Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 215 of 228
Found at i:62891024 original size:21 final size:23
Alignment explanation
Indices: 62890999--62891047 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
62890989 TTCAACTATT
62890999 TAATTAT-AACAAATT-AATTAA
1 TAATTATAAACAAATTAAATTAA
*
62891020 TAATT-TAAATAAATTAAATTAA
1 TAATTATAAACAAATTAAATTAA
*
62891042 TCATTA
1 TAATTA
62891048 AGTTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTATAAACAAATTAAATTAA
Found at i:62893297 original size:15 final size:15
Alignment explanation
Indices: 62893277--62893354 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
62893267 TTTATGGAAA
*
62893277 ATCAAAGATATGGGT
1 ATCAAAGATATGGAT
* * *
62893292 ATCAAATA-ATAGAA
1 ATCAAAGATATGGAT
62893306 AGTCAAAGATATGGAT
1 A-TCAAAGATATGGAT
* *
62893322 ATCAAATAT-TGGAA
1 ATCAAAGATATGGAT
*
62893336 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGAT
62893352 ATC
1 ATC
62893355 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGAT
Found at i:62893314 original size:30 final size:30
Alignment explanation
Indices: 62893273--62893354 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
62893263 CATATTTATG
*
62893273 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* * *
62893303 GAAAGTCAAAGATATGGATATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
62893333 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
62893355 GAGATATTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:62897959 original size:15 final size:15
Alignment explanation
Indices: 62897939--62898016 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
62897929 TTTATGGAAA
*
62897939 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
62897954 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
62897968 ATTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
62897984 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
62897998 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
62898014 ATC
1 ATC
62898017 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:62897974 original size:30 final size:30
Alignment explanation
Indices: 62897935--62898016 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
62897925 CATATTTATG
62897935 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAATCAAAGATATGGGTATCAAATAATA
* * * *
62897965 GAAATTCAAATATATGGGTATCAAATATTG
1 GAAAATCAAAGATATGGGTATCAAATAATA
*
62897995 GAAAGTCAAAGATATGGGTATC
1 GAAAATCAAAGATATGGGTATC
62898017 GAGATATTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (30 bp):
GAAAATCAAAGATATGGGTATCAAATAATA
Found at i:62898804 original size:23 final size:23
Alignment explanation
Indices: 62898762--62898822 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
62898752 ATAATATACG
* *
62898762 ATAAATTT-AAACAATATTAATA
1 ATAAATTTAAAATAATATTAAGA
* *
62898784 ATGAATTTAAAATAATATTAAGC
1 ATAAATTTAAAATAATATTAAGA
62898807 ATAAATATTAAAATAA
1 ATAAAT-TTAAAATAA
62898823 GGTTAGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 7 0.22
23 16 0.50
24 9 0.28
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (23 bp):
ATAAATTTAAAATAATATTAAGA
Found at i:62899110 original size:20 final size:21
Alignment explanation
Indices: 62899085--62899128 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
62899075 TTAAAGTATC
62899085 AATTGAA-GAAAATAAAAAAA
1 AATTGAATGAAAATAAAAAAA
* *
62899105 AATTGAATTAAAATAATAAAA
1 AATTGAATGAAAATAAAAAAA
62899126 AAT
1 AAT
62899129 ACGGAGGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AATTGAATGAAAATAAAAAAA
Found at i:62906237 original size:22 final size:23
Alignment explanation
Indices: 62906212--62906257 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
62906202 ATAATTGCTT
62906212 TTATAGATATATACATATA-TTA
1 TTATAGATATATACATATACTTA
* * *
62906234 TTATATATTTCTACATATACTTA
1 TTATAGATATATACATATACTTA
62906257 T
1 T
62906258 ACACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATAGATATATACATATACTTA
Found at i:62906265 original size:22 final size:22
Alignment explanation
Indices: 62906223--62906265 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
62906213 TATAGATATA
* *
62906223 TACATATATTATTATATATTTC
1 TACATATATTATTACACATTTC
62906245 TACATATACTTA-TACACATTT
1 TACATATA-TTATTACACATTT
62906266 TTTTTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (22 bp):
TACATATATTATTACACATTTC
Found at i:62906715 original size:5 final size:5
Alignment explanation
Indices: 62906701--62906729 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
62906691 ACATAAGTGC
62906701 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
62906730 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:62908381 original size:16 final size:16
Alignment explanation
Indices: 62908357--62908387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62908347 TCCTTATTTT
62908357 TAAAAAGTATAATTAA
1 TAAAAAGTATAATTAA
*
62908373 TAAATAGTATAATTA
1 TAAAAAGTATAATTA
62908388 TTTTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TAAAAAGTATAATTAA
Found at i:62920408 original size:3 final size:3
Alignment explanation
Indices: 62920360--62920393 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
62920350 TGCTCTCTCA
*
62920360 TTC TTC TTC TTC TTC TTT TTC TTC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
62920394 TAAAGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:62920586 original size:31 final size:31
Alignment explanation
Indices: 62920545--62920603 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
62920535 GACCAGGGGT
* **
62920545 GTGCTGCCTCTCTGGTAGGCACGACCAGCCA
1 GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
*
62920576 GTGCCGCCTCTCCAGTAGGCATGACCAG
1 GTGCCGCCTCTCCAGTAGGCACGACCAG
62920604 TGCTGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (31 bp):
GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
Found at i:62927053 original size:21 final size:19
Alignment explanation
Indices: 62927012--62927098 Score: 59
Period size: 21 Copynumber: 4.4 Consensus size: 19
62927002 TCAATATATG
*
62927012 TTATATTACATTTGTAATTTT
1 TTATATTACATTT-T-TTTTT
**
62927033 AAATATTACATTTTTTTTT
1 TTATATTACATTTTTTTTT
62927052 TTAT-TTACGATTTTTTTTAT
1 TTATATTAC-ATTTTTTTT-T
* * *
62927072 ATTATTTTATATGTTTTTTT
1 -TTATATTACATTTTTTTTT
*
62927092 CTATATT
1 TTATATT
62927099 TATGCTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.08
19 20 0.38
20 3 0.06
21 23 0.43
22 3 0.06
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (19 bp):
TTATATTACATTTTTTTTT
Found at i:62933188 original size:21 final size:23
Alignment explanation
Indices: 62933164--62933208 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
62933154 TTTAATTACT
62933164 TAACAT-ACTT-TTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
*
62933185 TAACATCTCTTGTTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
62933208 T
1 T
62933209 CCTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TAACATCACTTGTTTTTATTGAC
Found at i:62935956 original size:23 final size:23
Alignment explanation
Indices: 62935926--62936433 Score: 411
Period size: 23 Copynumber: 22.3 Consensus size: 23
62935916 GAAATTTGAT
62935926 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
62935949 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
*
62935971 AGTTGCTGCAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
62935995 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
62936017 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
62936040 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
62936063 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
62936086 AGTGCTGCAAAATGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
62936108 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * * *
62936132 ATTGCTG-TAATTGAGGTGTATA
1 AGTGCTGCAAATTGAAGTGTTTA
* * **
62936154 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
62936177 AGTGCTGCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
62936200 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
62936223 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* * *
62936246 AATGCTGTAAATTGAAGTCTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
62936269 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
62936291 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
62936315 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
62936337 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
62936360 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
62936382 AGTTGCTGCAAATTG-AGATGTTTA
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
62936406 A-CGCTGTAAATTGAAGTGTTAA
1 AGTGCTGCAAATTGAAGTGTTTA
62936428 AGTGCT
1 AGTGCT
62936434 ACTTTCCATT
Statistics
Matches: 393, Mismatches: 62, Indels: 60
0.76 0.12 0.12
