Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 239 of 259
Found at i:74921971 original size:155 final size:160
Alignment explanation
Indices: 74921675--74921972 Score: 392
Period size: 155 Copynumber: 1.9 Consensus size: 160
74921665 AATTTATGTT
* * ** *
74921675 TTTCAAAAATCAATTCATATTGCTAGAGGTGGATTGAGCCTCAGGATCACATGCCGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAATGGATTGAGCCTCAAGATCACAT-CCGAGGTATTTT
* * * *
74921740 CAATTAATGTTTTTTAATTTATGCTTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
65 CAATT-ATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
74921805 CTCGGGACACGCTAAGGCATTGTTAATTTTTG
129 CCCGGGACACGCTAAGGCATTGTTAATTTTTG
* *
74921837 TTTCAAAACTCAACTCATATTGCGAGAAAT-GAGTTGAGCCTCAAGA-CACAT-TGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAATGGA-TTGAGCCTCAAGATCACATCCGAGGTATTTT
* *
74921899 CAATT-T-CTGTTCAATTTATGTTTTTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
65 CAATTATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
74921961 CCGGGGCACGCT
130 CCGGGACACGCT
74921973 GAGATATTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
155 44 0.37
156 16 0.13
157 1 0.01
159 15 0.12
161 7 0.06
162 37 0.31
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (160 bp):
TTTCAAAAATCAACTCATATTGCGAGAAATGGATTGAGCCTCAAGATCACATCCGAGGTATTTTC
AATTATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCC
CGGGACACGCTAAGGCATTGTTAATTTTTG
Found at i:74922096 original size:14 final size:13
Alignment explanation
Indices: 74922070--74922107 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
74922060 TGCCGAGGTA
74922070 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
74922083 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
74922097 TTTTCAAAATC
1 TTTTCAAAATC
74922108 AACTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:74922123 original size:87 final size:88
Alignment explanation
Indices: 74921837--74922137 Score: 305
Period size: 89 Copynumber: 3.5 Consensus size: 88
74921827 TTAATTTTTG
* * **
74921837 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAT--TGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTTC
** * *
74921900 AATTTCTG--TTCAATTTATGTT
66 AAAATCTGTTTTCAAATTATGCT
* * * * *
74921921 TTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCCCGGGGCAC--GCTGAGATATTTT-
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTTC
* * *
74921983 AATTAATGTTTTTTTTAAATTTATGCT
66 AA--AAT-CTGTTTTCAAA-TTATGCT
* * * *
74922010 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTTC
*
74922075 AAAATCTGTTTTGCAAATTCTG-T
66 AAAATCTGTTTT-CAAATTATGCT
74922098 TTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
74922138 TTGCTCACGT
Statistics
Matches: 177, Mismatches: 28, Indels: 21
0.78 0.12 0.09
Matches are distributed among these distances:
83 2 0.01
84 51 0.29
85 1 0.01
86 1 0.01
87 34 0.19
88 9 0.05
89 60 0.34
90 6 0.03
91 11 0.06
92 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (88 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTTC
AAAATCTGTTTTCAAATTATGCT
Found at i:74923983 original size:22 final size:22
Alignment explanation
Indices: 74923936--74923983 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
74923926 ATGTTGTTAA
*
74923936 TTTATTACTTTATTTTAATATC
1 TTTATTAATTTATTTTAATATC
74923958 TTTATTATATTTACTTTT-ATAT-
1 TTTATTA-ATTTA-TTTTAATATC
74923980 TTTA
1 TTTA
74923984 ATATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTAATTTATTTTAATATC
Found at i:74924025 original size:14 final size:13
Alignment explanation
Indices: 74924006--74924070 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 13
74923996 TCATGATTAC
74924006 TATATATTAGTGTA
1 TATATATTA-TGTA
*
74924020 TATATATT-TTTA
1 TATATATTATGTA
74924032 TATATA-TATGTA
1 TATATATTATGTA
*
74924044 TATGT-TT-T-TA
1 TATATATTATGTA
74924054 -ATATATTTATGTA
1 TATATA-TTATGTA
74924067 TATA
1 TATA
74924071 CTTATGTAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
9 3 0.08
10 2 0.05
11 4 0.10
12 18 0.45
13 2 0.05
14 11 0.28
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:74924057 original size:23 final size:22
Alignment explanation
Indices: 74924020--74924070 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
74924010 TATTAGTGTA
74924020 TATATATTTTTATATATATATG
1 TATATATTTTTATATATATATG
* *
74924042 TATATGTTTTTAATATATTTATG
1 TATATATTTTT-ATATATATATG
74924065 TATATA
1 TATATA
74924071 CTTATGTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (22 bp):
TATATATTTTTATATATATATG
Found at i:74924162 original size:30 final size:30
Alignment explanation
Indices: 74924107--74924181 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
74924097 TTTATCCCTA
*
74924107 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
74924136 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
74924167 ATATATTATGTATAT
1 ATATATTATGTATAT
74924182 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:74924194 original size:24 final size:25
Alignment explanation
Indices: 74924153--74924208 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
74924143 TATGTATATC
*
74924153 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
74924177 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
74924202 TATATAT
1 TATATAT
74924209 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:74924289 original size:19 final size:19
Alignment explanation
Indices: 74924265--74924301 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74924255 CTATTTTATA
*
74924265 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
74924284 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
74924302 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:74924381 original size:18 final size:18
Alignment explanation
Indices: 74924348--74924402 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
74924338 CAATAGTTTT
*
74924348 TATATTATTATCATTTCTAA
1 TATA-TATTAT-ATTTATAA
**
74924368 TATATATTATATTTATTT
1 TATATATTATATTTATAA
*
74924386 TATATATTATATATATA
1 TATATATTATATTTATA
74924403 TTTTAATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.67
19 6 0.20
20 4 0.13
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATATTATATTTATAA
Found at i:74924390 original size:20 final size:20
Alignment explanation
Indices: 74924368--74924407 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
74924358 TCATTTCTAA
74924368 TATATATTATAT-T-TATTT
1 TATATATTATATATATATTT
74924386 TATATATTATATATATATTT
1 TATATATTATATATATATTT
74924406 TA
1 TA
74924408 ATGTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 1 0.05
20 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATTATATATATATTT
Found at i:74924398 original size:9 final size:9
Alignment explanation
Indices: 74924367--74924401 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
74924357 ATCATTTCTA
74924367 ATATATATT
1 ATATATATT
*
74924376 ATATTTATT
1 ATATATATT
*
74924385 TTATATATT
1 ATATATATT
74924394 ATATATAT
1 ATATATAT
74924402 ATTTTAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATATATT
Found at i:74927437 original size:18 final size:18
Alignment explanation
Indices: 74927414--74927450 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74927404 TACGGATTTA
* *
74927414 ATAACAGATCCGAATAAG
1 ATAACAGACCCAAATAAG
74927432 ATAACAGACCCAAATAAG
1 ATAACAGACCCAAATAAG
74927450 A
1 A
74927451 AATATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.14
Consensus pattern (18 bp):
ATAACAGACCCAAATAAG
Found at i:74932132 original size:13 final size:14
Alignment explanation
Indices: 74932114--74932142 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
74932104 TAAATTTTAA
74932114 AAAATATAAAA-TT
1 AAAATATAAAACTT
74932127 AAAATATAAAACTT
1 AAAATATAAAACTT
74932141 AA
1 AA
74932143 GCTCTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAACTT
Found at i:74934458 original size:124 final size:125
