Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 17 of 117
Found at i:5047171 original size:21 final size:21
Alignment explanation
Indices: 5047139--5047187 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
5047129 GGTAGAAATG
* *
5047139 AAATTAATTATTGTAATAGTA
1 AAATTAATTATTGTAACAATA
5047160 AAATTGAA-TATTGTAACAATA
1 AAATT-AATTATTGTAACAATA
5047181 AAATTAA
1 AAATTAA
5047188 AATCATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.84
22 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
AAATTAATTATTGTAACAATA
Found at i:5047263 original size:15 final size:14
Alignment explanation
Indices: 5047234--5047275 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5047224 GACGAAATGT
*
5047234 AATGAAAAT-AAAA
1 AATGAAATTAAAAA
5047247 AATGACAATTAAAAA
1 AATGA-AATTAAAAA
*
5047262 AATTAAATTAAAAA
1 AATGAAATTAAAAA
5047276 TTATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 8 0.32
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (14 bp):
AATGAAATTAAAAA
Found at i:5047454 original size:21 final size:22
Alignment explanation
Indices: 5047430--5047511 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 22
5047420 TTTTTTAAAA
5047430 AAATTAATAA-TATATTTACAT
1 AAATTAATAATTATATTTACAT
* *
5047451 AAATTGATAA-TA-ATTTAGA-
1 AAATTAATAATTATATTTACAT
* *
5047470 AGA-TAATAATTATTTTTTACATT
1 AAATTAATAATTA-TATTTACA-T
*
5047493 AAAATAATAATTATATTTA
1 AAATTAATAATTATATTTA
5047512 TTGAAAATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 6 0.13
21 16 0.34
23 7 0.15
24 9 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
AAATTAATAATTATATTTACAT
Found at i:5047522 original size:27 final size:24
Alignment explanation
Indices: 5047472--5047524 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
5047462 AATTTAGAAG
* *
5047472 ATAATAATTATTTTTTACATTAAA
1 ATAATAATTATTTTTTAAAATAAA
5047496 ATAATAATTATATTTATTGAAAATAAA
1 ATAATAATTAT-TTT-TT-AAAATAAA
5047523 AT
1 AT
5047525 TTGAAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
25 3 0.12
26 2 0.08
27 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATAATAATTATTTTTTAAAATAAA
Found at i:5051166 original size:18 final size:18
Alignment explanation
Indices: 5051120--5051168 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
5051110 CAAAATTTTC
*
5051120 AAATATAAAAAGTAAAAT
1 AAATATAAAAATTAAAAT
*
5051138 AAATA-CAAAATTAAAA-
1 AAATATAAAAATTAAAAT
5051154 AAATATAATAAATTA
1 AAATATAA-AAATTA
5051169 TTATTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 11 0.42
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATATAAAAATTAAAAT
Found at i:5053123 original size:18 final size:18
Alignment explanation
Indices: 5053091--5053128 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5053081 TTTAATTGAA
*
5053091 TTAATTGATTAAATTTAT
1 TTAATTGATTAAATTAAT
5053109 TTAATTTGATT-AATTAAT
1 TTAA-TTGATTAAATTAAT
5053127 TT
1 TT
5053129 TATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TTAATTGATTAAATTAAT
Found at i:5053249 original size:16 final size:17
Alignment explanation
Indices: 5053209--5053242 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5053199 AATTTAATTG
5053209 ATAT-ATTATAAAATAT
1 ATATAATTATAAAATAT
5053225 ATATAATTA-AAAATAT
1 ATATAATTATAAAATAT
5053241 AT
1 AT
5053243 TAAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTATAAAATAT
Found at i:5053295 original size:15 final size:17
Alignment explanation
Indices: 5053275--5053310 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5053265 GTTATTAGAG
5053275 TTTTTA-ATTT-AATAT
1 TTTTTATATTTAAATAT
5053290 TTTTTATATTTAAATAT
1 TTTTTATATTTAAATAT
5053307 TTTT
1 TTTT
5053311 ATCAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATATTTAAATAT
Found at i:5055464 original size:16 final size:17
Alignment explanation
Indices: 5055443--5055475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5055433 ATTATATCTT
5055443 TTATAAA-AAAATATTA
1 TTATAAATAAAATATTA
*
5055459 TTATAAATAATATATTA
1 TTATAAATAAAATATTA
5055476 ACTAACCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATAAATAAAATATTA
Found at i:5056397 original size:13 final size:12
Alignment explanation
Indices: 5056368--5056406 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
5056358 TCTAATTATA
*
5056368 TTTAAAATTATT
1 TTTAAAATTAAT
5056380 TTTAAAATGTAAT
1 TTTAAAAT-TAAT
5056393 TTTAAAATTAAT
1 TTTAAAATTAAT
5056405 TT
1 TT
5056407 GAGATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TTTAAAATTAAT
Found at i:5056457 original size:20 final size:22
Alignment explanation
Indices: 5056429--5056473 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5056419 AAATAAAGCT
5056429 TATTATTTTT-TT-AGATTTTA
1 TATTATTTTTCTTAAGATTTTA
* *
5056449 TATTTTTTTTCTTAATATTTTA
1 TATTATTTTTCTTAAGATTTTA
5056471 TAT
1 TAT
5056474 AGTACGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTATTTTTCTTAAGATTTTA
Found at i:5061995 original size:24 final size:24
Alignment explanation
Indices: 5061968--5062015 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5061958 TAACCCTCCT
5061968 TTAATACTGATGTTTGTAACTTGC
1 TTAATACTGATGTTTGTAACTTGC
5061992 TTAATACTGATGTTTGTAACTTGC
1 TTAATACTGATGTTTGTAACTTGC
5062016 CTCGGTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
TTAATACTGATGTTTGTAACTTGC
Found at i:5066459 original size:22 final size:22
Alignment explanation
Indices: 5066427--5066481 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
5066417 GAAAAGTAAA
*
5066427 AAAAATT--AAAATATAA-TTT
1 AAAAATTAAAAAATAGAACTTT
*
5066446 TAAAATATAAAAAATAGAACTTT
1 AAAAAT-TAAAAAATAGAACTTT
5066469 AAAAATTAAAAAA
1 AAAAATTAAAAAA
5066482 AAACAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.17
20 1 0.03
22 15 0.52
23 8 0.28
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATTAAAAAATAGAACTTT
Found at i:5066773 original size:21 final size:22
Alignment explanation
Indices: 5066731--5066783 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
5066721 CCATAAATTA
*
5066731 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTGTAAAAT
5066753 ATAAAATATTA-TTTGTAAAAT
1 ATAAAATATTATTTTGTAAAAT
5066774 ATAAATATAT
1 ATAAA-ATAT
5066784 ATAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAAAATATTATTTTGTAAAAT
Found at i:5066781 original size:20 final size:21
Alignment explanation
Indices: 5066730--5066781 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
5066720 ACCATAAATT
*
5066730 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTGTAA
5066750 AATATAAAATATTA-TTTGTAA
1 AATAT-AAATATTATTTTGTAA
5066771 AATATAAATAT
1 AATATAAATAT
5066782 ATATAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATAAATATTATTTTGTAA
Found at i:5066792 original size:21 final size:20
Alignment explanation
Indices: 5066731--5066794 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
5066721 CCATAAATTA
*
5066731 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA--TATTAAAAT
*
5066753 ATAAAATATTATTTGTAAAAT
1 ATAAAATATTATAT-TAAAAT
5066774 AT-AAATATATATAATTAAAAT
1 ATAAAATAT-TAT-ATTAAAAT
5066795 TTTAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 9 0.24
21 17 0.45
22 12 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAAATATTATATTAAAAT
Found at i:5069378 original size:26 final size:26
Alignment explanation
Indices: 5069326--5069380 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
5069316 ATTAAAATTA
*
5069326 ATATATTTATTGAAAAATATATTAAT
1 ATATATTTATTAAAAAATATATTAAT
5069352 ATATATTTA-TAAAAAAT-TACTTAA-
1 ATATATTTATTAAAAAATATA-TTAAT
5069376 ATATA
1 ATATA
5069381 CAAGATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 11 0.41
26 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
ATATATTTATTAAAAAATATATTAAT
Found at i:5069544 original size:17 final size:18
Alignment explanation
Indices: 5069509--5069544 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5069499 AAATATCTAT
5069509 TAAATATAGATACAAAAA
1 TAAATATAGATACAAAAA
*
5069527 TAAATATA-ATATAAAAA
1 TAAATATAGATACAAAAA
5069544 T
1 T
5069545 CTGAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAATATAGATACAAAAA
Found at i:5076371 original size:13 final size:14
Alignment explanation
Indices: 5076347--5076386 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
5076337 TATTAATAAA
5076347 ATTATT-ATTTAAT
1 ATTATTAATTTAAT
5076360 ATT-TTAATTTAAT
1 ATTATTAATTTAAT
*
5076373 -TTATTAACTTAAT
1 ATTATTAATTTAAT
5076386 A
1 A
5076387 AAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTAATTTAAT
Found at i:5079787 original size:21 final size:21
Alignment explanation
Indices: 5079744--5079785 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5079734 AATCCATTAA
*
5079744 TAAAATATTAAAATTTAAATT
1 TAAAATATCAAAATTTAAATT
*
5079765 TAAATTATCAAAA-TTAAATT
1 TAAAATATCAAAATTTAAATT
5079785 T
1 T
5079786 TAGGTAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATATCAAAATTTAAATT
Found at i:5080399 original size:16 final size:15
Alignment explanation
Indices: 5080371--5080403 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
5080361 TCACAATTTA
5080371 ATATAAATAATATAT
1 ATATAAATAATATAT
5080386 ATATAAAGTAATATAT
1 ATATAAA-TAATATAT
5080402 AT
1 AT
5080404 TTTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATATAAATAATATAT
Found at i:5080651 original size:24 final size:24
Alignment explanation
Indices: 5080622--5080670 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
5080612 TTTTTCAAAA
5080622 AAGAGATTACTTGAATACAACATT
1 AAGAGATTACTTGAATACAACATT
*
5080646 AAGAGATTACTTGAATACAATATT
1 AAGAGATTACTTGAATACAACATT
5080670 A
1 A
5080671 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (24 bp):
AAGAGATTACTTGAATACAACATT
Found at i:5084345 original size:21 final size:21
Alignment explanation
Indices: 5084302--5084345 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
5084292 GGGCCTCCAC
* **
5084302 ATTTCTATGAAGATAATGGTT
1 ATTTCAATGAAGATAATCATT
*
5084323 ATTTCAATGATGATAATCATT
1 ATTTCAATGAAGATAATCATT
5084344 AT
1 AT
5084346 CAATATACCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (21 bp):
ATTTCAATGAAGATAATCATT
Found at i:5088535 original size:178 final size:178
Alignment explanation
Indices: 5088221--5088575 Score: 622
Period size: 178 Copynumber: 2.0 Consensus size: 178
5088211 AAGTAAGTGG
* *
5088221 AGCATGTATTGGGACTTAGTTTTCTTTATTTTATTGGTACTATTCTTAAGAAAATTTTTTACAGT
1 AGCATGCATTGGGACTTAGTTTTCTTTATTTTATTGGTACTATTCTTAAGAAAATTCTTTACAGT
* * *
