Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 103 of 345
Found at i:34057236 original size:34 final size:33
Alignment explanation
Indices: 34057066--34057236 Score: 113
Period size: 34 Copynumber: 5.2 Consensus size: 33
34057056 ATTAATATAT
* * *
34057066 TTTTTTAAAATTTTAAATATATATTTTGAAATTA
1 TTTTATAATATTTTAAATATA-ATTTTTAAATTA
* * * *
34057100 TTTTTTAAAATTTTAAATATTATTTTTTTAA-TA
1 TTTTATAATATTTTAAATA-TAATTTTTAAATTA
*
34057133 -TTTA-AATATTTTAAACTTTCAAATTTGTT--ATTA
1 TTTTATAATATTTTAAA-TAT--AATTT-TTAAATTA
* * * *
34057166 GTTTTATAATAATTTAAATAT--TATTTAATTTC
1 -TTTTATAATATTTTAAATATAATTTTTAAATTA
34057198 TTTTATAATATTTTAAATTATAATTTTTAAATTA
1 TTTTATAATATTTTAAA-TATAATTTTTAAATTA
34057232 TTTTA
1 TTTTA
34057237 AAAGATATTC
Statistics
Matches: 107, Mismatches: 16, Indels: 28
0.71 0.11 0.19
Matches are distributed among these distances:
30 2 0.02
31 29 0.27
32 10 0.09
33 8 0.07
34 40 0.37
35 8 0.07
36 10 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (33 bp):
TTTTATAATATTTTAAATATAATTTTTAAATTA
Found at i:34057511 original size:49 final size:51
Alignment explanation
Indices: 34057458--34057561 Score: 158
Period size: 55 Copynumber: 2.0 Consensus size: 51
34057448 ATTTAAAAGT
34057458 TAAAAAATAG-T-ATTAAAAAAGTGAAATTTGATTAATTAGAAAATAAAAA
1 TAAAAAATAGTTAATTAAAAAAGTGAAATTTGATTAATTAGAAAATAAAAA
34057507 TAAAAAATAGTATTTTAATTAAAAAAGTGAAATTTGATTAATTAGAAAATAAAAA
1 TAAAAAATAG----TTAATTAAAAAAGTGAAATTTGATTAATTAGAAAATAAAAA
34057562 ATATTTGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
49 10 0.20
54 1 0.02
55 38 0.78
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (51 bp):
TAAAAAATAGTTAATTAAAAAAGTGAAATTTGATTAATTAGAAAATAAAAA
Found at i:34057562 original size:30 final size:30
Alignment explanation
Indices: 34057471--34057562 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
34057461 AAAATAGTAT
34057471 TAAAAAAGTGAAATTTGATTAATTAGAAAA
1 TAAAAAAGTGAAATTTGATTAATTAGAAAA
* ** * ** *
34057501 T-AAAAA-TAAAAAAT-AGT-ATT-TTAAT
1 TAAAAAAGTGAAATTTGATTAATTAGAAAA
34057526 TAAAAAAGTGAAATTTGATTAATTAGAAAA
1 TAAAAAAGTGAAATTTGATTAATTAGAAAA
34057556 TAAAAAA
1 TAAAAAA
34057563 TATTTGTTAA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 8 0.19
27 7 0.16
28 7 0.16
29 8 0.19
30 10 0.23
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (30 bp):
TAAAAAAGTGAAATTTGATTAATTAGAAAA
Found at i:34057663 original size:20 final size:20
Alignment explanation
Indices: 34057609--34057669 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
34057599 TTTATTTAAA
*
34057609 AATATATATATATTAAAAAGT
1 AATAT-TATATATTAAAAATT
* * *
34057630 AAAATTTTAAATTAAAAATT
1 AATATTATATATTAAAAATT
34057650 AATATTATATATTATAAAAT
1 AATATTATATATTA-AAAAT
34057670 CACATCATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 23 0.72
21 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATTATATATTAAAAATT
Found at i:34058118 original size:214 final size:212
Alignment explanation
Indices: 34057697--34058304 Score: 1031
Period size: 214 Copynumber: 2.9 Consensus size: 212
34057687 GTGACAACAC
* *
34057697 AAAATAATATGTTATTT-AGAAAATAACTATTATTGTAATGAGATACATGTTCTATTAGGTATAA
1 AAAACAATATGTTATTTGA-AAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAA
* *
34057761 GTATTTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATATATAGAATCATATTAG
65 GTATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATATATAATCATATTAG
* *
34057826 TGAATCTGCTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAATTAAAATATTA
130 TGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAACTAAAATATTA
34057891 AATAAGAAATAAAATTAT
195 AATAAGAAATAAAATTAT
* *
34057909 AAAACAATATGTTATTTGAAAAATAATTATTATTGTAATAAGATACATGTTTTATTAGGTATAAG
1 AAAACAATATGTTATTTGAAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAG
* *
34057974 TATTTAAATTTTTGTTTTTATAATATGATACATGCGTAAATCTATATATATATATAATCATATTA
66 TATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTAAA--TATATATATATATAATCATATTA
* *
34058039 GTGAATCTACTAATACATACTTTATCCGGATAAAGTATGCATTATTAAAATTAAACTAAAATATT
129 GTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAACTAAAATATT
34058104 AAATAAGAAATAAAATTAT
194 AAATAAGAAATAAAATTAT
*
34058123 AAAACAATATGTTATTTGAAAAATAACTATTATTGTAATGAGATACATGTTTTATTAAGTATAAG
1 AAAACAATATGTTATTTGAAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAG
*
34058188 TATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTAAATATCTATATATATAATCATATTAGT
66 TATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATATATAATCATATTAGT
*
34058253 GAAAT-TGCTAATACATACTTCATCCGGATAAAGTATGTATTATTAAAATTAA
131 G-AATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAA
34058305 TGGTTTGTTT
Statistics
Matches: 371, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
212 165 0.44
213 4 0.01
214 202 0.54
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (212 bp):
AAAACAATATGTTATTTGAAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAG
TATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATATATAATCATATTAGT
GAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAACTAAAATATTAA
ATAAGAAATAAAATTAT
Found at i:34065839 original size:6 final size:6
Alignment explanation
Indices: 34065825--34065868 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
34065815 TAGATGGAGA
*
34065825 AGGGGG AGGGAG A-GGGG AGGGGG AGGGGG AGGGGG AGGGGG AGG
1 AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGG
34065869 AACTGCAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (6 bp):
AGGGGG
Found at i:34065843 original size:11 final size:11
Alignment explanation
Indices: 34065827--34065864 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
34065817 GATGGAGAAG
*
34065827 GGGGAGGGAGA
1 GGGGAGGGGGA
34065838 GGGGAGGGGGA
1 GGGGAGGGGGA
34065849 GGGGGAGGGGGA
1 -GGGGAGGGGGA
34065861 GGGG
1 GGGG
34065865 GAGGAACTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (11 bp):
GGGGAGGGGGA
Found at i:34071711 original size:28 final size:28
Alignment explanation
Indices: 34071639--34071721 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
34071629 TGAGCACTTT
* *
34071639 AGTGTTGTTCTGTTCTAATAAGCACTAC
1 AGTGTTATTCTGTTCTGATAAGCACTAC
* *
34071667 AGTGCTATTTTGTTCTGATAAGCACTAC
1 AGTGTTATTCTGTTCTGATAAGCACTAC
* *
34071695 ATTGTTATTCTGTTCTGTTAACGCACT
1 AGTGTTATTCTGTTCTGATAA-GCACT
34071722 TCGGTGCCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
28 41 0.89
29 5 0.11
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (28 bp):
AGTGTTATTCTGTTCTGATAAGCACTAC
Found at i:34074970 original size:18 final size:22
Alignment explanation
Indices: 34074927--34074970 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 22
34074917 CTTAGTTGTA
34074927 AATTATGAATACTTATGCTAGT
1 AATTATGAATACTTATGCTAGT
34074949 -ATTAT-AA-ACTT-TGCTA-T
1 AATTATGAATACTTATGCTAGT
34074966 AATTA
1 AATTA
34074971 GAAGATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 1 0.05
18 9 0.43
19 4 0.19
20 2 0.10
21 5 0.24
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (22 bp):
AATTATGAATACTTATGCTAGT
Found at i:34076582 original size:12 final size:12
Alignment explanation
Indices: 34076552--34076581 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34076542 TTTACCTCTC
34076552 TTTTTTTCCTTT
1 TTTTTTTCCTTT
34076564 TTTTTTT-CTTT
1 TTTTTTTCCTTT
34076575 TTTTTTT
1 TTTTTTT
34076582 TTGGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCCTTT
Found at i:34077434 original size:12 final size:12
Alignment explanation
Indices: 34077417--34077442 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34077407 AAGAATGTAA
34077417 TATTATTTTTGG
1 TATTATTTTTGG
34077429 TATTATTTTTGG
1 TATTATTTTTGG
34077441 TA
1 TA
34077443 ACAGAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (12 bp):
TATTATTTTTGG
Found at i:34083283 original size:44 final size:44
Alignment explanation
Indices: 34083220--34083308 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
34083210 AATGATGACT
*
34083220 AAATCCATAATTTATACACGACATGAGACTAATAGTAAAATTTA
1 AAATCCATAATATATACACGACATGAGACTAATAGTAAAATTTA
*
34083264 AAATCCATAATATATACACGACATGAGACTAATAGTAGAATTTA
1 AAATCCATAATATATACACGACATGAGACTAATAGTAAAATTTA
34083308 A
1 A
34083309 CCTAATTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (44 bp):
AAATCCATAATATATACACGACATGAGACTAATAGTAAAATTTA
Found at i:34083473 original size:49 final size:49
Alignment explanation
Indices: 34083416--34083513 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
34083406 GTAAGGAGGG
34083416 GTCTAATTATGGTTTAGTCCTTATACTATGTTGAAATTTTAAAATTTTA
1 GTCTAATTATGGTTTAGTCCTTATACTATGTTGAAATTTTAAAATTTTA
34083465 GTCTAATTATGGTTTAGTCCTTATACTATGTTGAAATTTTAAAATTTTA
1 GTCTAATTATGGTTTAGTCCTTATACTATGTTGAAATTTTAAAATTTTA
34083514 TCTTTTTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (49 bp):
GTCTAATTATGGTTTAGTCCTTATACTATGTTGAAATTTTAAAATTTTA
Found at i:34088082 original size:46 final size:45
Alignment explanation
Indices: 34087861--34088130 Score: 174
Period size: 46 Copynumber: 5.8 Consensus size: 45
34087851 AGATTATTTG
* ** *
34087861 TGTA-CCAGTGTAAGACATGTCTGGGACATGCATCAACTAC-ATTA
1 TGTAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GA
* * * * *
34087905 TGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAGA
1 TG-TAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGA
* * * *
34087953 TGAGAGCTAGTGTAAGACATGTCCAGGACATCCATCGGCCT-CGAGA
1 TG-TAGCCAGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGA
* *
34087999 TGTAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGA
1 TGT-AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