Alignment explanation
Indices: 74934137--74934463 Score: 385
Period size: 124 Copynumber: 2.6 Consensus size: 125
74934127 CATTTAGTCC
* * ** *
74934137 AACGAAAAATCGAAACCCAGCACGGTAAGGCACGATTCCTCGAATTCCCAAACAT-AGAACATCC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATTCC-CGAATTTTCAAACATCA-AACATTC
* *
74934201 CCTTGTTTTAGAATTTAAAAAATACGAATGAAATTCTAAAGGAATGTTTGATGATTTTGGATA
64 CATTGTTTTAGAATTTAAAAAATACG-ATGAAATTCTAAAGGAATGTTTGATGATTTTGAATA
* * * * * *
74934264 AGCGAGAAATCGAAACCCAGCACGATAGGGCACGGTTCCCCGAATTTTCAAGCAACAAACATTGC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATT-CCCGAATTTTCAAACATCAAACATTCC
*
74934329 ATTGTTTTAGAATTTTAAAAAA-A-G-TGAAATTCTAAAGGAATGTTTGATTATTTTGAATA
65 ATTGTTTTAGAA-TTTAAAAAATACGATGAAATTCTAAAGGAATGTTTGATGATTTTGAATA
* * * *
74934388 AAC-AGGAAATTGAAACCTAGCACGGTAGGGCACGATTCCCAAATTTTCAAATATCAAACATTAC
1 AACGA-GAAATCGAAACCCAGCACGGTAGGGCACGATTCCCGAATTTTCAAACATCAAACATT-C
*
74934452 CTTTGTTTTAGA
64 CATTGTTTTAGA
74934464 GAATTTTTAA
Statistics
Matches: 170, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
123 22 0.13
124 74 0.44
126 1 0.01
127 61 0.36
128 12 0.07
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (125 bp):
AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATTCCCGAATTTTCAAACATCAAACATTCCA
TTGTTTTAGAATTTAAAAAATACGATGAAATTCTAAAGGAATGTTTGATGATTTTGAATA
Found at i:74936152 original size:24 final size:24
Alignment explanation
Indices: 74936107--74936152 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
74936097 AAGAAATAAT
* *
74936107 AATAAATAAAGTATATGAAAAATG
1 AATAAATAAAGTAAATAAAAAATG
74936131 AATAAATAAA-TAAATAATAAAA
1 AATAAATAAAGTAAATAA-AAAA
74936153 GGATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (24 bp):
AATAAATAAAGTAAATAAAAAATG
Found at i:74947878 original size:18 final size:19
Alignment explanation
Indices: 74947855--74947892 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
74947845 AATTTAATTT
*
74947855 TTTTAATTAAAAA-AATAA
1 TTTTAATAAAAAATAATAA
74947873 TTTTAATAAAAAATAATAA
1 TTTTAATAAAAAATAATAA
74947892 T
1 T
74947893 AACATTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTTAATAAAAAATAATAA
Found at i:74957970 original size:29 final size:27
Alignment explanation
Indices: 74957912--74957971 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
74957902 AAAATTTAAT
* *
74957912 TTTATTTTATTTTAAAAAATAAAATTA
1 TTTATTTGATTTTAAAAAATAAAATAA
*
74957939 TTTATTTGATTTAATAAAAAATTAAATAA
1 TTTATTTGATTT--TAAAAAATAAAATAA
74957968 TTTA
1 TTTA
74957972 ATTCAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 11 0.39
29 17 0.61
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTATTTGATTTTAAAAAATAAAATAA
Found at i:74957981 original size:29 final size:29
Alignment explanation
Indices: 74957924--74957981 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
74957914 TATTTTATTT
* * * *
74957924 TAAAAAATAAAATTATTTATTTGATTTAA
1 TAAAAAATAAAATAATTTAATTCAATTAA
*
74957953 TAAAAAATTAAATAATTTAATTCAATTAA
1 TAAAAAATAAAATAATTTAATTCAATTAA
74957982 CTTTAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAAAAATAAAATAATTTAATTCAATTAA
Found at i:74968202 original size:3 final size:3
Alignment explanation
Indices: 74968196--74968235 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
74968186 CAATTAATTG
74968196 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
74968236 GTAAATATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:74970447 original size:30 final size:30
Alignment explanation
Indices: 74970413--74970471 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
74970403 TTGATAACAT
*
74970413 TAATAACTAATTTGTTATTTT-TCTAAAGTG
1 TAATAACTAATTTATTATTTTATC-AAAGTG
* *
74970443 TAATAATTATTTTATTATTTTATCAAAGT
1 TAATAACTAATTTATTATTTTATCAAAGT
74970472 TAAGTGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (30 bp):
TAATAACTAATTTATTATTTTATCAAAGTG
Found at i:74970482 original size:30 final size:31
Alignment explanation
Indices: 74970427--74970488 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
74970417 AACTAATTTG
74970427 TTATTTTTCTAAAGTGTAATAATTATT-TTA
1 TTATTTTTCTAAAGTGTAATAATTATTGTTA
*
74970457 TTATTTTATC-AAAGT-TAAGTGATTATTGTTA
1 TTATTTT-TCTAAAGTGTAA-TAATTATTGTTA
74970488 T
1 T
74970489 AGTTTACCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.11
30 19 0.68
31 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (31 bp):
TTATTTTTCTAAAGTGTAATAATTATTGTTA
Found at i:74976691 original size:14 final size:13
Alignment explanation
Indices: 74976672--74976702 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
74976662 TTGTGTGTTC
74976672 TTTATTTTATTTAT
1 TTTATTTTATTT-T
74976686 TTTATTTTATTTT
1 TTTATTTTATTTT
74976699 TTTA
1 TTTA
74976703 CAAATTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:74981135 original size:5 final size:5
Alignment explanation
Indices: 74981125--74981156 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
74981115 TTATGTGTTC
74981125 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
74981157 TCACAGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:74981139 original size:9 final size:9
Alignment explanation
Indices: 74981125--74981155 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
74981115 TTATGTGTTC
74981125 TTTATTTTA
1 TTTATTTTA
74981134 TTTATTTTA
1 TTTATTTTA
74981143 TTTTATTTTA
1 -TTTATTTTA
74981153 TTT
1 TTT
74981156 TTCACAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:74982930 original size:10 final size:10
Alignment explanation
Indices: 74982917--74982941 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
74982907 TAATTTTATA
74982917 AAATTCTAAT
1 AAATTCTAAT
74982927 AAATTCTAAT
1 AAATTCTAAT
74982937 AAATT
1 AAATT
74982942 TTATTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTAAT
Found at i:74988245 original size:11 final size:12
Alignment explanation
Indices: 74988231--74988314 Score: 61
Period size: 11 Copynumber: 7.2 Consensus size: 12
74988221 TGCTACCATT
74988231 TTGTTATT-TTA
1 TTGTTATTATTA
74988242 TTGTTATTATT-
1 TTGTTATTATTA
* *
74988253 TTGTTGTTGTTA
1 TTGTTATTATTA
*
74988265 TTGTTTAAATATTA
1 TTG-TT-ATTATTA
* *
74988279 -TGTAATCATTA
1 TTGTTATTATTA
74988290 TT-TTATTATTAA
1 TTGTTATTATT-A
74988302 TT-TTATTATTA
1 TTGTTATTATTA
74988313 TT
1 TT
74988315 TTAGAAACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
11 31 0.54
12 18 0.32
13 4 0.07
14 4 0.07
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.65
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:74988306 original size:12 final size:11
Alignment explanation
Indices: 74988286--74988317 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
74988276 TTATGTAATC
74988286 ATTATTTTATT
1 ATTATTTTATT
74988297 ATTAATTTTATT
1 ATT-ATTTTATT
74988309 ATTATTTTA
1 ATTATTTTA
74988318 GAAACATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:75000202 original size:31 final size:31
Alignment explanation
Indices: 75000164--75000227 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
75000154 CCTTTTCATA
*
75000164 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
75000195 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
75000226 TT
1 TT
75000228 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:75000472 original size:24 final size:24
Alignment explanation
Indices: 75000435--75000538 Score: 158
Period size: 23 Copynumber: 4.4 Consensus size: 24
75000425 CTGGAGGACT
*
75000435 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
75000460 AGCCCTTTTAATAACTCGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
75000484 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
75000507 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
75000530 AGCCCTTTT
1 AGCCCTTTT
75000539 TCACTTCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.59
24 26 0.35