5088286 ATTTAATTTAGTCGGTAAGGTTTTGGCAAGAAAAACAGTAAAAGGATGAGTGAGGTCAAGAACAG
66 ATTTAATTTAGTCGGTAAGGTTTTGGCAAGAAAAACAGAAAAAGGATGAGTAAGGTCAAGAACAA
*
5088351 TATAACACGTTT-TTTTGGTTCTGAAACTTTTGGTAGCACAATGAACAA
131 TATAACACGTTTATTTT-GTTCTGAAACTTTTGGTAGCACAAGGAACAA
* *
5088399 AGCATGCATTTGGACTTAGTTTTCTTTATTTTATTGGTACTATTCTTCAGAAAATTCTTTACAGT
1 AGCATGCATTGGGACTTAGTTTTCTTTATTTTATTGGTACTATTCTTAAGAAAATTCTTTACAGT
5088464 ATTTAATTTAGTCGGTAAGGTTTTGGCAAGAAAAACAGAAAAAGGATGAGTAAGGTCAAGAACAA
66 ATTTAATTTAGTCGGTAAGGTTTTGGCAAGAAAAACAGAAAAAGGATGAGTAAGGTCAAGAACAA
5088529 TATAACACGTTTATTTTGTTCTGAAACTTTTGGTAGCACAAGGAACA
131 TATAACACGTTTATTTTGTTCTGAAACTTTTGGTAGCACAAGGAACA
5088576 GAAACAGTAC
Statistics
Matches: 168, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
178 164 0.98
179 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (178 bp):
AGCATGCATTGGGACTTAGTTTTCTTTATTTTATTGGTACTATTCTTAAGAAAATTCTTTACAGT
ATTTAATTTAGTCGGTAAGGTTTTGGCAAGAAAAACAGAAAAAGGATGAGTAAGGTCAAGAACAA
TATAACACGTTTATTTTGTTCTGAAACTTTTGGTAGCACAAGGAACAA
Found at i:5097120 original size:15 final size:15
Alignment explanation
Indices: 5097097--5097126 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5097087 TAGCTATCCA
*
5097097 CTCATGATAGTAGAC
1 CTCAGGATAGTAGAC
5097112 CTCAGGATAGTAGAC
1 CTCAGGATAGTAGAC
5097127 ATCCCTGATA
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:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (15 bp):
CTCAGGATAGTAGAC
Found at i:5097799 original size:20 final size:21
Alignment explanation
Indices: 5097770--5097809 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5097760 TCGATCTTAT
*
5097770 GTTTTATACT-TTTGTCAATG
1 GTTTTATACTCTTTATCAATG
*
5097790 GTTTTCTACTCTTTATCAAT
1 GTTTTATACTCTTTATCAAT
5097810 TTTTTGTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (21 bp):
GTTTTATACTCTTTATCAATG
Found at i:5101789 original size:25 final size:25
Alignment explanation
Indices: 5101736--5101783 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5101726 AATATAAGGT
* *
5101736 TATTTTCATAATTATTGTAAGAAGA
1 TATTTTCATAATTATGGTAAAAAGA
*
5101761 TATTTTCGTAATTATGGTAAAAA
1 TATTTTCATAATTATGGTAAAAA
5101784 AGTATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (25 bp):
TATTTTCATAATTATGGTAAAAAGA
Found at i:5101983 original size:25 final size:26
Alignment explanation
Indices: 5101932--5101984 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
5101922 TTTTGGCCAG
*
5101932 TTATGTTAAGAGAGATATTTTAGTAA
1 TTATGTTAAGAGAGATATTATAGTAA
* *
5101958 TTATGTTAA-AGGGATATTATATTAA
1 TTATGTTAAGAGAGATATTATAGTAA
5101983 TT
1 TT
5101985 TTGACCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (26 bp):
TTATGTTAAGAGAGATATTATAGTAA
Found at i:5102949 original size:26 final size:27
Alignment explanation
Indices: 5102903--5102959 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
5102893 ACTCTTGGCC
*
5102903 AATTAAGTTAAAAAGAGATATTTTAGT
1 AATTAAGTTAAAAAGAGATATTATAGT
* * *
5102930 AATTATGTT-AAAAGGGATATTATATT
1 AATTAAGTTAAAAAGAGATATTATAGT
5102956 AATT
1 AATT
5102960 TTGACTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (27 bp):
AATTAAGTTAAAAAGAGATATTATAGT
Found at i:5103421 original size:968 final size:962
Alignment explanation
Indices: 5101004--5103920 Score: 4483
Period size: 971 Copynumber: 3.0 Consensus size: 962
5100994 CTTAGAATGC
*
5101004 ATTATAATAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
5101069 ACAAATTAATC-AAAAGGATAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAGCC
66 ACAAATTAATCAAAAAGG-TAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAGCC
* *
5101133 AATTATAATATAAGGGGTATTTTACGTAATTATGGTGAGACGGCATACATGTAATTACGATTAGA
130 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
* * *
5101198 AGGTATTATAAAAATTTTA-CAAATCATAATATGTGAGATATTTGTGTAATTGTGATAGAATGGG
195 AAGTATTATAAAAATTTTAGCAAATCATAATATGTGAGATATTTGTGTAATTATGATAGAAGGGG
* * *
5101262 CATTATAATAATTTTAGCGTATGATGGTAGAAAGACA-TTTCGTAATAATGGTTGTAAATGTATT
260 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
* **
5101326 ATAGTAATTTGGACAATTATGGTAAGATGAATATTTTATTAATTAAGTTAAAAAAGATATTATAG
325 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAGGGATATTATAG
* *
5101391 TAATTTTAATTTCTCATAGAAAG-GAGGGCATTATAGTCAATTTAAATGTATTTAATTTAATTGT
390 TAATTTTAATTTCTCATAGAAAGAG-GGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGT
* *
5101455 CAAGTAATTAAGAAGGTTTATGACTATTTCTAATAAGATTAATTTCATATTGTTTTATGGATTTT
454 CAAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTT
* *
5101520 AAAATTTAATGAGTAATTATGCAAAAATAAAAAAAAGTATTTTCGTAATTATGTTTAAAGAGTAT
519 AAAATTTAATGAGTAATTATGCAAAAAT--AAAAAAGTATTTTCGTAATTATGCTTAGAGAGTAT
5101585 TAATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTATGAGAGGCATTATATGAAGCA
582 TAATGG-CAATTATAATATGAGGAATA-TTTTATAATTATGGTATGAGAGGCATTATATGAAGCA
*
5101650 ATCAAAAGAGTTTTTTATTTTTTTTTTGTTTTTATAATTATGATTAGAAGATATTATAGTAATTT
645 ATCAAAAGAG-TTTTT-TTTTTTTTTTG------TAATTATGATTAGAGGATATTATAGTAATTT
*
5101715 TAGCTTATTATAATATAAGGTTATTTTCATAATTATTGTAAGAAGATATTTTCGTAATTATGGTA
702 TAGCTTATTATAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTA
5101780 AAAAAGTATTATAACAATTTCAACAAAATAT-A-ATGAGGTTTTTTTTTTTTTGTAATTATGTTA
767 AAAAAGTATTATAACAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTTGTAATTATGTTA
* *
5101843 GGAAGAGCATTATATTCATTTTGGTAAATGATGGTTGGATAATATTTTTGTAATTATGGTTATAG
832 GGAAGAGCATTATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAG
* *
5101908 AGGTATTATAATAATTTTGGCCAGTTATGTTAAGAGAGATATTTTAGTAATTATGTT-AAAGGGA
897 AGGTATTATAATAACTTTGGCCAGTTAAGTTAAGAGAGATATTTTAGTAATTATGTTAAAAGGGA
5101972 T
962 T
*
5101973 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAAAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
** *
5102038 ACAAATTAATTCAAATGGGTAATTTTTTGTAATTATGGTTAGAGTGTAATTATAGTAATTTAAGC
66 ACAAATTAA-TCAAAAAGGTAATTTTTTGTAATTATGGTTAGAGTGT-ATTATAGTAATTTGAGC
* * *
5102103 CAATAATAATAT-AGAGGTATTTTGCCGTAATTATGGTGAGAGGCCATACATGTAATTACGATTA
129 CAATTATAATATAAGGGGTATTTTG-CGTAATTATGGTGAGAGGGCATACATGTAATTACGATTA
* **
5102167 AAAAGGTATTATATAAAAATTTTAGCAAATCATTAATATGTGAGATA-TTGCATAATTATGATGA
193 GAAA-GTA-T-TATAAAAATTTTAGCAAATCA-TAATATGTGAGATATTTGTGTAATTATGAT-A
* *
5102231 GAAGGGGCATTATAATAA-TTTAGTATATGATGGTAG-AAGATATTTTTGTAATAATGGGTTGTA
253 GAAGGGGCATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAAT-GGTTGTA
* *
5102294 AAGGTAATTATACGTAATTTAGACAATTATGGTAAGATGAGGA-TTTATTAATTAAGTT-AAAGG
317 AAGGT-ATTATA-GTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAGG
* *
5102357 GATATTATTGGTAATTATTAATTTCTCATAGAAAGAGGGACATTATAGTCAATTTGAATGTATTT
380 GATATTA-TAGTAATT-TTAATTTCTCATAGAAAGAGGGGCATTATAGTCAATTTGAATGTATTT
* *
5102422 AATTCAATTATCAAGTAATTAAAAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATT
443 AATTCAATTGTCAAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATT
*
5102487 TCATGGATTTT-AAATTTAATGAGTAATT-TGC-AAAATAAAAAAGTATTTTCGT-ATTATTGCT
508 TTATGGATTTTAAAATTTAATGAGTAATTATGCAAAAATAAAAAAGTATTTTCGTAATTA-TGCT
* *
5102548 TAGAGAGTATTAATGGCAATTATAATATGAGGAA-AATTTATAATTATGGTATGAGAGGCAATAT
572 TAGAGAGTATTAATGGCAATTATAATATGAGGAATATTTTATAATTATGGTATGAGAGGCATTAT
5102612 ATGAAGGCAATCAAAAGAG-TTTTTTTTTTTTTTGTAATTATGATTAGAGGATATTATAGTAAAT
637 ATGAA-GCAATCAAAAGAGTTTTTTTTTTTTTTTGTAATTATGATTAGAGGATATTATAGT-AAT
*
5102676 TTTAGCTTATTAAGTAATATAAGGTTTTATTTCGT-ATTATTGTAATGAAGATATTTTCGTAATT
700 TTTAGCTTATT-A-TAATATAAGGTTAT-TTTCGTAATTATTGTAA-GAAGATATTTTCGTAATT
*
5102740 ATGGGT-AAAAAGTATTATAACAATTTCAAAAAAATATAATATGAGGTATTTTTTTTTTTTTTGT
761 AT-GGTAAAAAAGTATTATAACAATTTCAACAAAATATAATATGAGG---TTTTTTTTTTTTTGT
*
5102804 AATTATGGTTTAGGAAGAGCATTATATTCATTTTGGCAAAAGATGGTTGGATAGTA-TTTTGTAA
822 AATTAT-G-TTAGGAAGAGCATTATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAA
* *
5102868 TTATGGTTATACGAGGTATT-TAATAACTCTTGGCCAATTAAGTTAAAAAGAGATATTTTAGTAA
885 TTATGGTTATA-GAGGTATTATAATAACT-TTGGCCAGTTAAGTT-AAGAGAGATATTTTAGTAA
5102932 TTATGTTAAAAGGGAT
947 TTATGTTAAAAGGGAT
* * *
5102948 ATTATATTAATTTTGACTAATTATAGTCAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
*
5103013 ACAAATTAATCAAAAAGGTAACTTTTTTGTAATTATGATTAGAGTGTATTATAGTAATTTGAGCC
66 ACAAATTAATCAAAAAGGTAA-TTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAGCC
*
5103078 AATTATAATATAAGGGGTATTTTGCATAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
130 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
*
5103143 AAGTATTATAAAAATTTTAGCAAATCATAATATGTGAGATATTTGTGTAATTATGATAAAAGGGG
195 AAGTATTATAAAAATTTTAGCAAATCATAATATGTGAGATATTTGTGTAATTATGATAGAAGGGG
5103208 CA-TATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
260 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
* *
5103272 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATGAAGTTAAAAGGGATATTATAA
325 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAGGGATATTATAG
*
5103337 TAATTTTAATTTCTCATAGAAAGAGGGGCATTATAGTTAATTTGAATGTATTTAATTCAATTGTC
390 TAATTTTAATTTCTCATAGAAAGAGGGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGTC
* * *
5103402 AAGTAATTAAGAAGGTTTATGATTATTTCTAATGAGATTGATTTCATATTATTTTATAGATTTTA
455 AAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTA
*
5103467 AAATTTAATGAGTAATTATGCAAAAATAAAAAAATATTTTCGTAATTATGCTTAGAGAGTATTAA
520 AAATTTAATGAGTAATTATGCAAAAATAAAAAAGTATTTTCGTAATTATGCTTAGAGAGTATTAA
* ** * * *
5103532 TGATCAATTATAATATGAGGAATATTTTATAATTATGGTACAAAAAGCATTATATGAA-CAATTA
585 TG-GCAATTATAATATGAGGAATATTTTATAATTATGGTATGAGAGGCATTATATGAAGCAATCA
*
5103596 AAAGAGTTTTTTTTTTTTTTTTGTAATTATGATTAAAGGATATTATAGTAATTTTAGCTTATTAT
649 AAAGAG-TTTTTTTTTTTTTTTGTAATTATGATTAGAGGATATTATAGTAATTTTAGCTTATTAT
* *
5103661 AATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAATATCA
713 AATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTATTA
* *
5103726 AAAAAATTTCAACAAAATATAATATGAGG----TTTTTTTTTGTAATTATGTTAGGAAGAGCATT
778 TAACAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCATT
* **
5103787 GTATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGATATATTATAA
843 ATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTATAA
*
5103852 TAACTTTGG-CAGTTATA-TTAAGAGAGATATTTTAGTAATTATGTTAAAAAGGTAT
908 TAACTTTGGCCAGTTA-AGTTAAGAGAGATATTTTAGTAATTATGTT-AAAAGGGAT
5103907 ATTATATTAATTTT
1 ATTATATTAATTTT
5103921 AGTTAATCAT
Statistics
Matches: 1787, Mismatches: 104, Indels: 124
0.89 0.05 0.06
Matches are distributed among these distances:
958 25 0.01