* * *
34088045 TGT-GTCAGTGTAAGACCATGTCTAGGACATGAAATCGGC-ACGGATA
1 TGTAGCCAGTGTAAGA-CATGTCTAGGACATG-CATCGGCTAC-GAGA
* *
34088091 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGT---AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATC
34088131 ATCATTATAC
Statistics
Matches: 179, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.07
45 18 0.10
46 70 0.39
47 28 0.16
48 21 0.12
49 1 0.01
50 27 0.15
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
Found at i:34090154 original size:16 final size:17
Alignment explanation
Indices: 34090113--34090154 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
34090103 AGTTTAGTAT
34090113 TTAATAATTTAATATTG
1 TTAATAATTTAATATTG
34090130 TTAAT-ATTTAAT-TATG
1 TTAATAATTTAATAT-TG
34090146 -TAATAATTT
1 TTAATAATTT
34090155 TATTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.22
16 13 0.57
17 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAATAATTTAATATTG
Found at i:34096086 original size:23 final size:23
Alignment explanation
Indices: 34096059--34096102 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
34096049 GAACATGTTT
34096059 ATAAAAATATGTATTTAATATAC
1 ATAAAAATATGTATTTAATATAC
* *
34096082 ATAAATATATTTATTTAATAT
1 ATAAAAATATGTATTTAATAT
34096103 TTACAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAAAATATGTATTTAATATAC
Found at i:34096110 original size:23 final size:23
Alignment explanation
Indices: 34096056--34096111 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
34096046 CATGAACATG
*
34096056 TTTATAAAAATATGTATTTAATA
1 TTTATAAATATATGTATTTAATA
** *
34096079 TACATAAATATATTTATTTAATA
1 TTTATAAATATATGTATTTAATA
*
34096102 TTTACAAATA
1 TTTATAAATA
34096112 AGTTTTCATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
TTTATAAATATATGTATTTAATA
Found at i:34096478 original size:18 final size:20
Alignment explanation
Indices: 34096455--34096491 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
34096445 TATATTTTTG
34096455 AATTTTTT-A-TATTTATAT
1 AATTTTTTAATTATTTATAT
34096473 AATTTTTTAATTATTTATA
1 AATTTTTTAATTATTTATA
34096492 AAATGTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTTTTAATTATTTATAT
Found at i:34112513 original size:59 final size:59
Alignment explanation
Indices: 34112448--34112635 Score: 141
Period size: 59 Copynumber: 3.2 Consensus size: 59
34112438 ATTTTATTAA
34112448 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
34112507 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * * *
34112567 ATTATATATTTTAATTAAAATATATTTAACAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAA-TATTAATTATTTCAAATTATATTTTATAGT
34112626 ATCATATATT
1 ATCATATATT
34112636 ATGATTTGAG
Statistics
Matches: 90, Mismatches: 31, Indels: 16
0.66 0.23 0.12
Matches are distributed among these distances:
57 5 0.06
58 10 0.11
59 36 0.40
60 25 0.28
61 9 0.10
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:34112562 original size:119 final size:119
Alignment explanation
Indices: 34112437--34112722 Score: 475
Period size: 119 Copynumber: 2.4 Consensus size: 119
34112427 AATTATTTTA
*
34112437 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATT-ATTATTTCAAATTATATTTT
* * *
34112502 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
34112556 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAACAATTATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAA-TATTATTATTTCAAATTATATTTT
34112621 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
34112676 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAT
34112723 GTTTAAATAT
Statistics
Matches: 156, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 106 0.68
120 50 0.32
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTATTATTTCAAATTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:34112583 original size:18 final size:17
Alignment explanation
Indices: 34112557--34112591 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34112547 GATTATTAGA
*
34112557 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34112574 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34112592 TTAACAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34112693 original size:59 final size:58
Alignment explanation
Indices: 34112511--34112693 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
34112501 TATAGTATCA
*
34112511 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
34112569 TATA-TAT--TTTAATTAAAATAT-ATTTAACAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
34112628 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
34112689 TATAT
1 TATAT
34112694 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:34112705 original size:18 final size:17
Alignment explanation
Indices: 34112677--34112711 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34112667 ATTATTAAGA
*
34112677 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34112694 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34112712 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34112827 original size:144 final size:147
Alignment explanation
Indices: 34112665--34112936 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
34112655 ATAAGAATAT
34112665 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TAATAATTATGTTTAA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTATAATAATTATGTTTAA
*
34112729 ATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATTTA
66 ATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
34112792 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
34112809 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT--ATAATAATTATGTTT
* *
34112874 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
64 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
34112937 CAATAATCAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 48 0.40
147 40 0.33
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTATAATAATTATGTTTAA
ATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:34112849 original size:18 final size:17
Alignment explanation
Indices: 34112821--34112855 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34112811 ATTATTAAGA
*
34112821 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34112838 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34112856 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34113066 original size:44 final size:45
Alignment explanation
Indices: 34113017--34113111 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
34113007 TTACACCTCT
* * * *
34113017 ATTACATTGAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
* ** *
34113061 ATTACATTCAACCCAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
34113106 ATTACA
1 ATTACA
34113112 CCTCTAATCC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 16 0.38
45 26 0.62
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:34113111 original size:16 final size:16
Alignment explanation
Indices: 34113092--34113159 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
34113082 GATTTGCTAT
* * *
34113092 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
34113108 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34113124 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34113140 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34113156 TACA
1 TACA
34113160 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34113524 original size:10 final size:10
Alignment explanation
Indices: 34113509--34113568 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
34113499 TAAATTTAGG
*
34113509 ATTTATTTTT
1 ATTTATCTTT
*
34113519 ATTTATCTTC
1 ATTTATCTTT
*
34113529 AATTATCTTT
1 ATTTATCTTT
*
34113539 AATTATCTTT
1 ATTTATCTTT
34113549 ATTTAT-TTGT
1 ATTTATCTT-T
34113559 ATTTATCTTT
1 ATTTATCTTT
34113569 TAAAATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:34123865 original size:19 final size:19
Alignment explanation
Indices: 34123843--34123897 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
34123833 AATAGAGAGT
34123843 TTTGTTAGTAATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
** *
34123862 TTTGAAAGTTATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
* *
34123881 --GGTTATTAATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
34123898 GCTTTTGAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (19 bp):
TTTGTTAGTAATTTTGTTA
Found at i:34126954 original size:78 final size:77
Alignment explanation
Indices: 34126830--34127075 Score: 282
Period size: 78 Copynumber: 3.1 Consensus size: 77
34126820 TTATGTAAAT
* * ***
34126830 AATACAAAGTTTATTATTTAAATT--AC-AAAAAACCCCTAAAATTAATAACTAAAATAGCAAAA
1 AATACAAAGTTGACTATTTAAATTGCACAAAAAAAAATCTAAAATTAATAACTAAAAT-GCAAAA
34126892 AAATCATTACATA
65 AAATCATTACATA
**
34126905 AATACAAAGTTGACTATTTAAATTGCACAAAAAAAAATCTAAAATTAATAACTAAAATTGTGAAA
1 AATACAAAGTTGACTATTTAAATTGCACAAAAAAAAATCTAAAATTAATAACTAAAA-TGCAAAA
*
34126970 AAGTCATTACATA
65 AAATCATTACATA
* * *
34126983 AATATAAAGTTGACTATTTAAATTGCAAAAAAAAAAACGTCATAAAAGTAATAACTAAAATGACA
1 AATACAAAGTTGACTATTTAAATTGCACAAAAAAAAA--TC-TAAAATTAATAACTAAAATG-CA
*
34127048 AAAAAAGTCATTATATA
62 AAAAAA-TCATTACATA
* *
34127065 ACTATAAAGTT
1 AATACAAAGTT
34127076 ATTTAAATTA
Statistics
Matches: 146, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
75 22 0.15
77 2 0.01
78 76 0.52
79 1 0.01
80 4 0.03
81 22 0.15
82 19 0.13
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.28
Consensus pattern (77 bp):
AATACAAAGTTGACTATTTAAATTGCACAAAAAAAAATCTAAAATTAATAACTAAAATGCAAAAA
AATCATTACATA