25 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:75000683 original size:25 final size:25
Alignment explanation
Indices: 75000651--75000698 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75000641 ATACATAAAC
* *
75000651 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
75000676 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
75000699 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:75007171 original size:15 final size:15
Alignment explanation
Indices: 75007151--75007179 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
75007141 GAAATAAAGG
75007151 AAAGAAACAGAATGA
1 AAAGAAACAGAATGA
75007166 AAAGAAACAGAATG
1 AAAGAAACAGAATG
75007180 TGGAAACGAA
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:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAGAAACAGAATGA
Found at i:75007190 original size:18 final size:15
Alignment explanation
Indices: 75007149--75007194 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
75007139 AGGAAATAAA
75007149 GGAAAGAAACAGAAT
1 GGAAAGAAACAGAAT
*
75007164 GAAAAGAAACAGAATGT
1 GGAAAGAAACAGAA--T
75007181 GGAAACGAAACAGA
1 GGAAA-GAAACAGA
75007195 GAAGAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.50
17 5 0.19
18 8 0.31
ACGTcount: A:0.59, C:0.09, G:0.26, T:0.07
Consensus pattern (15 bp):
GGAAAGAAACAGAAT
Found at i:75007612 original size:23 final size:21
Alignment explanation
Indices: 75007565--75007605 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
75007555 TTTGGTTAAA
75007565 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
75007587 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
75007606 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:75007983 original size:15 final size:15
Alignment explanation
Indices: 75007935--75007984 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
75007925 TTTATCAAAT
75007935 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
75007950 TCATTTTGATT-AAA
1 TTATATTGATTGAAA
75007964 TTTATATTGATTGAAA
1 -TTATATTGATTGAAA
75007980 TTATA
1 TTATA
75007985 ATATATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:75008461 original size:27 final size:27
Alignment explanation
Indices: 75008423--75008498 Score: 93
Period size: 27 Copynumber: 2.7 Consensus size: 27
75008413 TTTAATGCCT
75008423 TATTGGTGTGTTTGGGAGGATATGAT-A
1 TATTGGTGTGTTTGGGAGGAT-TGATAA
*
75008450 TATTGGTGTGTTT-GGAGGATTTATAA
1 TATTGGTGTGTTTGGGAGGATTGATAA
75008476 TATTCCGGGTGTGTTTGGGAGGA
1 TATT---GGTGTGTTTGGGAGGA
75008499 ATCCACGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.07
26 12 0.28
27 13 0.30
29 9 0.21
30 6 0.14
ACGTcount: A:0.20, C:0.03, G:0.37, T:0.41
Consensus pattern (27 bp):
TATTGGTGTGTTTGGGAGGATTGATAA
Found at i:75008620 original size:18 final size:19
Alignment explanation
Indices: 75008599--75008639 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
75008589 AATGAAATGA
75008599 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
75008617 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
75008636 GAAA
1 GAAA
75008640 ATATGAGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:75010570 original size:18 final size:18
Alignment explanation
Indices: 75010543--75010584 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
75010533 GCTCTTAAAC
*
75010543 TTGGCAAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
75010561 TTGGCCAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
75010579 TTGGCC
1 TTGGCC
75010585 TATGAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (18 bp):
TTGGCCAGTAAGTTCACA
Found at i:75010740 original size:109 final size:109
Alignment explanation
Indices: 75010601--75010797 Score: 268
Period size: 109 Copynumber: 1.8 Consensus size: 109
75010591 CTTATTTTTA
* * * * *
75010601 TCCATTTTGACTCCTTAACTTGAAAATTGTTATTCTTTTAAGCCCAATCTGTTAATGACCCAGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
75010666 AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
66 AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
* * * * ****
75010710 TCCACTTTGACTTATTAACTTGAAATTTGTTATTCATTTAAACCCATTCTATTAGTGATTGTGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
*
75010775 AAAAATAGGGATAATGTCACTTT
66 AAAAATAGGGATAATGTAACTTT
75010798 CGCCCCTTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
109 74 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (109 bp):
TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
Found at i:75010948 original size:32 final size:31
Alignment explanation
Indices: 75010801--75010937 Score: 168
Period size: 31 Copynumber: 4.4 Consensus size: 31
75010791 TCACTTTCGC
** *
75010801 CCCTTGAACTCGGCAAATAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
*
75010832 CCCCTGAACTTAGCAAGTAGGTCTCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTC-CACATTGG
75010864 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
* ** *
75010895 -CCTCTAAACTTAATAAGTAGGTCCACATTAG
1 CCCT-TGAACTTAGCAAGTAGGTCCACATTGG
75010926 CCCATTGAACTT
1 CCC-TTGAACTT
75010938 GATAAGTAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.03
31 50 0.54
32 38 0.41
33 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (31 bp):
CCCTTGAACTTAGCAAGTAGGTCCACATTGG
Found at i:75010948 original size:63 final size:63
Alignment explanation
Indices: 75010801--75010937 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 63
75010791 TCACTTTCGC
** * * * *
75010801 CCCTTGAACTCGGCAAATAGGTCCACATTGGCCCCTGAACTTAGCAAGTAGGTCTCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
* *
75010864 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCTCTAAACTTAATAAGTAGGTC-CACATTAG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
75010926 CCCATTGAACTT
1 CCC-TTGAACTT
75010938 GATAAGTAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
62 10 0.15
63 55 0.85
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (63 bp):
CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
Found at i:75021766 original size:330 final size:330
Alignment explanation
Indices: 75020680--75022001 Score: 2599
Period size: 330 Copynumber: 4.0 Consensus size: 330
75020670 AGTGGTATAA
75020680 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
1 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
75020745 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
66 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
75020810 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
131 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
75020875 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
196 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
75020940 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
261 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
75021005 TTAGT
326 TTAGT
75021010 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
1 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
* *
75021075 TAAGGCATTCCAACACAGTACACGTGTCCTACTTTTTACATTATAAAATAATGGTTTAATTGCAA
66 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
75021140 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
131 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
75021205 TCAATTTTGAGATTTAATCTTTATATTTAAATTTTTGACATGATTTGGTATCTTGGGGGACAAGT
196 TCAATTTTGAGATTTAATCTTTATATTT-AATTTTTGACATGATTTGGTATCTTGGGGGACAAGT
75021270 GTTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATT
260 GTTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATT
75021335 TTTAGT
325 TTTAGT
*
75021341 TTTCCGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
1 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
*
75021406 TAAGGCATTCCAACACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
66 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
75021471 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