959 29 0.02
960 56 0.03
961 28 0.02
962 42 0.02
963 14 0.01
964 1 0.00
965 23 0.01
966 55 0.03
967 4 0.00
968 164 0.09
969 188 0.11
970 162 0.09
971 208 0.12
972 89 0.05
973 172 0.10
974 120 0.07
975 164 0.09
976 56 0.03
977 45 0.03
978 141 0.08
979 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (962 bp):
ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
ACAAATTAATCAAAAAGGTAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAGCCA
ATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGAA
AGTATTATAAAAATTTTAGCAAATCATAATATGTGAGATATTTGTGTAATTATGATAGAAGGGGC
ATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATTA
TAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAGGGATATTATAGT
AATTTTAATTTCTCATAGAAAGAGGGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGTCA
AGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTAA
AATTTAATGAGTAATTATGCAAAAATAAAAAAGTATTTTCGTAATTATGCTTAGAGAGTATTAAT
GGCAATTATAATATGAGGAATATTTTATAATTATGGTATGAGAGGCATTATATGAAGCAATCAAA
AGAGTTTTTTTTTTTTTTTGTAATTATGATTAGAGGATATTATAGTAATTTTAGCTTATTATAAT
ATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTATTATAA
CAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCATTATA
TTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTATAATAA
CTTTGGCCAGTTAAGTTAAGAGAGATATTTTAGTAATTATGTTAAAAGGGAT
Found at i:5103723 original size:25 final size:25
Alignment explanation
Indices: 5103671--5103723 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
5103661 AATATAAGGT
* * *
5103671 TATTTTCGTAATTATTGTAAGAAGA
1 TATTTTCGTAATTATGGTAAAAAAA
5103696 TATTTTCGTAATTATGGTAAAAAAA
1 TATTTTCGTAATTATGGTAAAAAAA
5103721 TAT
1 TAT
5103724 CAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (25 bp):
TATTTTCGTAATTATGGTAAAAAAA
Found at i:5104142 original size:43 final size:43
Alignment explanation
Indices: 5104049--5104142 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
5104039 AATGAGTAAT
*
5104049 TATTAAATAATAAAAAATATATATTTGTAATTATACTTAGAGTG
1 TATT-AATAATAAAAAATATATATTTGTAATTATACTTAGAATG
* *
5104093 TTTTAATAATAATAAAA-ATTTA-TTGT-ATTATACCTTAGAATG
1 TATTAATAATAA-AAAATATATATTTGTAATTATA-CTTAGAATG
5104135 TCATTAAT
1 T-ATTAAT
5104143 GCGAACAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
41 6 0.14
42 13 0.30
43 17 0.40
44 7 0.16
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (43 bp):
TATTAATAATAAAAAATATATATTTGTAATTATACTTAGAATG
Found at i:5111567 original size:14 final size:14
Alignment explanation
Indices: 5111548--5111645 Score: 85
Period size: 14 Copynumber: 6.9 Consensus size: 14
5111538 AGCTTCAAAC
5111548 CCTAAAATCGAAAT
1 CCTAAAATCGAAAT
*
5111562 CCTAAACCTC-AAAT
1 CCTAAA-ATCGAAAT
* *
5111576 CTTAAAATCGAAAC
1 CCTAAAATCGAAAT
*
5111590 CCTAAAGCATC-AAAC
1 CCTAAA--ATCGAAAT
*
5111605 CCTGAAATCGAAA-
1 CCTAAAATCGAAAT
*
5111618 CCTAAAATCTCAAAT
1 CCTAAAATC-GAAAT
5111633 CCTAAAATCGAAA
1 CCTAAAATCGAAA
5111646 CCTTAAATAC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
13 13 0.19
14 32 0.47
15 20 0.29
16 3 0.04
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.19
Consensus pattern (14 bp):
CCTAAAATCGAAAT
Found at i:5111582 original size:28 final size:29
Alignment explanation
Indices: 5111529--5111761 Score: 147
Period size: 28 Copynumber: 8.1 Consensus size: 29
5111519 AAATTAAAAA
*
5111529 AAATCCTAAAGCTTCAAACCCTAAAATCG
1 AAATCCTAAAGCCTCAAACCCTAAAATCG
* *
5111558 AAATCCTAAA-CCTCAAATCTTAAAATCG
1 AAATCCTAAAGCCTCAAACCCTAAAATCG
* * *
5111586 AAACCCTAAAGCATCAAACCCTGAAATCG
1 AAATCCTAAAGCCTCAAACCCTAAAATCG
** *
5111615 AAA-CCTAAAATCTCAAATCCTAAAATCG
1 AAATCCTAAAGCCTCAAACCCTAAAATCG
** * *
5111643 AAA-CCTTAAATACTCCAAACTC-AAAA-CT
1 AAATCC-TAAAGCCT-CAAACCCTAAAATCG
* * ** *
5111671 AAACCCTAAAACCTCTAAACCCCGAAATTG
1 AAATCCTAAAGCCTC-AAACCCTAAAATCG
* * *
5111701 AAACCCTAAACCCTCAAAACCCTAAAA-CTA
1 AAATCCTAAAGCCTC-AAACCCTAAAATC-G
* * * *
5111731 AAATCCCAAA-CCTCAAATCTTCAAATCG
1 AAATCCTAAAGCCTCAAACCCTAAAATCG
5111759 AAA
1 AAA
5111762 CCTTAAAATC
Statistics
Matches: 159, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.01
28 75 0.47
29 47 0.30
30 36 0.23
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (29 bp):
AAATCCTAAAGCCTCAAACCCTAAAATCG
Found at i:5111613 original size:57 final size:57
Alignment explanation
Indices: 5111533--5111768 Score: 187
Period size: 57 Copynumber: 4.1 Consensus size: 57
5111523 TAAAAAAAAT
* *
5111533 CCTAAAGCTTCAAACCCTAAAATCGAAATCCT-AAACCTCAAATCTTAAAATCGAAAC
1 CCTAAAGCATCAAACCCTAAAATCGAAA-CCTAAAACCTCAAATCCTAAAATCGAAAC
* *
5111590 CCTAAAGCATCAAACCCTGAAATCGAAACCTAAAATCTCAAATCCTAAAATCGAAAC
1 CCTAAAGCATCAAACCCTAAAATCGAAACCTAAAACCTCAAATCCTAAAATCGAAAC
* * * * * ** *
5111647 CTTAAA-TACTCCAAACTC-AAAA-CTAAACCCTAAAACCTCTAAACCCCGAAATTGAAAC
1 CCTAAAGCA-T-CAAACCCTAAAATCGAAA-CCTAAAACCTC-AAATCCTAAAATCGAAAC
* * * * * *
5111705 CCTAAACCCTCAAAACCCTAAAA-CTAAAATCC-CAAACCTCAAATCTTCAAATCGAAAC
1 CCTAAAGCATC-AAACCCTAAAATC-GAAA-CCTAAAACCTCAAATCCTAAAATCGAAAC
*
5111763 CTTAAA
1 CCTAAA
5111769 ATCCAAAATT
Statistics
Matches: 143, Mismatches: 27, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
56 8 0.06
57 69 0.48
58 49 0.34
59 12 0.08
60 5 0.03
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (57 bp):
CCTAAAGCATCAAACCCTAAAATCGAAACCTAAAACCTCAAATCCTAAAATCGAAAC
Found at i:5111690 original size:16 final size:16
Alignment explanation
Indices: 5111669--5111728 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
5111659 AAACTCAAAA
5111669 CTAAACCCTAAAACCT
1 CTAAACCCTAAAACCT
**
5111685 CTAAACCCCGAAA--T
1 CTAAACCCTAAAACCT
*
5111699 -TGAAACCCTAAACCCT
1 CT-AAACCCTAAAACCT
*
5111715 CAAAACCCTAAAAC
1 CTAAACCCTAAAAC
5111729 TAAAATCCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
13 1 0.03
14 9 0.27
16 23 0.70
ACGTcount: A:0.45, C:0.37, G:0.03, T:0.15
Consensus pattern (16 bp):
CTAAACCCTAAAACCT
Found at i:5113554 original size:1 final size:1
Alignment explanation
Indices: 5113550--5113584 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
5113540 AAAAAGAAGC
*
5113550 AAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5113585 GGTTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5118413 original size:15 final size:15
Alignment explanation
Indices: 5118393--5118431 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
5118383 GATGGGATAT
*
5118393 AAAAAAAGCAAAACA
1 AAAAAAAGCAAAAAA
*
5118408 AAAAAAAGTAAAAAA
1 AAAAAAAGCAAAAAA
5118423 AATAAAAAG
1 AA-AAAAAG
5118432 ATCTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAGCAAAAAA
Found at i:5120409 original size:41 final size:41
Alignment explanation
Indices: 5120328--5120409 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
5120318 GTTTTTAAAG
* * * *
5120328 TTTCAAAGCTTCTGTTTAAGAAGAACCATTTTGAATCAAGA
1 TTTCAAAGCCTCTGCTTAAGAAGAACCATTTTCAAACAAGA
*
5120369 TTTCAAAGCCTCTGCTTAAGAGGAACC-TTCTTCAAACAAGA
1 TTTCAAAGCCTCTGCTTAAGAAGAACCATT-TTCAAACAAGA
5120410 CCTTTAGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
TTTCAAAGCCTCTGCTTAAGAAGAACCATTTTCAAACAAGA
Found at i:5120962 original size:22 final size:22
Alignment explanation
Indices: 5120915--5120964 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
5120905 ATCAATTTTG
* * *
5120915 TAAGACCTCTGATCATGATTTA
1 TAAGACCTCCGAGCATAATTTA
5120937 TAAGACCTCCGAGCATAATCTT-
1 TAAGACCTCCGAGCATAAT-TTA
5120959 TAAGAC
1 TAAGAC
5120965 TTTCAGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTA
Found at i:5121088 original size:133 final size:131
Alignment explanation
Indices: 5120806--5121088 Score: 309
Period size: 133 Copynumber: 2.1 Consensus size: 131
5120796 GTCGACTCTG
* * * * ***
5120806 TAAGATTTTTAGGCATAATTTTTAAGACTTGCTGGCATAATTTCAATTCACAGTGTTTTTTGATC
1 TAAGATCTCTAGGCATAATCTTTAAGACTTGCAGGCATAATTTCAATTCACAGTGTTTCCCGATC
* * * *
5120871 GATTTTTTATTTTTTGACTTACGGTGTTATCTCGATCAATTTTGTAAGACCTCTGATCATGATTT
66 GATTTTTTATTTTTTGACTTACAGTGTTATCCCGATCAATTCTGTAAGACCTCTGAGCATGATTT
5120936 A
131 A
* * * *
5120937 TAAGACCTC-CGAGCATAATCTTTAAGACTTTCAGGCATAATTTCAATTCACGGTGTTGTCCCGA
1 TAAGATCTCTAG-GCATAATCTTTAAGACTTGCAGGCATAATTTCAATTCACAGTGTT-TCCCGA
* * ** * *
5121001 TCGATTCTTTTTTTTTTTGATTTGTAGTGTTATCCCGGTCGATTCTGTAAGACCTCT-AGGCATG
64 TCGATT-TTTTATTTTTTGACTTACAGTGTTATCCCGATCAATTCTGTAAGACCTCTGA-GCATG
*
5121065 ATTTC
127 ATTTA
*
5121070 TAAGATCTCTAGGTATAAT
1 TAAGATCTCTAGGCATAAT
5121089 ATCTAAGGCC
Statistics
Matches: 122, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
130 1 0.01
131 47 0.39
132 10 0.08
133 63 0.52
134 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (131 bp):
TAAGATCTCTAGGCATAATCTTTAAGACTTGCAGGCATAATTTCAATTCACAGTGTTTCCCGATC
GATTTTTTATTTTTTGACTTACAGTGTTATCCCGATCAATTCTGTAAGACCTCTGAGCATGATTT
A
Found at i:5121093 original size:22 final size:22
Alignment explanation
Indices: 5121048--5121110 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
5121038 GTCGATTCTG
* *
5121048 TAAGACCTCTAGGCATGATTTC
1 TAAGACCTCTAGGCATAATATC
* *
5121070 TAAGATCTCTAGGTATAATATC
1 TAAGACCTCTAGGCATAATATC
*
5121092 TAAGGCCTTCTA-GCATAAT
1 TAAGACC-TCTAGGCATAAT
5121111 TTTGACTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATATC
Found at i:5121222 original size:36 final size:36
Alignment explanation
Indices: 5121105--5121229 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 36
5121095 GGCCTTCTAG
* * *
5121105 CATAATTTTGACTTATGGTGTTGTCCCAAACGATTTT
1 CATAATTTTGACTTACGATGTTGTCCCAATCGA-TTT
** * **** *
5121142 TTTACTTTTCGACTTACGATGTTGTCTTGGTCAATTT
1 CATAATTTT-GACTTACGATGTTGTCCCAATCGATTT
* * *
5121179 TAAAATTTTGACTTGCGATGTTGTCCCAATCGATTT
1 CATAATTTTGACTTACGATGTTGTCCCAATCGATTT
5121215 CATAATTTTGACTTA
1 CATAATTTTGACTTA
5121230 AAGTATTGTC
Statistics
Matches: 64, Mismatches: 23, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
36 33 0.52
37 15 0.23
38 16 0.25
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (36 bp):
CATAATTTTGACTTACGATGTTGTCCCAATCGATTT
Found at i:5129706 original size:25 final size:25
Alignment explanation
Indices: 5129653--5129708 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
5129643 AATATAAGGT
* *
5129653 TATTTTCATAATTATTGTAAGAAGA
1 TATTTTCATAATTATGGTAAAAAGA
*
5129678 TATTTTCGTAATTATGGTAAAAA-A
1 TATTTTCATAATTATGGTAAAAAGA
5129702 GTATTTT
1 -TATTTT
5129709 AACAATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (25 bp):
TATTTTCATAATTATGGTAAAAAGA
Found at i:5130670 original size:25 final size:25
Alignment explanation