Found at i:34129241 original size:23 final size:23
Alignment explanation
Indices: 34129185--34129241 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
34129175 ATAATATAAT
*
34129185 TAAAATAAATATATACTATCTAAA
1 TAAAATAAA-ATATACAATCTAAA
*
34129209 CATAAA-AAAATATACGAAT-TAAA
1 TA-AAATAAAATATAC-AATCTAAA
34129232 TAAAATAAAA
1 TAAAATAAAA
34129242 ATAAAAACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
22 3 0.11
23 15 0.56
24 6 0.22
25 3 0.11
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAAATAAAATATACAATCTAAA
Found at i:34129716 original size:34 final size:33
Alignment explanation
Indices: 34129678--34129784 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
34129668 AAAAAATGTT
34129678 TAAATTAGGGTTTATGGTTTTTAAATAGATTAAG
1 TAAATTAGGGTTT-TGGTTTTTAAATAGATTAAG
* * *
34129712 TAAATTAGGGTTTTAGG-GTTT-AA-A-ATAAAT
1 TAAATTAGGGTTTT-GGTTTTTAAATAGATTAAG
34129742 TAAATTAGGGTTTTTGGTTTTTAAATAGATTAAG
1 TAAATTAGGG-TTTTGGTTTTTAAATAGATTAAG
34129776 TAAATTAGG
1 TAAATTAGG
34129785 TTTCTAGGGC
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
30 16 0.26
31 8 0.13
32 4 0.07
33 5 0.08
34 28 0.46
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (33 bp):
TAAATTAGGGTTTTGGTTTTTAAATAGATTAAG
Found at i:34129747 original size:30 final size:30
Alignment explanation
Indices: 34129712--34129819 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 30
34129702 ATAGATTAAG
34129712 TAAATTAGGGTTTTAGGGTTTAAAATAAAT
1 TAAATTAGGGTTTTAGGGTTTAAAATAAAT
* * * *
34129742 TAAATTAGGGTTTTTGGTTTTTAAATAGATTAAG
1 TAAATTAGGGTTTTAGG-GTTT-AA-A-ATAAAT
*
34129776 TAAATTA-GGTTTCTAGGGCTTT-AGATAAAT
1 TAAATTAGGGTTT-TAGGG-TTTAAAATAAAT
34129806 TAAATTAGGGTTTT
1 TAAATTAGGGTTTT
34129820 GAGTTTTGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
30 28 0.45
31 8 0.13
32 3 0.05
33 6 0.10
34 17 0.27
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (30 bp):
TAAATTAGGGTTTTAGGGTTTAAAATAAAT
Found at i:34129747 original size:64 final size:63
Alignment explanation
Indices: 34129677--34129826 Score: 232
Period size: 64 Copynumber: 2.3 Consensus size: 63
34129667 AAAAAAATGT
34129677 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTT-TAGGG-TTTAAAATAA
1 TTAAATTAGGGTTT-TGGTTTTTAAATAGATTAAGTAAATTA-GGTTTCTAGGGCTTT-AAATAA
34129740 A
63 A
*
34129741 TTAAATTAGGGTTTTTGGTTTTTAAATAGATTAAGTAAATTAGGTTTCTAGGGCTTTAGATAAA
1 TTAAATTAGGG-TTTTGGTTTTTAAATAGATTAAGTAAATTAGGTTTCTAGGGCTTTAAATAAA
34129805 TTAAATTAGGGTTTTGAGTTTT
1 TTAAATTAGGGTTTTG-GTTTT
34129827 GGGTTAAAAA
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
63 10 0.12
64 65 0.80
65 6 0.07
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (63 bp):
TTAAATTAGGGTTTTGGTTTTTAAATAGATTAAGTAAATTAGGTTTCTAGGGCTTTAAATAAA
Found at i:34129808 original size:34 final size:33
Alignment explanation
Indices: 34129678--34129808 Score: 112
Period size: 34 Copynumber: 4.0 Consensus size: 33
34129668 AAAAAATGTT
* *
34129678 TAAATTAGGG-TTTATGGTTTTTAAATAGATTAAG
1 TAAATTAGGGTTTTA-GG-GTTTAAATAAATTAAG
34129712 TAAATTAGGGTTTTAGGGTTTAAAATAAA-T---
1 TAAATTAGGGTTTTAGGGTTT-AAATAAATTAAG
* * *
34129742 TAAATTAGGGTTTTTGGTTTTTAAATAGATTAAG
1 TAAATTAGGGTTTTAGG-GTTTAAATAAATTAAG
*
34129776 TAAATTA-GGTTTCTAGGGCTTTAGATAAATTAA
1 TAAATTAGGGTTT-TAGGG-TTTAAATAAATTAA
34129809 ATTAGGGTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
30 22 0.28
31 4 0.05
33 9 0.11
34 40 0.51
35 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.43
Consensus pattern (33 bp):
TAAATTAGGGTTTTAGGGTTTAAATAAATTAAG
Found at i:34130171 original size:126 final size:126
Alignment explanation
Indices: 34129911--34130241 Score: 475
Period size: 126 Copynumber: 2.6 Consensus size: 126
34129901 TTATTTTCAC
* * *
34129911 CCTGAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGATG
1 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* * * * *
34129976 CACTATTAGCAAAAATACAGAAAAAAAGCTACCAAGTGGACACTTTTTTGCTATAGTAGTT
66 CACTGTCAGCAAAAATACAGAAAAAAAGCTACCAAGTAGACACTCTTTTGCTACAGTAGTT
* *
34130037 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAAGAGTGTCAAAAACACTTCAAGCAGGATG
1 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* * **
34130102 CACTGTCAGCAAAAATATAG-AAAAAAGCTACCATGTAGATGCTCTTTTGCTACAGTAGTT
66 CACTGTCAGCAAAAATACAGAAAAAAAGCTACCAAGTAGACACTCTTTTGCTACAGTAGTT
* *
34130162 CCTGAAAAAATAATTTTGAGAAGATGTTTATGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
34130227 GTAATGTCATCAAAA
65 GCACTGTCAGCAAAA
34130242 TTTCTAAAAA
Statistics
Matches: 183, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 38 0.21
126 145 0.79
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (126 bp):
CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
CACTGTCAGCAAAAATACAGAAAAAAAGCTACCAAGTAGACACTCTTTTGCTACAGTAGTT
Found at i:34130252 original size:126 final size:124
Alignment explanation
Indices: 34129911--34130288 Score: 468
Period size: 126 Copynumber: 3.0 Consensus size: 124
34129901 TTATTTTCAC
* * *
34129911 CCTGAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGATG
1 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* * * * * * * *
34129976 CACTATTAGCAAAAATACAGAAAAAAAGCTACCAAGTGGACACTTTTTTGCTATAGTAGTT
66 CACTGTCAGC-AAAATTC-TAAAAAAAGCTACCATGTGGACGCTATTTTGCTACAGTAGTT
* *
34130037 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAAGAGTGTCAAAAACACTTCAAGCAGGATG
1 CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* * * * *
34130102 CACTGTCAGCAAAAATATAGAAAAAAGCTACCATGTAGATGCTCTTTTGCTACAGTAGTT
66 CACTGTCAGCAAAATTCTA-AAAAAAGCTACCATGTGGACGCTATTTTGCTACAGTAGTT
* *
34130162 CCTGAAAAAATAATTTTGAGAAGATGTTTATGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * * * * *
34130227 GTAATGTCATCAAAATTTCTAAAAAAAACTCCCATATGGACGCTATTTTTCTACAGTAGTT
65 GCACTGTCAGCAAAA-TTCTAAAAAAAGCTACCATGTGGACGCTATTTTGCTACAGTAGTT
34130288 C
1 C
34130289 ATACTTGGCC
Statistics
Matches: 216, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
124 1 0.00
125 42 0.19
126 170 0.79
127 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (124 bp):
CCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
CACTGTCAGCAAAATTCTAAAAAAAGCTACCATGTGGACGCTATTTTGCTACAGTAGTT
Found at i:34133327 original size:30 final size:33
Alignment explanation
Indices: 34133255--34133327 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 33
34133245 AGAACTTATA
34133255 TTTTATTAAAATTATAAAATAAAAAAATTAATT
1 TTTTATTAAAATTATAAAATAAAAAAATTAATT
** * * *
34133288 TACTATTAAAA-TATAAAA-AAACAACTT-CTT
1 TTTTATTAAAATTATAAAATAAAAAAATTAATT
34133318 TTTTATTAAA
1 TTTTATTAAA
34133328 TAAAACAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 10 0.30
31 7 0.21
32 7 0.21
33 9 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTTATTAAAATTATAAAATAAAAAAATTAATT
Found at i:34133735 original size:18 final size:18
Alignment explanation
Indices: 34133712--34133750 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
34133702 GGAAAAGGGA
* *
34133712 ACATATATGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
34133730 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
34133748 ACA
1 ACA
34133751 CACCTGACAT
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:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:34133837 original size:30 final size:30
Alignment explanation
Indices: 34133803--34133864 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
34133793 GTTGAGGTAT
34133803 TGGGCCCA-GTGATTGTGTGGGCGCTATTGA
1 TGGG-CCAGGTGATTGTGTGGGCGCTATTGA
* *
34133833 TGGGCCAGGTGATTGTGTGGGTGCTGTTGA
1 TGGGCCAGGTGATTGTGTGGGCGCTATTGA
34133863 TG
1 TG
34133865 AGCCTGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.11, C:0.13, G:0.44, T:0.32
Consensus pattern (30 bp):
TGGGCCAGGTGATTGTGTGGGCGCTATTGA
Found at i:34134374 original size:7 final size:7
Alignment explanation
Indices: 34134364--34134389 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34134354 TTATATACAT
34134364 AATACTA
1 AATACTA
34134371 AATACTA
1 AATACTA
34134378 AATACTA
1 AATACTA
34134385 AATAC
1 AATAC
34134390 GAAACGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:34136246 original size:89 final size:91
Alignment explanation
Indices: 34136131--34136525 Score: 361
Period size: 89 Copynumber: 4.1 Consensus size: 91
34136121 ACTAAACTAT
*
34136131 AAACACTAACGATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
**
34136196 TTAAATTACATTATTAAAAAATCACA
66 AAAAATTACATTATTAAAAAATCACA
* **
34136222 AAACACTAACAATTTATA-AA-CTAATCATAAATTACTAACAAAATAACTATAACA-T-TTTTAA
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
*
34136283 AAAGAATTTACATTACTAATAAATCACAAAACACA
66 AAA-AA-TTACATTA-T--T-AA--A-AAATCACA
*
34136318 AAACACTAACAATTTATATAACCTAATCATAAATTACTAAAAAAATAACTATAAAATTATTTTTT
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
*
34136383 AAAAAGATTACATTACTAAAAAATCACAAAACCCTAAA
66 -AAAA-ATTACATTATTAAAAAAT--C---A--C---A
* * *
34136421 TTAAACACTAACAATTTCTA-AA-CTAATCATAAATTACTAATAAAATAACTATAAAAATATTGT
1 --AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAT--AAA-ATTAT
* ** * *
34136484 TTTTTATATTTTATATTACTAAAAAATCACA
61 TTTTTAAAAATTACATTATTAAAAAATCACA
34136515 AAACACTAACA
1 AAACACTAACA
34136526 TAAATTATTA
Statistics
Matches: 254, Mismatches: 20, Indels: 59
0.76 0.06 0.18
Matches are distributed among these distances:
87 5 0.02
88 3 0.01
89 41 0.16
90 3 0.01
91 17 0.07
92 12 0.05
93 5 0.02
94 2 0.01
95 2 0.01
96 27 0.11
97 4 0.02
98 33 0.13
99 2 0.01
100 14 0.06
101 4 0.02
102 1 0.00
103 30 0.12
104 18 0.07
105 22 0.09
106 9 0.04
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (91 bp):
AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
AAAAATTACATTATTAAAAAATCACA
Found at i:34136467 original size:103 final size:99
Alignment explanation
Indices: 34136221--34136523 Score: 364
Period size: 104 Copynumber: 3.0 Consensus size: 99
34136211 AAAAAATCAC
* *
34136221 AAAACACTAACAATTTATAAACTAATCATAAATTACTAACAAAATAACTAT--AACA-TTTTTAA
1 AAAACACTAACAATTTATAAACTAATCATAAATTACTAAAAAAATAACTATAAAATATTTTTTAA
* *
34136283 AAAGAATTTACATTACTAATAAATCACAAAA-C-AC
66 AAAG-A-TTACATTACTAAAAAATCACAAAACCTAA
34136317 AAAACACTAACAATTTATATAACCTAATCATAAATTACTAAAAAAATAACTATAAAATTATTTTT
1 AAAACACTAACAATTTATA-AA-CTAATCATAAATTACTAAAAAAATAACTATAAAA-TATTTTT
34136382 TAAAAAGATTACATTACTAAAAAATCACAAAACCCTAA
63 TAAAAAGATTACATTACTAAAAAATCACAAAA-CCTAA
* *
34136420 ATTAAACACTAACAATTTCTAAACTAATCATAAATTACTAATAAAATAACTATAAAAATATTGTT
1 A--AAACACTAACAATTTATAAACTAATCATAAATTACTAAAAAAATAACTAT-AAAATATT-TT
** * ** *
34136485 TTTTATATTTTATATTACTAAAAAATCACAAAACACTAA
62 TTAAAAAGATTACATTACTAAAAAATCACAAAAC-CTAA
34136524 CATAAATTAT
Statistics
Matches: 181, Mismatches: 12, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
96 19 0.10
97 2 0.01
98 29 0.16
100 25 0.14
101 2 0.01
102 12 0.07
103 36 0.20
104 39 0.22
105 17 0.09
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (99 bp):
AAAACACTAACAATTTATAAACTAATCATAAATTACTAAAAAAATAACTATAAAATATTTTTTAA
AAAGATTACATTACTAAAAAATCACAAAACCTAA
Found at i:34136923 original size:18 final size:17
Alignment explanation
Indices: 34136883--34136925 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
34136873 ATACGTTTTT
*
34136883 TTTCTTTTTTTCTTTCT
1 TTTCTTTTTTTCTTTCC
34136900 TCTTCTTTTTTTCTTCTCC
1 T-TTCTTTTTTTCTT-TCC
34136919 TTTCTTT
1 TTTCTTT
34136926 CCTTCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCTTTTTTTCTTTCC
Found at i:34138088 original size:28 final size:28
Alignment explanation
Indices: 34138048--34138126 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
34138038 GCAATCAAAT
* * *
34138048 ATGGTACTCAGTGTACGAAATATTAAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
34138076 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
34138104 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
34138127 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTAAGA
Found at i:34140155 original size:57 final size:57
Alignment explanation
Indices: 34140086--34140443 Score: 599
Period size: 57 Copynumber: 6.2 Consensus size: 57
34140076 AAGTGAACAT
* *
34140086 AGGCACTGTGTGTGTGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
34140143 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
34140200 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
34140257 AGGCACTGTGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
34140314 AGGCACTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * * *
34140371 AGGCACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTACAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
34140428 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
34140444 AAATGAGATC
Statistics
Matches: 283, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
57 277 0.98
59 6 0.02
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:34144797 original size:28 final size:28
Alignment explanation
Indices: 34144757--34144835 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
34144747 GCAATCAAAT
* * *
34144757 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
34144785 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
34144813 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
34144836 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:34150071 original size:26 final size:26
Alignment explanation
Indices: 34150023--34150072 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
34150013 ACCATCAAAT
*
34150023 AAATTTAAGAAAATAACAAAAATAAA
1 AAATTTAAGAAAAGAACAAAAATAAA
*
34150049 AAATTTAAGAATAGAA-AATAAATA
1 AAATTTAAGAAAAGAACAA-AAATA
34150073 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (26 bp):
AAATTTAAGAAAAGAACAAAAATAAA
Found at i:34165749 original size:42 final size:40
Alignment explanation
Indices: 34165702--34165781 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 40
34165692 TACAGGGGTT
* *
34165702 TTCACACAGCC-TGGAACACGCTCGTGTCTCTAGCCTGTGTCC
1 TTCACACAGCCAT-G-ACACGCCCGTGTC-CTAGCCCGTGTCC
*
34165744 TTCACACGGCCATGACACGCCCGTGTCCTAGCCCGTGT
1 TTCACACAGCCATGACACGCCCGTGTCCTAGCCCGTGT
34165782 GCAAAAACCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 12 0.35
42 11 0.32
43 1 0.03
ACGTcount: A:0.16, C:0.38, G:0.23, T:0.24
Consensus pattern (40 bp):
TTCACACAGCCATGACACGCCCGTGTCCTAGCCCGTGTCC
Found at i:34168764 original size:5 final size:5
Alignment explanation
Indices: 34168754--34168778 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34168744 ATGATGTGAC
34168754 TTGAG TTGAG TTGAG TTGAG TTGAG
1 TTGAG TTGAG TTGAG TTGAG TTGAG
34168779 GTTGGACACA
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:0.40, T:0.40
Consensus pattern (5 bp):
TTGAG
Found at i:34172960 original size:28 final size:28
Alignment explanation
Indices: 34172928--34172988 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
34172918 AAGTCCGTTG
34172928 GGATAGTAAACACGAGGTAAGTTC-ATCA
1 GGATAGTAAACACGAGGTAA-TTCTATCA
*
34172956 GGATAGTAAACACGGGGTAATTCTATCA
1 GGATAGTAAACACGAGGTAATTCTATCA
*
34172984 TGATA
1 GGATA
34172989 AGAGAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (28 bp):
GGATAGTAAACACGAGGTAATTCTATCA
Found at i:34173259 original size:20 final size:20
Alignment explanation
Indices: 34173234--34173273 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34173224 GCAAAACCCT
34173234 ATGAGAATTAGAGAAAGATA
1 ATGAGAATTAGAGAAAGATA
34173254 ATGAGAATTAGAGAAAGATA
1 ATGAGAATTAGAGAAAGATA
34173274 GGTCTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGAGAATTAGAGAAAGATA
Found at i:34177704 original size:21 final size:21
Alignment explanation
Indices: 34177640--34177704 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
34177630 GAAGCATATG
* *
34177640 AGAGCTAAATAGAAACCCATA
1 AGAGCTGAATGGAAACCCATA
* * * *
34177661 CA-AGTTGAATGGAAGCTCGTA
1 -AGAGCTGAATGGAAACCCATA
34177682 AGAGCTGAATGGAAACCCATA
1 AGAGCTGAATGGAAACCCATA
34177703 AG
1 AG
34177705 GGTTAAATAA
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAGCTGAATGGAAACCCATA
Found at i:34182551 original size:16 final size:16
Alignment explanation
Indices: 34182530--34182562 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34182520 TTAGAGAGAG
34182530 ATAGGTTGGTTTCATA
1 ATAGGTTGGTTTCATA
34182546 ATAGGTTGGTTTCATA
1 ATAGGTTGGTTTCATA
34182562 A
1 A
34182563 CTAGCTCCAC
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:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (16 bp):
ATAGGTTGGTTTCATA
Found at i:34193313 original size:13 final size:13
Alignment explanation
Indices: 34193295--34193320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34193285 AAGTAATCGA
34193295 ACACGGGCGTGTC
1 ACACGGGCGTGTC
34193308 ACACGGGCGTGTC
1 ACACGGGCGTGTC
34193321 CCTGCCGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:34193975 original size:12 final size:13
Alignment explanation
Indices: 34193958--34193995 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
34193948 ATCCTGGAAT
34193958 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
34193970 ATTAAGAACACATA
1 ATTAAGAACA-AGA
34193984 ATTAAGAACAAG
1 ATTAAGAACAAG
34193996 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:34194725 original size:25 final size:25
Alignment explanation
Indices: 34194697--34194750 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
34194687 TCAGAAAAGG
34194697 CCAATTTTGAGGGTTCTTAGGCATT
1 CCAATTTTGAGGGTTCTTAGGCATT
34194722 CCAATTTTGAGGGTTCTTAGGCATT
1 CCAATTTTGAGGGTTCTTAGGCATT
34194747 CCAA
1 CCAA
34194751 AGCCTATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (25 bp):
CCAATTTTGAGGGTTCTTAGGCATT
Found at i:34198134 original size:24 final size:24
Alignment explanation
Indices: 34198106--34198174 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
34198096 CTTATCAAGA
34198106 TAAATATTAGATTAAATTAATAGG
1 TAAATATTAGATTAAATTAATAGG
*
34198130 TAAATATTAGATTAAATTTAATA-T
1 TAAATATTAGATTAAA-TTAATAGG
*
34198154 TAAATCTT--ATTAAATTAATAG
1 TAAATATTAGATTAAATTAATAG
34198175 AATCTTTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
24 23 0.56
25 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (24 bp):
TAAATATTAGATTAAATTAATAGG
Found at i:34198244 original size:20 final size:18
Alignment explanation
Indices: 34198194--34198245 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
34198184 CTACAAGATA
34198194 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
34198211 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
34198231 AATATTAAATTAATA
1 AATATTAAATTAATA
34198246 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:34201555 original size:24 final size:24
Alignment explanation
Indices: 34201528--34201575 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
34201518 TACTTAATAC
*
34201528 TTAAGTAT-ATAATATAATAATATA
1 TTAA-TATAATAATATAACAATATA
34201552 TTAATATAATAATATAACAATATA
1 TTAATATAATAATATAACAATATA
34201576 ATATAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAATATAATAATATAACAATATA
Found at i:34201584 original size:8 final size:8
Alignment explanation
Indices: 34201536--34201578 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
34201526 ACTTAAGTAT
34201536 ATAATATA
1 ATAATATA
34201544 ATAATATA
1 ATAATATA
*