131 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
75021536 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
196 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
75021601 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
261 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
75021666 TTAGT
326 TTAGT
75021671 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
1 TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
75021736 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
66 TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
75021801 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
131 CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
75021866 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
196 TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
75021931 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
261 TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
75021996 TTAGT
326 TTAGT
75022001 T
1 T
75022002 ATAAAATAAT
Statistics
Matches: 985, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
330 657 0.67
331 328 0.33
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (330 bp):
TTTCAGTTTTAGTCCTTAGAAGAACGGTTTGGACTATGTATAAACTAAATATGAAACGAAGACCT
TAAGGCATTCCAAAACAGTACACGTGTCCTGCTTTTTACATTATAAAATAATGGTTTAATTGCAA
CTAAGATCGCTTTACTTTTTTAATTTATATAGGGTTAAATTTTAGTTTTAATCTCTTTATAACGC
TCAATTTTGAGATTTAATCTTTATATTTAATTTTTGACATGATTTGGTATCTTGGGGGACAAGTG
TTTTGTTATTTCTCTCTCCATTATAAGATGAGGGTGCAATTTCAATTTTGATCTCTTTCCCATTT
TTAGT
Found at i:75031017 original size:32 final size:32
Alignment explanation
Indices: 75030976--75031039 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
75030966 TTTATCATTA
75030976 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
1 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
75031008 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
1 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
75031040 GAATTTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (32 bp):
TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
Found at i:75033029 original size:22 final size:21
Alignment explanation
Indices: 75032997--75033043 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
75032987 CATGGTGTCT
*
75032997 TTAAAATAATAAAATTTTAAA
1 TTAAAATAATAAAATTATAAA
*
75033018 TTAATAATAATAAAATTATAAT
1 TTAA-AATAATAAAATTATAAA
75033040 TTAA
1 TTAA
75033044 GCGATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATAATAAAATTATAAA
Found at i:75033157 original size:5 final size:5
Alignment explanation
Indices: 75033147--75033171 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
75033137 AATTTTTAAA
75033147 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
75033172 TTATAATTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:75035432 original size:75 final size:75
Alignment explanation
Indices: 75035309--75035459 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
75035299 GTGTAACCAT
75035309 TGTAATTGAAGCTTTTAACACCCTCTAATTTTTAGGATTGAGAATTTGACTAATTAAGTGGGTAA
1 TGTAATTGAAGCTTTTAACACCCTCTAATTTTTAGGATTGAGAATTTGACTAATTAAGTGGGTAA
75035374 TTACAAATAA
66 TTACAAATAA
75035384 TGTAATTGAAGCTTTTAACACCCTCTAATTTTTAGGATTGAGAATTTGACTAATTAAGTGGGTAA
1 TGTAATTGAAGCTTTTAACACCCTCTAATTTTTAGGATTGAGAATTTGACTAATTAAGTGGGTAA
75035449 TTACAAATAA
66 TTACAAATAA
75035459 T
1 T
75035460 TAGACTCAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (75 bp):
TGTAATTGAAGCTTTTAACACCCTCTAATTTTTAGGATTGAGAATTTGACTAATTAAGTGGGTAA
TTACAAATAA
Found at i:75040108 original size:18 final size:18
Alignment explanation
Indices: 75040068--75040110 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
75040058 GTTAAAGGCA
75040068 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
75040086 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
75040104 TAATTAA
1 TAATTAA
75040111 AAACCTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:75050627 original size:5 final size:5
Alignment explanation
Indices: 75050617--75050645 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
75050607 TATTTTTTTA
75050617 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
75050646 CTAACAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:75053798 original size:36 final size:36
Alignment explanation
Indices: 75053745--75053821 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
75053735 AAAAGCTCCA
75053745 ATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAG
1 ATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAG
* * *
75053781 ATAAGAACTAGGGGAGAGAGATTGGAGAAGTAAGAG
1 ATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAG
75053817 ATAAG
1 ATAAG
75053822 GCAGTGACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.48, C:0.03, G:0.36, T:0.13
Consensus pattern (36 bp):
ATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAG
Found at i:75056005 original size:20 final size:21
Alignment explanation
Indices: 75055965--75056005 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75055955 AATAGTTACT
* *
75055965 TATTTAAATTTTATATTTATA
1 TATTAAAATTTTATATATATA
75055986 TATTAAAATTTT-TATATATA
1 TATTAAAATTTTATATATATA
75056006 CTCGGTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTAAAATTTTATATATATA
Found at i:75057919 original size:47 final size:47
Alignment explanation
Indices: 75057868--75058029 Score: 191
Period size: 47 Copynumber: 3.4 Consensus size: 47
75057858 TGGTTGGACC
* * * * *
75057868 ATGGCAACA-TGTGATCTGTGATTTCAGAATAAGACCATAGCTGGGTT
1 ATGGCATCAGTGTGATATGTG-CTTCAGAATAAGACCATATCTGGGAT
* * * *
75057915 ATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
* * * *
75057962 ATGGCGTCAGTATGATATGTGCTTCTGAATAAAACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
75058009 ATGGCATCAGTGTGATATGTG
1 ATGGCATCAGTGTGATATGTG
75058030 ATCCGTGTAA
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
47 87 0.91
48 9 0.09
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
Found at i:75063128 original size:18 final size:18
Alignment explanation
Indices: 75063088--75063130 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
75063078 AAGCTTTTTT
75063088 TTTAATAAATAACTACCCA
1 TTTAA-AAATAACTACCCA
* *
75063107 -TTAAAAATAATTACTCA
1 TTTAAAAATAACTACCCA
75063124 TTTAAAA
1 TTTAAAA
75063131 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTAAAAATAACTACCCA
Found at i:75065280 original size:29 final size:29
Alignment explanation
Indices: 75065218--75065287 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
75065208 ATTGAGTTAT
*
75065218 AAAATTTAATTAAAAATCAAAGTTAGTGGT-
1 AAAATTTAA-TAAAAATCAAAGTTAAT-GTA
*
75065248 AAAATTTAATAAAATTCAAAGTTTAAT-TAA
1 AAAATTTAATAAAAATCAAAG-TTAATGT-A
75065278 AAAATTTAAT
1 AAAATTTAAT
75065288 CACATAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 11 0.31
30 23 0.66
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (29 bp):
AAAATTTAATAAAAATCAAAGTTAATGTA
Found at i:75065702 original size:16 final size:18
Alignment explanation
Indices: 75065676--75065713 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
75065666 TTTATTGAAC
75065676 TTTTAATTGTTATA-ATT
1 TTTTAATTGTTATAGATT
*
75065693 TTTTAA-TGTTTTAGATT
1 TTTTAATTGTTATAGATT
75065710 TTTT
1 TTTT
75065714 TTATGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (18 bp):
TTTTAATTGTTATAGATT
Found at i:75078207 original size:22 final size:23
Alignment explanation
Indices: 75078161--75078209 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
75078151 AATATTTTTG
** *
75078161 TAAATATAAATTAAATTCAATGA
1 TAAATATAAATTAAAGACAAGGA
75078184 TAAAT-TAAATTAAAGACAAGGA
1 TAAATATAAATTAAAGACAAGGA
75078206 TAAA
1 TAAA
75078210 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (23 bp):
TAAATATAAATTAAAGACAAGGA
Found at i:75085337 original size:10 final size:11
Alignment explanation