Matches are distributed among these distances:
22 77 0.20
23 312 0.79
24 4 0.01
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:62936174 original size:137 final size:137
Alignment explanation
Indices: 62935928--62936404 Score: 640
Period size: 137 Copynumber: 3.5 Consensus size: 137
62935918 AATTTGATAG
* *
62935928 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCAAATTGAGATGTT
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGTT
*
62935993 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGT
66 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGT
62936058 GTTTAAA
131 GTTTAAA
* *
62936065 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAAATGAAGTGTTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGTT
*
62936130 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
66 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGT
62936195 GTTTAAA
131 GTTTAAA
** *
62936202 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA-A-GTC
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGT-
* * * * * ** * ** * * *
62936265 TTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTA-TCGCTG-TAATTG
65 TTT-ATTGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT-GCTGCAAATTG
* *
62936328 AGGTGTATAAA
127 AAGTGTTTAAA
* *
62936339 TGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGT
1 TGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGT
62936403 TT
65 TT
62936405 AACGCTGTAA
Statistics
Matches: 302, Mismatches: 31, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
135 2 0.01
136 4 0.01
137 258 0.85
138 36 0.12
139 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (137 bp):
TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAGATGTT
TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGT
GTTTAAA
Found at i:62936260 original size:183 final size:183
Alignment explanation
Indices: 62936003--62936433 Score: 681
Period size: 183 Copynumber: 2.4 Consensus size: 183
62935993 TTATCGCTGT
* * * *
62936003 AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
1 AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* *
62936067 CTGTAAATTGAAGTGTTTAAGTGCTGCAAAATGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
65 CTGTAAATTGAAGTCTTTAAGTGCTGCAAAATGAAGTATTTAGTTGCTGGAAATTGAGATGTTTT
*
62936132 ATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
130 ATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
*
62936186 AATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
*
62936251 TGTAAATTGAAGTCTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTA
66 TGTAAATTGAAGTCTTTAAGTGCTGCAAAATGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTA
62936316 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
131 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
** * * *
62936369 AATTGAAGTGTTTAGTTGCTGCAAATTG-AGATGTTTAA-CGCTGTAAATTGAAGTG-TTAAAGT
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAA-T
62936431 GCT
64 GCT
62936434 ACTTTCCATT
Statistics
Matches: 230, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
181 5 0.02
182 22 0.10
183 203 0.88
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (183 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
TGTAAATTGAAGTCTTTAAGTGCTGCAAAATGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTA
TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
Found at i:62937410 original size:43 final size:43
Alignment explanation
Indices: 62937358--62937672 Score: 405
Period size: 43 Copynumber: 7.3 Consensus size: 43
62937348 GTTTTTGGAG
* * * * *
62937358 AAAGTGCCGCTAAAGGTCTTGTTTTTTAGCGGCATTTTTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* * *
62937401 AAAGCGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
**
62937444 AAAGCGCTACTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* * * * *
62937487 AAAGCGCCACTAAAGATCCTGGTCTTTAGCGGTGTTTGGGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* * * *
62937530 AAAGCGCCGTTAAAGGTCCTAGTCTTTAGCGGTGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
*
62937573 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGGGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* * *
62937616 AAAGCACCGCTAAAGGTCCTGGTCTTGAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* *
62937659 GAAGTGCCGCTAAA
1 AAAGCGCCGCTAAA
62937673 AGCCTGTTTT
Statistics
Matches: 237, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 237 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
Found at i:62937972 original size:31 final size:31
Alignment explanation
Indices: 62937934--62938004 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
62937924 CTTCTTGACC
62937934 TGAACTTGACAATTAGATATATTTTAATCTT
1 TGAACTTGACAATTAGATATATTTTAATCTT
62937965 TGAACTTGACAATTAGATATATTTTAATCTT
1 TGAACTTGACAATTAGATATATTTTAATCTT
62937996 TGAACTTGA
1 TGAACTTGA
62938005 AATATATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
TGAACTTGACAATTAGATATATTTTAATCTT
Found at i:62941873 original size:22 final size:20
Alignment explanation
Indices: 62941830--62941868 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62941820 TAATTTAAAA
62941830 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
62941850 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
62941869 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:62943984 original size:52 final size:47
Alignment explanation
Indices: 62943928--62944052 Score: 119
Period size: 52 Copynumber: 2.5 Consensus size: 47
62943918 ATATATATAT
62943928 TTATAAAAATTAAAAAATATGTATATAGATATATATGCATAAAAAT-TATAAA
1 TTATAAAAATTAAAAAATATGTATA-AGA-ATATAT--AT--AAATGTATAAA
* * *
62943980 TTAT-AAAATATAAAAAATATATATAAGAATGTATATATATGTATAAA
1 TTATAAAAAT-TAAAAAATATGTATAAGAATATATATAAATGTATAAA
62944027 TTATAAATAAGTTATAAAAATATGTA
1 TTATAAA-AA-TTA-AAAAATATGTA
62944053 CGGGTATAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
46 3 0.05
47 10 0.16
48 4 0.06
49 4 0.06
50 16 0.25
51 8 0.13
52 18 0.29
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (47 bp):
TTATAAAAATTAAAAAATATGTATAAGAATATATATAAATGTATAAA
Found at i:62944131 original size:26 final size:24
Alignment explanation
Indices: 62944069--62944123 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
62944059 TAGGTATATA
* * *
62944069 TATATTATAAAAATGTATGTATGTG
1 TATA-TATAACAATATATGCATGTG
62944094 TATATATAACAATATATGCATGTG
1 TATATATAACAATATATGCATGTG
62944118 TATATA
1 TATATA
62944124 GATAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (24 bp):
TATATATAACAATATATGCATGTG
Found at i:62948098 original size:62 final size:63
Alignment explanation
Indices: 62948023--62948151 Score: 188
Period size: 62 Copynumber: 2.1 Consensus size: 63
62948013 ATTTTTGTTG
* * * *
62948023 TCTAAAGTATACGCAACAATTTTACAAATTAAGAAAAGCTGTTTTTAAAATTTGTGGCCAACA
1 TCTAAAGTATACGCAACAATATTACAAATTAAAAAAAGCTATTTTTAAAATTCGTGGCCAACA
* * *
62948086 TCTAAA-TATACGCAACGATATTACAAATTAAAAAAAGTTATTTTTAAAATTCGTGGTCAACA
1 TCTAAAGTATACGCAACAATATTACAAATTAAAAAAAGCTATTTTTAAAATTCGTGGCCAACA
62948148 TCTA
1 TCTA
62948152 CCCTTTAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
62 53 0.90
63 6 0.10
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.33
Consensus pattern (63 bp):
TCTAAAGTATACGCAACAATATTACAAATTAAAAAAAGCTATTTTTAAAATTCGTGGCCAACA
Found at i:62948635 original size:20 final size:21
Alignment explanation
Indices: 62948593--62948635 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
62948583 TGACAAAATC
62948593 GTTGTTACTAAATATTGTATT
1 GTTGTTACTAAATATTGTATT
* *
62948614 GTTGTTGCTAAA-ATTTTATT
1 GTTGTTACTAAATATTGTATT
62948634 GT
1 GT
62948636 AACAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (21 bp):
GTTGTTACTAAATATTGTATT
Found at i:62970491 original size:88 final size:89
Alignment explanation
Indices: 62970383--62971093 Score: 836
Period size: 88 Copynumber: 8.0 Consensus size: 89
62970373 CAGGACCTAC
* * * * * *
62970383 TATCTTTGATCTCCTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCA
* *
62970448 CCAGTATGGGGAGACAAGATCTGT
66 CCAGTATGGGAAGACGAGATCTGT
* *
62970472 T-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCA
* * *
62970536 CCAGTAT-AGAAGACAATATCTGT
66 CCAGTATGGGAAGACGAGATCTGT
* * * * * *
62970559 TGA-CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACC
1 T-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCC
* *
62970623 ACCAGTATGGGGAGACAAGATCTGT
65 ACCAGTATGGGAAGACGAGATCTGT
* * * *
62970648 TGA-CTTTGATCTACTTCACGCTA-TACATGAAGATAATATCT-TTCT-TTCGATCTGCTTCG-C
1 T-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCC
* *
62970708 ACCA-TATGGAAAGGCGAGATCTG-
65 ACCAGTATGGGAAGACGAGATCTGT
* * * * *
62970731 TATATTCGATCTACTTTACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TTTCTTCGATCTGCTTCGCC
62970796 ACCAGTATGGGAATG-CGAGATCTGT
65 ACCAGTATGGGAA-GACGAGATCTGT
* *