34201552 TTAATATA
1 ATAATATA
34201560 ATAATATA
1 ATAATATA
*
34201568 ACAATATA
1 ATAATATA
34201576 ATA
1 ATA
34201579 TAATAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:34201594 original size:21 final size:20
Alignment explanation
Indices: 34201534--34201595 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 20
34201524 ATACTTAAGT
* *
34201534 ATATAATATAATAATATATTA
1 ATATAATATAATAAAACA-TA
*
34201555 ATAT-A-ATAATATAAC--A
1 ATATAATATAATAAAACATA
34201571 ATATAATATAATAAAACATA
1 ATATAATATAATAAAACATA
34201591 A-ATAA
1 ATATAA
34201596 ACTAAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 5 0.15
17 1 0.03
18 9 0.27
19 11 0.33
20 3 0.09
21 4 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAATATAATAAAACATA
Found at i:34201629 original size:21 final size:21
Alignment explanation
Indices: 34201604--34201648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34201594 AAACTAAAGT
34201604 AAATAAA-ACAAAGAAAAAGAG
1 AAATAAAGA-AAAGAAAAAGAG
* *
34201625 AAATAAAGAAACGAAACAGAG
1 AAATAAAGAAAAGAAAAAGAG
34201646 AAA
1 AAA
34201649 AATAGGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (21 bp):
AAATAAAGAAAAGAAAAAGAG
Found at i:34206973 original size:27 final size:24
Alignment explanation
Indices: 34206943--34207012 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 24
34206933 GTTTGAAATC
34206943 AAGATTTGGGTGAAGAAAATGCAAGA
1 AAGATTT-GGTGAAGAAAATG-AAGA
*
34206969 GAAGATTT-GAGAA-AAAATGAAGA
1 -AAGATTTGGTGAAGAAAATGAAGA
* *
34206992 AAGATTT-GTGTAGAAGATGAA
1 AAGATTTGGTGAAGAAAATGAA
34207013 AGTGGTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 10 0.26
23 11 0.29
24 6 0.16
25 4 0.11
27 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.29, T:0.21
Consensus pattern (24 bp):
AAGATTTGGTGAAGAAAATGAAGA
Found at i:34210865 original size:24 final size:24
Alignment explanation
Indices: 34210820--34210866 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34210810 CTGAGTCCTG
* *
34210820 AAGCTCCAACTTCTTTGTCACAAC
1 AAGCACCAACTTCTTTGACACAAC
34210844 AAGCACCAACTTCTGTT-ACACAA
1 AAGCACCAACTTCT-TTGACACAA
34210867 GGTATATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.26
Consensus pattern (24 bp):
AAGCACCAACTTCTTTGACACAAC
Found at i:34213747 original size:5 final size:5
Alignment explanation
Indices: 34213737--34213761 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34213727 CAAGTATATC
34213737 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
34213762 TGGTTTAATT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:34222395 original size:33 final size:33
Alignment explanation
Indices: 34222358--34222432 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
34222348 CATTACTTAC
* *
34222358 ATGTATTTATATTTAATGAATGTA-TTAGAGTAG
1 ATGTATCTA-ATTTAATGAATGTATTTAGAGAAG
*
34222391 ATGTATCTAGTTTAATGAATGTATTTAGAGAAG
1 ATGTATCTAATTTAATGAATGTATTTAGAGAAG
34222424 ATGTATCTA
1 ATGTATCTA
34222433 GTAGTCATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 13 0.34
33 25 0.66
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.43
Consensus pattern (33 bp):
ATGTATCTAATTTAATGAATGTATTTAGAGAAG
Found at i:34222406 original size:32 final size:33
Alignment explanation
Indices: 34222369--34222434 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
34222359 TGTATTTATA
*
34222369 TTTAATGAATGTA-TTAGAGTAGATGTATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
34222401 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
34222434 T
1 T
34222435 AGTCATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (33 bp):
TTTAATGAATGTATTTAGAGAAGATGTATCTAG
Found at i:34247727 original size:41 final size:41
Alignment explanation
Indices: 34247668--34247773 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
34247658 GTGGCATTAA
*
34247668 CGGCGC-TTTTTAAAAAACGCCGCTAATGCTCGATCTTTAG
1 CGGCGCTTTTTTAAAAAACGCAGCTAATGCTCGATCTTTAG
* *
34247708 TGGCGCTTTTTTAACAAACGCAGCTAATGCTCGATCTTTAG
1 CGGCGCTTTTTTAAAAAACGCAGCTAATGCTCGATCTTTAG
* *
34247749 CGGCGC--TTTGAAAAAACGCAACTAA
1 CGGCGCTTTTTTAAAAAACGCAGCTAA
34247774 AAATTTTGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 16 0.28
40 5 0.09
41 37 0.64
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
CGGCGCTTTTTTAAAAAACGCAGCTAATGCTCGATCTTTAG
Found at i:34249370 original size:46 final size:46
Alignment explanation
Indices: 34249317--34249492 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
34249307 TATTTGGGCA
34249317 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
34249363 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
**** *
34249410 TCCTCGGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
34249456 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34249493 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 62 0.61
47 28 0.27
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:34251042 original size:32 final size:32
Alignment explanation
Indices: 34251006--34251070 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
34250996 TCTTATATAA
34251006 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
1 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
34251038 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
1 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
34251070 T
1 T
34251071 GAATTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (32 bp):
TTGTAAAAGAGATAGTATTAATTTTAAAATAT
Found at i:34251170 original size:15 final size:15
Alignment explanation
Indices: 34251150--34251178 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34251140 ACTATTTTAA
34251150 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
34251165 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
34251179 AGTTTAAGGG
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:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:34251188 original size:15 final size:15
Alignment explanation
Indices: 34251151--34251184 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34251141 CTATTTTAAG
*
34251151 GTTTAGGGATTATGG
1 GTTTAGGGATTATGA
34251166 GTTTAGGGATTAT-A
1 GTTTAGGGATTATGA
34251180 GTTTA
1 GTTTA
34251185 AGGGTTGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (15 bp):
GTTTAGGGATTATGA
Found at i:34251196 original size:21 final size:22
Alignment explanation
Indices: 34251171--34251216 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
34251161 TATGGGTTTA
34251171 GGGATTATA-GTTTAAGGGTT-G
1 GGGATTA-AGGTTTAAGGGTTAG
*
34251192 GGGATTAAGGTTTAGGGGTTAG
1 GGGATTAAGGTTTAAGGGTTAG
34251214 GGG
1 GGG
34251217 TTAGGGGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.33
Consensus pattern (22 bp):
GGGATTAAGGTTTAAGGGTTAG
Found at i:34251199 original size:14 final size:14
Alignment explanation
Indices: 34251182--34251233 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
34251172 GGATTATAGT
34251182 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
*
34251195 ATTAAGGTTTAGGGG
1 -TTAAGGGTTAGGGG
*
34251210 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
34251224 TCT-AGGGTTA
1 T-TAAGGGTTA
34251234 AGTGTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 27 0.84
15 5 0.16
ACGTcount: A:0.19, C:0.02, G:0.46, T:0.33
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:34251292 original size:15 final size:15
Alignment explanation
Indices: 34251252--34251293 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34251242 TGTTTTAGGA
34251252 TTTAGGGTTTAAGAAG
1 TTTAGGGTTT-AGAAG
*
34251268 --TAGGGATTAGAAG
1 TTTAGGGTTTAGAAG
34251281 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
34251294 TTAATTAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
TTTAGGGTTTAGAAG
Found at i:34251514 original size:29 final size:30
Alignment explanation
Indices: 34251481--34251574 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
34251471 TTACGGGTTG
* *
34251481 GGGTTTAAGCTTTAGAGGTTAGAG-GTTTA
1 GGGTTTAAGGTTTAGAGATTAGAGAGTTTA
* ** *
34251510 GGG-TTAATGGTTTATATTTTAG-GATTTTA
1 GGGTTTAA-GGTTTAGAGATTAGAGAGTTTA
*
34251539 GGGTTTAAGGATTAGAGATTA-AGAGTTTA
1 GGGTTTAAGGTTTAGAGATTAGAGAGTTTA
34251568 GGGTTTA
1 GGGTTTA
34251575 GATTAATTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
28 5 0.10
29 42 0.82
30 4 0.08
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.41
Consensus pattern (30 bp):
GGGTTTAAGGTTTAGAGATTAGAGAGTTTA
Found at i:34256195 original size:23 final size:23
Alignment explanation
Indices: 34256165--34256230 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
34256155 TGGCTGCTGT
*
34256165 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
34256188 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
34256211 TGTTTAAATGTTGTAAATTG
1 TGTTTAAATGCTGTAAATTG
34256231 GTGTCTGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:34256219 original size:46 final size:45
Alignment explanation
Indices: 34256165--34256437 Score: 137
Period size: 46 Copynumber: 6.1 Consensus size: 45
34256155 TGGCTGCTGT
34256165 TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTG-AGTGTTTAAATGCTGTAAATTGAAG
* * *
34256211 TGTTTAAATGTTGTAAATTG-GTG------T-CTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAGTGTTTAAATGCTGTAAATTGAAG
* * *
34256247 ATGATTT--ATCGCTG-TAATTGAGT-TATATAAATGTTGTTAATTG-AG
1 -TG-TTTAAAT-GCTGCAAATTGAGTGT-T-TAAATGCTGTAAATTGAAG
*
34256292 ATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAACGCTGTAAATTGAAG
1 -TGTTTAAA-TGCTGCAAATTG-AGTGTTTAAATGCTGTAAATTGAAG
* * * * * * *
34256339 TGCTTAAATGTTGTAAATTAAAGTGTTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATT-GAGTG-TTTAAATGCTGTAAATTGAAG