Indices: 5130617--5130664 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5130607 AATATAAGGT
* *
5130617 TATTTTCGTAATTATTGTAAGAAGA
1 TATTTTCGTAATTATGGTAAAAAGA
5130642 TATTTTCGTAATTATGGTAAAAA
1 TATTTTCGTAATTATGGTAAAAA
5130665 AGTATTATAA
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:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (25 bp):
TATTTTCGTAATTATGGTAAAAAGA
Found at i:5130848 original size:26 final size:26
Alignment explanation
Indices: 5130812--5130867 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
5130802 AACTTTGGCC
*
5130812 AATTATGTTAAAAGAGATATTTTAGT
1 AATTATGTTAAAAGAGATATTATAGT
* *
5130838 AATTATGTTAAAAGGGATATTATATT
1 AATTATGTTAAAAGAGATATTATAGT
5130864 AATT
1 AATT
5130868 TTGACTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (26 bp):
AATTATGTTAAAAGAGATATTATAGT
Found at i:5131077 original size:964 final size:965
Alignment explanation
Indices: 5128922--5131831 Score: 4853
Period size: 964 Copynumber: 3.0 Consensus size: 965
5128912 CTTAGAATGC
*
5128922 ATTATAGTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
* * * *
5128987 ACAAATTAGTCTAAA-GGATAATTTTTTGTAATTATGGTTAGAGTATATTATAGTAATTTGAGCC
66 ACAAATTAATC-AAATGGGTAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAACC
* *
5129051 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGACGGCATACATGTAATTATGATTAGA
130 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
* * * *
5129116 AGGTATTATAAAAATTTT-ACAAATCATAATATGTGAGATATTTGTGTAATTGTGATGGAATGGG
195 AGGTATTATAAAAATTTTAACAAATCATAATATGTGAGATATTTGCGTAATTATGATAGAAAGGG
* *
5129180 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTCGTAATAATGGTTGTAAATGTATT
260 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
*
5129245 ATAGTAATTTGGACAATTATGGTAAGATGAATATTTTATTAATTAAGTTAAAAAGGATATTATAG
325 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAAGGATATTATAG
* * * *
5129310 TAATTTTAATTTCTCATAGAAAGAAGGGCATTATAATCAATTTAAATGTATTTACTTTAATTGTC
390 TAATTTTAATTTCTCATAGAAAG-AGGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGTC
*
5129375 AAGTAATTAAGAAGGTTTATGACTATTTCTAATAAGATTAATTTCATATTATTTTATGGATTTTA
454 AAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTA
*
5129440 AAATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTCGTAATTATGTTTAGAGAGTATTA
519 AAATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTCGTAATTATGCTTAGAGAGTATTA
*
5129505 ATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTACAAGAGGCATTATATGAAGCAAT
584 ATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTACAAGAGGCAATATATGAAGCAAT
*
5129570 CAAAAGAGTTTTTTGTTTTTTTTTGTTTTTGTAATTATGATTAGAAGATATTATAGTAAATTTAG
649 CAAAAGAG----TT-TTTTTTTTTGTTTTTGTAATTATGATTAGAAGATATTATAGTAATTTTAG
*
5129635 CTTATTATAATATAAGGTTATTTTCATAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAA
709 CTTATTATAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAA
*
5129700 AAGTATTTTAACAATTTCAACAAAATAT-A-ATGAGGTTTTTTTTTTTTTTTTGTAATTATGTTA
774 AAGTATTATAACAATTTCAACAAAATATAATATGAGG----TTTTTTTTTTTTGTAATTATGTTA
*
5129763 GGAAGAGCATTATATTCATTTTGGCAAATGATGGTTGGATAATATTTTTGTAATTATGG-TATAG
835 GGAAGAGCATTATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAG
*
5129827 AGGTATTATAATAACTTTGGCCAATTATGTTAAGAGAGATACTTTAGTAATTATGTTAAAAGGGA
900 AGGTATTATAATAACTTTGGCCAATTATGTTAAAAGAGATACTTTAGTAATTATGTTAAAAGGGA
5129892 T
965 T
5129893 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
5129958 ACAAATTAATCAAATGGGTAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTT-AAGCC
66 ACAAATTAATCAAATGGGTAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAA-CC
* *
5130022 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGCCATACATGTAATTACGATTAAA
130 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
* * *
5130087 AGGTATTATAAAAATTTTAGCAAATCATAATATGTGAGATATTTGCATAATTATGATAGAAGGGG
195 AGGTATTATAAAAATTTTAACAAATCATAATATGTGAGATATTTGCGTAATTATGATAGAAAGGG
*
5130152 CATTATAATAATTTTAGTATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
260 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
* * *
5130217 ATAGTAATTTAGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAGGGATATTATTG
325 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAAGGATATTATAG
*
5130282 TAATTTTAATTTCTCATAGAAAGAGGGACATTATAGTCAATTTGAATGTATTTAATTCAATTATC
390 TAATTTTAATTTCTCATAGAAAGAGGG-CATTATAGTCAATTTGAATGTATTTAATTCAATTGTC
*
5130347 AAGTAATTAAAAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATT-TTTTATGGATTTTA
454 AAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTA
* *
5130411 AAATTTAATGAGTAATTTTGCAAAAAT-AAAAAAGTATTTTCGTAATTATGCTTAGAGAGTATTA
519 AAATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTCGTAATTATGCTTAGAGAGTATTA
**
5130475 ATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTATGAGAGGCAATATATGAAGCAAT
584 ATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTACAAGAGGCAATATATGAAGCAAT
* *
5130540 CAAAAGAGTTTTTTTTTTT-TTTTTGTAATTATGATTAGAGGATATTATAGTAATTTTTGCTTAT
649 CAAAAGAGTTTTTTTTTTTGTTTTTGTAATTATGATTAGAAGATATTATAGTAATTTTAGCTTAT
5130604 TATAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTA
714 TATAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTA
*
5130669 TTATAACAATTTCAAAAAAATATAATATGAGGTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCA
779 TTATAACAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCA
*
5130734 TTATATTCATTTTGGCAAAAGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTAT
844 TTATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTAT
*
5130799 AATAACTTTGGCCAATTATGTTAAAAGAGATATTTTAGTAATTATGTTAAAAGGGAT
909 AATAACTTTGGCCAATTATGTTAAAAGAGATACTTTAGTAATTATGTTAAAAGGGAT
*
5130856 ATTATATTAATTTTGACTAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
1 ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
* *
5130921 ACAAATTAATCAAATGGGTAATTTTTTTGTAATTATGATTAGAGTGTATTATAATAATTTGAACC
66 ACAAATTAATCAAATGGGTAA-TTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAACC
* * *
5130986 AATTATAATATAAGGGGTATTTTGCATAATTATGGTGAGAGGGCATACATATAATTACAATTAGA
130 AATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGA
* *
5131051 AGGTATTATAAAAATTTTAACAAATCATAATATGTGAGATATTTGCGTAATTATGATAAAAAGGA
195 AGGTATTATAAAAATTTTAACAAATCATAATATGTGAGATATTTGCGTAATTATGATAGAAAGGG
* *
5131116 CATTATAATAATTTTGGCATATGATGGTGGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
260 CATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATT
* *
5131181 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATGAAGTTAAAAAGGATATTATAA
325 ATAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAAGGATATTATAG
* *
5131246 TAATTTTAATTTTTCATAGAAAGAGGGGCATTATAGTTAATTTGAATGTATTTAATTCAATTGTC
390 TAATTTTAATTTCTCATAGAAAGA-GGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGTC
*
5131311 AAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATAGATTTTA
454 AAGTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTA
* *
5131376 AAATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTTGTAATTATGCTTAAAGAGTATTA
519 AAATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTCGTAATTATGCTTAGAGAGTATTA
* * *
5131441 ATGGTCAATTATAATATGAGGAATA-TGTTATAATTATGGTACAAAAGGCGATATATGAA-CAAT
584 ATGGTCAATTATAATATGAGGAATATTTTTATAATTATGGTACAAGAGGCAATATATGAAGCAAT
* *
5131504 CAAAAGAGTTTTTTTTTTTGCTTTTGTAATTATGATTAAAAGATATTATAGTAATTTTAGCTTAT
649 CAAAAGAGTTTTTTTTTTTGTTTTTGTAATTATGATTAGAAGATATTATAGTAATTTTAGCTTAT
* *
5131569 TATAATATAAGGTTATTTTCGTAATTAGTGTAAGAAGATATTTTCGTAATTATGGTAAATAAGTA
714 TATAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTA
* * *
5131634 TCATAAAAATTTCAACAAAATATAATATGAGG---TTCTTTTTTGTAATTATGTTAGGAAGAGCA
779 TTATAACAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCA
* *
5131696 TTGTATTCATTTTGGCAAATGATGGTTGGATAGTATTTTT-TAATTATGGTTATAGAGATATTAT
844 TTATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTAT
* * *
5131760 AATAACTTTGGCCAAATATATTAAGAA-AGATACTTTAGTAATTATGTTAAAAAGGTAT
909 AATAACTTTGGCCAATTATGTTAA-AAGAGATACTTTAGTAATTATGTT-AAAAGGGAT
5131818 ATTATATTAATTTT
1 ATTATATTAATTTT
5131832 AATTAATCAT
Statistics
Matches: 1827, Mismatches: 97, Indels: 39
0.93 0.05 0.02
Matches are distributed among these distances:
961 65 0.04
962 172 0.09
963 154 0.08
964 537 0.29
965 216 0.12
966 67 0.04
970 109 0.06
971 241 0.13
972 266 0.15
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (965 bp):
ATTATATTAATTTTGACCAATTATAATGAAGGTTATTTTCATAATTATGGTAGAAAAAGCATTAT
ACAAATTAATCAAATGGGTAATTTTTTGTAATTATGGTTAGAGTGTATTATAGTAATTTGAACCA
ATTATAATATAAGGGGTATTTTGCGTAATTATGGTGAGAGGGCATACATGTAATTACGATTAGAA
GGTATTATAAAAATTTTAACAAATCATAATATGTGAGATATTTGCGTAATTATGATAGAAAGGGC
ATTATAATAATTTTAGCATATGATGGTAGAAAGACATTTTTGTAATAATGGTTGTAAAGGTATTA
TAGTAATTTGGACAATTATGGTAAGATGAGTATTTTATTAATTAAGTTAAAAAGGATATTATAGT
AATTTTAATTTCTCATAGAAAGAGGGCATTATAGTCAATTTGAATGTATTTAATTCAATTGTCAA
GTAATTAAGAAGGTTTATGACTATTTCTAATGAGATTAATTTCATATTATTTTATGGATTTTAAA
ATTTAATGAGTAATTATGCAAAAATAAAAAAAATATTTTCGTAATTATGCTTAGAGAGTATTAAT
GGTCAATTATAATATGAGGAATATTTTTATAATTATGGTACAAGAGGCAATATATGAAGCAATCA
AAAGAGTTTTTTTTTTTGTTTTTGTAATTATGATTAGAAGATATTATAGTAATTTTAGCTTATTA
TAATATAAGGTTATTTTCGTAATTATTGTAAGAAGATATTTTCGTAATTATGGTAAAAAAGTATT
ATAACAATTTCAACAAAATATAATATGAGGTTTTTTTTTTTTGTAATTATGTTAGGAAGAGCATT
ATATTCATTTTGGCAAATGATGGTTGGATAGTATTTTTGTAATTATGGTTATAGAGGTATTATAA
TAACTTTGGCCAATTATGTTAAAAGAGATACTTTAGTAATTATGTTAAAAGGGAT
Found at i:5132263 original size:14 final size:14
Alignment explanation
Indices: 5132244--5132306 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
5132234 AATTTTAAAG
5132244 AAAAGTAAAGAAAA
1 AAAAGTAAAGAAAA
**
5132258 AAAAGTAAAGCTCAA
1 AAAAGTAAAG-AAAA
*
5132273 AAAA-TAAACAAGAAA
1 AAAAGTAAA-GA-AAA
5132288 AAAAGTAAA-AAAA
1 AAAAGTAAAGAAAA
5132301 AAAAGT
1 AAAAGT
5132307 TTTGAATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.22
14 15 0.38
15 12 0.30
16 4 0.10
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.10
Consensus pattern (14 bp):
AAAAGTAAAGAAAA
Found at i:5139472 original size:28 final size:28
Alignment explanation
Indices: 5139437--5139661 Score: 156
Period size: 28 Copynumber: 7.9 Consensus size: 28
5139427 CTAAAACTTT
5139437 AAACCTTAAAATCGAAATCCC-AAACCTC
1 AAACCTTAAAATCGAAA-CCCTAAACCTC
* *
5139465 AAATCTTAAAATCGAAACCCTAAAGCATC
1 AAACCTTAAAATCGAAACCCTAAA-CCTC
* *
5139494 AAACCCTAAAATCGAAA-CCTAAAATCTC
1 AAACCTTAAAATCGAAACCCT-AAACCTC