Indices: 75085322--75085347 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75085312 GTGAAATTTG
75085322 AAAAAAAAACA
1 AAAAAAAAACA
75085333 AAAAAAAAACA
1 AAAAAAAAACA
75085344 AAAA
1 AAAA
75085348 TCAATGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:75089634 original size:24 final size:24
Alignment explanation
Indices: 75089604--75089649 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
75089594 ACATTTGGTC
*
75089604 TAAAGTTGGGCCG-TCGGTTTTGAT
1 TAAAGTTGGACCGCT-GGTTTTGAT
75089628 TAAAGTTGGACCGCTGGTTTTG
1 TAAAGTTGGACCGCTGGTTTTG
75089650 GTCCATCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (24 bp):
TAAAGTTGGACCGCTGGTTTTGAT
Found at i:75090217 original size:20 final size:19
Alignment explanation
Indices: 75090159--75090225 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
75090149 GGTAAAAGAA
75090159 TTATAAAAAATA--AAAAT
1 TTATAAAAAATATTAAAAT
* * *
75090176 TCT-TAAAAATTATTCAATT
1 T-TATAAAAAATATTAAAAT
75090195 TTAGTAAAAAATATTAAAAT
1 TTA-TAAAAAATATTAAAAT
75090215 TTA-AAAAAATA
1 TTATAAAAAATA
75090226 GAAAAAATCG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
17 9 0.23
18 10 0.26
19 4 0.10
20 16 0.41
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (19 bp):
TTATAAAAAATATTAAAAT
Found at i:75091817 original size:47 final size:47
Alignment explanation
Indices: 75091660--75091792 Score: 230
Period size: 47 Copynumber: 2.8 Consensus size: 47
75091650 CCGGGATAAG
* * *
75091660 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
*
75091707 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
75091754 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
75091793 GTAGTCGACA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.25
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:75092668 original size:42 final size:43
Alignment explanation
Indices: 75092572--75092668 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
75092562 CTTTTTTATT
* * *
75092572 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
75092614 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
75092656 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
75092669 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:75094587 original size:18 final size:19
Alignment explanation
Indices: 75094566--75094603 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
75094556 TTATACTAGA
75094566 TTTTTTTTAATAAT-TAAT
1 TTTTTTTTAATAATATAAT
*
75094584 TTTTTTTTACTAATATAAT
1 TTTTTTTTAATAATATAAT
75094603 T
1 T
75094604 GGTTGACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTTTAATAATATAAT
Found at i:75095971 original size:10 final size:9
Alignment explanation
Indices: 75095952--75096012 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
75095942 AAAATTAATC
75095952 ATTTTTATA
1 ATTTTTATA
75095961 ATTTATTATA
1 ATTT-TTATA
*
75095971 ATTCTTAATA
1 ATT-TTTATA
*
75095981 ATTTTCTACA
1 ATTTT-TATA
75095991 ATTTTGTAT-
1 ATTTT-TATA
75096000 ATTTTTAGTA
1 ATTTTTA-TA
75096010 ATT
1 ATT
75096013 ACTTAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 27 0.64
11 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:75103235 original size:14 final size:15
Alignment explanation
Indices: 75103216--75103245 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75103206 ATTGGATGTG
75103216 TGAACTA-ATTAAGT
1 TGAACTACATTAAGT
75103230 TGAACTACATTAAGT
1 TGAACTACATTAAGT
75103245 T
1 T
75103246 AGCATATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (15 bp):
TGAACTACATTAAGT
Found at i:75110148 original size:3 final size:3
Alignment explanation
Indices: 75110140--75110180 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
75110130 TATGTTCTCT
75110140 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
75110181 TTATTGTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:75117019 original size:16 final size:16
Alignment explanation
Indices: 75116998--75117043 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
75116988 TTATTAAATT
75116998 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
75117014 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
75117029 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
75117044 CTGTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:75117054 original size:107 final size:108
Alignment explanation
Indices: 75116940--75117148 Score: 375
Period size: 107 Copynumber: 1.9 Consensus size: 108
75116930 TAGTATTATA
* * * *
75116940 TATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
1 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTGATTAAATTATATATT
75117005 TTAATTATAATATATTTAATAATAATTATG-TTAAATTATCTG
66 TTAATTATAATATATTTAATAATAATTATGTTTAAATTATCTG
75117047 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTGATTAAATTATATATT
1 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTGATTAAATTATATATT
75117112 TTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTAATTATAATATATTTAATAATAATTATGTTTAAAT
75117149 ATGATTAAAT
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 91 0.94
108 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (108 bp):
TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTGATTAAATTATATATT
TTAATTATAATATATTTAATAATAATTATGTTTAAATTATCTG
Found at i:75117126 original size:16 final size:16
Alignment explanation
Indices: 75117105--75117146 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
75117095 TGATTAAATT
*
75117105 ATATATTTTAATTATA
1 ATATATTTTAATAATA
75117121 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
75117136 AT-TATGTTTAA
1 ATATAT-TTTAA
75117147 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:75117383 original size:16 final size:16
Alignment explanation
Indices: 75117362--75117413 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
75117352 GATTTGCTAT
75117362 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
75117378 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
*
75117394 TAGACCTCTAATCCAA
1 TACACCTCTAATCCAA
75117410 TACA
1 TACA
75117414 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:75119779 original size:103 final size:103
Alignment explanation
Indices: 75119598--75119790 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 103
75119588 AGTTCTAAAT
*
75119598 AATTTTAGATATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAATTTTAAAT
1 AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAA--TTAAAT
*
75119663 GATTTTTAGAAATAAA-TTT-TTAATTCTTTTTATTTGTA
64 GATTTTTAAAAATAAAGTTTCTTAATTCTTTTTATTTGTA
* * * * *
75119701 AATTTTAGAAATAATTTATATCTAATACTTTTTT-AATTTCAGAAATAAATTCTTTAA-TAATTT
1 AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATT-TTTAATTAAATG
75119764 ATTTTAATACAAAATAAAGTTTCTTAA
65 ATTTT--TA-AAAATAAAGTTTCTTAA
75119791 ATAATGTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
100 9 0.12
102 18 0.23
103 43 0.56
104 3 0.04
105 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (103 bp):
AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAATTAAATGA
TTTTTAAAAATAAAGTTTCTTAATTCTTTTTATTTGTA
Found at i:75120802 original size:23 final size:22
Alignment explanation
Indices: 75120763--75120808 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
75120753 TATTCAACTT
* *
75120763 TATTAGATAACTTTTATCTAAC
1 TATTAGATAAATATTATCTAAC
75120785 TATTAAGATAAATATTATCTAAC
1 TATT-AGATAAATATTATCTAAC
75120808 T
1 T
75120809 TTGTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTAGATAAATATTATCTAAC
Found at i:75123686 original size:18 final size:18
Alignment explanation
Indices: 75123665--75123702 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75123655 TTTTTATTCG
*
75123665 AATTAATTCAAATAACTT
1 AATTAACTCAAATAACTT
75123683 AATTAACTCAAATAACTT
1 AATTAACTCAAATAACTT
75123701 AA
1 AA
75123703 ACTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAACTCAAATAACTT
Found at i:75124189 original size:21 final size:22
Alignment explanation
Indices: 75124163--75124207 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
75124153 TAGAAAGATA
75124163 AAAAAT-AATTTTAAATT-AAAT
1 AAAAATAAATTTT-AATTCAAAT
75124184 AAAAATAAATTTTAATTCAAAT
1 AAAAATAAATTTTAATTCAAAT
75124206 AA
1 AA
75124208 TCGTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAAATTTTAATTCAAAT
Found at i:75124704 original size:16 final size:17
Alignment explanation
Indices: 75124685--75124725 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
75124675 ATATAAATCC
*
75124685 ATTCAAATTC-AAATTA
1 ATTCAAATTCGAAATAA
75124701 ATTCAAATTCGAAATAA
1 ATTCAAATTCGAAATAA
75124718 ATT-AAATT
1 ATTCAAATT
75124726 GTGGTACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTCAAATTCGAAATAA
Found at i:75125661 original size:26 final size:27
Alignment explanation
Indices: 75125639--75125690 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
75125629 TAGTTTATGT
75125639 AATTT-GTTTTTAATTAAATTTTATTG
1 AATTTAGTTTTTAATTAAATTTTATTG
* * *
75125665 AATTTATTTTTTAATTCAATTCTATT
1 AATTTAGTTTTTAATTAAATTTTATT
75125691 TTGTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
AATTTAGTTTTTAATTAAATTTTATTG
Found at i:75135564 original size:13 final size:13
Alignment explanation
Indices: 75135546--75135570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75135536 AAGGGCAAAG
75135546 CTAGAATATTTTT
1 CTAGAATATTTTT
75135559 CTAGAATATTTT
1 CTAGAATATTTT
75135571 AGGGGAGCTA
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
CTAGAATATTTTT
Found at i:75138214 original size:31 final size:28
Alignment explanation
Indices: 75138179--75138240 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
75138169 TTTAATTAAT
75138179 TTTTTAAAATTTAAAAAATATATAAAAATTA
1 TTTTTAAAATTT--AAAAT-TATAAAAATTA
*
75138210 TTTTTAAAATTTAAAATTATTAAAATTA
1 TTTTTAAAATTTAAAATTATAAAAATTA
75138238 TTT
1 TTT
75138241 AAAACTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 13 0.43
29 5 0.17
31 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTTAAAATTTAAAATTATAAAAATTA
Found at i:75138240 original size:19 final size:19
Alignment explanation
Indices: 75138218--75138254 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
75138208 TATTTTTAAA
75138218 ATTTAAAA-TTATTAAAATT
1 ATTTAAAACTTA-TAAAATT
75138237 ATTTAAAACTTATAAAAT
1 ATTTAAAACTTATAAAAT
75138255 AATATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAAAACTTATAAAATT
Found at i:75138243 original size:50 final size:52
Alignment explanation
Indices: 75138187--75138285 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 52
75138177 ATTTTTTAAA
*
75138187 ATTTAAAAAATATATAAAA-ATTATTTTTAA-AATTT-AAAATT-ATTAAAATT
1 ATTT-AAAAAT-TATAAAATAATATTTTTAATAATTTAAAAATTAATTAAAATT
* *
75138237 ATTTAAAACTTATAAAATAATATTTTTAATATTTTAAAAATTAATTAAA
1 ATTTAAAAATTATAAAATAATATTTTTAATAATTTAAAAATTAATTAAA
75138286 TGTTATCGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 7 0.17
49 15 0.36
50 8 0.19
51 6 0.14
52 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (52 bp):
ATTTAAAAATTATAAAATAATATTTTTAATAATTTAAAAATTAATTAAAATT
Found at i:75140255 original size:20 final size:18
Alignment explanation
Indices: 75140202--75140257 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 18
75140192 AAACCTGTAA
*
75140202 ATTTTTTTGTTGTTTTTT
1 ATTTTCTTGTTGTTTTTT
* *
75140220 ACTTTCTT-TCTTTTTTTGCT
1 ATTTTCTTGT-TGTTTTT--T
75140240 ATTTTCTTGTTGTTTTTT
1 ATTTTCTTGTTGTTTTTT
75140258 CATGATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
20 14 0.48
21 1 0.03
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (18 bp):
ATTTTCTTGTTGTTTTTT
Found at i:75141424 original size:19 final size:20
Alignment explanation
Indices: 75141383--75141428 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
75141373 TTAAACTAAG
* *
75141383 AAATAATTTAAAAAATATTA
1 AAATAATTTAAAAAAAATCA
75141403 AAAT-ATTTAAAAAAAATCA
1 AAATAATTTAAAAAAAATCA
75141422 AAA-AATT
1 AAATAATT
75141429 AAATAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAATTTAAAAAAAATCA
Found at i:75150965 original size:18 final size:19
Alignment explanation
Indices: 75150942--75150977 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75150932 ATTATTTATT
*
75150942 ATATAT-TATTTTAAATAC
1 ATATATGTATTCTAAATAC
75150960 ATATATGTATTCTAAATA
1 ATATATGTATTCTAAATA
75150978 AATTATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATATGTATTCTAAATAC
Found at i:75152347 original size:21 final size:21
Alignment explanation
Indices: 75152298--75152356 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
75152288 ATAATAAATC
*
75152298 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
75152318 AAACGAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
75152340 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
75152357 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:75156314 original size:30 final size:32
Alignment explanation
Indices: 75156242--75156316 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 32
75156232 TTTTAAATTA
*
75156242 ATAAAA-AT-AAAATTATATTTTAACTTTCTT
1 ATAAAATATAAAAATTATAATTTAACTTTCTT
*
75156272 ATAAAATATAAAAATT-TAATTTAA-TTTTTT
1 ATAAAATATAAAAATTATAATTTAACTTTCTT
75156302 A-AAAATTATAAAAAT
1 ATAAAA-TATAAAAAT
75156317 ATAGACTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 4 0.10
30 21 0.52
31 9 0.22
32 6 0.15
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAAAATATAAAAATTATAATTTAACTTTCTT
Found at i:75159122 original size:38 final size:38
Alignment explanation
Indices: 75159052--75159202 Score: 194
Period size: 38 Copynumber: 4.0 Consensus size: 38
75159042 TATCATGTAA
* ** * *
75159052 AATAGTAGACATGTTTAACATGTATTCAGTTCAATAGT
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGC
** *
75159090 AGCATTAGACATGCTTAACATGTATTTGGTTCAACAGC
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGC
* *
75159128 AATAGTAGACATGCTTAACATTTATTTGGTTCAACAAC
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGC
* *
75159166 AATAGTAGACATGCTTAACATGTATTTAGTTTAACAG
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAG
75159203 TATCAGTAGG
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 96 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (38 bp):
AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGC
Found at i:75161813 original size:106 final size:106
Alignment explanation
Indices: 75161640--75161843 Score: 363
Period size: 106 Copynumber: 1.9 Consensus size: 106
75161630 TTGAAGCTTT
*
75161640 AAAAGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCT
1 AAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCT
*
75161705 CGATTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTA
66 CGATTTTCCAAACACGAAATATTGCCTTATTTAAAAGTTTA
* *
75161746 AAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCT
1 AAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCT
*
75161811 CGATTTTCCAAACACGAAATATTGCTTTATTTA
66 CGATTTTCCAAACACGAAATATTGCCTTATTTA
75161844 GAAAAATTTC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AAAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCT
CGATTTTCCAAACACGAAATATTGCCTTATTTAAAAGTTTA
Found at i:75167656 original size:37 final size:37
Alignment explanation
Indices: 75167615--75167790 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
75167605 TTTGAGTACT
75167615 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
75167652 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
75167689 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
75167726 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
75167763 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
75167791 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:75167862 original size:45 final size:46
Alignment explanation
Indices: 75167753--75167876 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
