCTTTGCATCTTT
117489505 AGAGCCA
1 AGAGCCA
117489512 CCTAAGCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (24 bp):
AGAGCCATTGTCCTTTGCATCTTT
Found at i:117499722 original size:27 final size:28
Alignment explanation
Indices: 117499684--117499753 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
117499674 CGGATTTCAA
117499684 CCAAACACACCAGAAT-AAATAATCCTC
1 CCAAACACACCAGAATAAAATAATCCTC
117499711 CCAAACACACCAGAATAAAATAATCCTC
1 CCAAACACACCAGAATAAAATAATCCTC
117499739 CCAAACACACCAGAA
1 CCAAACACACCAGAA
117499754 AGACATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 16 0.38
28 26 0.62
ACGTcount: A:0.50, C:0.34, G:0.04, T:0.11
Consensus pattern (28 bp):
CCAAACACACCAGAATAAAATAATCCTC
Found at i:117499976 original size:15 final size:16
Alignment explanation
Indices: 117499944--117499976 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
117499934 AAACACACCT
*
117499944 TTCAATTTAATCACAA
1 TTCAAGTTAATCACAA
117499960 TTCAAGTTAAT-ACAA
1 TTCAAGTTAATCACAA
117499975 TT
1 TT
117499977 TCCACTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (16 bp):
TTCAAGTTAATCACAA
Found at i:117500921 original size:18 final size:18
Alignment explanation
Indices: 117500892--117500937 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
117500882 TTGTCTTGAC
* *
117500892 TTAATTTAATTTATTTATT
1 TTAATATAATTTA-ATATT
117500911 TT-ATATAATTTAATATT
1 TTAATATAATTTAATATT
117500928 TTAATATAAT
1 TTAATATAAT
117500938 AAAAATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 16 0.67
19 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATATAATTTAATATT
Found at i:117501096 original size:15 final size:17
Alignment explanation
Indices: 117501076--117501112 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
117501066 ATCAATTTAA
*
117501076 TAATATT-ATTAATAT-
1 TAATATTAATAAATATC
117501091 TAATATTAATAAATATC
1 TAATATTAATAAATATC
117501108 TAATA
1 TAATA
117501113 CAAAACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATATTAATAAATATC
Found at i:117505636 original size:33 final size:33
Alignment explanation
Indices: 117505599--117505664 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
117505589 ATCTGACTGG
* *
117505599 CTGGTTGGCTAGATTTTACATTTCGCATCACTA
1 CTGGTTAGCTAGATTTTACATTTCACATCACTA
* * *
117505632 CTGGTTAGCTAGCTTTTGCATTTCACATGACTA
1 CTGGTTAGCTAGATTTTACATTTCACATCACTA
117505665 GGTCCTCCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (33 bp):
CTGGTTAGCTAGATTTTACATTTCACATCACTA
Found at i:117516773 original size:67 final size:67
Alignment explanation
Indices: 117516665--117516799 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
117516655 AGAAAATTTC
* *
117516665 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGGTTGAGCTCATAAGCTCAGGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
117516730 GG
66 GG
*
117516732 AACTGATTCTATAGTACTTGTTGCATTATTAGTAGGATTGAGCTCATAAGCTCACGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
117516797 GG
66 GG
117516799 A
1 A
117516800 TGAGTCAGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (67 bp):
AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
GG
Found at i:117520192 original size:24 final size:25
Alignment explanation
Indices: 117520143--117520198 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
117520133 TTTATTAACC
* *
117520143 TTATTTAAATGTTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
117520167 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
117520192 TTATTTA
1 TTATTTA
117520199 CATCATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:117520294 original size:3 final size:3
Alignment explanation
Indices: 117520269--117520322 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
117520259 TTATTGTAGA
* * *
117520269 TAT TCT TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
117520317 TAT TAT
1 TAT TAT
117520323 ATGCATATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:117520549 original size:31 final size:31
Alignment explanation
Indices: 117520501--117520565 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
117520491 CCATCCTATG
* *
117520501 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
117520532 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
117520563 TAT
1 TAT
117520566 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:117520996 original size:14 final size:14
Alignment explanation
Indices: 117520977--117521014 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
117520967 GTACCTCTAG
*
117520977 ATTTGTCTTTATTT
1 ATTTGTCTTTATTA
*
117520991 ATTTGTATTTATTA
1 ATTTGTCTTTATTA
117521005 ATTTG-CTTTA
1 ATTTGTCTTTA
117521015 CATTGTTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
ATTTGTCTTTATTA
Found at i:117524765 original size:8 final size:8
Alignment explanation
Indices: 117524754--117524802 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
117524744 AAGAAAAAGA
117524754 AAAAAAAC
1 AAAAAAAC
117524762 AAAAAAAC
1 AAAAAAAC
*
117524770 AAAAAGAAA
1 AAAAA-AAC
*
117524779 AAAAGACAAG
1 AAAA-A-AAC
117524789 AAAAAAAC
1 AAAAAAAC
117524797 AAAAAA
1 AAAAAA
117524803 GAAATCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 21 0.60
9 7 0.20
10 7 0.20
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:117524768 original size:23 final size:25
Alignment explanation
Indices: 117524742--117524793 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
117524732 GACAGTCATG
*
117524742 AAAAGAAAAAGAAAAAAA-ACAA-A
1 AAAACAAAAAGAAAAAAAGACAAGA
117524765 AAAACAAAAAGAAAAAAAGACAAGA
1 AAAACAAAAAGAAAAAAAGACAAGA
117524790 AAAA
1 AAAA
117524794 AACAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.85, C:0.06, G:0.10, T:0.00
Consensus pattern (25 bp):
AAAACAAAAAGAAAAAAAGACAAGA
Found at i:117527085 original size:72 final size:72
Alignment explanation
Indices: 117526979--117527194 Score: 308
Period size: 72 Copynumber: 3.0 Consensus size: 72
117526969 TTATTTCTGT
* *
117526979 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
117527044 ATTT-TG
66 ATTTATG
* ** * * * *
117527050 TTTGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
117527115 AATTTATG
65 AATTTATG
117527123 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 -TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
117527188 TCAATTT
63 TCAATTT
117527195 CCGTTTTTCA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
71 3 0.02
72 57 0.46
73 4 0.03
74 3 0.02
75 57 0.46
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTATG
Found at i:117527295 original size:16 final size:16
Alignment explanation
Indices: 117527274--117527304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
117527264 CTGAGGTAAT
*
117527274 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
117527290 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
117527305 TCGAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:117527298 original size:89 final size:90
Alignment explanation
Indices: 117527112--117527457 Score: 477
Period size: 89 Copynumber: 4.0 Consensus size: 90
117527102 TTGAGGTATT
*
117527112 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
117527177 CTGAGGTATTTTCAATTTCCG-TTT-
65 CTGAGGTAATTTCAATTTCTGTTTTC
*
117527201 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
117527265 TGAGGTAATTTCAATTTCTGTTTTC
66 TGAGGTAATTTCAATTTCTGTTTTC
* * * *
117527290 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
117527354 TGAGGTATTTTCAA--T-T-TTTGC
66 TGAGGTAATTTCAATTTCTGTTTTC
117527375 TTC------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
117527434 CTGAGGTAATTTCAATTTATGTTT
65 CTGAGGTAATTTCAATTTCTGTTT
117527458 GTCAAAAAAA
Statistics
Matches: 233, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
79 7 0.03
81 57 0.24
83 1 0.00
84 1 0.00
85 10 0.04
86 1 0.00
87 64 0.27
88 3 0.01
89 89 0.38
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (90 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTC
Found at i:117527447 original size:81 final size:83
Alignment explanation
Indices: 117527121--117527517 Score: 435
Period size: 89 Copynumber: 4.8 Consensus size: 83
117527111 TTTCAATTTA
*
117527121 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
* *
117527186 TTTCAATTTCCGTTTTTCAATTTA
66 TTTCAA-TT-C-TTTTGC---TTC
* *
117527210 TGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAA
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
*
117527273 TTTCAATTTCTGTTTTCTTC
66 TTTCAA-TTCT-TTTGCTTC
* * *
117527293 AATTTATGTTTTTC--GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
1 ------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
*
117527356 AGGTATTTTCAA-T-TTTTGCTTC
60 AGGTAATTTCAATTCTTTTGCTTC
*
117527378 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
*
117527443 TTTCAA-T-TTATG-TT-
66 TTTCAATTCTTTTGCTTC
* *
117527457 TG----TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTA
1 TGCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA
117527518 TTTTTAGTTT
Statistics
Matches: 278, Mismatches: 20, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
75 2 0.01
76 53 0.19
79 9 0.03
80 2 0.01
81 62 0.22
83 2 0.01
85 8 0.03
86 7 0.03
87 62 0.22
89 71 0.26
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (83 bp):
TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
TTTCAATTCTTTTGCTTC
Found at i:117527450 original size:170 final size:172
Alignment explanation
Indices: 117527112--117527521 Score: 532
Period size: 170 Copynumber: 2.4 Consensus size: 172
117527102 TTGAGGTATT
117527112 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
117527177 CTGAGGTATTTTCAATTTCCGTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
65 CTGAGGTATTTTCAA-TT-C-TTTTGC-A-TTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
* *
117527242 GTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
125 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
117527290 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
117527354 TGAGGTATTTTCAA-T-TTTTGC-TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
66 TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
117527416 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG-TTT-
129 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
117527458 GTC-A---A--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
117527511 TGAGGTATTTT
66 TGAGGTATTTT
117527522 TAGTTTATGT
Statistics
Matches: 217, Mismatches: 12, Indels: 27
0.85 0.05 0.11
Matches are distributed among these distances:
157 54 0.25
164 1 0.00
167 1 0.00
168 12 0.06
169 3 0.01
170 65 0.30
171 5 0.02
174 1 0.00
176 59 0.27
178 16 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (172 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
Found at i:117527510 original size:76 final size:76
Alignment explanation
Indices: 117527290--117527533 Score: 325
Period size: 76 Copynumber: 3.2 Consensus size: 76
117527280 TTCTGTTTTC
* *
117527290 TTCAATTTATGTTT-TTC--GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTCAATTTATGTTTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
117527352 GCTGAGGTATT
66 GCTGAGGTATT
*
117527363 TTCAATTTTTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTCAATTTATG-TT-TG---TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
117527428 GACACGCTGAGGTAAT
61 GGCACGCTGAGGTATT
* *
117527444 TTCAATTTATGTTTG-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCA
1 TTCAATTTATGTTTGTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
117527508 CGCTGAGGTATT
65 CGCTGAGGTATT
* *
117527520 TTTAGTTTATGTTT
1 TTCAATTTATGTTT
117527534 TAAATTGACT
Statistics
Matches: 150, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
73 10 0.07
74 2 0.01
75 3 0.02
76 66 0.44
79 5 0.03
80 2 0.01
81 62 0.41
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (76 bp):
TTCAATTTATGTTTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GCTGAGGTATT
Found at i:117527603 original size:123 final size:125
Alignment explanation
Indices: 117527464--117527694 Score: 331
Period size: 123 Copynumber: 1.9 Consensus size: 125
117527454 GTTTGTCAAA
* * * * *
117527464 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTA
**
117527529 TGTTT-T-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTGTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* ** *
117527587 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATTTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTA
*
117527652 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 TGTTTGT-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
117527695 CCAGGACACG
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
123 61 0.66
124 1 0.01
126 31 0.33
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (125 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTA
TGTTTGTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:117527682 original size:72 final size:72
Alignment explanation
Indices: 117527573--117527764 Score: 312
Period size: 72 Copynumber: 2.6 Consensus size: 72