* *
5139522 AAATCTTAAAATTGAAACCCTAAATCCTCC
1 AAACCTTAAAATCGAAACCCTAAA-CCT-C
** *
5139552 AAA-CTCGAAA-CTAAACCCTAAAACCTC
1 AAACCTTAAAATCGAAACCCT-AAACCTC
** *
5139579 TAAACCTCGAAATTGAAACCCTAAACCCTC
1 -AAACCTTAAAATCGAAACCCTAAA-CCTC
* *
5139609 AAAACCCTAAAA-CTAAAATCCC-AAACCTC
1 -AAACCTTAAAATC-GAAA-CCCTAAACCTC
* * *
5139638 AAATCTTCAAATCGAAACCTTAAA
1 AAACCTTAAAATCGAAACCCTAAA
5139662 ATTCAAAATT
Statistics
Matches: 155, Mismatches: 27, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
27 6 0.04
28 68 0.44
29 49 0.32
30 29 0.19
31 3 0.02
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (28 bp):
AAACCTTAAAATCGAAACCCTAAACCTC
Found at i:5139516 original size:13 final size:14
Alignment explanation
Indices: 5139471--5139545 Score: 73
Period size: 14 Copynumber: 5.3 Consensus size: 14
5139461 CCTCAAATCT
5139471 TAAAATCGAAACCC
1 TAAAATCGAAACCC
5139485 TAAAGCATC-AAACCC
1 TAAA--ATCGAAACCC
5139500 TAAAATCGAAA-CC
1 TAAAATCGAAACCC
* * *
5139513 TAAAATCTCAAATCT
1 TAAAATC-GAAACCC
*
5139528 TAAAATTGAAACCC
1 TAAAATCGAAACCC
5139542 TAAA
1 TAAA
5139546 TCCTCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 12 0.24
14 18 0.36
15 17 0.34
16 3 0.06
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (14 bp):
TAAAATCGAAACCC
Found at i:5139582 original size:37 final size:36
Alignment explanation
Indices: 5139536--5139619 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
5139526 CTTAAAATTG
5139536 AAACCCTAAATCCTCCAAACTCGAAA-CTAAACCCT-A
1 AAACCCTAAA-CCTCCAAA-TCGAAACCTAAACCCTCA
* *
5139572 AAACCTCTAAACCTCGAAATTGAAACCCTAAACCCTCA
1 AAACC-CTAAACCTCCAAATCGAAA-CCTAAACCCTCA
5139610 AAACCCTAAA
1 AAACCCTAAA
5139620 ACTAAAATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 5 0.12
36 12 0.29
37 19 0.45
38 6 0.14
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.17
Consensus pattern (36 bp):
AAACCCTAAACCTCCAAATCGAAACCTAAACCCTCA
Found at i:5139655 original size:58 final size:55
Alignment explanation
Indices: 5139437--5139661 Score: 191
Period size: 57 Copynumber: 3.9 Consensus size: 55
5139427 CTAAAACTTT
* * * *
5139437 AAACCTTAAAATCGAAATCCCAAACCTCAAATCTTAAAATCGAAACCCTAAAGCATC
1 AAACCCTAAAA-CTAAA-CCCAAACCTCAAATCTTAAAATCGAAACCCTAAACCCTC
* * * * *
5139494 AAACCCTAAAATCGAAACCTAAAATCTCAAATCTTAAAATTGAAACCCTAAATCCTCC
1 AAACCCTAAAA-CTAAACC-CAAACCTCAAATCTTAAAATCGAAACCCTAAACCCT-C
* * * ** *
5139552 AAACTC-GAAACTAAACCCTAAAACCTCTAAACCTCGAAATTGAAACCCTAAACCCTC
1 AAACCCTAAAACTAAACCC--AAACCTC-AAATCTTAAAATCGAAACCCTAAACCCTC
* *
5139609 AAAACCCTAAAACTAAAATCCCAAACCTCAAATCTTCAAATCGAAACCTTAAA
1 -AAACCCTAAAACT-AAA-CCCAAACCTCAAATCTTAAAATCGAAACCCTAAA
5139662 ATTCAAAATT
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
56 8 0.06
57 57 0.42
58 54 0.39
59 12 0.09
60 3 0.02
61 3 0.02
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (55 bp):
AAACCCTAAAACTAAACCCAAACCTCAAATCTTAAAATCGAAACCCTAAACCCTC
Found at i:5141419 original size:18 final size:18
Alignment explanation
Indices: 5141398--5141433 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5141388 AAAAAAAACA
*
5141398 AAAAAAAAAAAGGTTTTC
1 AAAAAAAAAAAGATTTTC
*
5141416 AAAAAAATAAAGATTTTC
1 AAAAAAAAAAAGATTTTC
5141434 TTAAATTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (18 bp):
AAAAAAAAAAAGATTTTC
Found at i:5146275 original size:15 final size:15
Alignment explanation
Indices: 5146255--5146294 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5146245 ATGGGGTATT
*
5146255 AAAAAAAAGCAAAAC
1 AAAAAAAAGCAAAAA
*
5146270 AAAAAAAAGTAAAAA
1 AAAAAAAAGCAAAAA
5146285 AAATAAAAAG
1 AAA-AAAAAG
5146295 ATCTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGCAAAAA
Found at i:5148073 original size:12 final size:12
Alignment explanation
Indices: 5148064--5148103 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
5148054 TTGACATTTG
5148064 CATTTGCATTGA
1 CATTTGCATTGA
5148076 CATTTGCATTGA
1 CATTTGCATTGA
*
5148088 CATTTGCATTCA
1 CATTTGCATTGA
5148100 CATT
1 CATT
5148104 AACATTTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (12 bp):
CATTTGCATTGA
Found at i:5148103 original size:18 final size:18
Alignment explanation
Indices: 5148043--5148091 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
5148033 ATTCATATTC
*
5148043 TTGCATTTAAATTGACAT
1 TTGCATTTACATTGACAT
*
5148061 TTGCATTTGCATTGACAT
1 TTGCATTTACATTGACAT
*
5148079 TTGCATTGACATT
1 TTGCATTTACATT
5148092 TGCATTCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (18 bp):
TTGCATTTACATTGACAT
Found at i:5148109 original size:24 final size:24
Alignment explanation
Indices: 5148064--5148109 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5148054 TTGACATTTG
* **
5148064 CATTTGCATTGACATTTGCATTGA
1 CATTTGCATTCACATTAACATTGA
5148088 CATTTGCATTCACATTAACATT
1 CATTTGCATTCACATTAACATT
5148110 TCCATTAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (24 bp):
CATTTGCATTCACATTAACATTGA
Found at i:5148297 original size:41 final size:41
Alignment explanation
Indices: 5148216--5148297 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
5148206 GTTTTTAAAG
* * *
5148216 TTTCAAAGCCTCTGTTTAAGAAGAACCATTTTGAATCAAGA
1 TTTCAAAGCCTCTGCTTAAGAAGAACCATTTTCAAACAAGA
* *
5148257 TTTCAAAGCCTCTGCTTAAGAGGAATC-TTCTTCAAACAAGA
1 TTTCAAAGCCTCTGCTTAAGAAGAACCATT-TTCAAACAAGA
5148298 CCTTTAGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
TTTCAAAGCCTCTGCTTAAGAAGAACCATTTTCAAACAAGA
Found at i:5148496 original size:84 final size:84
Alignment explanation
Indices: 5148343--5148497 Score: 186
Period size: 83 Copynumber: 1.8 Consensus size: 84
5148333 GCCATTTTTA
* * * ** *
5148343 AAAAGATTTTTTAAATTTTCAAAATTTCATTGCTTCTGACCGGGAGGACGTTTAAAGATTTTAAA
1 AAAAGATTTTTTAAATTTTCAAAATTTCATAGCCTCTGACCGGGAGAACACTCAAAGATTTTAAA
5148408 ATTTCTAAGACTTTTGGGC
66 ATTTCTAAGACTTTTGGGC
* * ** *
5148427 AAAAGA-TTTTTAAATTTTTAAAGTTTCATAGCCTCTGATTGGGATGAACACTCAAAGATTTTGA
1 AAAAGATTTTTTAAATTTTCAAAATTTCATAGCCTCTGACCGGGA-GAACACTCAAAGATTTTAA
*
5148491 GATTTCT
65 AATTTCT
5148498 CATACCTCTG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 32 0.55
84 26 0.45
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (84 bp):
AAAAGATTTTTTAAATTTTCAAAATTTCATAGCCTCTGACCGGGAGAACACTCAAAGATTTTAAA
ATTTCTAAGACTTTTGGGC
Found at i:5148723 original size:22 final size:22
Alignment explanation
Indices: 5148695--5148738 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5148685 GTTAACTCTG
**
5148695 TAAGACTTTTGGGCATAATTTT
1 TAAGACTTACGGGCATAATTTT
5148717 TAAGACTTACGGGCATAATTTT
1 TAAGACTTACGGGCATAATTTT
5148739 GATTCATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (22 bp):
TAAGACTTACGGGCATAATTTT
Found at i:5149012 original size:131 final size:132
Alignment explanation
Indices: 5148728--5149019 Score: 338
Period size: 131 Copynumber: 2.2 Consensus size: 132
5148718 AAGACTTACG
* *** * *
5148728 GGCATAATTTTGATTCATAGTGTTGTTTTGATCGATTCTTTATTTTTTGACTTACGGTGTTATCT
1 GGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTACAGTGTTATCC
* * * * * * * *
5148793 CGATCAATTTTGTAAGACCTCTAGTCATGATTTATAAGACCTTCGAGCATAATCTTTAAGACTTT
66 CGATCAATTCTATAAAACCTCTAGGCATGATTTATAAGACCTCCGAGCATAATATCTAAGACCTT
5148858 CA
131 CA
** * **
5148860 GGCATAATTTCAATTCGTGGTGTTGTCCCGATCGATTCTTTA-TTTTTGACTTGTAGTGTTATCC
1 GGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTACAGTGTTATCC
* * *
5148924 CGATCGATTCTATAAAACCTCTAGGCATGATTTATAAGACCTCC-AGGTATAATATCTAAGGCCT
66 CGATCAATTCTATAAAACCTCTAGGCATGATTTATAAGACCTCCGA-GCATAATATCTAAGACCT
*
5148988 TCT
130 TCA
5148991 GGCATAATTTTGACTT-ATGGTGTTGTCCC
1 GGCATAATTTTGA-TTCATGGTGTTGTCCC
5149020 ATATGATTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
130 1 0.01
131 94 0.71
132 37 0.28
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (132 bp):
GGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTACAGTGTTATCC
CGATCAATTCTATAAAACCTCTAGGCATGATTTATAAGACCTCCGAGCATAATATCTAAGACCTT
CA
Found at i:5149517 original size:17 final size:17
Alignment explanation
Indices: 5149495--5149540 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
5149485 TATTAAATAA
* *
5149495 TAATTATAATAATTAAT
1 TAATTAAAAAAATTAAT
5149512 TAATTAAAAAAATTAA-
1 TAATTAAAAAAATTAAT
*
5149528 AAATTAAAAAAAT
1 TAATTAAAAAAAT
5149541 AAAAAGTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATTAAAAAAATTAAT
Found at i:5149534 original size:16 final size:15
Alignment explanation
Indices: 5149513--5149545 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
5149503 ATAATTAATT
5149513 AATTAAAAAAATTAAA
1 AATTAAAAAAA-TAAA
5149529 AATTAAAAAAATAAA
1 AATTAAAAAAATAAA
5149544 AA
1 AA
5149546 GTAGGGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AATTAAAAAAATAAA
Found at i:5150982 original size:29 final size:29
Alignment explanation
Indices: 5150949--5151177 Score: 189
Period size: 29 Copynumber: 7.9 Consensus size: 29
5150939 ATTAAAAAAA
*
5150949 AAACCCTAAAACTTAAAACCCTAAAATCG
1 AAACCCTAAAACTTCAAACCCTAAAATCG
* ** * *
5150978 AAACCC-CAAACCCCAAATCTTAAAATCG
1 AAACCCTAAAACTTCAAACCCTAAAATCG
* * * *
5151006 AAACCTTAAAGCATCAAACCCTAAAATTG
1 AAACCCTAAAACTTCAAACCCTAAAATCG
*
5151035 AAACCCTAAAA-TCTCAAACCCTAAAATTG
1 AAACCCTAAAACT-TCAAACCCTAAAATCG
5151064 AAACCCTAAAA-TCTCAAACCCTAAAATCG
1 AAACCCTAAAACT-TCAAACCCTAAAATCG
* * * * *
5151093 AAACCTTAAATCCTCCAAACTC-AAAA-CT
1 AAACCCTAAA-ACTTCAAACCCTAAAATCG
* * * *
5151121 AAACTCTAAAACCTCTAAACCCCAAAATTG
1 AAACCCTAAAACTTC-AAACCCTAAAATCG
*
5151151 AAACCCTAAACCTTCAAAACCCTAAAA
1 AAACCCTAAAACTTC-AAACCCTAAAA
5151178 CTAAAACCCC
Statistics
Matches: 157, Mismatches: 36, Indels: 13
0.76 0.17 0.06
Matches are distributed among these distances:
27 2 0.01
28 35 0.22
29 91 0.58
30 28 0.18
31 1 0.01
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (29 bp):
AAACCCTAAAACTTCAAACCCTAAAATCG
Found at i:5150983 original size:14 final size:14
Alignment explanation
Indices: 5150949--5151102 Score: 130
Period size: 14 Copynumber: 10.7 Consensus size: 14
5150939 ATTAAAAAAA
**
5150949 AAACCCTAAAACTTA
1 AAACCCTAAAA-TCG
5150964 AAACCCTAAAATCG
1 AAACCCTAAAATCG
* ** *
5150978 AAACCCCAAACCCC
1 AAACCCTAAAATCG
* *
5150992 AAATCTTAAAATCG
1 AAACCCTAAAATCG
*
5151006 AAACCTTAAAGCATC-
1 AAACCCTAAA--ATCG
*
5151021 AAACCCTAAAATTG
1 AAACCCTAAAATCG
*
5151035 AAACCCTAAAATCTC
1 AAACCCTAAAATC-G
*
5151050 AAACCCTAAAATTG
1 AAACCCTAAAATCG
*
5151064 AAACCCTAAAATCTC
1 AAACCCTAAAATC-G
5151079 AAACCCTAAAATCG
1 AAACCCTAAAATCG
*
5151093 AAACCTTAAA