** * * * *
34256386 TGTTTAGTTGTTGGAAATTGAGATGTTT-TATCGCTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAG-TGTTTAAAT-GCTGTAAATTGAAG
34256432 TGTTTA
1 TGTTTA
34256438 GTTGCTGGAA
Statistics
Matches: 175, Mismatches: 27, Indels: 50
0.69 0.11 0.20
Matches are distributed among these distances:
36 9 0.05
37 16 0.09
38 4 0.02
43 2 0.01
44 4 0.02
45 18 0.10
46 76 0.43
47 45 0.26
48 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (45 bp):
TGTTTAAATGCTGCAAATTGAGTGTTTAAATGCTGTAAATTGAAG
Found at i:34256319 original size:23 final size:23
Alignment explanation
Indices: 34256295--34256437 Score: 119
Period size: 23 Copynumber: 6.1 Consensus size: 23
34256285 AATTGAGATG
34256295 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGCAAATTGAAGTGT
* * *
34256319 TTAAACGCTGTAAATTGAAGTGC
1 TTAAATGCTGCAAATTGAAGTGT
* * *
34256342 TTAAATGTTGTAAATTAAAGTGTT
1 TTAAATGCTGCAAATTGAAGTG-T
* *
34256366 TTAAGTACTGCAAATTGAAGTGT
1 TTAAATGCTGCAAATTGAAGTGT
** * *
34256389 TTAGTTGTTGGAAATTG-AGATGT
1 TTAAATGCTGCAAATTGAAG-TGT
*
34256412 TT-TATCGCTGCAAATTGAAGTGT
1 TTAAAT-GCTGCAAATTGAAGTGT
34256435 TTA
1 TTA
34256438 GTTGCTGGAA
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.03
23 66 0.71
24 24 0.26
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.38
Consensus pattern (23 bp):
TTAAATGCTGCAAATTGAAGTGT
Found at i:34256398 original size:47 final size:46
Alignment explanation
Indices: 34256330--34256448 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 46
34256320 TAAACGCTGT
* ** *
34256330 AAATTGAAGTGCTTAAATGTTGTAAATTAA-AGTGTTTTAAGT-ACTGC
1 AAATTGAAGTGTTTAGTTGTTGGAAATTAAGA-TGTTTT-A-TCACTGC
* *
34256377 AAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTATCGCTGC
1 AAATTGAAGTGTTTAGTTGTTGGAAATTAAGATGTTTTATCACTGC
*
34256423 AAATTGAAGTGTTTAGTTGCTGGAAA
1 AAATTGAAGTGTTTAGTTGTTGGAAA
34256449 AGAGATCTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 30 0.48
47 31 0.49
48 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (46 bp):
AAATTGAAGTGTTTAGTTGTTGGAAATTAAGATGTTTTATCACTGC
Found at i:34256890 original size:19 final size:19
Alignment explanation
Indices: 34256867--34256913 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
34256857 ATTTAATCTA
*
34256867 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
34256885 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
34256905 ATTTTTATT
1 ATTTTTATT
34256914 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:34256915 original size:31 final size:30
Alignment explanation
Indices: 34256834--34256923 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
34256824 AAAAGACTTG
*
34256834 CTATA-TTTTATTTATATCTTTATATTTAAT
1 CTATATTTTTATTTTTAT-TTTATATTTAAT
*
34256864 CTA-ATTTTTATTATTTATTTTAGT-TTTGATT
1 CTATATTTTTATT-TTTATTTTA-TATTT-AAT
34256895 CTATATTTTTATTTTTATTTTAATATTTA
1 CTATATTTTTATTTTTATTTT-ATATTTA
34256924 CTAACTTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
29 1 0.02
30 17 0.33
31 20 0.39
32 13 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (30 bp):
CTATATTTTTATTTTTATTTTATATTTAAT
Found at i:34257071 original size:11 final size:11
Alignment explanation
Indices: 34257051--34257079 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
34257041 TTTAATTTGA
34257051 TAAT-GAATTT
1 TAATAGAATTT
34257061 TAATAGAATTT
1 TAATAGAATTT
34257072 TAATAGAA
1 TAATAGAA
34257080 AATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:34271595 original size:7 final size:7
Alignment explanation
Indices: 34271583--34271613 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
34271573 CAAAACTTAT
34271583 AATTTCA
1 AATTTCA
34271590 AATTTCA
1 AATTTCA
34271597 AATTTCA
1 AATTTCA
34271604 AATTTCA
1 AATTTCA
34271611 AAT
1 AAT
34271614 GTTGCTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTTCA
Found at i:34271804 original size:17 final size:15
Alignment explanation
Indices: 34271784--34271829 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
34271774 GTTATAGATA
34271784 TAATATATTTATTAAAT
1 TAATATATTTATT--AT
34271801 TAATATA-TTATTAT
1 TAATATATTTATTAT
34271815 T-ATATATTTA-TAT
1 TAATATATTTATTAT
34271828 TA
1 TA
34271830 TCATTAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.33
14 6 0.22
16 5 0.19
17 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATATTTATTAT
Found at i:34271814 original size:19 final size:19
Alignment explanation
Indices: 34271784--34271837 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
34271774 GTTATAGATA
34271784 TAATATA-T-TTATTAAAT
1 TAATATATTATTATTAAAT
34271801 TAATATATTATTATTATATAT
1 TAATATATTATTATTA-A-AT
*
34271822 T--TATATTATCATTAAA
1 TAATATATTATTATTAAA
34271838 GTTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 8 0.25
18 2 0.06
19 18 0.56
20 1 0.03
21 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATTATTATTAAAT
Found at i:34271939 original size:25 final size:29
Alignment explanation
Indices: 34271910--34271968 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
34271900 TAATATTATC
*
34271910 TTATTT-AATTTAT-ATTT-TTA-AAAAT
1 TTATTTCAATTTATAATTTAATATAAAAT
*
34271935 TTATTTCACTTTATAATTTAATATAAAAT
1 TTATTTCAATTTATAATTTAATATAAAAT
34271964 TTATT
1 TTATT
34271969 ATTAATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 4 0.14
28 2 0.07
29 10 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATTTCAATTTATAATTTAATATAAAAT
Found at i:34272687 original size:15 final size:15
Alignment explanation
Indices: 34272667--34272708 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
34272657 GTAGTAAAAA
34272667 TTCAGTACTTAATTT
1 TTCAGTACTTAATTT
34272682 TTCAGTACTTAATTT
1 TTCAGTACTTAATTT
* *
34272697 TCCAATACTTAA
1 TTCAGTACTTAA
34272709 AATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (15 bp):
TTCAGTACTTAATTT
Found at i:34273279 original size:11 final size:11
Alignment explanation
Indices: 34273259--34273334 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
34273249 TATAAATAAT
34273259 AAAATATTATTA
1 AAAATATTA-TA
34273271 AAAAT-TTAT-
1 AAAATATTATA
34273280 AAAATATTATA
1 AAAATATTATA
*
34273291 ATAACTA-T-T-
1 A-AAATATTATA
34273300 AAAA-ATTATA
1 AAAATATTATA
*
34273310 AAAAAATTATA
1 AAAATATTATA
* *
34273321 GAAATATTTTA
1 AAAATATTATA
34273332 AAA
1 AAA
34273335 GTTATAAGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
7 1 0.02
8 3 0.06
9 7 0.14
10 10 0.20
11 21 0.41
12 9 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (11 bp):
AAAATATTATA
Found at i:34273283 original size:21 final size:20
Alignment explanation
Indices: 34273252--34273362 Score: 79
Period size: 20 Copynumber: 5.5 Consensus size: 20
34273242 TTTTAAATAT
*
34273252 AAATAATAAAATATTATTAA
1 AAATTATAAAATATTATTAA
34273272 AAATTTATAAAATATTA-TAA
1 AAA-TTATAAAATATTATTAA
* * *
34273292 TAACTATTAAAA-ATTATAAAA
1 AAATTA-TAAAATATTAT-TAA
34273313 AAATTATAGAAATATT-TTAA
1 AAATTATA-AAATATTATTAA
* * *
34273333 AAGTTAT-AAGT-TTCTTAGA
1 AAATTATAAAATATTATTA-A
34273352 AAATTATAAAA
1 AAATTATAAAA
34273363 AGATAGAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.03
18 6 0.08
19 13 0.18
20 25 0.35
21 22 0.31
22 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
AAATTATAAAATATTATTAA
Found at i:34273293 original size:29 final size:29
Alignment explanation
Indices: 34273252--34273312 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
34273242 TTTTAAATAT
*
34273252 AAATAATAAAAT-ATTATTAAAAATTTATA
1 AAATAATAAAATAACTATTAAAAA-TTATA
* *
34273281 AAATATTATAATAACTATTAAAAATTATA
1 AAATAATAAAATAACTATTAAAAATTATA
34273310 AAA
1 AAA
34273313 AAATTATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATAATAAAATAACTATTAAAAATTATA
Found at i:34273313 original size:9 final size:9
Alignment explanation
Indices: 34273252--34273422 Score: 67
Period size: 9 Copynumber: 17.4 Consensus size: 9
34273242 TTTTAAATAT
*
34273252 AAATAATAA
1 AAATTATAA
34273261 AATATTATTAA
1 AA-ATTA-TAA
34273272 AAATTTATAA
1 AAA-TTATAA
34273282 AATATTATAA
1 AA-ATTATAA
* *
34273292 TAACTATTAA
1 AAATTA-TAA
34273302 AAATTATAAAA
1 AAATTAT--AA
34273313 AAATTATAGA
1 AAATTATA-A
*
34273323 AATATTTTAA
1 AA-ATTATAA
*
34273333 AAGTTAT-A
1 AAATTATAA
** *
34273341 AGTTTCTTAGA
1 AAATT-ATA-A
34273352 AAATTATAA
1 AAATTATAA
*
34273361 AAA-GATAGA
1 AAATTATA-A
34273370 AAATAATATAA
1 AAAT--TATAA
* **
34273381 AACTTATTG
1 AAATTATAA
34273390 AAATTATTTAA
1 AAATTA--TAA
34273401 AAATTATAA
1 AAATTATAA
*
34273410 AAATCATAA
1 AAATTATAA
34273419 AAAT
1 AAAT
34273423 ATATTGCTCT
Statistics
Matches: 121, Mismatches: 23, Indels: 36
0.67 0.13 0.20
Matches are distributed among these distances:
8 7 0.06
9 42 0.35
10 31 0.26
11 38 0.31
12 3 0.02
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:34273393 original size:20 final size:20
Alignment explanation
Indices: 34273370--34273428 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
34273360 AAAAGATAGA
*
34273370 AAATAATATAAAACTTATTG
1 AAATAATATAAAAATTATTG
* *
34273390 AAATTATTTAAAAATTA-T-
1 AAATAATATAAAAATTATTG
34273408 AAA-AATCATAAAAATATATTG
1 AAATAAT-ATAAAAAT-TATTG
34273429 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.33
19 3 0.10
20 15 0.50
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AAATAATATAAAAATTATTG
Found at i:34273572 original size:16 final size:16
Alignment explanation
Indices: 34273551--34273621 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
34273541 GTTTGGTTCA
* *
34273551 CTGTAATGGACTAGGG
1 CTGTAATGGAATAGAG
*
34273567 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
34273583 CTGTAATAGAATAAAG