117527563 TAAGCCTTTT
* * * *
117527573 AATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAT
1 AATTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAG
*
117527638 TTAATTTC
65 GTAATTTC
117527646 AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
1 AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
117527711 TAATTTC
66 TAATTTC
*
117527718 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTCTGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
117527765 ACCTTTTAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 71 0.63
73 41 0.37
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
TAATTTC
Found at i:117527746 original size:199 final size:196
Alignment explanation
Indices: 117527388--117527895 Score: 673
Period size: 199 Copynumber: 2.6 Consensus size: 196
117527378 TGCTTTTCAA
*
117527388 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
117527453 TGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTA
66 TGTTTGTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTA
* * * ** **
117527518 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TTG
127 ATTTCAATTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTAC
117527581 TTTTTC
191 TTTTTC
**
117527587 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATTTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
117527652 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTT
66 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTT
* *
117527717 CAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
131 CAATTTATGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACT
117527782 TTTTC
192 TTTTC
* * * *
117527787 -AAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACGCCGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTAATTTCAATTT
* * *
117527850 CTATTTTTGGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 CTGTTTGT-CAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCC
117527896 TCGGGTCACA
Statistics
Matches: 275, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
195 61 0.22
196 1 0.00
198 3 0.01
199 166 0.60
200 11 0.04
201 33 0.12
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (196 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTT
CAATTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTT
C
Found at i:117528138 original size:73 final size:71
Alignment explanation
Indices: 117527963--117528138 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 71
117527953 TTACTTTCCT
* * * * * *
117527963 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
117528028 TGTTTC
66 TGTTTC
* *
117528034 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
117528098 TGTTTGTC
66 TG-TT-TC
* *
117528106 AAGAATCAACTCAGATTGCGAGAGGTGGGTTGA
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGA
117528139 ACCTTTTAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
70 9 0.10
71 51 0.56
72 4 0.04
73 27 0.30
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
TGTTTC
Found at i:117528307 original size:126 final size:126
Alignment explanation
Indices: 117528030--117528387 Score: 635
Period size: 126 Copynumber: 2.8 Consensus size: 126
117528020 TTAGTTTATG
*
117528030 TTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
117528095 TTCTGTTTGTCAAGAATCAACTCAGATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
66 TTCTGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
* *
117528157 TATCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
117528222 TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
66 TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
117528283 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
117528348 TTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTG
66 TTCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTG
117528388 AGATGAGCCT
Statistics
Matches: 221, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
126 120 0.54
127 75 0.34
129 26 0.12
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (126 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
Found at i:117528480 original size:72 final size:72
Alignment explanation
Indices: 117528282--117528565 Score: 426
Period size: 72 Copynumber: 3.9 Consensus size: 72
117528272 AATTTCTACT
** * *
117528282 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
117528346 ATTTATG
66 ATTTCTG
* ** * *
117528353 TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCATGACACGTTGAGGTAATT
1 TTT-TC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
117528418 TCAATTTCTG
63 TCAATTTCTG
*
117528428 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
117528493 ATTTCTG
66 ATTTCTG
*
117528500 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
117528565 A
66 A
117528566 AATCAACTTT
Statistics
Matches: 197, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
71 3 0.02
72 127 0.64
74 6 0.03
75 61 0.31
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:117528895 original size:54 final size:54
Alignment explanation
Indices: 117528591--117528893 Score: 534
Period size: 54 Copynumber: 5.6 Consensus size: 54
117528581 TTAAGTTTAA
117528591 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
* * *
117528645 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTCAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
*
117528699 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
*
117528753 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
* * *
117528807 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
117528861 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
117528894 GCCTCGGGTC
Statistics
Matches: 237, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 237 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
Found at i:117530566 original size:24 final size:25
Alignment explanation
Indices: 117530517--117530572 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
117530507 TTTATTAACC
*
117530517 TTATTTAAATATTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
117530541 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
117530566 TTATTTA
1 TTATTTA
117530573 CATCATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:117530662 original size:3 final size:3
Alignment explanation
Indices: 117530643--117530702 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
117530633 TTATTGTAGA
* *
117530643 TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
117530691 TAT TAT TAT TAT
1 TAT TAT TAT TAT