62970821 TATCTTTGATCTACTTCACGCCAGTATATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-CTTCGATCTGCTTCG
*
62970886 CCACTAGTATGGGAATG-CGAGATCTG-
63 CCACCAGTATGGGAA-GACGAGATCTGT
* * * *
62970912 TATATTCGATCTACTTCACGCCAGTACATGAAGATAAGATCTGTATTCCTTCGATCTGCTTCGCC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TTTCTTCGATCTGCTTCGCC
* *
62970977 ACCAGCATGGGAAGGCGAGATCTGT
65 ACCAGTATGGGAAGACGAGATCTGT
*
62971002 TATCTTTGATTTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-CTTCGATCTGCTTCG
*
62971067 CCACCAGTATGGGAAGGCGAGATCTGT
63 CCACCAGTATGGGAAGACGAGATCTGT
62971094 ATATTCGATC
Statistics
Matches: 540, Mismatches: 61, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.00
83 18 0.03
84 31 0.06
85 6 0.01
86 11 0.02
87 30 0.06
88 149 0.28
89 89 0.16
90 80 0.15
91 43 0.08
92 82 0.15
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (89 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCA
CCAGTATGGGAAGACGAGATCTGT
Found at i:62970953 original size:181 final size:178
Alignment explanation
Indices: 62970390--62971109 Score: 908
Period size: 181 Copynumber: 4.1 Consensus size: 178
62970380 TACTATCTTT
* * * *
62970390 GATCTCCTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCCTTCGATCTACTCCACCACCAGTAT
*
62970455 GGGGAGACAAGATCTGTT-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-
66 GGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
* * * * * *
62970518 CTTTGATCTGCTTCGCCACCAGTAT-AGAAGACAATATCTGT-TGACTTT
131 CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTAT-A-TTC
* *
62970566 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT-CTTTGATCTACTCCACCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTCCTTCGATCTACTCCACCACCAGTA
* * * *
62970630 TGGGGAGACAAGATCTGTTGA-CTTTGATCTACTTCACGCTA-TACATGAAGA-TA-ATAT-CTT
65 TGGGAAGACAAGATCTGTT-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* *
62970690 TCTTTCGATCTGCTTCG-CACCA-TATGGAAAGGCGAGATCTGTATATTC
129 TCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
* * * * *
62970738 GATCTACTTTACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TTCCTTCGATCTACTCCACCACCAGTA
* *
62970803 TGGGAATG-CGAGATCTGTTATCTTTGATCTACTTCACGCCAGTATATGAAGACAAGATCTGCTT
65 TGGGAA-GACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--
* * *
62970867 TTTCCTTCGATCTACTTCGCCACTAGTATGGGAATGCGAGATCTGTATATTC
127 TTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
* * * * *
62970919 GATCTACTTCACGCCAGTACATGAAGATAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGCA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TTCCTTCGATCTACTCCACCACCAGTA
* * *
62970984 TGGGAAGGCGAGATCTGTTATCTTTGATTTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
65 TGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--T
62971049 TTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
128 TTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
*
62971100 GATCCACTTC
1 GATCTACTTC
62971110 GCTACCAATA
Statistics
Matches: 481, Mismatches: 44, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
171 1 0.00
172 41 0.09
173 75 0.16
174 27 0.06
175 2 0.00
176 87 0.18
177 23 0.05
179 17 0.04
180 5 0.01
181 203 0.42
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (178 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCCTTCGATCTACTCCACCACCAGTAT
GGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
Found at i:62972502 original size:45 final size:45
Alignment explanation
Indices: 62972430--62972519 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
62972420 CCTCTCCTTT
* * * *
62972430 TTTTTTTTTTACTCAATGCTCCTTTTGTAGGGTTTCACCCTGGTC
1 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
*
62972475 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
62972520 CCACCTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (45 bp):
TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
Found at i:62972529 original size:46 final size:45
Alignment explanation
Indices: 62972434--62972531 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 45
62972424 TCCTTTTTTT
* * * * ****
62972434 TTTTTTACTCAATGCTCCTTTTGTAGGGTTTCACCCTGGTCTTTT
1 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCACC
*
62972479 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGT-CCACC
62972525 TTTTTTA
1 TTTTTTA
62972532 AGCAGAGTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 35 0.81
46 8 0.19
ACGTcount: A:0.13, C:0.26, G:0.14, T:0.47
Consensus pattern (45 bp):
TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCACC
Found at i:62975247 original size:19 final size:20
Alignment explanation
Indices: 62975223--62975262 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62975213 AGAAGTGTCT
* *
62975223 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATATAATGA
62975242 AATGCAAATGCATATAATGA
1 AATGCAAATGCATATAATGA
62975262 A
1 A
62975263 TGCCTAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGCAAATGCATATAATGA
Found at i:62977240 original size:34 final size:34
Alignment explanation
Indices: 62977179--62977268 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
62977169 AATGCATATG
* *
62977179 TATATATTTACAAAATAGAAAAAAAATGTATAAGTC
1 TATATATTTACAACAT--AAAAAAAATGTATAAGTA
** *
62977215 TATATATTTACAACATAAAGGAAATGTATATGTA
1 TATATATTTACAACATAAAAAAAATGTATAAGTA
*
62977249 TATAT-TTATAAAACATAAAA
1 TATATATT-TACAACATAAAA
62977269 TATATAAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.04
34 29 0.63
36 15 0.33
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (34 bp):
TATATATTTACAACATAAAAAAAATGTATAAGTA
Found at i:62977394 original size:3 final size:3
Alignment explanation
Indices: 62977382--62977422 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
62977372 CATGCATGTT
62977382 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62977423 GAATAGTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:62981364 original size:16 final size:16
Alignment explanation
Indices: 62981327--62981382 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
62981317 TTAAATTCTA
* *
62981327 AAAGATAAATACAATT
1 AAAGATAAAAATAATT
62981343 -AA-ATAAAAATAATT
1 AAAGATAAAAATAATT
** *
62981357 AAAGATAAGGATAAAT
1 AAAGATAAAAATAATT
62981373 AAAGATAAAA
1 AAAGATAAAA
62981383 GCTAAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 10 0.32
15 4 0.13
16 17 0.55
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAGATAAAAATAATT
Found at i:62988984 original size:6 final size:6
Alignment explanation
Indices: 62988973--62989000 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62988963 AAGTGACTTT
62988973 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
62989001 TATGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:62990826 original size:3 final size:3
Alignment explanation
Indices: 62990818--62990863 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
62990808 AAGAAAATTT
62990818 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA
62990864 CCTTCATCGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62995770 original size:3 final size:3
Alignment explanation
Indices: 62995762--62995786 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62995752 TAGTGACAAA
62995762 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
62995787 GAGTTGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:63001767 original size:37 final size:37
Alignment explanation
Indices: 63001696--63001776 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
63001686 AGTACAGTGC
* * *
63001696 ATATTATTTTTTTTAAATTATAAATAATTATATATTT
1 ATATTATTTTATTTAAATTAGAAATAATTATATATAT
*
63001733 ATATTATTTTAATTTAATATTGGAAA-AATT-TATATAT
1 ATATTATTTT-ATTTAA-ATTAGAAATAATTATATATAT
63001770 AT-TTATT
1 ATATTATT
63001777 AATATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
36 5 0.13
37 18 0.47
38 9 0.24
39 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (37 bp):
ATATTATTTTATTTAAATTAGAAATAATTATATATAT
Found at i:63007582 original size:16 final size:18
Alignment explanation
Indices: 63007556--63007589 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
63007546 CCAAATTATT
63007556 CTTTCAAAATAT-TTTAA
1 CTTTCAAAATATATTTAA
63007573 CTTT-AAAATATATTTAA
1 CTTTCAAAATATATTTAA
63007590 TTATTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTTCAAAATATATTTAA
Found at i:63011231 original size:32 final size:32
Alignment explanation
Indices: 63011195--63011258 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
63011185 TTCAAGCAAC
* * *
63011195 ATTAATTGAATAGTTACGTTTATTTAAAAGAT
1 ATTAATTAAATAATTACATTTATTTAAAAGAT
* *
63011227 ATTAATTAAATAATTATATTTATTTTAAAGAT
1 ATTAATTAAATAATTACATTTATTTAAAAGAT
63011259 GTGGTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (32 bp):
ATTAATTAAATAATTACATTTATTTAAAAGAT
Found at i:63012530 original size:29 final size:29
Alignment explanation