1 CTGTAATGGAATAGAG
* *
34273599 TTGTAATGGAATATAG
1 CTGTAATGGAATAGAG
*
34273615 TTGTAAT
1 CTGTAAT
34273622 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:34273802 original size:25 final size:26
Alignment explanation
Indices: 34273768--34273817 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
34273758 TAGGTAGATG
*
34273768 ATTATTGTT-ATTAAATTTTAATAAC
1 ATTATTGTTAAATAAATTTTAATAAC
*
34273793 ATTATTGTTAAATACATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
34273818 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAC
Found at i:34273858 original size:61 final size:58
Alignment explanation
Indices: 34273793--34273922 Score: 154
Period size: 61 Copynumber: 2.2 Consensus size: 58
34273783 TTTTAATAAC
* * * * *
34273793 ATTATTGTTAAATACATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATAAAATTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
34273854 ATTATTATTAAATAAAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
34273912 ATTATTATTAA
1 ATTATTATTAA
34273923 TTATTATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
57 18 0.30
58 18 0.30
60 5 0.08
61 20 0.33
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:34274280 original size:25 final size:27
Alignment explanation
Indices: 34274250--34274300 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
34274240 TAAAAAAATC
34274250 AAAACTCATAG-TCCTT-TGTTATTCA
1 AAAACTCATAGTTCCTTATGTTATTCA
*
34274275 AAAACTCATAGTTCTTTATGTTATTC
1 AAAACTCATAGTTCCTTATGTTATTC
34274301 TCGTATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (27 bp):
AAAACTCATAGTTCCTTATGTTATTCA
Found at i:34276675 original size:73 final size:73
Alignment explanation
Indices: 34276595--34276737 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 73
34276585 TACAAGTAAT
* *
34276595 TAACATTTACCAGCTATCAAAGTTGTA-AAAGACCCAGAAAAAAATCAAAAATTGCAAAGAAAAC
1 TAACATTTACAAGCTATCAAAGTTGTAGAAA-ACCCA-AAAAAAATAAAAAATTGCAAAGAAAAC
34276659 A-GAGAAAAA
64 ATGAGAAAAA
* *
34276668 TAACATTTACAAGCTATCGAAGTTGTAGAAAACCCAAGAAAAATAAAAAATTGCAAAGAAAACAT
1 TAACATTTACAAGCTATCAAAGTTGTAGAAAACCCAAAAAAAATAAAAAATTGCAAAGAAAACAT
34276733 GAGAA
66 GAGAA
34276738 TTAAAAAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 26 0.41
73 35 0.55
74 3 0.05
ACGTcount: A:0.55, C:0.14, G:0.13, T:0.17
Consensus pattern (73 bp):
TAACATTTACAAGCTATCAAAGTTGTAGAAAACCCAAAAAAAATAAAAAATTGCAAAGAAAACAT
GAGAAAAA
Found at i:34277017 original size:43 final size:43
Alignment explanation
Indices: 34276931--34277017 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
34276921 TAACATTTTG
* * * **
34276931 ACGCCGATATAGAACATGACCTTTAGCGGCGCTTTTACCACAA
1 ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACCACAA
*
34276974 ACGCCGCTAAAGAACATGACATTTAGCGACAATTTT-CCTACAA
1 ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACC-ACAA
34277017 A
1 A
34277018 GAATGGACCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACCACAA
Found at i:34280582 original size:24 final size:25
Alignment explanation
Indices: 34280555--34280604 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
34280545 TTGCAACTTT
*
34280555 TTATTA-TT-AATATTTTTATACAAA
1 TTATTAGTTAAATAATTTTATA-AAA
34280579 TTATTAGTTAAATAATTTTATAAAA
1 TTATTAGTTAAATAATTTTATAAAA
34280604 T
1 T
34280605 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 6 0.26
26 11 0.48
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TTATTAGTTAAATAATTTTATAAAA
Found at i:34281838 original size:40 final size:39
Alignment explanation
Indices: 34281779--34281882 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 39
34281769 TTTTGAGGCG
*
34281779 TTTTTCAAAAAGCGCCGCTAATGGTCG-ACTTATAGCGGCA
1 TTTTTCAAAAAGCG-CGCTAATGCTCGAAC-TATAGCGGCA
*
34281819 TTTTTCAAAAAGCGTCGCTAATGCTCGAACTATAGCGGCG
1 TTTTTCAAAAAGCG-CGCTAATGCTCGAACTATAGCGGCA
34281859 TTTTTCAAAAAGCGCTGCTAATGC
1 TTTTTCAAAAAGCGC-GCTAATGC
34281883 GACTAAAGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
39 1 0.02
40 56 0.95
41 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (39 bp):
TTTTTCAAAAAGCGCGCTAATGCTCGAACTATAGCGGCA
Found at i:34296583 original size:47 final size:45
Alignment explanation
Indices: 34296513--34296832 Score: 272
Period size: 47 Copynumber: 6.8 Consensus size: 45
34296503 GATTTCTTGT
*
34296513 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TATGATGA
* * * *
34296559 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-TGATGA
* * * *
34296607 GTGCCAGTGTAAGACATGTTTGGGACATACATTGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT--ATGATGA
* * *
34296654 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CTAAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGATG-A
* *
34296698 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTAT-ATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TATGAT--GA
* * *
34296746 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT--ATGATGA
*
34296795 -TAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
34296833 AACTTTTCCT
Statistics
Matches: 226, Mismatches: 28, Indels: 37
0.78 0.10 0.13
Matches are distributed among these distances:
43 1 0.00
44 33 0.15
45 1 0.00
46 26 0.12
47 65 0.29
48 38 0.17
49 51 0.23
50 9 0.04
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGATGA
Found at i:34296785 original size:141 final size:140
Alignment explanation
Indices: 34296515--34296833 Score: 385
Period size: 141 Copynumber: 2.2 Consensus size: 140
34296505 TTTCTTGTGT
**
34296515 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGTGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAAGATGAGTGCTAGTGTAAGACCATGTC
* * * * * * *
34296580 TGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATTGGCCT
65 TGGGACATGGCATAGACGTAGAGACGAGAGCCAGTATAAGACATGTCTGGGACATACATCGGCCT
34296645 CGACGATGATA
130 CGACGATGATA
* *
34296656 GCCAGTGTAAGACGTGTCTGGGACATGCATCGGC-TAAGA-GTTGTGCTAGTGTAAGA-CATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGATG-AGTGCTAGTGTAAGACCATGTC
* * * *
34296718 TGGGACAT-GCATCAGCACGTATATACGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCG
65 TGGGACATGGCAT-AG-ACGTAGAGACGAGAGCCAGTATAAGA-CATGTCTGGGACAT-ACATCG
*
34296782 GCCTCGATGATGATA
126 GCCTCGACGATGATA
*
34296797 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
34296834 ACTTTTCCTA
Statistics
Matches: 152, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
137 4 0.03
138 16 0.11
139 36 0.24
140 14 0.09
141 61 0.40
142 13 0.09
143 8 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGATGAGTGCTAGTGTAAGACCATGTCT
GGGACATGGCATAGACGTAGAGACGAGAGCCAGTATAAGACATGTCTGGGACATACATCGGCCTC
GACGATGATA
Found at i:34307443 original size:48 final size:48
Alignment explanation
Indices: 34307372--34307644 Score: 315
Period size: 48 Copynumber: 5.8 Consensus size: 48
34307362 AAAATGCCGG
* * * *
34307372 TGCCATGTTCCAAACGTAGTCTTACATTGGCTCACATATCAAGGCTGA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCTGA
* * * * *
34307420 TGCCATGTTCCAAATATGGTCTTACATTGGCTCTCATATCAAGGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCTGA
* * *
34307468 TGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCTGA
* * **
34307516 TGCCA---T--AAACATGGTCTTACACTGGCTTACATATTGAGGCTGA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCTGA
* * * *
34307559 TGCCATGTTCCAAGCATGGTCTTACACTAGCTCTTC-TATCAATGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTC-ACATATCAAGGCTGA
34307607 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
34307645 ACCCTAGTAT
Statistics
Matches: 190, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
43 35 0.18
45 1 0.01
46 1 0.01
47 1 0.01
48 151 0.79
49 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (48 bp):
TGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCTGA
Found at i:34307577 original size:91 final size:93
Alignment explanation
Indices: 34307367--34307644 Score: 310
Period size: 91 Copynumber: 2.9 Consensus size: 93
34307357 AGGGTAAAAT
* * * * * * * *
34307367 GCCGGTGCCATGTTCCAAACGTAGTCTTACATTGGCTCACATATCAAGGCTGATGCCATGTTCCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGATGCCA--TT-CA
* *
34307432 AATATGGTCTTACATTGGCTCT-CATATCAAG
63 AACATGGTCTTACACTGGCT-TACATATCAAG
34307463 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGATGCCA-T-AAAC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGATGCCATTCAAAC
**
34307526 ATGGTCTTACACTGGCTTACATATTGAG
66 ATGGTCTTACACTGGCTTACATATCAAG
* * * *
34307554 GCTGATGCCATGTTCCAAGCATGGTCTTACACTAGCTCTTCTATCAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGATGCCA--TT-CA
* *
34307619 AACATGGTCTTACACTAGCTCACATA
63 AACATGGTCTTACACTGGCTTACATA
34307645 ACCCTAGTAT
Statistics
Matches: 158, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
90 1 0.01
91 80 0.51
93 1 0.01
94 1 0.01
96 75 0.47
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (93 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCCTATCAATGCTGATGCCATTCAAAC
ATGGTCTTACACTGGCTTACATATCAAG
Found at i:34312552 original size:90 final size:93
Alignment explanation
Indices: 34312392--34312566 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 93
34312382 AGATGCCGAT
* * *
34312392 GCCATGTCCCAGATATGGTCTTACATTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCT-ATATATCAGTGTCGATGCCATGTCCCAGACA
34312457 GGTCTTACACT-GACACACAACAAGCTGAC
65 GGTCTTACACTAG-CACACAACAAGCTGAC
* * *
34312486 GCCATGTCCTAGACAT-GTCTTACACTGGCTCT-TATA-CTGTGTCTGATG-CATGTCCCATACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTATATATCAGTGTC-GATGCCATGTCCCAGACA
*
34312547 TGTCTTACACTAGCACACAA
65 GGTCTTACACTAGCACACAA