75167743 GTGATAAGTG
* *
75167753 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
75167799 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
75167844 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
75167877 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:75170199 original size:27 final size:29
Alignment explanation
Indices: 75170146--75170199 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
75170136 GAGAAGTTTC
* **
75170146 ATTATTATTATAAATATTAAATTAATAAA
1 ATTATTATTATAAAAATTAAAAAAATAAA
75170175 ATTATT-TTA-AAAAATTAAAAAAATA
1 ATTATTATTATAAAAATTAAAAAAATA
75170200 TACATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 13 0.59
28 3 0.14
29 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
ATTATTATTATAAAAATTAAAAAAATAAA
Found at i:75173581 original size:15 final size:16
Alignment explanation
Indices: 75173561--75173596 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
75173551 AATAATATTG
75173561 AATATATATAT-ACAT
1 AATATATATATAACAT
75173576 AATATATATATAACAT
1 AATATATATATAACAT
75173592 AATAT
1 AATAT
75173597 TAAAAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATATATAACAT
Found at i:75173618 original size:22 final size:24
Alignment explanation
Indices: 75173590--75173642 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
75173580 TATATATAAC
* *
75173590 ATAATAT-TAAAAACACA-TATAT
1 ATAATATGAAAAAACAAATTATAT
*
75173612 ATAATATGAAAAAAGAAATTATAT
1 ATAATATGAAAAAACAAATTATAT
75173636 ATAATAT
1 ATAATAT
75173643 AATACATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 7 0.27
24 12 0.46
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATATGAAAAAACAAATTATAT
Found at i:75174332 original size:12 final size:12
Alignment explanation
Indices: 75174315--75174345 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
75174305 ACGTATGAGT
75174315 AGAAAAAAAAGA
1 AGAAAAAAAAGA
*
75174327 AGAAAAAGAAGA
1 AGAAAAAAAAGA
75174339 AGAAAAA
1 AGAAAAA
75174346 TAACAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAGA
Found at i:75176926 original size:11 final size:10
Alignment explanation
Indices: 75176906--75176931 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
75176896 TTAGATTAGA
75176906 TTTCTTTTTT
1 TTTCTTTTTT
75176916 TTTCTTTTTT
1 TTTCTTTTTT
75176926 TTTCTT
1 TTTCTT
75176932 CTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:75177982 original size:16 final size:16
Alignment explanation
Indices: 75177963--75177997 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
75177953 TTACATATCT
75177963 ATCAATTTCAATTTGG
1 ATCAATTTCAATTTGG
75177979 ATCAATTTCAATTTGG
1 ATCAATTTCAATTTGG
75177995 ATC
1 ATC
75177998 CGTGTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
ATCAATTTCAATTTGG
Found at i:75192384 original size:15 final size:17
Alignment explanation
Indices: 75192363--75192403 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
75192353 TAATATTTTA
75192363 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
75192379 -AAATTATTAAAATGAT
1 AAAATTATAAAAATGAT
75192395 AAAATTATA
1 AAAATTATA
75192404 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:75193066 original size:70 final size:70
Alignment explanation
Indices: 75192989--75193125 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
75192979 TGGACTCAGA
*
75192989 TTCATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAC-AAAAATCTAAATTCAGGT
1 TTCATGGTTCAAATAAGTCACTTACC-TTTAAGTACTAAATTGGACAAAAAATCTAAATTCAAGT
75193053 GTTAGG
65 GTTAGG
* * *
75193059 TTCATGGTTTAAATAAGTCATTTACCTTTAAGTACTAATTTGGACAAAAAATCTAAATTCAAGTG
1 TTCATGGTTCAAATAAGTCACTTACCTTTAAGTACTAAATTGGACAAAAAATCTAAATTCAAGTG
75193124 TT
66 TT
75193126 GATTTAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 18 0.29
70 44 0.71
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (70 bp):
TTCATGGTTCAAATAAGTCACTTACCTTTAAGTACTAAATTGGACAAAAAATCTAAATTCAAGTG
TTAGG
Found at i:75196431 original size:17 final size:17
Alignment explanation
Indices: 75196409--75196450 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
75196399 CATGGATAGT
75196409 GCCAGTGCTCTTCCCCC
1 GCCAGTGCTCTTCCCCC
75196426 GCCAGTGCTCTTCCCCC
1 GCCAGTGCTCTTCCCCC
75196443 GCCAGTGC
1 GCCAGTGC
75196451 CAGTGCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.07, C:0.50, G:0.21, T:0.21
Consensus pattern (17 bp):
GCCAGTGCTCTTCCCCC
Found at i:75198206 original size:15 final size:17
Alignment explanation
Indices: 75198179--75198213 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
75198169 AATTTCAGTA
75198179 ATTATTGTTATTTC-TC
1 ATTATTGTTATTTCTTC
75198195 ATTATT-TTATTTCTTC
1 ATTATTGTTATTTCTTC
75198211 ATT
1 ATT
75198214 TATCTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTATTGTTATTTCTTC
Found at i:75201718 original size:14 final size:14
Alignment explanation
Indices: 75201699--75201727 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
75201689 GAGTATGATA
75201699 ACTTAGGGTATTCT
1 ACTTAGGGTATTCT
75201713 ACTTAGGGTATTCT
1 ACTTAGGGTATTCT
75201727 A
1 A
75201728 GGTTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (14 bp):
ACTTAGGGTATTCT
Found at i:75212899 original size:26 final size:24
Alignment explanation
Indices: 75212865--75212926 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
75212855 AATTTTTGAA
75212865 ATTTTAAAATTGAAAAATTAAGAATT
1 ATTTTAAAATT-AAAAATT-AGAATT
*
75212891 ATTTTAAAAATTAAAAATTATAATT
1 ATTTT-AAAATTAAAAATTAGAATT
*
75212916 TTTTTAAAATT
1 ATTTTAAAATT
75212927 TAAGTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 6 0.18
25 9 0.27
26 12 0.36
27 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
ATTTTAAAATTAAAAATTAGAATT
Found at i:75212906 original size:25 final size:25
Alignment explanation
Indices: 75212865--75212929 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
75212855 AATTTTTGAA
75212865 ATTTT-AAAATTGAAAAATTAAGAATT
1 ATTTTAAAAATT-AAAAATT-AGAATT
*
75212891 ATTTTAAAAATTAAAAATTATAATT
1 ATTTTAAAAATTAAAAATTAGAATT
* *
75212916 TTTTTAAAATTTAA
1 ATTTTAAAAATTAA
75212930 GTAATTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.49
26 12 0.34
27 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
ATTTTAAAAATTAAAAATTAGAATT
Found at i:75214687 original size:32 final size:32
Alignment explanation
Indices: 75214650--75214726 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
75214640 ATGCATGTGT
* * **
75214650 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
75214682 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
75214714 GTAACTTTTCATA
1 GTAACTTTTCATA
75214727 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:75219235 original size:32 final size:32
Alignment explanation
Indices: 75219160--75219236 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
75219150 ATGCATGTGT
** * **
75219160 GTAACTTTTCACCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
75219192 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
75219224 GTAACTTTTCATA
1 GTAACTTTTCATA
75219237 ATTTATTTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:75244545 original size:46 final size:45
Alignment explanation
Indices: 75244495--75244670 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
75244485 TGGTTGAGCA
*
75244495 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
75244541 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
75244588 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
75244634 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75244671 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:75244651 original size:93 final size:93
Alignment explanation
Indices: 75244492--75244662 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
75244482 GGATGGTTGA
* *
75244492 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
75244557 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