1 AAACCCTAAA
5151103 TCCTCCAAAC
Statistics
Matches: 111, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
13 2 0.02
14 61 0.55
15 45 0.41
16 3 0.03
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:5151083 original size:58 final size:58
Alignment explanation
Indices: 5150949--5151225 Score: 219
Period size: 58 Copynumber: 4.8 Consensus size: 58
5150939 ATTAAAAAAA
* * * * * * *
5150949 AAACCCTAAAACTTAAAACCCTAAAATCGAAACCC-CAAACCCCAAATCTTAAAA-TCG
1 AAACCCTAAAACCTCAAACCCTAAAATCGAAACCCTAAAATCTCAAACCCTAAAACT-G
* * * * *
5151006 AAACCTTAAAGCATCAAACCCTAAAATTGAAACCCTAAAATCTCAAACCCTAAAATTG
1 AAACCCTAAAACCTCAAACCCTAAAATCGAAACCCTAAAATCTCAAACCCTAAAACTG
* * *
5151064 AAACCCTAAAATCTCAAACCCTAAAATCGAAA-CCTTAAATCCTCCAAACTC-AAAACT-
1 AAACCCTAAAACCTCAAACCCTAAAATCGAAACCCTAAAAT-CT-CAAACCCTAAAACTG
* * * * *
5151121 AAACTCTAAAACCTCTAAACCCCAAAATTGAAACCCT-AAACCTTCAAAACCCTAAAACTA
1 AAACCCTAAAACCTC-AAACCCTAAAATCGAAACCCTAAAATC-TC-AAACCCTAAAACTG
* * * * *
5151181 AAACCC-CAAACCTCAAATCTTCAAATCGAAACCTTAAAATC-CAAA
1 AAACCCTAAAACCTCAAACCCTAAAATCGAAACCCTAAAATCTCAAA
5151226 ATTCTGAAAA
Statistics
Matches: 176, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
56 3 0.02
57 53 0.30
58 88 0.50
59 27 0.15
60 5 0.03
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (58 bp):
AAACCCTAAAACCTCAAACCCTAAAATCGAAACCCTAAAATCTCAAACCCTAAAACTG
Found at i:5151148 original size:87 final size:88
Alignment explanation
Indices: 5150949--5151177 Score: 245
Period size: 87 Copynumber: 2.6 Consensus size: 88
5150939 ATTAAAAAAA
* * * * * * * *
5150949 AAACCCTAAAACTTAAAACCCTAAAATCGAAACCCCAAACC--CCAAATCTTAAAATCGAAACCT
1 AAACCCTAAAACCTCAAACCCCAAAATTGAAACCCTAAACCTTCAAAACCCTAAAATCGAAACCT
*
5151012 TAAAGCATCAAACCCTAAAATTG
66 TAAAGCATCAAACCCTAAAACTG
* * *
5151035 AAACCCTAAAATCTCAAACCCTAAAATTGAAACCCTAAA-ATCTC-AAACCCTAAAATCGAAACC
1 AAACCCTAAAACCTCAAACCCCAAAATTGAAACCCTAAACCT-TCAAAACCCTAAAATCGAAACC
* * *
5151098 TTAAATCCTCCAAACTC-AAAACT-
65 TTAAAGCAT-CAAACCCTAAAACTG
*
5151121 AAACTCTAAAACCTCTAAACCCCAAAATTGAAACCCTAAACCTTCAAAACCCTAAAA
1 AAACCCTAAAACCTC-AAACCCCAAAATTGAAACCCTAAACCTTCAAAACCCTAAAA
5151178 CTAAAACCCC
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
86 47 0.39
87 54 0.45
88 19 0.16
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (88 bp):
AAACCCTAAAACCTCAAACCCCAAAATTGAAACCCTAAACCTTCAAAACCCTAAAATCGAAACCT
TAAAGCATCAAACCCTAAAACTG
Found at i:5151172 original size:16 final size:15
Alignment explanation
Indices: 5151151--5151197 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
5151141 CCCAAAATTG
5151151 AAACCCTAAACCTTCA
1 AAACCCTAAACC-TCA
*
5151167 AAACCCTAAAACT-A
1 AAACCCTAAACCTCA
*
5151181 AAACCCCAAACCTCA
1 AAACCCTAAACCTCA
5151196 AA
1 AA
5151198 TCTTCAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACCTCA
Found at i:5151185 original size:14 final size:14
Alignment explanation
Indices: 5150949--5151186 Score: 99
Period size: 14 Copynumber: 16.4 Consensus size: 14
5150939 ATTAAAAAAA
*
5150949 AAACCCTAAAACTTA
1 AAACCCTAAAAC-TG
5150964 AAACCCTAAAA-TCG
1 AAACCCTAAAACT-G
* * **
5150978 AAACCCCAAACCCC
1 AAACCCTAAAACTG
* *
5150992 AAATCTTAAAA-TCG
1 AAACCCTAAAACT-G
* * *
5151006 AAACCTTAAAGCATC
1 AAACCCTAAAAC-TG
*
5151021 AAACCCTAAAATTG
1 AAACCCTAAAACTG
*
5151035 AAACCCTAAAATCTC
1 AAACCCTAAAA-CTG
*
5151050 AAACCCTAAAATTG
1 AAACCCTAAAACTG
*
5151064 AAACCCTAAAATCTC
1 AAACCCTAAAA-CTG
5151079 AAACCCTAAAA-TCG
1 AAACCCTAAAACT-G
* * *
5151093 AAACCTTAAATCCTCC
1 AAACCCTAAA-ACT-G
*
5151109 AAACTC-AAAACT-
1 AAACCCTAAAACTG
* *
5151121 AAACTCTAAAACCTCT
1 AAACCCTAAAA-CT-G
* *
5151137 AAACCCCAAAATTG
1 AAACCCTAAAACTG
* *
5151151 AAACCCTAAACCTTCA
1 AAACCCTAAAAC-T-G
*
5151167 AAACCCTAAAACTA
1 AAACCCTAAAACTG
5151181 AAACCC
1 AAACCC
5151187 CAAACCTCAA
Statistics
Matches: 167, Mismatches: 40, Indels: 33
0.70 0.17 0.14
Matches are distributed among these distances:
12 6 0.04
13 6 0.04
14 78 0.47
15 50 0.30
16 27 0.16
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAACTG
Found at i:5152796 original size:51 final size:51
Alignment explanation
Indices: 5152718--5152818 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
5152708 AAAGCTCTCT
5152718 TGGGCTTTGACATGTAGCGCCTCAACTTACTTTGTAACTCCGCCTTGCTCA
1 TGGGCTTTGACATGTAGCGCCTCAACTTACTTTGTAACTCCGCCTTGCTCA
** * * * * *
5152769 TGGGCTTTGACATGTAGTTCTTGAACTTGCTTTGTAACTCTGCTTTGCTC
1 TGGGCTTTGACATGTAGCGCCTCAACTTACTTTGTAACTCCGCCTTGCTC
5152819 CTCATTCTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (51 bp):
TGGGCTTTGACATGTAGCGCCTCAACTTACTTTGTAACTCCGCCTTGCTCA
Found at i:5159452 original size:15 final size:15
Alignment explanation
Indices: 5159421--5159466 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
5159411 TCTCTCAAAA
*
5159421 TTATAATTTTTTAATG
1 TTATAAATTTTT-ATG
5159437 TTATAAATTTTTATG
1 TTATAAATTTTTATG
*
5159452 TTTTAAATTTATTAT
1 TTATAAATTT-TTAT
5159467 AACAAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATAAATTTTTATG
Found at i:5159915 original size:25 final size:25
Alignment explanation
Indices: 5159882--5159930 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
5159872 ATCAGTGATT
* *
5159882 AAATTATCTTAATAATAGAATTATA
1 AAATCATCTTAATAATAAAATTATA
5159907 AAATCATCTTAATAATAAAATTAT
1 AAATCATCTTAATAATAAAATTAT
5159931 CCCCATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATCATCTTAATAATAAAATTATA
Found at i:5163382 original size:14 final size:14
Alignment explanation
Indices: 5163348--5163385 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
5163338 AAAATCATAT
*
5163348 TTTAAA-ATAAAAA
1 TTTAAATATTAAAA
5163361 TTATAAATATTAAAA
1 TT-TAAATATTAAAA
5163376 TTTAAATATT
1 TTTAAATATT
5163386 TAATCTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATTAAAA
Found at i:5169057 original size:116 final size:117
Alignment explanation
Indices: 5168853--5169087 Score: 391
Period size: 116 Copynumber: 2.0 Consensus size: 117
5168843 ATACAAAAAC
* *
5168853 AAAAAGGGGCATCCATATTCTATGCTACTAGCATTAACCACATTGCTACCAGTACCATTTCATCT
1 AAAAAGGGGCATCCACATTCTATACTACTAGCATTAACCACATTGCTACCAGTACCATTTCATCT
* *
5168918 TTTCTCTTTACTAACGACACCCACATCCTTGATTTCC-AAGCCCTTAACCCA
66 TTTCTCTTTACTAACGACACCCACATCCCTGATTTCCAAACCCCTTAACCCA
*
5168969 AAAAAGGGGCATCTACATTCTATACTACTAGCATTAACCACATTGCTACCAGTACCATTTCATCT
1 AAAAAGGGGCATCCACATTCTATACTACTAGCATTAACCACATTGCTACCAGTACCATTTCATCT
* * *
5169034 TTTCTGTTTACTAAGGACACCCACATCCCTGATTTCCAAACCCCTTAGCCCA
66 TTTCTCTTTACTAACGACACCCACATCCCTGATTTCCAAACCCCTTAACCCA
5169086 AA
1 AA
5169088 TCCTCCTCCT
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
116 96 0.87
117 14 0.13
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.29
Consensus pattern (117 bp):
AAAAAGGGGCATCCACATTCTATACTACTAGCATTAACCACATTGCTACCAGTACCATTTCATCT
TTTCTCTTTACTAACGACACCCACATCCCTGATTTCCAAACCCCTTAACCCA
Found at i:5174203 original size:1 final size:1
Alignment explanation
Indices: 5174197--5174223 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
5174187 CGCTCTCGGT
5174197 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
5174224 GACAAAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5175862 original size:22 final size:22
Alignment explanation
Indices: 5175837--5175881 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
5175827 TCCAAATATT
5175837 TTTATTTATTAG-TTGAATTAAA
1 TTTATTT-TTAGATTGAATTAAA
*
5175859 TTTATTTTTGGATTGAATTAAA
1 TTTATTTTTAGATTGAATTAAA
5175881 T
1 T
5175882 CAAAACAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (22 bp):
TTTATTTTTAGATTGAATTAAA
Found at i:5182857 original size:13 final size:13
Alignment explanation
Indices: 5182839--5182866 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5182829 TATTAGACAA
5182839 AAAAAAAATTCTT
1 AAAAAAAATTCTT
5182852 AAAAAAAATTCTT
1 AAAAAAAATTCTT
5182865 AA
1 AA
5182867 GGGCATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAAAAATTCTT
Found at i:5186217 original size:165 final size:164
Alignment explanation
Indices: 5185930--5186261 Score: 583
Period size: 165 Copynumber: 2.0 Consensus size: 164
5185920 TAATGAACAA
5185930 CATAAATTGTCACTTACACAATTTGAAACCAACCAAGCTACATGCACACTGAATAGGGTTCAACT
1 CATAAATTGTCACTTACACAATTTGAAACCAACCAAGCTACATGCACACTGAATAGGGTTCAACT
**
5185995 AAAAGTGGCAACAATGCAAGGATCTACCTCATTAAAAGCTCGTTTCCACTCTCCAAGTGTTCTCA
66 AAAAGTGAAAACAATGCAAGGATCTACCTCATTAAAAGCTCGTTTCCACTCTCCAAGTGTTCTCA
* * *
5186060 AAGCACCATATCTTTTGTCGTTTATTGTTACTCT
131 AAGCACCATATCTTTTGTCATTTATTATTAATCT
5186094 CATAAATTGTCACTTACACAATTTGAAACCAACCAAGCTACATGCACACTGAATAAGGGTTCAAC
1 CATAAATTGTCACTTACACAATTTGAAACCAACCAAGCTACATGCACACTGAAT-AGGGTTCAAC
* * *
5186159 TAAAAGTGAAAACCATGCAAGGATCTACCTCATTAAAAGCTTGTTTCCGCTCTCCAAGTGTTCTC
65 TAAAAGTGAAAACAATGCAAGGATCTACCTCATTAAAAGCTCGTTTCCACTCTCCAAGTGTTCTC
5186224 AAAGCACCATATCTTTTGTCATTTATTATTAATCT
130 AAAGCACCATATCTTTTGTCATTTATTATTAATCT
5186259 CAT
1 CAT
5186262 TGCCTATCAT
Statistics
Matches: 159, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
164 54 0.34
165 105 0.66
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (164 bp):
CATAAATTGTCACTTACACAATTTGAAACCAACCAAGCTACATGCACACTGAATAGGGTTCAACT
AAAAGTGAAAACAATGCAAGGATCTACCTCATTAAAAGCTCGTTTCCACTCTCCAAGTGTTCTCA
AAGCACCATATCTTTTGTCATTTATTATTAATCT
Found at i:5217325 original size:18 final size:20
Alignment explanation
Indices: 5217297--5217333 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5217287 TAATAAATGT
5217297 ATTTTATTTA-TTTAAAATC
1 ATTTTATTTATTTTAAAATC
5217316 ATTTTA-TTATTTTAAAAT
1 ATTTTATTTATTTTAAAAT
5217334 AATTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTATTTATTTTAAAATC
Found at i:5217450 original size:20 final size:21
Alignment explanation
Indices: 5217407--5217451 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
5217397 ATGAATAAGT
*
5217407 TATAATTAAATTGATCAATAA
1 TATAATTAAATTAATCAATAA
* *
5217428 TATAA-TAAATTAATTAATTA
1 TATAATTAAATTAATCAATAA
5217448 TATA
1 TATA
5217452 TTTTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAATTAAATTAATCAATAA
Found at i:5218048 original size:4 final size:4
Alignment explanation
Indices: 5218033--5218068 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
5218023 TACATATATA
5218033 TATG TATAG TATG TATG TATG TATG TATG TATG TAT
1 TATG TAT-G TATG TATG TATG TATG TATG TATG TAT
5218069 ATTTTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5218964 original size:15 final size:16