117530703 ATGCATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:117530930 original size:31 final size:31
Alignment explanation
Indices: 117530882--117530946 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
117530872 CCATCCTATG
* *
117530882 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
117530913 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
117530944 TAT
1 TAT
117530947 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:117535169 original size:24 final size:24
Alignment explanation
Indices: 117535142--117535188 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
117535132 AAACCTAATT
117535142 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
*
117535166 CTAATAAATGTTAAATATATTAT
1 CTAATAAATGTCAAATATATTAT
117535189 AATCATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:117535204 original size:24 final size:24
Alignment explanation
Indices: 117535154--117535205 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
117535144 AATCAAAGTC
** **
117535154 AAATATATTATGCTAATAAATGTT
1 AAATATATTATAATAATAAATACT
*
117535178 AAATATATTATAATCATAAATACT
1 AAATATATTATAATAATAAATACT
117535202 AAAT
1 AAAT
117535206 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATAATAATAAATACT
Found at i:117541257 original size:75 final size:75
Alignment explanation
Indices: 117541138--117541309 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
117541128 CATGGCAAAG
** *
117541138 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
117541197 CCATACTGAGC
65 CCATACCGAGC
117541208 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
117541273 CATACCGAGT
66 CATACCGAGC
***
117541283 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
117541310 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:117541276 original size:35 final size:35
Alignment explanation
Indices: 117541141--117541307 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
117541131 GGCAAAGTGT
* **
117541141 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
117541176 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
117541211 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
117541251 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
117541287 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
117541308 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:117541299 original size:36 final size:35
Alignment explanation
Indices: 117541237--117541307 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
117541227 ATTATCAAAT
* *
117541237 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
117541272 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
117541308 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:117550901 original size:24 final size:25
Alignment explanation
Indices: 117550867--117550918 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
117550857 AGTTCATAAC
117550867 TAAAAATGAAAACATCTCAGAAGAA
1 TAAAAATGAAAACATCTCAGAAGAA
117550892 TAAAAA-GAAAACATCTCAGAAGAA
1 TAAAAATGAAAACATCTCAGAAGAA
117550916 TAA
1 TAA
117550919 CGAATACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (25 bp):
TAAAAATGAAAACATCTCAGAAGAA
Found at i:117550929 original size:27 final size:24
Alignment explanation
Indices: 117550875--117550932 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
117550865 ACTAAAAATG
*
117550875 AAAACATCTCAGAAGAATAAAAAG
1 AAAACATCTCAGAAGAATAAAAAC
117550899 AAAACATCTCAGAAGAATAACGAATAC
1 AAAACATCTCAGAAGAATAA--AA-AC
117550926 AAAACAT
1 AAAACAT
117550933 AAAGAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.14
Consensus pattern (24 bp):
AAAACATCTCAGAAGAATAAAAAC
Found at i:117552623 original size:17 final size:17
Alignment explanation
Indices: 117552601--117552633 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
117552591 TTAATTCAAG
117552601 ATAAATCAATCAAAATC
1 ATAAATCAATCAAAATC
117552618 ATAAATCAATCAAAAT
1 ATAAATCAATCAAAAT
117552634 TTATCCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAATCAATCAAAATC
Found at i:117561648 original size:37 final size:37
Alignment explanation
Indices: 117561451--117561637 Score: 311
Period size: 37 Copynumber: 5.1 Consensus size: 37
117561441 CTTTAGCTCA
* * *
117561451 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
117561488 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
117561525 GACATAATCTCCACATGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
117561562 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
117561599 GACATAATTTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
117561636 GA
1 GA
117561638 ATATATTTCC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 142 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:117561839 original size:48 final size:48
Alignment explanation
Indices: 117561784--117562114 Score: 522
Period size: 48 Copynumber: 6.8 Consensus size: 48
117561774 GCACATCGCC
117561784 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
117561832 CACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
117561880 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
117561930 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
117561978 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
117562028 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
117562076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
117562115 TGCATGTTCA
Statistics
Matches: 261, Mismatches: 14, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
48 169 0.65
49 8 0.03
50 84 0.32
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:117561938 original size:146 final size:144
Alignment explanation
Indices: 117561784--117562114 Score: 522
Period size: 146 Copynumber: 2.3 Consensus size: 144
117561774 GCACATCGCC
117561784 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCACACATATTTCACACTAG
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCACACATATTTCACACTAG
117561849 CCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACACTAG-CCATTCGACTTTACC
65 CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACA-TAGACCATTCGACTTTACC
117561912 ACATATACATATCTCATA
129 ACATATACATATCTC--A
* * *
117561930 TATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATACATATCTCACACATATTTCACACTAG
* * *
117561995 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACC
65 CCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATAGACCATTCGACTTTACC
*
117562060 ACATATGCATATCTCA
129 ACATATACATATCTCA