75244585 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
75244650 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
75244663 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:75252137 original size:2 final size:2
Alignment explanation
Indices: 75252130--75252162 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75252120 CTCTTAAATT
75252130 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
75252163 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:75252167 original size:2 final size:2
Alignment explanation
Indices: 75252162--75252193 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
75252152 TCTCTCTCTC
75252162 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75252194 CTTTCTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75255038 original size:5 final size:6
Alignment explanation
Indices: 75255023--75255047 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
75255013 TACTTTTTCA
75255023 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
75255048 TGTAGATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:75257254 original size:29 final size:32
Alignment explanation
Indices: 75257215--75257278 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
75257205 TTATTTAAAA
75257215 ATTTTTAACC-TAGAAGTTTT-AA-AAAAAATT
1 ATTTTTAACCTTA-AAGTTTTAAATAAAAAATT
*
75257245 ATTTTT-ACCTTAAATTTTTAAATAAAAAATT
1 ATTTTTAACCTTAAAGTTTTAAATAAAAAATT
75257276 ATT
1 ATT
75257279 AATGAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.30
30 10 0.33
31 11 0.37
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (32 bp):
ATTTTTAACCTTAAAGTTTTAAATAAAAAATT
Found at i:75267729 original size:16 final size:17
Alignment explanation
Indices: 75267699--75267731 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
75267689 ATATAATTAA
*
75267699 AATATATTAATTTATTT
1 AATATATTAAATTATTT
75267716 AATA-ATTAAATTATTT
1 AATATATTAAATTATTT
75267732 GTACAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATATTAAATTATTT
Found at i:75268096 original size:22 final size:22
Alignment explanation
Indices: 75268069--75268112 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
75268059 TTAACTTAAA
*
75268069 TTTAATACTTAATTACTTAATT
1 TTTAATACCTAATTACTTAATT
75268091 TTTAATACCTAATTACTTAATT
1 TTTAATACCTAATTACTTAATT
75268113 ATTGTGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATACCTAATTACTTAATT
Found at i:75275843 original size:29 final size:30
Alignment explanation
Indices: 75275779--75275845 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
75275769 AATCCCAAAA
75275779 CTATACATGAATTATATTTTAATGTGAAATT
1 CTATACATGAATTATATTTTAATGT-AAATT
* *
75275810 CTATACATTAATTTTGATTTT-ATGT-AATT
1 CTATACATGAATTAT-ATTTTAATGTAAATT
*
75275839 TTATACA
1 CTATACA
75275846 GGGAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.31
31 17 0.53
32 5 0.16
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (30 bp):
CTATACATGAATTATATTTTAATGTAAATT
Found at i:75277288 original size:16 final size:16
Alignment explanation
Indices: 75277267--75277297 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
75277257 TAGAAACACG
75277267 AATAGCTGTCCACCAA
1 AATAGCTGTCCACCAA
75277283 AATAGCTGTCCACCA
1 AATAGCTGTCCACCA
75277298 GAGCAGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.19
Consensus pattern (16 bp):
AATAGCTGTCCACCAA
Found at i:75292835 original size:12 final size:12
Alignment explanation
Indices: 75292818--75292861 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
75292808 ATAATAAGAG
75292818 AAGAAGAAAAAA
1 AAGAAGAAAAAA
75292830 AAGAAGAAAAAA
1 AAGAAGAAAAAA
75292842 AAGAAGAAAAAA
1 AAGAAGAAAAAA
*
75292854 AAGGAGAA
1 AAGAAGAA
75292862 GAGAAAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:75292836 original size:15 final size:15
Alignment explanation
Indices: 75292816--75292870 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
75292806 GAATAATAAG
75292816 AGAAGAAGAAAAAA-A
1 AGAAGAA-AAAAAAGA
75292831 AGAAGAAAAAAAAGA
1 AGAAGAAAAAAAAGA
*
75292846 AGAA-AAAAAAGGAGA
1 AGAAGAAAAAA-AAGA
75292861 AG-AGAAAAAA
1 AGAAGAAAAAA
75292871 CGGAGATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAAAAGA
Found at i:75295035 original size:39 final size:39
Alignment explanation
Indices: 75294989--75295206 Score: 301
Period size: 39 Copynumber: 5.6 Consensus size: 39
75294979 GCTCTGGTGA
* *
75294989 GCTTCAGTTAGCCTTTGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
75295028 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
75295067 GTTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
75295106 GCTTCAGTTAGCCTCCGGGCTTCCGCTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* ** *
75295145 GCTTCAGCTAAACTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* **
75295184 GCTTCAGCTAAACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
75295207 AGATCACGAA
Statistics
Matches: 165, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 165 1.00
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:75295149 original size:21 final size:21
Alignment explanation
Indices: 75295085--75295188 Score: 67
Period size: 21 Copynumber: 5.2 Consensus size: 21
75295075 CAGCCTTCGG
* *
75295085 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGCTTAGCACTTATGT
* ** *
75295106 GCTTCAG-TTAGC-C-TCCGG
1 GCTTCCGCTTAGCACTTATGT
75295124 GCTTCCGCTTAGCACTTATGT
1 GCTTCCGCTTAGCACTTATGT
* * * *
75295145 GCTTCAGC-TA-AACTT-CGG
1 GCTTCCGCTTAGCACTTATGT
*
75295163 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGCTTAGCACTTATGT
75295184 GCTTC
1 GCTTC
75295189 AGCTAAACTT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
18 15 0.25
19 12 0.20
20 12 0.20
21 21 0.35
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (21 bp):
GCTTCCGCTTAGCACTTATGT
Found at i:75295207 original size:18 final size:18
Alignment explanation
Indices: 75295145--75295208 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
75295135 GCACTTATGT
75295145 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
* * * * *
75295163 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-CTA-AACTT-CGG
75295184 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
75295202 GCTTCAG
1 GCTTCAG
75295209 ATCACGAATG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 6 0.18
21 7 0.21
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (18 bp):
GCTTCAGCTAAACTTCGG
Found at i:75296463 original size:49 final size:49
Alignment explanation
Indices: 75296391--75296486 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
75296381 GTTAGACTTT
* *
75296391 AATTTTCCCTTTCATAAATCTTTGGGTTTTTATGGAGGAAATCAATTTC
1 AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTC
75296440 AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
1 AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
75296487 GGGATACCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (49 bp):
AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTC
Found at i:75297959 original size:9 final size:9
Alignment explanation
Indices: 75297947--75297971 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
75297937 TATTATATTT
75297947 ATTATTATC
1 ATTATTATC
75297956 ATTATTATC
1 ATTATTATC
75297965 ATTATTA
1 ATTATTA
75297972 ACTATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATTATC
Found at i:75298033 original size:14 final size:13
Alignment explanation
Indices: 75298000--75298041 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
75297990 ATAAGATATA
75298000 AAAGAAATGAAAG-
1 AAAGAAA-GAAAGC
75298013 AAAGAAAGAAAGC
1 AAAGAAAGAAAGC
75298026 ACAAGAAAGAATAGC
1 A-AAGAAAGAA-AGC
75298041 A
1 A
75298042 GAAGCCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.19
13 8 0.31
14 9 0.35
15 4 0.15
ACGTcount: A:0.67, C:0.07, G:0.21, T:0.05
Consensus pattern (13 bp):
AAAGAAAGAAAGC
Done.