Alignment explanation
Indices: 5218944--5218974 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5218934 ATGAATTGCG
5218944 AATC-AAAAAATCAAA
1 AATCAAAAAAATCAAA
5218959 AATCAAAAAAATCAAA
1 AATCAAAAAAATCAAA
5218975 TTGAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (16 bp):
AATCAAAAAAATCAAA
Found at i:5219076 original size:11 final size:11
Alignment explanation
Indices: 5219057--5219114 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
5219047 ATTTTATACC
*
5219057 AAATCTATTTA
1 AAATATATTTA
*
5219068 AAATATATTAA
1 AAATATATTTA
5219079 AAAT-TATATTA
1 AAATATAT-TTA
*
5219090 AAATAATATATA
1 AAAT-ATATTTA
5219102 AAA-A-ATTTA
1 AAATATATTTA
5219111 AAAT
1 AAAT
5219115 TTAAAAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
9 7 0.18
10 4 0.11
11 19 0.50
12 5 0.13
13 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATATTTA
Found at i:5219082 original size:22 final size:24
Alignment explanation
Indices: 5219057--5219105 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
5219047 ATTTTATACC
5219057 AAATCTAT-TTAAAAT-ATAT-TAA
1 AAAT-TATATTAAAATAATATATAA
5219079 AAATTATATTAAAATAATATATAA
1 AAATTATATTAAAATAATATATAA
5219103 AAA
1 AAA
5219106 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 11 0.46
23 4 0.17
24 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTATATTAAAATAATATATAA
Found at i:5219088 original size:12 final size:12
Alignment explanation
Indices: 5219062--5219108 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
5219052 ATACCAAATC
*
5219062 TATTTAAAA-TA
1 TATTAAAAATTA
5219073 TATTAAAAATTA
1 TATTAAAAATTA
*
5219085 TATTAAAATAATA
1 TATTAAAA-ATTA
*
5219098 TATAAAAAATT
1 TATTAAAAATT
5219109 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 8 0.27
12 12 0.40
13 10 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATTAAAAATTA
Found at i:5222025 original size:19 final size:19
Alignment explanation
Indices: 5222001--5222043 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5221991 ATTTTTATTT
**
5222001 TATAAAAAATTTAAAAATA
1 TATAAAAAATAAAAAAATA
*
5222020 TATAAAAACTAAAAAAATA
1 TATAAAAAATAAAAAAATA
5222039 TATAA
1 TATAA
5222044 TTCAATTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
TATAAAAAATAAAAAAATA
Found at i:5224442 original size:14 final size:15
Alignment explanation
Indices: 5224423--5224460 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
5224413 TCATCCATTA
5224423 TTTTAAATATAT-AT
1 TTTTAAATATATAAT
*
5224437 TTTTAAAAATATAAT
1 TTTTAAATATATAAT
*
5224452 ATTTAAATA
1 TTTTAAATA
5224461 AAGCCTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAATATATAAT
Found at i:5226275 original size:61 final size:60
Alignment explanation
Indices: 5226208--5226333 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 60
5226198 AAAAAATGTC
* *
5226208 ACAAATTTTCACCATAAATAAT-AGAATTAT-AACATACATAAAACATAGTAAATTAAAACTT
1 ACAAATTCTCACCATAAATAATGA-AATTATGAA-ATACATAAAACATAGTAAACTAAAA-TT
* * * *
5226269 ACAAATTCTCACCATAGATGATGAAATTATGAAATATATAAAACTTAGTAAACTAAAATT
1 ACAAATTCTCACCATAAATAATGAAATTATGAAATACATAAAACATAGTAAACTAAAATT
5226329 -CAAAT
1 ACAAAT
5226334 ATGAAACAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 5 0.09
60 2 0.04
61 47 0.82
62 3 0.05
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (60 bp):
ACAAATTCTCACCATAAATAATGAAATTATGAAATACATAAAACATAGTAAACTAAAATT
Found at i:5228275 original size:32 final size:32
Alignment explanation
Indices: 5228233--5228293 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
5228223 CAATCAACAA
* *
5228233 TCGTGAGAGTCATTAAGTGCTATACGGTGGGG
1 TCGTGAGAGTCACTAAGTGCTACACGGTGGGG
*
5228265 TCGTGGGAGTCACTAAGTGCTACACGGTG
1 TCGTGAGAGTCACTAAGTGCTACACGGTG
5228294 ATCTGGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.26
Consensus pattern (32 bp):
TCGTGAGAGTCACTAAGTGCTACACGGTGGGG
Found at i:5233400 original size:19 final size:19
Alignment explanation
Indices: 5233367--5233414 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5233357 ATTATTATTA
* *
5233367 ATAATATCTAATTATAAAT
1 ATAATATATATTTATAAAT
*
5233386 ATAATATATATTTATTAAT
1 ATAATATATATTTATAAAT
5233405 -TAATA-ATATT
1 ATAATATATATT
5233415 AAAAAGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 16 0.62
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATATATTTATAAAT
Found at i:5239078 original size:22 final size:24
Alignment explanation
Indices: 5239033--5239090 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
5239023 AATTTAAGGG
*
5239033 AAAAAAT-ATGTATGAAGTTTTTT
1 AAAAAATAATTTATGAAGTTTTTT
*
5239056 AAATAA-AATTTATGAA-TTTTTT
1 AAAAAATAATTTATGAAGTTTTTT
5239078 AAAAAATAATTTA
1 AAAAAATAATTTA
5239091 ATAAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
AAAAAATAATTTATGAAGTTTTTT
Found at i:5241581 original size:30 final size:30
Alignment explanation
Indices: 5241542--5241632 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
5241532 TTGCTCCGAT
*
5241542 ACTTGGTTCATAGATTACATTTGTCACTTA
1 ACTTAGTTCATAGATTACATTTGTCACTTA
5241572 ACTTAGTTCATAGATTACATTTGTCACTTA
1 ACTTAGTTCATAGATTACATTTGTCACTTA
5241602 ACTTAGTTCATAGATTACATTTGTCACTTA
1 ACTTAGTTCATAGATTACATTTGTCACTTA
5241632 A
1 A
5241633 AACTGTGGTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (30 bp):
ACTTAGTTCATAGATTACATTTGTCACTTA
Found at i:5266064 original size:8 final size:8
Alignment explanation
Indices: 5266051--5266075 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5266041 TTACAGTTGG
5266051 TTGTAATC
1 TTGTAATC
5266059 TTGTAATC
1 TTGTAATC
5266067 TTGTAATC
1 TTGTAATC
5266075 T
1 T
5266076 GTTTATTTAT
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:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (8 bp):
TTGTAATC
Found at i:5266110 original size:22 final size:22
Alignment explanation
Indices: 5266084--5266127 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5266074 CTGTTTATTT
*
5266084 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
5266106 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
5266128 GGACAAAAAA
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:0.09, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCCTAGAATTAA
Found at i:5279193 original size:18 final size:19
Alignment explanation
Indices: 5279157--5279262 Score: 95
Period size: 17 Copynumber: 6.0 Consensus size: 19
5279147 AATTGAATTT
5279157 AAAGATTCACAAAAG-TTC
1 AAAGATTCACAAAAGATTC
5279175 AAAG-TTCACAAAAGATTC
1 AAAGATTCACAAAAGATTC
*
5279193 -AAGATTCTA-AAAA-ATTT
1 AAAGATTC-ACAAAAGATTC
**
5279210 AAA-ATTCGTAAAAGATTC
1 AAAGATTCACAAAAGATTC
*
5279228 AAAGATTTACAAAA-ATTC
1 AAAGATTCACAAAAGATTC
*
5279246 AAA-ATTCGC-AAAGATTC
1 AAAGATTCACAAAAGATTC
5279263 GCAAAAGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.04
17 32 0.44
18 29 0.40
19 8 0.11
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAGATTCACAAAAGATTC
Found at i:5279223 original size:35 final size:35
Alignment explanation
Indices: 5279157--5279262 Score: 117
Period size: 35 Copynumber: 3.0 Consensus size: 35
5279147 AATTGAATTT
* * * *
5279157 AAAGATTCACAAAAGTTCAAAGTTCACAAAAGATTC
1 AAAGATTTACAAAAATTCAAAATTC-GAAAAGATTC
*
5279193 -AAGATTCTA-AAAAATTTAAAATTCGTAAAAGATTC
1 AAAGATT-TACAAAAATTCAAAATTCG-AAAAGATTC
*
5279228 AAAGATTTACAAAAATTCAAAATTCGCAAAGATTC
1 AAAGATTTACAAAAATTCAAAATTCGAAAAGATTC
5279263 GCAAAAGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
35 37 0.63
36 22 0.37
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.26
Consensus pattern (35 bp):
AAAGATTTACAAAAATTCAAAATTCGAAAAGATTC
Found at i:5279335 original size:18 final size:18
Alignment explanation
Indices: 5279279--5279336 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
5279269 GATTTTAAAA
*
5279279 ATTCACGAGTGATTCAAG
1 ATTCACAAGTGATTCAAG
* **
5279297 ATTCATAA-AAATTCAATG
1 ATTCACAAGTGATTCAA-G
5279315 ATTCACAAGTGATTCAAG
1 ATTCACAAGTGATTCAAG
5279333 ATTC
1 ATTC
5279337 GTAAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (18 bp):
ATTCACAAGTGATTCAAG
Found at i:5279364 original size:38 final size:38
Alignment explanation
Indices: 5279256--5279356 Score: 127
Period size: 36 Copynumber: 2.7 Consensus size: 38
5279246 AAAATTCGCA
* *
5279256 AAGATTCGCAAAAGATTTT-AAAAATTCACGAGTGATTC
1 AAGATTCGTAAAA-ATTTTCAAAGATTCACGAGTGATTC
* * *
5279294 AAGATTCATAAAAA--TTCAATGATTCACAAGTGATTC
1 AAGATTCGTAAAAATTTTCAAAGATTCACGAGTGATTC
5279330 AAGATTCGTAAAAATTTTCAAAGATTC
1 AAGATTCGTAAAAATTTTCAAAGATTC
5279357 GTGAGTGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
35 2 0.04
36 29 0.55
37 1 0.02
38 21 0.40
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (38 bp):
AAGATTCGTAAAAATTTTCAAAGATTCACGAGTGATTC
Found at i:5279426 original size:21 final size:21
Alignment explanation
Indices: 5279340--5279470 Score: 66
Period size: 24 Copynumber: 5.8 Consensus size: 21
5279330 AAGATTCGTA
* *
5279340 AAAATTTTCAAAGATTCGTGAGTG
1 AAAATTTT-AAAGATTCAT-A-TC
* *
5279364 AAAATTTTAAACATTTGCACAT-
1 AAAATTTTAAAGA-TT-CATATC
* *
5279386 AAAATTTCAAAGATCCTTCATATG
1 AAAATTTTAAAGA---TTCATATC
*
5279410 AAAATTTTAGAGATTCATATC
1 AAAATTTTAAAGATTCATATC
* * * *
5279431 CAAATTTCAAAGATTCGTAATT
1 AAAATTTTAAAGATTCAT-ATC
5279453 AAAACTTTTAAAGATTCA
1 AAAA-TTTTAAAGATTCA
5279471 AATCCAAGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
21 21 0.26
22 16 0.20
23 20 0.24
24 24 0.29
25 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAATTTTAAAGATTCATATC
Found at i:5279476 original size:44 final size:45
Alignment explanation
Indices: 5279387--5279477 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 45
5279377 TTTGCACATA
* * *
5279387 AAATTTCAAAGATCCTTCATATGAAAATTTTAGAGATTCATATCC
1 AAATTTCAAAGATCCGTCATATGAAAATTTTAAAGATTCAAATCC
* *
5279432 AAATTTCAAAGATTCGT-A-ATTAAAACTTTTAAAGATTCAAATCC
1 AAATTTCAAAGATCCGTCATATGAAAA-TTTTAAAGATTCAAATCC
5279476 AA
1 AA
5279478 GATTAAGGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 6 0.15
44 19 0.47
45 15 0.38
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (45 bp):
AAATTTCAAAGATCCGTCATATGAAAATTTTAAAGATTCAAATCC
Found at i:5279510 original size:42 final size:43
Alignment explanation
Indices: 5279410--5279510 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 43
5279400 CCTTCATATG
*
5279410 AAAATTTTAGAGATTCATATCCAAATTTCAAAGATTCGTAATTA
1 AAAATTTTAGAGATTCAAATCCAAATTT-AAAGATTCGTAATTA
* * * * *
5279454 AAACTTTTAAAGATTCAAATCCAAGA-TT-AAGGTTCTTATTTA
1 AAAATTTTAGAGATTCAAATCCAA-ATTTAAAGATTCGTAATTA