Indices: 63012488--63012546 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
63012478 TCATGGAAGA
* * *
63012488 GGTGAAGAACTTGTTCGTTGAGAGTTCGT
1 GGTGAAAAACTTGTTCATTGAGAATTCGT
*
63012517 GGTGAAAAACTTGTTTATTGAGAATTCGT
1 GGTGAAAAACTTGTTCATTGAGAATTCGT
63012546 G
1 G
63012547 TCAAGGTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (29 bp):
GGTGAAAAACTTGTTCATTGAGAATTCGT
Found at i:63018168 original size:3 final size:3
Alignment explanation
Indices: 63018160--63018184 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63018150 TAGTGACAAA
63018160 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
63018185 GAGTTGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:63022492 original size:25 final size:26
Alignment explanation
Indices: 63022464--63022522 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 26
63022454 TTTTTTAATA
*
63022464 TTTTATATATAGTTATCTTA-AG-AT
1 TTTTATATATAGTTATATTATAGTAT
* *
63022488 TTTTTTA-ATATTTATATTATAGTAT
1 TTTTATATATAGTTATATTATAGTAT
63022513 TTTTATATAT
1 TTTTATATAT
63022523 TACTATAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 10 0.36
24 8 0.29
25 8 0.29
26 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTATATATAGTTATATTATAGTAT
Found at i:63029792 original size:5 final size:5
Alignment explanation
Indices: 63029782--63029838 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
63029772 CATGCATTAA
63029782 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
63029832 ATATT AT
1 ATATT AT
63029839 CTTAAACAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:63039530 original size:20 final size:20
Alignment explanation
Indices: 63039481--63039531 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
63039471 TGTTTATAAA
63039481 TATTTTAAA-TTTTAAAAAT
1 TATTTTAAATTTTTAAAAAT
* * * *
63039500 GATTATGAATTTTTAAAATT
1 TATTTTAAATTTTTAAAAAT
63039520 TATTTTAAATTT
1 TATTTTAAATTT
63039532 CTTTTTTGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTTTAAATTTTTAAAAAT
Found at i:63040313 original size:15 final size:17
Alignment explanation
Indices: 63040283--63040321 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
63040273 TAATAAAAAT
63040283 ATAATTTAATTATTTTA
1 ATAATTTAATTATTTTA
*
63040300 ATAATTT-A-TATTTTT
1 ATAATTTAATTATTTTA
63040315 ATAATTT
1 ATAATTT
63040322 TTAAAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAATTTAATTATTTTA
Found at i:63040345 original size:30 final size:30
Alignment explanation
Indices: 63040309--63040367 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
63040299 AATAATTTAT
* *
63040309 ATTTTTATAATTTTTAAAAAGATTAAATTA
1 ATTTTTATAATTTTCAAAAAGATAAAATTA
* *
63040339 ATTTTTATCATTTTCAATAAGATAAAATT
1 ATTTTTATAATTTTCAAAAAGATAAAATT
63040368 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTTTATAATTTTCAAAAAGATAAAATTA
Found at i:63044459 original size:114 final size:112
Alignment explanation
Indices: 63044266--63044472 Score: 270
Period size: 114 Copynumber: 1.8 Consensus size: 112
63044256 TTATTTTTAC
* *
63044266 TTTTTTTTCTTAAAAATATATTAAACCTATTGACACAAAGAGAGATGACAGCCAAGCACCGCACC
1 TTTTTTTTCTTAAAAATATATTAAACCTATTGACACAAAGAGAGATGACAGCCAAACACCCCACC
* *** *
63044331 CCGGTTATTTAGCCTAACATACTCCTAATTTATTATATTTATATATG
66 CCGATTACCCAGCCTAACACACTCCTAATTTATTATATTTATATATG
* * * * * *
63044378 TTTTTTTCCTCTTAAGAATATATTGAACCTTTTGACGCGAATAGAGATGACAGCCAAACACCCCA
1 TTTTTTT--TCTTAAAAATATATTAAACCTATTGACACAAAGAGAGATGACAGCCAAACACCCCA
*
63044443 CCCCGATTACCCAGCCTAACACATTCCTAA
64 CCCCGATTACCCAGCCTAACACACTCCTAA
63044473 AAATATTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
112 7 0.09
114 72 0.91
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (112 bp):
TTTTTTTTCTTAAAAATATATTAAACCTATTGACACAAAGAGAGATGACAGCCAAACACCCCACC
CCGATTACCCAGCCTAACACACTCCTAATTTATTATATTTATATATG
Found at i:63048722 original size:6 final size:6
Alignment explanation
Indices: 63048711--63048779 Score: 77
Period size: 6 Copynumber: 11.0 Consensus size: 6
63048701 ATCTTCTTCA
* *
63048711 TATTTT TATTTT TATTTTT TATATT TATGTT TATTTT TATTTT TAGTTGTT
1 TATTTT TATTTT TA-TTTT TATTTT TATTTT TATTTT TATTTT TA-TT-TT
63048762 T-TGTTT TATTTT TATTTT
1 TAT-TTT TATTTT TATTTT
63048780 CTTGCACTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
6 42 0.76
7 10 0.18
8 3 0.05
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:63048747 original size:25 final size:27
Alignment explanation
Indices: 63048714--63048779 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
63048704 TTCTTCATAT
63048714 TTTTATTTTTATTTTTTA-TAT-TTATG
1 TTTTATTTTTATTTTTTAGT-TGTTATG
*
63048740 -TTTATTTTTA-TTTTTAGTTGTTTTG
1 TTTTATTTTTATTTTTTAGTTGTTATG
63048765 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
63048780 CTTGCACTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 7 0.20
25 15 0.43
26 10 0.29
27 3 0.09
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTATTTTTATTTTTTAGTTGTTATG
Found at i:63048749 original size:31 final size:32
Alignment explanation
Indices: 63048711--63048779 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
63048701 ATCTTCTTCA
63048711 TATTTTTATTTTTA-TT-TTTTATATTTATGTT
1 TATTTTTATTTTTAGTTGTTTTAT-TTTATGTT
* *
63048742 TATTTTTATTTTTAGTTGTTTTGTTTTATTTT
1 TATTTTTATTTTTAGTTGTTTTATTTTATGTT
63048774 TATTTT
1 TATTTT
63048780 CTTGCACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 14 0.41
32 15 0.44
33 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (32 bp):
TATTTTTATTTTTAGTTGTTTTATTTTATGTT
Found at i:63049819 original size:8 final size:8
Alignment explanation
Indices: 63049806--63049830 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
63049796 TTCTTATTCG
63049806 AAAAAAAT
1 AAAAAAAT
63049814 AAAAAAAT
1 AAAAAAAT
63049822 AAAAAAAT
1 AAAAAAAT
63049830 A
1 A
63049831 TATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:63049840 original size:11 final size:11
Alignment explanation
Indices: 63049812--63049844 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
63049802 TTCGAAAAAA
63049812 ATAAAAAA-AT
1 ATAAAAAATAT
63049822 A-AAAAAATAT
1 ATAAAAAATAT
63049832 ATAAAAAATAT
1 ATAAAAAATAT
63049843 AT
1 AT
63049845 TGATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 4 0.19
11 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:63051786 original size:20 final size:20
Alignment explanation
Indices: 63051761--63051798 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63051751 TTGTAATTAA
63051761 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
63051781 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
63051799 ATTGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:63051845 original size:20 final size:18
Alignment explanation
Indices: 63051809--63051845 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
63051799 ATTGTAATTT
63051809 ATATTAATTATAAATAAG
1 ATATTAATTATAAATAAG
63051827 ATATTATATTATGAAATAA
1 ATATTA-ATTAT-AAATAA
63051846 ATCAAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATTAATTATAAATAAG
Found at i:63053728 original size:30 final size:29
Alignment explanation
Indices: 63053598--63053721 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 29
63053588 CAAAAATAAA
* * * *
63053598 AAATTAAATTTTGACCCCTAAATTTTCCTA
1 AAATTACATTTTGACCCTTAAATTTT-TTG
* *
63053628 AAATTATATTTTAAGCCC-TAAACTTTTTT-
1 AAATTACATTTTGA-CCCTTAAA-TTTTTTG
**
63053657 AAATTACATTTTGACCCATT-AACCTTTTG
1 AAATTACATTTTGACCC-TTAAATTTTTTG
63053686 AAATTACATTTTGACCCTTAAATTTTCTTG
1 AAATTACATTTTGACCCTTAAATTTT-TTG
63053716 AAATTA
1 AAATTA
63053722 TGTTTTGGCC
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
28 9 0.12
29 35 0.45
30 27 0.35
31 7 0.09
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATTACATTTTGACCCTTAAATTTTTTG
Found at i:63054093 original size:4 final size:4
Alignment explanation
Indices: 63054072--63054145 Score: 67
Period size: 4 Copynumber: 20.5 Consensus size: 4
63054062 GATCCGAGAG
*
63054072 AAGA AGAGA AA-A AA-A AAGA AAGA AAGA AAG- AAGG AAG- AAG- AAG-
1 AAGA A-AGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
63054115 AAGA AAGA AAG- AAG- AAGA AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
63054146 AAGAAAAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
3 27 0.42
4 33 0.52
5 4 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:63054142 original size:7 final size:7
Alignment explanation
Indices: 63054083--63054153 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
63054073 AGAAGAGAAA
63054083 AAAAAAG
1 AAAAAAG
63054090 AAAGAAAG
1 AAA-AAAG
*
63054098 AAAGAAGG
1 AAA-AAAG
63054106 AAGAAGAAG
1 AA-AA-AAG
*
63054115 AAGAAAG
1 AAAAAAG
*
63054122 AAAGAAG
1 AAAAAAG
*
63054129 AAGAAAG
1 AAAAAAG
63054136 AAAAAAG
1 AAAAAAG
63054143 -AAAAAG
1 AAAAAAG
63054149 AAAAA
1 AAAAA
63054154 TAATAAAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 6 0.12