117562076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATA
117562115 TGCATGTTCA
Statistics
Matches: 171, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
145 2 0.01
146 124 0.73
147 4 0.02
148 41 0.24
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (144 bp):
TACATATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCACACATATTTCACACTAGC
CATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATAGACCATTCGACTTTACCAC
ATATACATATCTCA
Found at i:117561968 original size:98 final size:98
Alignment explanation
Indices: 117561784--117562114 Score: 578
Period size: 98 Copynumber: 3.4 Consensus size: 98
117561774 GCACATCGCC
* * *
117561784 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ACACATATTTCACACT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
117561847 -AGCCATTCGGCTTTACCACATATACATATCTCA
66 GA-CCATTCGGCTTTACCACATATACATATCTCA
*
117561880 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
117561945 GACCATTCGGCTTTACCACATATACATATCTCA
66 GACCATTCGGCTTTACCACATATACATATCTCA
117561978 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
117562043 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATACATATCTCA
*
117562076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
117562115 TGCATGTTCA
Statistics
Matches: 225, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
96 46 0.20
98 178 0.79
99 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATACATATCTCA
Found at i:117562163 original size:47 final size:47
Alignment explanation
Indices: 117562084--117562277 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
117562074 CATACATATT
* * * *
117562084 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
117562131 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
117562178 TCACATTGGCCATTCGGCCTTATCACTTATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
117562225 TCACATTAGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
117562272 TCACAT
1 TCACAT
117562278 CAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:117562212 original size:94 final size:93
Alignment explanation
Indices: 117561938--117562277 Score: 296
Period size: 94 Copynumber: 3.6 Consensus size: 93
117561928 TATATATATT
* * * * *
117561938 TCACATTGACCATTCGGCTTTA-CCACATATACATATCTCATACATAT-TTCACACTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCCACATATGCATA-CTC--ACAT-TCATCACATTAGCCATTC
* * * *
117562001 GGCTTTACCACATATA--CATATCTCATATATATA
62 GGCCTTACCACATATATGCATGT-TCACAT-T-CA
* * *
117562034 TTTCACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATAT-TTCACATTAGCCAT
1 --TCACATTGGCCATTCGGCCTTATCCACATATGCATA-CTC--ACAT-TCATCACATTAGCCAT
* *
117562097 TCGGCTTTACCACATATATGCATGTTCATATTCA
60 TCGGCCTTACCACATATATGCATGTTCACATTCA
* *
117562131 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACATTAGCCATTCGGC
* *
117562196 CTTATCACTTATATGCATGTTCACATTCA
65 CTTACCACATATATGCATGTTCACATTCA
* * * * *
117562225 TCACATTAGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACAT
117562278 CAAATCCTAA
Statistics
Matches: 217, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
93 1 0.00
94 92 0.42
95 20 0.09
96 4 0.02
97 12 0.06
98 78 0.36
99 6 0.03
100 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (93 bp):
TCACATTGGCCATTCGGCCTTATCCACATATGCATACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCA
Found at i:117568744 original size:16 final size:16
Alignment explanation
Indices: 117568723--117568755 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
117568713 ATATTAACAC
117568723 ATAATTTACTATTTTA
1 ATAATTTACTATTTTA
117568739 ATAATTTACTATTTTA
1 ATAATTTACTATTTTA
117568755 A
1 A
117568756 CACATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTTACTATTTTA
Found at i:117568764 original size:20 final size:20
Alignment explanation
Indices: 117568716--117568773 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
117568706 TAATATCATA
117568716 TTAACACATAATTTACTATT
1 TTAACACATAATTTACTATT
117568736 TT---A-ATAATTTACTATT
1 TTAACACATAATTTACTATT
*
117568752 TTAACACATAATTTACTCTT
1 TTAACACATAATTTACTATT
117568772 TT
1 TT
117568774 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.45
17 1 0.03
19 1 0.03
20 16 0.48
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAACACATAATTTACTATT
Found at i:117568791 original size:136 final size:137
Alignment explanation
Indices: 117568629--117568875 Score: 442
Period size: 136 Copynumber: 1.8 Consensus size: 137
117568619 AACCCTAGGA
* **
117568629 ACTCTTTTTGTTTTCTTTTTCTTTCAATTTTTGGTAACAAACATGAACATAACCATGTTATTATG
1 ACTCTTTTTCTTTTCTTTTTCTTTCAATTTTCAGTAACAAACATGAACATAACCATGTTATTATG
117568694 TTTTATTTTATTTAATATCATATTAACACATAATTTACTATTTTAATAATTTACTATTTTAACAC
66 TTTTATTTTATTTAATATCATATTAACACATAATTTACTATTTTAATAATTTACTATTTTAACAC
117568759 ATAATTT
131 ATAATTT
* *
117568766 ACTCTTTTTCTTTT-TTTTTCTTTCAATTTTCAGTAACAAACATGAACGTAACCATGTTTTTATG
1 ACTCTTTTTCTTTTCTTTTTCTTTCAATTTTCAGTAACAAACATGAACATAACCATGTTATTATG
117568830 TTTTATTTTATTTAATATCATATTAACACATAATTTACTATTTTAA
66 TTTTATTTTATTTAATATCATATTAACACATAATTTACTATTTTAA
117568876 CCCTTTTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 92 0.88
137 13 0.12
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.51
Consensus pattern (137 bp):
ACTCTTTTTCTTTTCTTTTTCTTTCAATTTTCAGTAACAAACATGAACATAACCATGTTATTATG
TTTTATTTTATTTAATATCATATTAACACATAATTTACTATTTTAATAATTTACTATTTTAACAC
ATAATTT
Found at i:117573997 original size:2 final size:2
Alignment explanation
Indices: 117573990--117574035 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
117573980 CATTCAAAAC
117573990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117574032 AT AT
1 AT AT
117574036 CATTTGAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117576073 original size:17 final size:17
Alignment explanation
Indices: 117576051--117576085 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
117576041 CAAGACTATT
117576051 AAAAACAGGCTGTTATA
1 AAAAACAGGCTGTTATA
117576068 AAAAACAGGCTGTTATA
1 AAAAACAGGCTGTTATA
117576085 A
1 A
117576086 CCCCTGCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (17 bp):
AAAAACAGGCTGTTATA
Found at i:117583844 original size:21 final size:21
Alignment explanation
Indices: 117583818--117583862 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
117583808 TTATTCGTTT
117583818 CAATTAAATTCCCACGAATGA
1 CAATTAAATTCCCACGAATGA
***
117583839 CAATTAAATTTTTACGAATGA
1 CAATTAAATTCCCACGAATGA
117583860 CAA
1 CAA
117583863 CTTCTCTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (21 bp):