*
5279496 AAAATCTTAGAGATT
1 AAAATTTTAGAGATT
5279511 TACATTTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
42 23 0.49
44 23 0.49
45 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (43 bp):
AAAATTTTAGAGATTCAAATCCAAATTTAAAGATTCGTAATTA
Found at i:5280470 original size:15 final size:15
Alignment explanation
Indices: 5280429--5280495 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 15
5280419 TAAGTATAAA
*
5280429 GTTTATGAATGTAAT
1 GTTTATGAATGCAAT
* *
5280444 G--CATGAAAGCAAT
1 GTTTATGAATGCAAT
5280457 GTTTATGAATGCAAT
1 GTTTATGAATGCAAT
*
5280472 G--CATGAATGCAAT
1 GTTTATGAATGCAAT
5280485 GTTTATGAATG
1 GTTTATGAATG
5280496 TAATACAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 22 0.54
15 19 0.46
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.34
Consensus pattern (15 bp):
GTTTATGAATGCAAT
Found at i:5280507 original size:28 final size:28
Alignment explanation
Indices: 5280429--5280511 Score: 130
Period size: 28 Copynumber: 3.0 Consensus size: 28
5280419 TAAGTATAAA
*
5280429 GTTTATGAATGTAATGCATGAAAGCAAT
1 GTTTATGAATGTAATGCATGAATGCAAT
*
5280457 GTTTATGAATGCAATGCATGAATGCAAT
1 GTTTATGAATGTAATGCATGAATGCAAT
* *
5280485 GTTTATGAATGTAATACAAGAATGCAA
1 GTTTATGAATGTAATGCATGAATGCAA
5280512 CTTTAAATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (28 bp):
GTTTATGAATGTAATGCATGAATGCAAT
Found at i:5281343 original size:21 final size:22
Alignment explanation
Indices: 5281318--5281375 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
5281308 TTCCTTATTT
5281318 TTTCTTTTTTTTTTTCAT-ATC
1 TTTCTTTTTTTTTTTCATCATC
* * * *
5281339 TTTCTCATTTTTTGTTCCTCATT
1 TTTCT-TTTTTTTTTTCATCATC
*
5281362 TTTCTTTTTCTTTT
1 TTTCTTTTTTTTTT
5281376 CATTTTTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTCTTTTTTTTTTTCATCATC
Found at i:5281746 original size:25 final size:25
Alignment explanation
Indices: 5281694--5281765 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
5281684 TAAGCCCACA
*
5281694 ATTGGGCCCAGTGAGGTTCA-AGCTCG
1 ATTGGGCCCAGT-AGGTTCAGA-CCCG
*
5281720 ATTGGGCCTAGTAGGTTCAGACCCG
1 ATTGGGCCCAGTAGGTTCAGACCCG
*
5281745 ATTGGGCCCATTAGTGTTCAG
1 ATTGGGCCCAGTAG-GTTCAG
5281766 CCCAATTAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 22 0.55
26 18 0.45
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.26
Consensus pattern (25 bp):
ATTGGGCCCAGTAGGTTCAGACCCG
Found at i:5281808 original size:3 final size:3
Alignment explanation
Indices: 5281800--5281846 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
5281790 AATGGATAGC
5281800 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5281847 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5281872 original size:6 final size:6
Alignment explanation
Indices: 5281863--5281906 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
5281853 GTTGTTTCCC
*
5281863 TTTATT TTTATT TTTATT TATT-TT TTTATT TTCATTT TTTATT T
1 TTTATT TTTATT TTTATT T-TTATT TTTATT TTTA-TT TTTATT T
5281907 CTTTCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 24 0.73
7 7 0.21
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:5281890 original size:18 final size:17
Alignment explanation
Indices: 5281867--5281920 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
5281857 TTTCCCTTTA
5281867 TTTTTATTTTTATTTATT
1 TTTTTATTTTTATTT-TT
*
5281885 TTTTTATTTTCATTTTT
1 TTTTTATTTTTATTTTT
* * *
5281902 TATTTCTTTCTATTTTT
1 TTTTTATTTTTATTTTT
5281919 TT
1 TT
5281921 CCTATTTCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTATTTTT
Found at i:5282342 original size:10 final size:10
Alignment explanation
Indices: 5282327--5282365 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
5282317 ACTATCTGGG
5282327 AATTTTTTTA
1 AATTTTTTTA
*
5282337 AATTTTTTTG
1 AATTTTTTTA
*
5282347 GATTTTTTTA
1 AATTTTTTTA
5282357 AATTTTTTT
1 AATTTTTTT
5282366 GGGTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:5282372 original size:10 final size:10
Alignment explanation
Indices: 5282328--5282375 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
5282318 CTATCTGGGA
**
5282328 ATTTTTTTAA
1 ATTTTTTTGG
5282338 ATTTTTTTGG
1 ATTTTTTTGG
**
5282348 ATTTTTTTAA
1 ATTTTTTTGG
5282358 ATTTTTTTGG
1 ATTTTTTTGG
*
5282368 GTTTTTTT
1 ATTTTTTT
5282376 TTGTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:5282384 original size:20 final size:20
Alignment explanation
Indices: 5282328--5282375 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
5282318 CTATCTGGGA
5282328 ATTTTTTTAAATTTTTTTGG
1 ATTTTTTTAAATTTTTTTGG
5282348 ATTTTTTTAAATTTTTTTGG
1 ATTTTTTTAAATTTTTTTGG
*
5282368 GTTTTTTT
1 ATTTTTTT
5282376 TTGTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (20 bp):
ATTTTTTTAAATTTTTTTGG
Found at i:5286365 original size:53 final size:52
Alignment explanation
Indices: 5286257--5286365 Score: 123
Period size: 53 Copynumber: 2.1 Consensus size: 52
5286247 TGTGCTCCAC
* *
5286257 AAAAAAAATGATAGGACAAAATGCCAATGTGCTTCACTTAAAAAAAGAAGTAA
1 AAAAAAAATGATAGGACAAAATGCCAATGTGCTTCAC-TAAAAAAAAAAGAAA
* * *
5286310 AAAAAAAATGATGGGACAAGATGCTAATGTGCTATGC-C-AAAAAAATAAAGAAA
1 AAAAAAAATGATAGGACAAAATGCCAATGTGCT-T-CACTAAAAAAA-AAAGAAA
5286363 AAA
1 AAA
5286366 GAAGAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
52 7 0.15
53 38 0.79
54 2 0.04
55 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (52 bp):
AAAAAAAATGATAGGACAAAATGCCAATGTGCTTCACTAAAAAAAAAAGAAA
Found at i:5286645 original size:11 final size:11
Alignment explanation
Indices: 5286629--5286679 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
5286619 AGAGGAAGAG
5286629 AAAAAAAAATA
1 AAAAAAAAATA
5286640 AAAAAAAAGATTA
1 AAAAAAAA-A-TA
*
5286653 AAAAAAAAGTA
1 AAAAAAAAATA
* *
5286664 AGAAAAAAAGA
1 AAAAAAAAATA
5286675 AAAAA
1 AAAAA
5286680 TGATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 22 0.67
12 1 0.03
13 10 0.30
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:5286646 original size:12 final size:12
Alignment explanation
Indices: 5286629--5286672 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
5286619 AGAGGAAGAG
5286629 AAAAAAAAATAA
1 AAAAAAAAATAA
* *
5286641 AAAAAAAGATTA
1 AAAAAAAAATAA
*
5286653 AAAAAAAAGTAA
1 AAAAAAAAATAA
5286665 GAAAAAAA
1 -AAAAAAA
5286673 GAAAAAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:5286673 original size:12 final size:11
Alignment explanation
Indices: 5286629--5286679 Score: 61
Period size: 10 Copynumber: 4.5 Consensus size: 11
5286619 AGAGGAAGAG
5286629 AAAAAAAAA-T
1 AAAAAAAAAGT
5286639 AAAAAAAAAGATT
1 AAAAAAAAAG--T
5286652 AAAAAAAAAGT
1 AAAAAAAAAGT
5286663 AAGAAAAAAAG-
1 AA-AAAAAAAGT
5286674 AAAAAA
1 AAAAAA
5286680 TGATAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 13 0.35
11 5 0.14
12 8 0.22
13 11 0.30
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAAAGT
Found at i:5287633 original size:119 final size:119
Alignment explanation
Indices: 5287484--5287743 Score: 322
Period size: 119 Copynumber: 2.2 Consensus size: 119
5287474 GTCCTGGTAG
* * * *
5287484 CTTTATGTTGACTTATGATTTTATCTCGATCACCTGATCTTAGCTCGGTCTAAATCATTTCTTAT
1 CTTTATTTTGACTTATGATTTCATCCCGATCACCTGATCTTAGCTCAGTCTAAATCATTTCTTAT
* ** ** * *
5287549 AATTCATGGTTTTGTGTTGATCATTCATTTTCGACCTCGACTCAGTCTTGGTCA
66 AATTCATGATTCCGTCCTGATCATTCATTTTCAACCTCGACTCAGTCTTGATCA
* * * *
5287603 CTTTATTTTGACTTATGATTTCATCCCGATCACCTGATCTTGGCTTAGTTTAGATCATTTCTTAT
1 CTTTATTTTGACTTATGATTTCATCCCGATCACCTGATCTTAGCTCAGTCTAAATCATTTCTTAT
* * * * *
5287668 GATTTATGATTCCGTCCTGATCATTCATTTTTAACCTTGACTCGGTCTTGATCA
66 AATTCATGATTCCGTCCTGATCATTCATTTTCAACCTCGACTCAGTCTTGATCA
*
5287722 CTTTATTTTAGACTCATGATTT
1 CTTTATTTT-GACTTATGATTT
5287744 AATCTTGATC
Statistics
Matches: 119, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
119 108 0.91
120 11 0.09
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (119 bp):
CTTTATTTTGACTTATGATTTCATCCCGATCACCTGATCTTAGCTCAGTCTAAATCATTTCTTAT
AATTCATGATTCCGTCCTGATCATTCATTTTCAACCTCGACTCAGTCTTGATCA
Found at i:5287891 original size:17 final size:17
Alignment explanation
Indices: 5287866--5287902 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5287856 AGCTTTACAC
*
5287866 CTTTACGAATCTTGTAT
1 CTTTACGAATCTTATAT
*
5287883 CTTTGCGAATCTTATAT
1 CTTTACGAATCTTATAT
5287900 CTT
1 CTT
5287903 ATGAATATAA
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:0.22, C:0.19, G:0.11, T:0.49
Consensus pattern (17 bp):
CTTTACGAATCTTATAT
Found at i:5288294 original size:51 final size:51
Alignment explanation
Indices: 5288235--5288360 Score: 137
Period size: 51 Copynumber: 2.5 Consensus size: 51
5288225 CACCTTTATG
* *
5288235 AAACTTGAAATCTTGCAAATCTTTCGTTCCTATGAATATGAAA-TCTTTGC
1 AAACTTGAAATCTTGCAAATCTTTCGTTCCCACGAATATGAAAGTCTTTGC
* *** * * *
5288285 AAATTTTGAAATCTTATGAATTTTTCTTTCCCACGAATCTGAAAGTCTTTGC
1 AAA-CTTGAAATCTTGCAAATCTTTCGTTCCCACGAATATGAAAGTCTTTGC
*
5288337 GAACTTGAAATCTTTGCAAATCTT
1 AAACTTGAAATC-TTGCAAATCTT
5288361 GGAGTCTTAC
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
50 3 0.05
51 39 0.67
52 16 0.28
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (51 bp):
AAACTTGAAATCTTGCAAATCTTTCGTTCCCACGAATATGAAAGTCTTTGC
Found at i:5288361 original size:18 final size:19
Alignment explanation
Indices: 5288320--5288361 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5288310 CTTTCCCACG
*
5288320 AATC-TGAAAGTCTTTGCG
1 AATCTTGAAAGTCTTTGCA
5288338 AA-CTTGAAA-TCTTTGCA
1 AATCTTGAAAGTCTTTGCA
5288355 AATCTTG
1 AATCTTG
5288362 GAGTCTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (19 bp):
AATCTTGAAAGTCTTTGCA
Found at i:5288677 original size:93 final size:93
Alignment explanation
Indices: 5288564--5288733 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
5288554 TCGTGTGAGA
* * *
5288564 TCATCTTTAGACCTATGACATC-AGTCTGGTCATTTATTTTTGA-CATTGACTCGA-TCTTGGTC
1 TCATCTTTAGACCTATGACATCAATTC-AGTCATATATTTTTGATC-TTGACTCGATTC-TGGTC
*
5288626 ATTTTATTTTAACTTACGACATCGTCCCAAT
63 ATTTCATTTTAACTTACGACATCGTCCCAAT
* * *
5288657 TCATTTTTAGACCTGTGACATCAATTCAGTTATATATTTTTGATCTTGACTCGATTCTGGTCATT
1 TCATCTTTAGACCTATGACATCAATTCAGTCATATATTTTTGATCTTGACTCGATTCTGGTCATT
*
5288722 TCATTTTGACTT
66 TCATTTTAACTT
5288734 GTGGTATCGT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
93 60 0.91
94 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (93 bp):
TCATCTTTAGACCTATGACATCAATTCAGTCATATATTTTTGATCTTGACTCGATTCTGGTCATT
TCATTTTAACTTACGACATCGTCCCAAT
Done.