7 26 0.50
8 15 0.29
9 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:63054144 original size:34 final size:36
Alignment explanation
Indices: 63054070--63054153 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 36
63054060 TAGATCCGAG
**
63054070 AGAAGAAGAGAAAAAAAAAGAAAGAAAGAAAGAAGGA
1 AGAAGAAGA-AAAAAAAAAGAAAGAAAGAAAGAAAAA
* *
63054107 AGAAGAAGAAGAAAGAAAG-AAG-AAGAAAGAAAAA
1 AGAAGAAGAAAAAAAAAAGAAAGAAAGAAAGAAAAA
*
63054141 AGAAAAAGAAAAA
1 AGAAGAAGAAAAA
63054154 TAATAAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.51
35 3 0.07
36 8 0.20
37 9 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (36 bp):
AGAAGAAGAAAAAAAAAAGAAAGAAAGAAAGAAAAA
Found at i:63054284 original size:21 final size:21
Alignment explanation
Indices: 63054259--63054308 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
63054249 AAGCAGCCCA
63054259 AAAAAAAGAAAAAAATAG-AGC
1 AAAAAAAGAAAAAAA-AGCAGC
* *
63054280 AAAAAAAGAGAAAGAAGCAGC
1 AAAAAAAGAAAAAAAAGCAGC
63054301 AAAAAAAG
1 AAAAAAAG
63054309 GGGCAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAAGCAGC
Found at i:63054471 original size:10 final size:10
Alignment explanation
Indices: 63054456--63054489 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
63054446 AAAGAGAAAG
63054456 GAAAAAAGAA
1 GAAAAAAGAA
63054466 GAAAAAAAGAA
1 G-AAAAAAGAA
63054477 GAAAAAAGAA
1 GAAAAAAGAA
63054487 GAA
1 GAA
63054490 GGAAAAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAAAAAAGAA
Found at i:63054473 original size:11 final size:11
Alignment explanation
Indices: 63054443--63054489 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
63054433 CCAGCAAAAA
63054443 AAAAAAGAGAAAG
1 AAAAAA-AG-AAG
*
63054456 GAAAAAAGAAG
1 AAAAAAAGAAG
63054467 AAAAAAAGAAG
1 AAAAAAAGAAG
63054478 -AAAAAAGAAG
1 AAAAAAAGAAG
63054488 AA
1 AA
63054490 GGAAAAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.32
11 14 0.45
12 2 0.06
13 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:63055023 original size:19 final size:19
Alignment explanation
Indices: 63054976--63055030 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
63054966 AAAAAATCGG
63054976 GTTTCAAAAATTTTCGTCT
1 GTTTCAAAAATTTTCGTCT
63054995 -TTTCAAAAAAATTTTC-TCTT
1 GTTTC--AAAAATTTTCGTC-T
63055015 GTTTC-AAAATTTTCGT
1 GTTTCAAAAATTTTCGT
63055031 GTTTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 13 0.42
19 3 0.10
20 11 0.35
21 4 0.13
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (19 bp):
GTTTCAAAAATTTTCGTCT
Found at i:63055023 original size:20 final size:20
Alignment explanation
Indices: 63054976--63055023 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
63054966 AAAAAATCGG
63054976 GTTTC-AAAAATTTTCGTCT
1 GTTTCAAAAAATTTTCGTCT
63054995 -TTTCAAAAAAATTTTC-TCTT
1 GTTTC-AAAAAATTTTCGTC-T
63055015 GTTTCAAAA
1 GTTTCAAAA
63055024 TTTTCGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.16
19 2 0.08
20 15 0.60
21 4 0.16
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (20 bp):
GTTTCAAAAAATTTTCGTCT
Found at i:63055073 original size:36 final size:36
Alignment explanation
Indices: 63055011--63055096 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
63055001 AAAAATTTTC
*
63055011 TCTTGTTTCAAAATTTTCGTGTTTTTTTAAAAAAAT
1 TCTTGTTTCAAAATTTTCGTGATTTTTTAAAAAAAT
63055047 TCTTGTTTCTAAAATTCTT-GT-ATTTTTTAAAAAAAT
1 TCTTGTTTC-AAAATT-TTCGTGATTTTTTAAAAAAAT
*
63055083 TCGTGTTTTCAAAA
1 TCTTG-TTTCAAAA
63055097 AAAGAAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
36 31 0.69
37 12 0.27
38 2 0.04
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (36 bp):
TCTTGTTTCAAAATTTTCGTGATTTTTTAAAAAAAT
Found at i:63055073 original size:37 final size:35
Alignment explanation
Indices: 63054963--63055096 Score: 112
Period size: 36 Copynumber: 3.7 Consensus size: 35
63054953 ACGGTACTTC
** *
63054963 TTAAAAAAA-TCGGGTTTCAAAAATTTTCGT-CTTT
1 TTAAAAAAATTCTTGTTTC-AAAATTTTCGTATTTT
* *
63054997 TCAAAAAAATTTTCTCTTGTTTCAAAATTTTCGTGTTTTT
1 TTAAAAAAA---T-TCTTGTTTCAAAATTTTCGT-ATTTT
63055037 TTAAAAAAATTCTTGTTTCTAAAATTCTT-GTATTTT
1 TTAAAAAAATTCTTGTTTC-AAAATT-TTCGTATTTT
*
63055073 TTAAAAAAATTCGTGTTTTCAAAA
1 TTAAAAAAATTCTTG-TTTCAAAA
63055097 AAAGAAAAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
34 8 0.10
36 31 0.37
37 13 0.16
38 13 0.16
39 7 0.08
40 11 0.13
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (35 bp):
TTAAAAAAATTCTTGTTTCAAAATTTTCGTATTTT
Found at i:63055091 original size:18 final size:18
Alignment explanation
Indices: 63055034--63055099 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
63055024 TTTTCGTGTT
*
63055034 TTTTTAAAAAAATTCTTG
1 TTTTTAAAAAAATTCGTG
* *** *
63055052 TTTCTAAAATTCTT-GTAT
1 TTTTTAAAAAAATTCGT-G
63055070 TTTTTAAAAAAATTCGTG
1 TTTTTAAAAAAATTCGTG
*
63055088 TTTTCAAAAAAA
1 TTTTTAAAAAAA
63055100 GAAAAAGTCG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
17 1 0.03
18 31 0.91
19 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTTTAAAAAAATTCGTG
Found at i:63057252 original size:16 final size:15
Alignment explanation
Indices: 63057219--63057248 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63057209 AAAATAAAAG
63057219 AATATATGAATTTTT
1 AATATATGAATTTTT
63057234 AATATATGAATTTTT
1 AATATATGAATTTTT
63057249 TAATCCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AATATATGAATTTTT
Found at i:63057790 original size:25 final size:25
Alignment explanation
Indices: 63057762--63057812 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
63057752 GCGCTCTCTA
*
63057762 ATTATTAGCACGTTAGTGCTATCTG
1 ATTATTAGAACGTTAGTGCTATCTG
* *
63057787 ATTATTAGAACGTTATTGCTCTCTG
1 ATTATTAGAACGTTAGTGCTATCTG
63057812 A
1 A
63057813 ATAGCACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTATTAGAACGTTAGTGCTATCTG
Found at i:63062739 original size:11 final size:11
Alignment explanation
Indices: 63062723--63062765 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
63062713 ATATAATATT
*
63062723 ATATGTACGTA
1 ATATGTATGTA
*
63062734 ATATGTATATA
1 ATATGTATGTA
63062745 TTATATGTATGTA
1 --ATATGTATGTA
63062758 ATATGTAT
1 ATATGTAT
63062766 TATATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 17 0.63
13 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (11 bp):
ATATGTATGTA
Found at i:63062750 original size:24 final size:25
Alignment explanation
Indices: 63062718--63062770 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
63062708 ACTGCATATA
63062718 ATATTATATGTACGTAATATGTA-T
1 ATATTATATGTACGTAATATGTATT
*
63062742 ATATTATATGTATGTAATATGTATT
1 ATATTATATGTACGTAATATGTATT
63062767 ATAT
1 ATAT
63062771 ATTAAATCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (25 bp):
ATATTATATGTACGTAATATGTATT
Found at i:63068923 original size:6 final size:6
Alignment explanation
Indices: 63068912--63068941 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
63068902 AAAATATAGG
*
63068912 TTCTAT TTCTAT TTCTAT TTCTAT TACTAT
1 TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT
63068942 GTTGTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (6 bp):
TTCTAT
Found at i:63079400 original size:67 final size:67
Alignment explanation
Indices: 63079292--63079426 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
63079282 TTTCCAATTC
**
63079292 AGAGAGCACACTCTTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
63079357 TA
66 TA
*
63079359 AGAGAGCACACTCCCGCGAACCTCATTTCTTATAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
63079424 TA
66 TA
63079426 A
1 A
63079427 TATAAACTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
TA
Found at i:63079638 original size:57 final size:57
Alignment explanation
Indices: 63079545--63079662 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
63079535 ACCCTAATTC
*
63079545 AGATTACCCGTCCGGGCTAAATTCATTTTCCACATATGCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAAATTCATTTTCCACATATGCTTCGGGAGGGCTATATCA
* * * * * *
63079602 AGATCACCCGTTCGGGCTAGA-TCTTTTTCACGCATATTCTTTGGGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAAATTCATTTTC-CACATATGCTTCGGGAGGGCTATATCA
63079659 AGAT
1 AGAT
63079663 AGAATCACCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 7 0.13
57 46 0.87
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (57 bp):
AGATCACCCGTCCGGGCTAAATTCATTTTCCACATATGCTTCGGGAGGGCTATATCA
Found at i:63083353 original size:21 final size:23
Alignment explanation
Indices: 63083328--63083376 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
63083318 TTCAACTATT
63083328 TAATTAT-AACAAATT-AATTAA
1 TAATTATAAACAAATTAAATTAA
*
63083349 TAATT-TAAATAAATTAAATTAA
1 TAATTATAAACAAATTAAATTAA
*
63083371 TCATTA
1 TAATTA
63083377 AGTTATCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTATAAACAAATTAAATTAA
Found at i:63088615 original size:99 final size:99
Alignment explanation
Indices: 63088466--63088759 Score: 290