34312567 ATGACCCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
90 35 0.49
91 8 0.11
93 15 0.21
94 14 0.19
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTATATATCAGTGTCGATGCCATGTCCCAGACAG
GTCTTACACTAGCACACAACAAGCTGAC
Found at i:34315068 original size:43 final size:42
Alignment explanation
Indices: 34315021--34315101 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
34315011 ACCACGTTTT
* * *
34315021 GGACATGGCTTCGAAGATGAGGCTTCGTATAAGACCATATCTG
1 GGACATGGCATCG-AGATGAGACATCGTATAAGACCATATCTG
* *
34315064 GGACATGGCATCGATATGAGACATCGTGTAAGACCATA
1 GGACATGGCATCGAGATGAGACATCGTATAAGACCATA
34315102 GCTAGGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 21 0.64
43 12 0.36
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (42 bp):
GGACATGGCATCGAGATGAGACATCGTATAAGACCATATCTG
Found at i:34315097 original size:42 final size:42
Alignment explanation
Indices: 34314967--34315159 Score: 138
Period size: 43 Copynumber: 4.5 Consensus size: 42
34314957 ATTCTGTATT
* * * * * *
34314967 AGACCATATCTGGGATATGACATCGTTATGCGATTTCATGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
** * * * * * * *
34315009 AGACCACGTTTTGGACATGGCTTCGAAGATGAGGCTTCGTATA
1 AGACCATATCTAGGACATGGCATCG-ATATGAGACTTCATGTA
* * *
34315052 AGACCATATCTGGGACATGGCATCGATATGAGACATCGTGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
* * *
34315094 AGACCATAGCTAGG-CTATTGGCATCGATATGTGA-TCCCATGTA
1 AGACCATATCTAGGAC-A-TGGCATCGATATGAGACT-TCATGTA
*
34315137 AGACCATATCTAGGATATGGCAT
1 AGACCATATCTAGGACATGGCAT
34315160 TGGCATCTTA
Statistics
Matches: 115, Mismatches: 31, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 50 0.43
43 64 0.56
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
Found at i:34319595 original size:13 final size:13
Alignment explanation
Indices: 34319578--34319616 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
34319568 TGAATAATCA
34319578 ATTTAATTTAATT
1 ATTTAATTTAATT
*
34319591 TTTTAATTTTAATT
1 ATTTAA-TTTAATT
34319605 ATTTAATTTAAT
1 ATTTAATTTAAT
34319617 AATAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:34319854 original size:34 final size:35
Alignment explanation
Indices: 34319810--34319876 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34319800 CAGTAAAATA
* *
34319810 TTTTCCGTAAAATGATTTCG-GGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTAGTGGAAAATATTTTAC
*
34319844 TTTTCTGTAAAATGATTTAGTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTAGTGGAAAATATTTT
34319877 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTAGTGGAAAATATTTTAC
Found at i:34323308 original size:17 final size:18
Alignment explanation
Indices: 34323288--34323321 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34323278 TGAAAAATAA
34323288 TGTG-AGAATAAAAGAAT
1 TGTGAAGAATAAAAGAAT
*
34323305 TGTGAAGATTAAAAGAA
1 TGTGAAGAATAAAAGAA
34323322 AAGCGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
TGTGAAGAATAAAAGAAT
Found at i:34333249 original size:54 final size:54
Alignment explanation
Indices: 34333056--34333252 Score: 281
Period size: 54 Copynumber: 3.6 Consensus size: 54
34333046 ATTGTAGAAA
* *
34333056 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTCGACGAGTTAATGCTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
* * * * * *
34333110 GGGATTTAGCTTAGACTGGTAATCCC-ACCGTAAGATATAAG-GTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGA-CATTA-CTAGACGAGTTAATACTATAG
34333164 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
*
34333218 GGAATTTAGCCTAGACTGGTAATCCCGACATTACT
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACT
34333253 CGAGAGTGCA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
53 5 0.04
54 115 0.93
55 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (54 bp):
GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
Found at i:34334394 original size:20 final size:19
Alignment explanation
Indices: 34334371--34334409 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
34334361 CAAGATATAA
34334371 TATATAATAACAAA-AAAAAT
1 TATATAA-AA-AAATAAAAAT
34334391 TATATAAAAAAATAAAAAT
1 TATATAAAAAAATAAAAAT
34334410 ATGAGTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 8 0.44
20 7 0.39
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TATATAAAAAAATAAAAAT
Found at i:34334608 original size:12 final size:12
Alignment explanation
Indices: 34334588--34334705 Score: 84
Period size: 12 Copynumber: 9.5 Consensus size: 12
34334578 TCTTAAAATT
34334588 ATAAATAATATA
1 ATAAATAATATA
*
34334600 ATGAATAATATAAA
1 ATAAATAATAT--A
34334614 CATAAATAATATA
1 -ATAAATAATATA
34334627 ATAAATAATATA
1 ATAAATAATATA
34334639 TGATATACATAATAT-
1 --ATA-A-ATAATATA
*
34334654 ATAAAAAAATATA
1 AT-AAATAATATA
*
34334667 ATAAGTAATAT-
1 ATAAATAATATA
34334678 ATATAATAA-A-A
1 ATA-AATAATATA
*
34334689 GTAAA-AATATA
1 ATAAATAATATA
34334700 ATAAAT
1 ATAAAT
34334706 GCTATATAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.02
10 3 0.04
11 11 0.13
12 39 0.46
13 6 0.07
14 5 0.06
15 11 0.13
16 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:34334657 original size:27 final size:27
Alignment explanation
Indices: 34334587--34334683 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
34334577 ATCTTAAAAT
* *
34334587 TATAAATAATATAATGAATAATATAAA
1 TATAAATAATATAATAAATAATATATA
*
34334614 CATAAATAATATAATAAATAATATATGA
1 TATAAATAATATAATAAATAATATAT-A
* *
34334642 TATACATAATAT-ATAAA-AAAATATA
1 TATAAATAATATAATAAATAATATATA
*
34334667 -ATAAGTAATATATATAA
1 TATAAATAATATA-ATAA
34334684 TAAAAGTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
24 9 0.15
25 1 0.02
26 10 0.17
27 28 0.47
28 11 0.19
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (27 bp):
TATAAATAATATAATAAATAATATATA
Found at i:34334669 original size:33 final size:31
Alignment explanation
Indices: 34334631--34334719 Score: 76
Period size: 33 Copynumber: 2.8 Consensus size: 31
34334621 AATATAATAA
34334631 ATAATATATGATATACATAATATATAA-AAAAAT
1 ATAATA-ATGATATACATAATA-A-AAGAAAAAT
* *
34334664 ATAATAAGTAATATATATAATAAAAGTAAAAAT
1 ATAATAA-TGATATACATAATAAAAG-AAAAAT
*
34334697 ATAATAAATGCTAT--ATAATAAAA
1 ATAAT-AATGATATACATAATAAAA
34334720 TACAATATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
31 11 0.23
32 2 0.04
33 33 0.69
34 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (31 bp):
ATAATAATGATATACATAATAAAAGAAAAAT
Found at i:34334728 original size:17 final size:17
Alignment explanation
Indices: 34334676--34334732 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
34334666 AATAAGTAAT
34334676 ATATATAATAAAAGTA-A
1 ATATATAATAAAA-TACA
* *
34334693 AAATATAAT-AAATGC-
1 ATATATAATAAAATACA
34334708 -TATATAATAAAATACA
1 ATATATAATAAAATACA
34334724 ATATA-AATA
1 ATATATAATA
34334733 TATATAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 7 0.22
15 6 0.19
16 7 0.22
17 12 0.38
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (17 bp):
ATATATAATAAAATACA
Found at i:34336781 original size:119 final size:119
Alignment explanation
Indices: 34336523--34337475 Score: 1493
Period size: 119 Copynumber: 8.0 Consensus size: 119
34336513 CTTGAGTCTG
* * * * **
34336523 TTTGAGAACATCTGAGAGTTAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
34336588 CAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
*
34336643 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
34336708 CAAATCATCTTGGATCTGCTTCAGTATAAACCTCTAAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
* *
34336762 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
34336827 CAAATCATCTTGGATCTGCTTCGGTATAAACATCTGAAA-GCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
* *
34336881 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
34336946 CAAATCATCTTGGATCTACTTCAGTATAAACATCT-GAGAGCTAGATCTGCTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAG-GCTAGATCTGCTATA
* * *
34337000 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
34337065 CAAATCATCTTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
*
34337119 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTATTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
34337184 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
* * *
34337238 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
34337303 CAAATCATCTTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
* * *
34337357 TTT-AGGAACGTCTGAGAGTCAAATCTGTTATGTCCCCGATTTGTTCCTTGTAAACACAAGAATA
1 TTTGA-GAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATA
34337421 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
34337476 CTGTGGCCTA
Statistics
Matches: 778, Mismatches: 47, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.00
118 4 0.01
119 688 0.88
120 85 0.11
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
Found at i:34344044 original size:50 final size:50
Alignment explanation
Indices: 34343938--34344074 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
34343928 GACAGGACAG
* * *
34343938 GACAAAAATGAGCCATGTAAGTCCATATCAG----ATATATGGCTCTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCTCTGGA
*
34343984 GAGAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCAT-TGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGC-TCTGGA
* *
34344034 GACAGGAATGAGCCATGTAAGCTCATATTAGATATATATAT
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATAT
34344075 ATATATATGG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
46 27 0.34
50 51 0.65
51 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (50 bp):
GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCTCTGGA
Done.