CAATTAAATTCCCACGAATGA
Found at i:117593063 original size:13 final size:13
Alignment explanation
Indices: 117593045--117593069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117593035 CTGAGCACAC
117593045 GCCTGTGTCCTTA
1 GCCTGTGTCCTTA
117593058 GCCTGTGTCCTT
1 GCCTGTGTCCTT
117593070 CACACAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.32, G:0.24, T:0.40
Consensus pattern (13 bp):
GCCTGTGTCCTTA
Found at i:117598218 original size:31 final size:31
Alignment explanation
Indices: 117598183--117598243 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
117598173 GCACTCCAAG
*
117598183 GCCTAAAAACGAGATATTCAACATTGCAATC
1 GCCTAAAAACAAGATATTCAACATTGCAATC
117598214 GCCTAAAAACAAGATATTCAACATTGCAAT
1 GCCTAAAAACAAGATATTCAACATTGCAAT
117598244 TTGTCTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (31 bp):
GCCTAAAAACAAGATATTCAACATTGCAATC
Found at i:117605393 original size:25 final size:25
Alignment explanation
Indices: 117605344--117605425 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
117605334 TGCTATACAT
*
117605344 AGAGCACAAACGTGC---TAATCAG
1 AGAGCACTAACGTGCTAATAATCAG
117605366 AGAGCACTAACGTGCTAATAATCAG
1 AGAGCACTAACGTGCTAATAATCAG
*
117605391 AGAGCACTAACATGCTAATAATCAG
1 AGAGCACTAACGTGCTAATAATCAG
*
117605416 AGAGCGCTAA
1 AGAGCACTAA
117605426 GGTTCCTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.26
25 40 0.74
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAGCACTAACGTGCTAATAATCAG
Found at i:117605943 original size:7 final size:7
Alignment explanation
Indices: 117605931--117605974 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
117605921 TTTACCTATT
117605931 TATATAA
1 TATATAA
117605938 TATATAA
1 TATATAA
*
117605945 AATATAA
1 TATATAA
117605952 TATATAA
1 TATATAA
117605959 TA-AT-A
1 TATATAA
117605964 TATAATAA
1 TAT-ATAA
117605972 TAT
1 TAT
117605975 TCTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 23 0.72
8 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:117605951 original size:14 final size:15
Alignment explanation
Indices: 117605932--117605973 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
117605922 TTACCTATTT
117605932 ATATAATATATAA-A
1 ATATAATATATAATA
117605946 ATATAATATATAATA
1 ATATAATATATAATA
117605961 ATAT-ATA-ATAATA
1 ATATAATATATAATA
117605974 TTCTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.22
14 16 0.59
15 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAATATATAATA
Found at i:117605963 original size:10 final size:10
Alignment explanation
Indices: 117605948--117605974 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
117605938 TATATAAAAT
117605948 ATAATATATA
1 ATAATATATA
117605958 ATAATATATA
1 ATAATATATA
117605968 ATAATAT
1 ATAATAT
117605975 TCTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATATATA
Found at i:117606001 original size:2 final size:2
Alignment explanation
Indices: 117605994--117606023 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
117605984 TTAAGTAAAC
117605994 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
117606024 TTTAATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117606976 original size:2 final size:2
Alignment explanation
Indices: 117606969--117607075 Score: 214
Period size: 2 Copynumber: 53.5 Consensus size: 2
117606959 TTCCCTTTTT
117606969 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
117607011 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
117607053 AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC A
117607076 TATATATATA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:117607080 original size:2 final size:2
Alignment explanation
Indices: 117607075--117607112 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
117607065 ACACACACAC
117607075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117607113 CCAATTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:117607474 original size:5 final size:5
Alignment explanation
Indices: 117607457--117607499 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
117607447 TTACCTATTT
*
117607457 ATATA ATAT- ATATA ATATA GTATA ATATA ATAT- ATAATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATAT
117607500 TCTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 25 0.76
6 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:117607496 original size:10 final size:9
Alignment explanation
Indices: 117607456--117607499 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
117607446 TTTACCTATT
117607456 TATATAATA
1 TATATAATA
117607465 TATATAATA
1 TATATAATA
117607474 TAGTATAATA
1 TA-TATAATA
117607484 TA-AT-ATA
1 TATATAATA
117607491 TA-ATAATA
1 TATATAATA
117607499 T
1 T
117607500 TCTTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.21
8 6 0.18
9 11 0.33
10 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
TATATAATA
Found at i:117609645 original size:13 final size:13
Alignment explanation
Indices: 117609627--117609653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117609617 ATAAAAGAAC
117609627 ATATAGAATACCT
1 ATATAGAATACCT
117609640 ATATAGAATACCT
1 ATATAGAATACCT
117609653 A
1 A
117609654 AAGGAGATAG
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:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ATATAGAATACCT
Found at i:117612356 original size:22 final size:22
Alignment explanation
Indices: 117612328--117612379 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
117612318 TAATGAACAG
117612328 AGAGCACTGAAGTGCT-ATACAA
1 AGAGCACTGAAGTGCTAAT-CAA
* * *
117612350 AGAGCACAGATGTGCTAATCAG
1 AGAGCACTGAAGTGCTAATCAA
117612372 AGAGCACT
1 AGAGCACT
117612380 AACATGCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (22 bp):
AGAGCACTGAAGTGCTAATCAA
Found at i:117612837 original size:15 final size:15
Alignment explanation
Indices: 117612817--117612852 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
117612807 AACCCCAAAT
* *
117612817 TTTCTTTTTTCTTTC
1 TTTCTTTTTTCCTTA
117612832 TTTCTTTTTTCCTTA
1 TTTCTTTTTTCCTTA
117612847 TTTCTT
1 TTTCTT
117612853 CTCTGTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTTCCTTA
Found at i:117612927 original size:12 final size:12
Alignment explanation
Indices: 117612910--117612941 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
117612900 TTTATATGAT
117612910 ATATATAATATA
1 ATATATAATATA
117612922 ATATAT-A-ATA
1 ATATATAATATA
117612932 ATATATAATA
1 ATATATAATA
117612942 ATATTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATAATATA
Found at i:117612932 original size:10 final size:10
Alignment explanation
Indices: 117612919--117612945 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
117612909 TATATATAAT
117612919 ATAATATATA
1 ATAATATATA
117612929 ATAATATATA
1 ATAATATATA
117612939 ATAATAT
1 ATAATAT
117612946 TCTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATATATA
Found at i:117616707 original size:7 final size:7
Alignment explanation
Indices: 117616695--117616726 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
117616685 CGCACACGGG
117616695 CCCTAAA
1 CCCTAAA
117616702 CCCTAAA
1 CCCTAAA
117616709 CCCTAAA
1 CCCTAAA
117616716 CCCTAAA
1 CCCTAAA
117616723 CCCT
1 CCCT
117616727 GCCCAGCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:117638393 original size:15 final size:15
Alignment explanation
Indices: 117638373--117638402 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
117638363 TTTGCAGTTA
117638373 CCTTGGATTAGGTTC
1 CCTTGGATTAGGTTC
*
117638388 CCTTGGGTTAGGTTC
1 CCTTGGATTAGGTTC
117638403 GATATTACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.30, T:0.40
Consensus pattern (15 bp):
CCTTGGATTAGGTTC
Found at i:117642866 original size:24 final size:23
Alignment explanation
Indices: 117642795--117642872 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
117642785 CAAAAGAGAG
*
117642795 TCCCATTATTAGCTC-TCAGGAGCT
1 TCCCGTTA-TAGCTCTTCA-GAGCT
* **
117642819 TCCCGTTATATGGTTCTTGTGAGCT
1 TCCCGTTATA--GCTCTTCAGAGCT
*
117642844 TCCCGTTGATAGCTCTTCAGAGCA
1 TCCCGTT-ATAGCTCTTCAGAGCT
117642868 TCCCG
1 TCCCG
117642873 ATTGGTTGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.05
24 21 0.50
25 15 0.36
26 4 0.10
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.35
Consensus pattern (23 bp):
TCCCGTTATAGCTCTTCAGAGCT
Found at i:117643019 original size:18 final size:18
Alignment explanation
Indices: 117642996--117643034 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
117642986 CCGAGGCCGG
*
117642996 GGCCAGGACAGAGTCCGA
1 GGCCAGGACAGAGTACGA
*
117643014 GGCCAGGACAGGGTACGA
1 GGCCAGGACAGAGTACGA
117643032 GGC
1 GGC
117643035 ATTACTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.44, T:0.05
Consensus pattern (18 bp):
GGCCAGGACAGAGTACGA
Found at i:117645055 original size:50 final size:49
Alignment explanation
Indices: 117644978--117645262 Score: 333
Period size: 48 Copynumber: 5.8 Consensus size: 49
117644968 AAAAGGGTAA
* *
117644978 AATGCCGATGTCATGTCCCGGACATGGTCTTACACTGGCTCTCATATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATC
*
117645028 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATC
** * * *
117645078 GGTGCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCACATAA-C
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC
* ** * * * * *
117645126 AATGTCGATGCCATGTTTCAAACATCGTCTTACACTGGCTCGCATATTG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC
* * * *
117645175 AA-GCTGATGCCATGTCCCAGTCATGGTCATACACTAGCTCTCATAA-C
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC
* *
117645222 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
117645263 ACACATAACC
Statistics
Matches: 195, Mismatches: 38, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 102 0.52
49 3 0.02
50 88 0.45
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC
Found at i:117645222 original size:96 final size:97
Alignment explanation
Indices: 117644981--117645262 Score: 368
Period size: 96 Copynumber: 2.9 Consensus size: 97
117644971 AGGGTAAAAT
* * *
117644981 GCCGATGTCATGTCCCGGACATGGTCTTACACTGGCTCTCATATATCAGTGCCGATGCCATGTCC
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-CAATGCCGATGCCATGTTC
* * **
117645046 CAGACATGGTCTTACACTGGCTCTCATACATCGGT
64 CAAACATGGTCTTACACTGGCTCGCATA-ATCGAA
* * * *
117645081 GCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATGTTTCA
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAATGCCGATGCCATGTTCCA
* *
117645146 AACATCGTCTTACACTGGCTCGCAT-ATTGAA
66 AACATGGTCTTACACTGGCTCGCATAATCGAA
* * * * *
117645177 GCTGATGCCATGTCCCAGTCATGGTCATACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAATGCCGATGCCATGTTCCA
117645242 AACATGGTCTTACACTGGCTC
66 AACATGGTCTTACACTGGCTC
117645263 ACACATAACC
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
96 79 0.50
98 39 0.25
99 1 0.01
100 40 0.25
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCGCATAATCGAA
Found at i:117646885 original size:25 final size:25
Alignment explanation
Indices: 117646857--117646932 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
117646847 TTGTTATACA
117646857 GCTCGAATGAGCTTCCCGTTACATG
1 GCTCGAATGAGCTTCCCGTTACATG
* * * **
117646882 GCTC-ACGTGACCTTCTCGTTTTATG
1 GCTCGA-ATGAGCTTCCCGTTACATG
*
117646907 GCTCGAAAGAGCTTCCCGTTTACATG
1 GCTCGAATGAGCTTCCCG-TTACATG
117646933 TCTGCATGAG
Statistics
Matches: 37, Mismatches: 11, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
24 1 0.03
25 30 0.81
26 6 0.16
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (25 bp):
GCTCGAATGAGCTTCCCGTTACATG
Found at i:117647276 original size:20 final size:20
Alignment explanation
Indices: 117647251--117647314 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
117647241 TGGCTAAATT
117647251 GCTTTGGATGTATTGTGTAA
1 GCTTTGGATGTATTGTGTAA
*
117647271 GCTTT-G--CTATTG-GCTAAA
1 GCTTTGGATGTATTGTG-T-AA
117647289 TTGCTTTGGATGTATTGTGTAA
1 --GCTTTGGATGTATTGTGTAA
117647311 GCTT
1 GCTT
117647315 ACCTTAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 2 0.06
19 1 0.03
20 14 0.41
21 1 0.03
22 2 0.06
23 6 0.18
24 1 0.03
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (20 bp):
GCTTTGGATGTATTGTGTAA
Found at i:117647280 original size:40 final size:40
Alignment explanation
Indices: 117647236--117647314 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
117647226 ATGTGTTTAG
117647236 GCTATTGGCTAAATTGCTTTGGATGTATTGTGTAAGCTTT
1 GCTATTGGCTAAATTGCTTTGGATGTATTGTGTAAGCTTT
117647276 GCTATTGGCTAAATTGCTTTGGATGTATTGTGTAAGCTT
1 GCTATTGGCTAAATTGCTTTGGATGTATTGTGTAAGCTT
117647315 ACCTTAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.44
Consensus pattern (40 bp):
GCTATTGGCTAAATTGCTTTGGATGTATTGTGTAAGCTTT
Found at i:117648436 original size:14 final size:14
Alignment explanation
Indices: 117648417--117648443 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
117648407 TTAATCAATC
117648417 GAATTTTCCCAAAA
1 GAATTTTCCCAAAA
117648431 GAATTTTCCCAAA
1 GAATTTTCCCAAA
117648444 TTTTTCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (14 bp):
GAATTTTCCCAAAA