Period size: 99 Copynumber: 3.0 Consensus size: 99
63088456 ATGCTCCTAA
* * * *
63088466 AAGATGGAGTTTATACGACTCAACCGGTTTACTCGGAGTGTAGGGCTAACTCAATTGAAA-CAAA
1 AAGATGGAGTTTATACAACTCAACCGGTTTACTTGGAATGTAGGGTTAACTCAATT-AAAGCAAA
* *
63088530 TCAAT-TTAACAGACATATTGGAAGTAGCCTTCCAG
65 T-AATCTCAACAGACATATTGGAAGTAGCCTCCCAG
* * * * * * *
63088565 AAGATAGAGTATATACAACTCAACCGGTTTACTTGGAACGCAGGGTTAACTTAGTTAAAGCCAAT
1 AAGATGGAGTTTATACAACTCAACCGGTTTACTTGGAATGTAGGGTTAACTCAATTAAAGCAAAT
** *
63088630 AATCTCAATGGTCATATTGGAAGTAGCCTCCCAG
66 AATCTCAACAGACATATTGGAAGTAGCCTCCCAG
* * * * * *
63088664 AAGATGGAGTTTATACAGCTAAACCAGTTGACTTGGAATGTAGGGTTAACTCACTTCAAA-AAAA
1 AAGATGGAGTTTATACAACTCAACCGGTTTACTTGGAATGTAGGGTTAACTCAATT-AAAGCAAA
** * *
63088728 TACA-CTCAATGGTCATGTTGGAAGTAGCCTCC
65 TA-ATCTCAACAGACATATTGGAAGTAGCCTCC
63088760 AAGATAAGCT
Statistics
Matches: 162, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
98 6 0.04
99 152 0.94
100 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (99 bp):
AAGATGGAGTTTATACAACTCAACCGGTTTACTTGGAATGTAGGGTTAACTCAATTAAAGCAAAT
AATCTCAACAGACATATTGGAAGTAGCCTCCCAG
Found at i:63090341 original size:54 final size:54
Alignment explanation
Indices: 63090268--63090373 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
63090258 TCCTATCAGA
* * *
63090268 TGCCCCGTCATCAGCAAGCAAGCAATCAATTCTCGATACATGGTTTATCAAAGT
1 TGCCCCATCACCAACAAGCAAGCAATCAATTCTCGATACATGGTTTATCAAAGT
* * * *
63090322 TGCCCCATCACCAACAAGCAAGCAGTCAATTCTCGATGCCTTGTTTATCAAA
1 TGCCCCATCACCAACAAGCAAGCAATCAATTCTCGATACATGGTTTATCAAA
63090374 TCCAGACCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (54 bp):
TGCCCCATCACCAACAAGCAAGCAATCAATTCTCGATACATGGTTTATCAAAGT
Found at i:63090495 original size:6 final size:6
Alignment explanation
Indices: 63090484--63090526 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
63090474 TATCCTCTCC
* *
63090484 CTGGGA CTGGGA CTGGGA CTGGGA CTGGGA CTAGCA CTGGGA C
1 CTGGGA CTGGGA CTGGGA CTGGGA CTGGGA CTGGGA CTGGGA C
63090527 CTCCATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.16
Consensus pattern (6 bp):
CTGGGA
Found at i:63094829 original size:4 final size:4
Alignment explanation
Indices: 63094820--63094845 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63094810 TCATATGTAT
63094820 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
63094846 GGCCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:63097643 original size:20 final size:20
Alignment explanation
Indices: 63097606--63097643 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63097596 GGCCTTTAGA
*
63097606 TGGGTTAGGTTTGTTGGGTC
1 TGGGTTAGGTTTGGTGGGTC
63097626 TGGG-TAGGTTTAGGTGGG
1 TGGGTTAGGTTT-GGTGGG
63097644 CATTGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.08, C:0.03, G:0.50, T:0.39
Consensus pattern (20 bp):
TGGGTTAGGTTTGGTGGGTC
Found at i:63097751 original size:17 final size:17
Alignment explanation
Indices: 63097721--63097757 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
63097711 ATAATGTCAA
*
63097721 GAGTCAATACGAAATTT
1 GAGTCAATAAGAAATTT
*
63097738 GAGTCCATAAGAAATTT
1 GAGTCAATAAGAAATTT
63097755 GAG
1 GAG
63097758 AAATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGTCAATAAGAAATTT
Found at i:63101370 original size:20 final size:20
Alignment explanation
Indices: 63101345--63101382 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63101335 AAATTTTGAG
63101345 ATTTTTGAAATATATTTTTA
1 ATTTTTGAAATATATTTTTA
*
63101365 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATATATTTT
63101383 GAACTGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTGAAATATATTTTTA
Found at i:63104924 original size:4 final size:4
Alignment explanation
Indices: 63104915--63104940 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63104905 TCATGTGTAT
63104915 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
63104941 GGCCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:63105298 original size:17 final size:17
Alignment explanation
Indices: 63105268--63105304 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
63105258 ATAATGTCAA
*
63105268 GAGTCAATACGAAATTT
1 GAGTCAATAAGAAATTT
*
63105285 GAGTCCATAAGAAATTT
1 GAGTCAATAAGAAATTT
63105302 GAG
1 GAG
63105305 AAATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGTCAATAAGAAATTT
Found at i:63106376 original size:20 final size:20
Alignment explanation
Indices: 63106351--63106388 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63106341 AAATTTTGAG
63106351 ATTTTTGAAATATATTTTTA
1 ATTTTTGAAATATATTTTTA
*
63106371 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATATATTTT
63106389 GAACTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTGAAATATATTTTTA
Found at i:63106864 original size:16 final size:17
Alignment explanation
Indices: 63106843--63106880 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
63106833 TTTAATCTTT
63106843 TAAAATTATAAAGAT-A
1 TAAAATTATAAAGATGA
*
63106859 TAAAA-TATTAAGATGA
1 TAAAATTATAAAGATGA
63106875 TAAAAT
1 TAAAAT
63106881 AATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
TAAAATTATAAAGATGA
Found at i:63107688 original size:16 final size:16
Alignment explanation
Indices: 63107643--63107685 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
63107633 GTAAAGTTTA
63107643 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
63107659 AATATTTTAATTAAGAT
1 AATATTTT-ATTAAAAT
63107676 AAT-TTTTATT
1 AATATTTTATT
63107686 TAATAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:63113632 original size:103 final size:104
Alignment explanation
Indices: 63113452--63113639 Score: 288
Period size: 103 Copynumber: 1.8 Consensus size: 104
63113442 TTTAAGAATG
* * *
63113452 TGTTGGGCTAAGTAACCAGGATGGGGTGTTTGGTTATCATCTTTCTTTGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
63113517 ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
66 ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
* * * * *
63113556 TGTTGGGCTGAGTAACCGGGGT-GGGTGCTTGGTTGTCATCTCTCTTCGCGTGAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
63113620 ATATTCTTAAGAAAAGAAAA
66 ATATTATTAAGAAAAGAAAA
63113640 AAAAGAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 56 0.75
104 19 0.25
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (104 bp):
TGTTGGGCTAAGTAACCAGGATGGGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTATTAAGAAAAGAAAACATATATAAATTAGAAGTA
Found at i:63113647 original size:14 final size:14
Alignment explanation
Indices: 63113628--63113660 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
63113618 ATATATTCTT
63113628 AAGAAAAGAAAAAA-
1 AAGAAAA-AAAAAAG
63113642 AAGAAAAAAAAAAG
1 AAGAAAAAAAAAAG
63113656 AAGAA
1 AAGAA
63113661 GGAAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAAAG
Found at i:63113676 original size:27 final size:25
Alignment explanation
Indices: 63113628--63113678 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
63113618 ATATATTCTT
63113628 AAGAAAAGAAAAAAAAGAAAAAAAA
1 AAGAAAAGAAAAAAAAGAAAAAAAA
* *
63113653 AAGAAGAAGGAAAAACAAGTAAAAAA
1 AAGAA-AA-GAAAAAAAAGAAAAAAA
63113679 TAATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 15 0.68
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAGAAAAGAAAAAAAAGAAAAAAAA
Found at i:63118747 original size:18 final size:20
Alignment explanation
Indices: 63118724--63118766 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
63118714 GTTTTTTCAA
*
63118724 ATATT-ATTGATA-AATTTT
1 ATATTAATTAATATAATTTT
*
63118742 ATATTAATTAATATATTTTT
1 ATATTAATTAATATAATTTT
63118762 ATATT
1 ATATT
63118767 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTAATTAATATAATTTT
Found at i:63122021 original size:15 final size:16
Alignment explanation
Indices: 63122001--63122034 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
63121991 TCAGTTTTTT
63122001 TTCTTTCTT-TCTTTC
1 TTCTTTCTTATCTTTC
*
63122016 TTCTTTCTTATGTTTC
1 TTCTTTCTTATCTTTC
63122032 TTC
1 TTC
63122035 CGCCATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (16 bp):
TTCTTTCTTATCTTTC
Found at i:63141530 original size:31 final size:30
Alignment explanation
Indices: 63141475--63141550 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
63141465 ACGTGAAAGG
* **
63141475 CTTAATTGATTTATT-ATTATTTTAGGAGGT
1 CTTAATTGATTT-TTAAGTATTTTAGGAGAA
63141505 CTTAATTGACTTTTTAAGTATTTTAGGAGAA
1 CTTAATTGA-TTTTTAAGTATTTTAGGAGAA
63141536 CTTAATTGATTTTTA
1 CTTAATTGATTTTTA
63141551 GGGACTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
30 17 0.41
31 24 0.59
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.51
Consensus pattern (30 bp):
CTTAATTGATTTTTAAGTATTTTAGGAGAA
Found at i:63142181 original size:28 final size:27
Alignment explanation
Indices: 63142150--63142219 Score: 63
Period size: 29 Copynumber: 2.4 Consensus size: 27
63142140 ATCAATCAAA
63142150 TTTTATAACATTTA-GCAATATTT-ATAAT
1 TTTTATAA-ATTTATG--ATATTTAATAAT
*
63142178 TTTTTTAAAATTTTATGATATTTAATAAT
1 TTTTAT-AAA-TTTATGATATTTAATAAT
63142207 TTTCTATAAATTT
1 TTT-TATAAATTT
63142220 TATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
28 15 0.43
29 17 0.49
30 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTTATAAATTTATGATATTTAATAAT
Found at i:63142217 original size:29 final size:30
Alignment explanation
Indices: 63142166--63142240 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
63142156 AACATTTAGC
*
63142166 AATATTT-ATAATTTT-TTTAAAATTTTAT
1 AATATTTAATAATTTTCTATAAAATTTTAT
*
63142194 GATATTTAATAATTTTCTAT-AAATTTTAT
1 AATATTTAATAATTTTCTATAAAATTTTAT
63142223 AATAAATTTAAT-ATTTTC
1 AAT--ATTTAATAATTTTC
63142241 AATTTAGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.15
29 19 0.47
30 8 0.20
31 7 0.17
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (30 bp):
AATATTTAATAATTTTCTATAAAATTTTAT
Found at i:63142705 original size:30 final size:31
Alignment explanation
Indices: 63142664--63142721 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
63142654 AAACACCAAT
* * *
63142664 TTTTAAAAAAATTTTAAAAAAGTATTTTAAA
1 TTTTAAAAAAATATAAAAAAAATATTTTAAA
63142695 TTTT-AAAAAATATAAAAAAAATATTTT
1 TTTTAAAAAAATATAAAAAAAATATTTT
63142722 TTATTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TTTTAAAAAAATATAAAAAAAATATTTTAAA
Found at i:63145547 original size:23 final size:25
Alignment explanation
Indices: 63145521--63145566 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
63145511 ATATTCTTAA
*
63145521 AAAAATT-AT-TTTTTTATATATTT
1 AAAAATTAATATTCTTTATATATTT
*
63145544 AAAATTTAATATTCTTTATATAT
1 AAAAATTAATATTCTTTATATAT
63145567 ATATATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 2 0.11
25 11 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AAAAATTAATATTCTTTATATATTT
Found at i:63150043 original size:11 final size:11
Alignment explanation
Indices: 63150027--63150061 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
63150017 TATAAATTTC
63150027 AAAAATTTATA
1 AAAAATTTATA
*
63150038 AAAAATTTACA
1 AAAAATTTATA
*
63150049 AAAAATATATA
1 AAAAATTTATA
63150060 AA
1 AA
63150062 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTTATA
Found at i:63150057 original size:20 final size:20
Alignment explanation
Indices: 63150020--63150061 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
63150010 TGGCAGATAT
*
63150020 AAATTTCAAAAATTTATAAA
1 AAATTTCAAAAATATATAAA
63150040 AAATTTACAAAAAATATATAAA
1 AAATTT-C-AAAAATATATAAA
63150062 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTTCAAAAATATATAAA
Found at i:63152934 original size:14 final size:14
Alignment explanation
Indices: 63152915--63152944 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63152905 GAGATTTATG
*
63152915 AATCTATTTATAAA
1 AATCTATATATAAA
63152929 AATCTATATATAAA
1 AATCTATATATAAA
63152943 AA
1 AA
63152945 AATCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATCTATATATAAA
Found at i:63154112 original size:21 final size:21
Alignment explanation
Indices: 63154087--63154132 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
63154077 ATATAATTAT
63154087 TAAATA-TTAAATAAAAAAATA
1 TAAATACTTAAA-AAAAAAATA
**
63154108 TAAATACTTTTAAAAAAAATA
1 TAAATACTTAAAAAAAAAATA
63154129 TAAA
1 TAAA
63154133 AATAATATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATACTTAAAAAAAAAATA
Found at i:63160461 original size:19 final size:18
Alignment explanation
Indices: 63160437--63160482 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
63160427 AACGTCTCTT
*
63160437 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
63160456 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
63160475 TATGCATT
1 TTTGCATT
63160483 AGACACCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:63165053 original size:50 final size:49
Alignment explanation
Indices: 63164768--63165054 Score: 207
Period size: 50 Copynumber: 5.7 Consensus size: 49
63164758 GTAGTGGAAC
* * ** * *
63164768 AGATTGAAGCTACGACGGCGGATCCGATTTTCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCTGACATTGCAATTAAAA
* * * * * ** *
63164818 AGATTGAAGCCACAATGGCGGATCTTAATTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTGA-CATTGCAATTAAAA
* * * * * *
63164868 AGATTGAAGCCACAATGGCGGACCTGATTTCCCTGATATTGCCATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTGACATTGCAATTAAAA
* * * ** *
63164918 AGATTAAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAT
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTGA-CATTGCAATTAAAA
**** * *
63164968 AGATTGAAGCTGTGACAGCGGATC-TAGTTTTCCTGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA--CTTCCTGACATTGCAATTAAAA
*
63165018 AGATTGAAGCCACAACGGTGGATCTTACTTCCCTGAC
1 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTGAC
63165055 GGTGCGGTGG
Statistics
Matches: 175, Mismatches: 55, Indels: 14
0.72 0.23 0.06
Matches are distributed among these distances:
49 14 0.08
50 149 0.85
51 12 0.07
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTGACATTGCAATTAAAA
Found at i:63165072 original size:50 final size:50
Alignment explanation
Indices: 63164818--63165129 Score: 135
Period size: 50 Copynumber: 6.2 Consensus size: 50
63164808 GCAATTAAAA
* * * ** *
63164818 AGATTGAAGCCACAATGGCGGATCTTAATT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGA-CAGTGCGGTGGAAC
* * * * * * ** ** *
63164868 AGATTGAAGCCACAATGGCGGACCTGATTTCCCTGATATTGCCATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGTGCGGTGGAAC
* * ** ** *
63164918 AGATTAAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAATGGAAT
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGA-CAGTGCGGTGGAAC
**** * * * * * ** ** *
63164968 AGATTGAAGCTGTGACAGCGGATCT-AGTTTTCCTGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGA-CTTCCCCGACAGTGCGGTGGAAC
* * * *
63165018 AGATTGAAGCCACAACGGTGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGTGCGGTGGAAC
* ** ** * *
63165068 AGATTGAAGCTATGACGGCGGATCTGGTTTCCCCGACATTGCGGTTGAAC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGTGCGGTGGAAC
63165118 AGATTGAAGCCA
1 AGATTGAAGCCA
63165130 ATAATCCTAT
Statistics
Matches: 195, Mismatches: 62, Indels: 10
0.73 0.23 0.04
Matches are distributed among these distances:
49 5 0.03
50 181 0.93
51 9 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGTGCGGTGGAAC
Found at i:63165092 original size:100 final size:100
Alignment explanation
Indices: 63164760--63165129 Score: 447
Period size: 100 Copynumber: 3.7 Consensus size: 100
63164750 CCTAAGCAGT
* * *
63164760 AGTGGAACAGATTGAAGCTACGACGGCGGATCCGATTTTCCTGATATTGCAATTAAAAAGATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTGCAATTAAAAAGATTGA
* *
63164825 AGCCACAATGGCGGATCTTAATTCCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* * * * * * *
63164860 AGTGGAACAGATTGAAGCCACAATGGCGGACCTGATTTCCCTGATATTGCCATTAAAAAGATTAA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTGCAATTAAAAAGATTGA
63164925 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* * ** * *
63164960 AATGGAATAGATTGAAGCTGTGACAGCGGATCT-AGTTTTCCTGACATTGCAATTAAAAAGATTG
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGA-TTTCCCTGACATTGCAATTAAAAAGATTG
* * *
63165024 AAGCCACAACGGTGGATCTTACTTCCCT-GACGGTGC
65 AAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGC
* * * * ** * *
63165060 GGTGGAACAGATTGAAGCTATGACGGCGGATCTGGTTTCCCCGACATTGCGGTTGAACAGATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTGCAATTAAAAAGATTGA
63165125 AGCCA
66 AGCCA
63165130 ATAATCCTAT
Statistics
Matches: 229, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
99 2 0.01
100 227 0.99
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (100 bp):
AGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTGCAATTAAAAAGATTGA
AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
Found at i:63168390 original size:19 final size:19
Alignment explanation
Indices: 63168366--63168402 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
63168356 AAAAAGAAAA
63168366 AGATTAGTCTTTT-ATTTTT
1 AGATTAGT-TTTTCATTTTT
63168385 AGATTAGTTTTTCATTTT
1 AGATTAGTTTTTCATTTT
63168403 CTATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (19 bp):
AGATTAGTTTTTCATTTTT
Found at i:63168838 original size:7 final size:7
Alignment explanation
Indices: 63168826--63168860 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
63168816 AGACGCATCA
63168826 TAAGAAG
1 TAAGAAG
63168833 TAAGAAG
1 TAAGAAG
63168840 TAAGAAG
1 TAAGAAG
63168847 TAAGAAG
1 TAAGAAG
63168854 TAAGAAG
1 TAAGAAG
63168861 AAAAGAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (7 bp):
TAAGAAG
Found at i:63175980 original size:44 final size:44
Alignment explanation
Indices: 63175932--63176081 Score: 174
Period size: 44 Copynumber: 3.4 Consensus size: 44
63175922 GGACCTACTA