Found at i:117673509 original size:42 final size:42
Alignment explanation
Indices: 117673462--117673570 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
117673452 GCCCGAAGGC
* *
117673462 TGAACGGAAGCACATAAGTGCTTAAC-GAAAACCCATAAGGGT
1 TGAACGGAAGCACATAAGAGCTGAACAG-AAACCCATAAGGGT
* *
117673504 TGAACGGAAGCTCATAAGAGCTGAACAGAGACCCATAAGGGT
1 TGAACGGAAGCACATAAGAGCTGAACAGAAACCCATAAGGGT
* * * * *
117673546 TAAACAGAAGCTCAAAATAGCTGAA
1 TGAACGGAAGCACATAAGAGCTGAA
117673571 TGGAAACTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (42 bp):
TGAACGGAAGCACATAAGAGCTGAACAGAAACCCATAAGGGT
Found at i:117673551 original size:21 final size:20
Alignment explanation
Indices: 117673491--117673554 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
117673481 GCTTAACGAA
*
117673491 AACCCATAAGGGTTGAACGG
1 AACCCATAAGGGTTGAACAG
* * *
117673511 AAGCTCATAAGAGCTGAACAG
1 AA-CCCATAAGGGTTGAACAG
*
117673532 AGACCCATAAGGGTTAAACAG
1 A-ACCCATAAGGGTTGAACAG
117673553 AA
1 AA
117673555 GCTCAAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.09
21 30 0.88
22 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (20 bp):
AACCCATAAGGGTTGAACAG
Found at i:117674538 original size:5 final size:5
Alignment explanation
Indices: 117674528--117674552 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117674518 TCATTTTGGC
117674528 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
117674553 CCAATTTTGC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:117679053 original size:27 final size:26
Alignment explanation
Indices: 117679010--117679062 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
117679000 TTATTTTTTA
* * *
117679010 AAAAATGTAATTTTATATTTTTATTT
1 AAAAATGGAATTATATATTTTAATTT
117679036 AAAAATGGAATATATATATTTTAATTT
1 AAAAATGGAAT-TATATATTTTAATTT
117679063 TTTATGCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (26 bp):
AAAAATGGAATTATATATTTTAATTT
Found at i:117679057 original size:26 final size:25
Alignment explanation
Indices: 117679001--117679058 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
117678991 TCATAATTTT
* *
117679001 TATTTT-TTAAAAAATGTAATTTTA
1 TATTTTATTAAAAAATGGAATTATA
*
117679025 TATTTTTATTTAAAAATGGAATATATA
1 TA-TTTTATTAAAAAATGGAAT-TATA
117679052 TATTTTA
1 TATTTTA
117679059 ATTTTTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.07
25 4 0.14
26 17 0.61
27 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (25 bp):
TATTTTATTAAAAAATGGAATTATA
Found at i:117680686 original size:18 final size:18
Alignment explanation
Indices: 117680663--117680738 Score: 77
Period size: 18 Copynumber: 4.3 Consensus size: 18
117680653 AATTACAAAA
*
117680663 AAAAATTAAAATATTTAT
1 AAAAATTAAAAAATTTAT
117680681 AAAAATTAAAAAATTTAT
1 AAAAATTAAAAAATTTAT
** *
117680699 --ATTTTTAAAAA-TTAT
1 AAAAATTAAAAAATTTAT
*
117680714 AAAAATTAAAAAATATAT
1 AAAAATTAAAAAATTTAT
117680732 ATAAAAT
1 A-AAAAT
117680739 AATTATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
15 4 0.09
16 8 0.17
17 8 0.17
18 21 0.46
19 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTAAAAAATTTAT
Found at i:117680700 original size:24 final size:25
Alignment explanation
Indices: 117680673--117680720 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
117680663 AAAAATTAAA
117680673 ATATTTATAAAAATTA-AAAAATTT
1 ATATTTATAAAAATTATAAAAATTT
*
117680697 ATATTTTTAAAAATTATAAAAATT
1 ATATTTATAAAAATTATAAAAATT
117680721 AAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTTATAAAAATTATAAAAATTT
Found at i:117680717 original size:33 final size:35
Alignment explanation
Indices: 117680668--117680733 Score: 109
Period size: 33 Copynumber: 1.9 Consensus size: 35
117680658 CAAAAAAAAA
*
117680668 TTAAAATATTTATAAAAATTAAAAAATTTATATTT
1 TTAAAATATTTATAAAAATTAAAAAATATATATTT
117680703 TTAAAA-A-TTATAAAAATTAAAAAATATATAT
1 TTAAAATATTTATAAAAATTAAAAAATATATAT
117680734 AAAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 23 0.77
34 1 0.03
35 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
TTAAAATATTTATAAAAATTAAAAAATATATATTT
Found at i:117680743 original size:31 final size:30
Alignment explanation
Indices: 117680650--117680748 Score: 101
Period size: 31 Copynumber: 3.1 Consensus size: 30
117680640 TTCTATCAAC
* * *
117680650 AAAAATTACAAAAAAAAATTAAAATATTTAT
1 AAAAATTA-AAAAATATATTAAAATAATTAT
*
117680681 AAAAATTAAAAAATTTATATTTTTAAA-AATTAT
1 AAAAATTAAAAAA--TATA--TTAAAATAATTAT
117680714 AAAAATTAAAAAATATATATAAAATAATTAT
1 AAAAATTAAAAAATATAT-TAAAATAATTAT
117680745 AAAA
1 AAAA
117680749 TAATAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
29 1 0.02
30 9 0.16
31 22 0.39
32 2 0.04
33 18 0.32
34 5 0.09
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATTAAAAAATATATTAAAATAATTAT
Found at i:117680751 original size:11 final size:11
Alignment explanation
Indices: 117680708--117680752 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
117680698 TATTTTTAAA
117680708 AATTAT-AAA-
1 AATTATAAAAT
*
117680717 AATTAAAAAAT
1 AATTATAAAAT
117680728 -ATATATAAAAT
1 AAT-TATAAAAT
117680739 AATTATAAAAT
1 AATTATAAAAT
117680750 AAT
1 AAT
117680753 AATTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.17
10 5 0.17
11 18 0.60
12 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:117687458 original size:2 final size:2
Alignment explanation
Indices: 117687451--117687481 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117687441 GCCCATTTGT
117687451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117687482 TTAATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117690671 original size:13 final size:13
Alignment explanation
Indices: 117690653--117690677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117690643 TATTATATAA
117690653 TTGTGTGTATATG
1 TTGTGTGTATATG
117690666 TTGTGTGTATAT
1 TTGTGTGTATAT
117690678 ATATTATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (13 bp):
TTGTGTGTATATG
Found at i:117695538 original size:26 final size:26
Alignment explanation
Indices: 117695501--117695609 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
117695491 TGATACAAAT
*
117695501 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117695527 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117695553 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117695578 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117695604 TGATAA
1 TGATAA
117695610 GAATTCATGT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.30
26 56 0.70
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.