* **
63175932 TCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * *** * * *
63175976 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGCTA
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
*
63176021 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
63176065 TCTTTGATCTGCTTCAC
1 TCTTTGATCTACTTCAC
63176082 CACCGATATG
Statistics
Matches: 83, Mismatches: 22, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
44 51 0.61
45 32 0.39
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:63176026 original size:45 final size:45
Alignment explanation
Indices: 63175849--63176108 Score: 161
Period size: 44 Copynumber: 5.8 Consensus size: 45
63175839 GTAATCTTCA
* * * * ** *
63175849 ATCTACTTCGCCACCAGTATGAGAAGATAAGATATG-TATATTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTACCTTTG
* * * * * * * *
63175893 ATCCACTTCGCTACC-GATATAGGAAGACAGGACCTACTATCTTTG
1 ATCTACTTCACCACCAG-TATGGGAAGACAAGATCTGCTACCTTTG
* *** * ** **
63175938 ATCTACTTCA-CGCCAGTACATGAAGATAAGATCTATTTTCTTTG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTACCTTTG
* * *
63175982 ATCTACTCCACCACCAGTATGGGGAGACAAGATTTGCTACCTTTG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTACCTTTG
* *** **
63176027 ATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCTTTG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTACCTTTG
*
63176071 ATCTGCTTCACCACC-GATATGGGAAGACAAGATCTGCT
1 ATCTACTTCACCACCAG-TATGGGAAGACAAGATCTGCT
63176109 GCTTTTCAAC
Statistics
Matches: 162, Mismatches: 48, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
43 1 0.01
44 93 0.57
45 68 0.42
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTACCTTTG
Found at i:63176103 original size:89 final size:89
Alignment explanation
Indices: 63175905--63176108 Score: 284
Period size: 89 Copynumber: 2.3 Consensus size: 89
63175895 CCACTTCGCT
* * * * * *
63175905 ACCGATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGAT
1 ACCGATATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
*
63175970 CTATTTTCTTTGATCTACTCCACC
66 CTACTTTCTTTGATCTACTCCACC
* *
63175994 ACC-AGTATGGGGAGACAAGATTTGCTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGA
1 ACCGA-TATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGA
* * *
63176058 TCTGCTTTCTTTGATCTGCTTCACC
65 TCTACTTTCTTTGATCTACTCCACC
63176083 ACCGATATGGGAAGACAAGATCTGCT
1 ACCGATATGGGAAGACAAGATCTGCT
63176109 GCTTTTCAAC
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 97 0.98
90 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (89 bp):
ACCGATATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
CTACTTTCTTTGATCTACTCCACC
Found at i:63186353 original size:16 final size:16
Alignment explanation
Indices: 63186328--63186358 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63186318 TTTAGGATGA
*
63186328 GATGTTATGCAATCAT
1 GATGTCATGCAATCAT
63186344 GATGTCATGCAATCA
1 GATGTCATGCAATCA
63186359 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
GATGTCATGCAATCAT
Found at i:63188721 original size:10 final size:9
Alignment explanation
Indices: 63188706--63188748 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
63188696 TTGTTATCTT
63188706 AAATGAAATA
1 AAATGAAA-A
63188716 AAATGAAAA
1 AAATGAAAA
*
63188725 TAAAGGAAAA
1 -AAATGAAAA
*
63188735 AAATAAAAA
1 AAATGAAAA
63188744 AAATG
1 AAATG
63188749 CAAACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (9 bp):
AAATGAAAA
Found at i:63190824 original size:34 final size:34
Alignment explanation
Indices: 63190781--63190849 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
63190771 TTTAGGAAAC
63190781 TATGTTTCTTATATTTGCTCCACATGTAACCTAA
1 TATGTTTCTTATATTTGCTCCACATGTAACCTAA
63190815 TATGTTTCTTATATTTGCTCCACATGTAACCTAA
1 TATGTTTCTTATATTTGCTCCACATGTAACCTAA
63190849 T
1 T
63190850 GGTTCATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TATGTTTCTTATATTTGCTCCACATGTAACCTAA
Found at i:63193344 original size:9 final size:9
Alignment explanation
Indices: 63193311--63193349 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
63193301 AGTAAATTTT
63193311 ATTTTTAAA
1 ATTTTTAAA
63193320 A-TTTTAAA
1 ATTTTTAAA
*
63193328 ATTGTTAAA
1 ATTTTTAAA
63193337 ATTTTTAATA
1 ATTTTTAA-A
63193347 ATT
1 ATT
63193350 AAAAAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 14 0.54
10 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:63193429 original size:27 final size:28
Alignment explanation
Indices: 63193390--63193446 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
63193380 ATCTTTTCTA
* *
63193390 TTTTAGTAATTTTTAATTTTAAATAAAT
1 TTTTAGTAATTTTTAATTCTAAAAAAAT
* *
63193418 TTTTA-TATTTTTTCATTCTAAAAAAAT
1 TTTTAGTAATTTTTAATTCTAAAAAAAT
63193445 TT
1 TT
63193447 AGGGTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTAGTAATTTTTAATTCTAAAAAAAT
Found at i:63193947 original size:24 final size:24
Alignment explanation
Indices: 63193907--63193956 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
63193897 GTGGCGCTAT
63193907 TTTCTTTTAAGATATATATAT-ATA
1 TTTCTTTTAAGATATAT-TATCATA
63193931 TTTCATTTTAAGA-ATATTATCATA
1 TTTC-TTTTAAGATATATTATCATA
63193955 TT
1 TT
63193957 AACGGATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 13 0.54
25 8 0.33
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTCTTTTAAGATATATTATCATA
Found at i:63194187 original size:21 final size:22
Alignment explanation
Indices: 63194163--63194210 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
63194153 TAATAAAATA
63194163 TTTAAATA-TTT-TAATTGATAT
1 TTTAAATATTTTGTAATTGA-AT
*
63194184 TTTATATATTTTGTAATTGAAT
1 TTTAAATATTTTGTAATTGAAT
63194206 TTTAA
1 TTTAA
63194211 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTAAATATTTTGTAATTGAAT
Found at i:63210818 original size:18 final size:18
Alignment explanation
Indices: 63210804--63210838 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63210794 CCAAAAGGAG
63210804 CTGCGAGTGTCAAAGCAA
1 CTGCGAGTGTCAAAGCAA
* *
63210822 CTGTGAGTGTCGAAGCA
1 CTGCGAGTGTCAAAGCA
63210839 CCTACAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (18 bp):
CTGCGAGTGTCAAAGCAA
Found at i:63210828 original size:201 final size:198
Alignment explanation
Indices: 63210482--63210996 Score: 712
Period size: 201 Copynumber: 2.6 Consensus size: 198
63210472 GAGTGTTGAG
63210482 GCACCTACGGTTAATGAAGTTGATGATGGCT-GCTCAAGCATTACCAGTGGTAAGTTGAGGAGAA
1 GCACCTACGGTTAATGAAGTTGAT-A-GG-TGGCTCAAGCATTA-CAGTGGTAAGTTGAGGAGAA
* * *
63210546 GGACATGCTATGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATCTGTGAGT
62 GGACATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGT
* ** * * * *
63210611 GTCGAAGCGCCTGTGAGTGTTGAAGCACCTACAGTTAATGAAGTTGGTAACAGTGGTTCGATGGT
127 GTCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGT
63210676 TAATGAA
192 TAATGAA
* *
63210683 GCACCTACAGTTAATGAAGTTGATAACGGTGGCTCAAGCATTACTAGTGGTAAGTTGAGGAGGAG
1 GCACCTACGGTTAATGAAGTTGAT-A-GGTGGCTCAAGCATTAC-AGTGGTAAGTTGAGGAGAAG
*
63210748 GACATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGTCCAAAAGGAGCTGCGAGTG
63 GACATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGTG
*
63210813 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAGTGAAGTTGGCAACAGTGGTTCAACGGTT
128 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
63210878 AATGAA
193 AATGAA
* * * * * * *
63210884 GCACCTACGGTTAACGAAGTTGCT-GATGGCTC-GGCTGTTAGCAGTGGGAAATTGAGGAGAAGG
1 GCACCTACGGTTAATGAAGTTGATAGGTGGCTCAAGC-ATTA-CAGTGGTAAGTTGAGGAGAAGG
* * *
63210947 ACATGCTACGAGTGCGGACAAAAGGGTCATATCTCTTCTGCTTGCCCAAA
64 ACATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAA
63210997 TAAGAAATCT
Statistics
Matches: 281, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
197 2 0.01
198 74 0.26
199 1 0.00
200 2 0.01
201 202 0.72
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (198 bp):
GCACCTACGGTTAATGAAGTTGATAGGTGGCTCAAGCATTACAGTGGTAAGTTGAGGAGAAGGAC
ATGCTACGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGAGCTGCGAGTGTCA
AAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTTAAT
GAA
Found at i:63211888 original size:21 final size:21
Alignment explanation
Indices: 63211864--63211918 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
63211854 TAATTTTAGT
63211864 TTTTTAGTGGAAAA-CTTGGAA
1 TTTTTAGTGGAAAAGCTT-GAA
*
63211885 -TTTTAGAGGAAAAGCTTGAA
1 TTTTTAGTGGAAAAGCTTGAA
*
63211905 TTTTTATTGGAAAA
1 TTTTTAGTGGAAAA
63211919 ATTATTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (21 bp):
TTTTTAGTGGAAAAGCTTGAA
Found at i:63216881 original size:15 final size:15
Alignment explanation
Indices: 63216861--63216890 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63216851 TTCCGAAGAA
*
63216861 GGAAAGAGGCTAAAC
1 GGAAAGAAGCTAAAC
63216876 GGAAAGAAGCTAAAC
1 GGAAAGAAGCTAAAC
63216891 ATTTCAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (15 bp):
GGAAAGAAGCTAAAC
Done.