Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 84 of 295
Found at i:24654745 original size:20 final size:19
Alignment explanation
Indices: 24654711--24654763 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
24654701 TACATCTCAA
*
24654711 AAAAT-TATAAAAAAACTT
1 AAAATATATATAAAAACTT
24654729 AAAAATAATATATAAAAAACTT
1 -AAAAT-ATATAT-AAAAACTT
24654751 AAAATATATATAA
1 AAAATATATATAA
24654764 TAAAAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 9 0.30
22 8 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATATATAAAAACTT
Found at i:24654746 original size:23 final size:22
Alignment explanation
Indices: 24654709--24654772 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 22
24654699 TTTACATCTC
24654709 AAAA-AAT-TATAAAAAAACTT
1 AAAATAATATATAAAAAAACTT
24654729 AAAAATAATATAT-AAAAAACTT
1 -AAAATAATATATAAAAAAACTT
24654751 AAAATATATATAATAAAAAAAC
1 AAAATA-ATAT-ATAAAAAAAC
24654773 CTCAAAACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.26
22 16 0.42
23 5 0.13
24 7 0.18
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATAATATATAAAAAAACTT
Found at i:24656931 original size:20 final size:21
Alignment explanation
Indices: 24656906--24656976 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 21
24656896 ATTATTACTT
24656906 TTATTCTT-TATTCACTATTA
1 TTATTCTTATATTCACTATTA
* *
24656926 TTATTCTTACTAATGCATTATTA
1 TTATTCTTA-T-ATTCACTATTA
24656949 TTATTCTTATATTCTACTTCATTA
1 TTATTCTTATATTC-AC-T-ATTA
24656973 TTAT
1 TTAT
24656977 ATTATTACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 8 0.20
21 3 0.07
22 3 0.07
23 19 0.46
24 8 0.20
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (21 bp):
TTATTCTTATATTCACTATTA
Found at i:24660937 original size:21 final size:20
Alignment explanation
Indices: 24660912--24660957 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
24660902 TGCATCAAAT
24660912 ATAATCATTAATAAATAAAAA
1 ATAATCATTAATAAA-AAAAA
* *
24660933 ATAATCCTTAATAAAAACAA
1 ATAATCATTAATAAAAAAAA
24660953 ATAAT
1 ATAAT
24660958 TACTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATCATTAATAAAAAAAA
Found at i:24667549 original size:22 final size:22
Alignment explanation
Indices: 24667522--24667573 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24667512 GCTCTAATAG
*
24667522 TTTTATTTATTATTG-CATTTAT
1 TTTTATTTATTATAGTC-TTTAT
24667544 TTTTATTTATTATAGTCTTTAT
1 TTTTATTTATTATAGTCTTTAT
*
24667566 TTTAATTT
1 TTTTATTT
24667574 TTTTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATTTATTATAGTCTTTAT
Found at i:24668319 original size:16 final size:16
Alignment explanation
Indices: 24668277--24668308 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24668267 TAATTACAGT
24668277 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
24668293 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
24668309 CTTATTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:24669234 original size:15 final size:15
Alignment explanation
Indices: 24669214--24669279 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
24669204 ACTACAAAAC
24669214 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
24669229 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
24669248 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
24669263 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
24669276 ATTT
1 ATTT
24669280 TTCAATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:24672113 original size:131 final size:125
Alignment explanation
Indices: 24671824--24672265 Score: 337
Period size: 125 Copynumber: 3.4 Consensus size: 125
24671814 ACGGTAAATT
* * * * *
24671824 GAAACCCAGCACGATTGGGCACGATTTATCGAATTTCTAAATACGAAACATTGCCTCATTTTAAT
1 GAAACCCAGCACGATTGGGCACGATTTATCAAACTTCCAAATACGAAATATTGCCTCATTTTATT
* * * ** *** **
24671889 TTGAGAAAACATGGACGAAACTTCAAAAGGATATTTTGTATTTTAGTCGAATGGAAAATT
66 TTAAGAAAACATAGACGAAACTTCAAAAAGATATTTCATATTTTAGTCGAAAAAAAAAAC
* * * *** ** *
24671949 GAAGCCCAGCATGATTGGGCACGACTCCCCAAACTTCCAAGCACGAAATATTGCCTCGTTTTATT
1 GAAACCCAGCACGATTGGGCACGATTTATCAAACTTCCAAATACGAAATATTGCCTCATTTTATT
* * * *
24672014 TTAAGAAAGCGTAGATGAAAATTTCAAAAAAAAAAGATATTTCATATTTTAGTCGAAAAAAAAAA
66 TTAAGAAAACATAGACG-AAACTTC-----AAAAAGATATTTCATATTTTAGTCGAAAAAAAAAA
24672079 C
125 C
* * *
24672080 GAAACCCAGCACGATTGGGCACGATTTTTCAAACTCCCCAAATACGAAATATTGACTCATTTTAT
1 GAAACCCAGCACGATTGGGCACGATTTATCAAACT-TCCAAATACGAAATATTGCCTCA-TTT-T
* * * * * * * *
24672145 AATTTTTTTTAA-AAAACATGGACGAAATTTCCAAAGGATATTCCGTATTTTGGTCGAATGAAAA
63 -A----TTTTAAGAAAACATAGACGAAACTTCAAAAAGATATTTCATATTTTAGTCGAA-AAAAA
24672209 AAAC
122 AAAC
* * * * *
24672213 AAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCTAAATACGAGATATT
1 GAAACCCAGCACGATTGGGCACGATTTATCAAACTTCC-AAATACGAAATATT
24672266 TCCTTATGTT
Statistics
Matches: 248, Mismatches: 53, Indels: 24
0.76 0.16 0.07
Matches are distributed among these distances:
125 63 0.25
126 6 0.02
131 57 0.23
132 43 0.17
133 56 0.23
134 1 0.00
135 1 0.00
137 7 0.03
138 8 0.03
139 6 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (125 bp):
GAAACCCAGCACGATTGGGCACGATTTATCAAACTTCCAAATACGAAATATTGCCTCATTTTATT
TTAAGAAAACATAGACGAAACTTCAAAAAGATATTTCATATTTTAGTCGAAAAAAAAAAC
Found at i:24673606 original size:18 final size:18
Alignment explanation
Indices: 24673573--24673623 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
24673563 GTTTGCAAGG
24673573 AAAAGAAAGCAAGAAAAACA
1 AAAAGAAA--AAGAAAAACA
*
24673593 AAAAGAAAAAGAAATACA
1 AAAAGAAAAAGAAAAACA
* *
24673611 AAATGGAAAAGAA
1 AAAAGAAAAAGAA
24673624 TAAAGAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 20 0.71
20 8 0.29
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAACA
Found at i:24682302 original size:20 final size:19
Alignment explanation
Indices: 24682279--24682321 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
24682269 AGATATTATA
24682279 AAAATATATTAGA-ACATTGT
1 AAAATATATTA-ACA-ATTGT
*
24682299 AAAATTTATTAACAATTGT
1 AAAATATATTAACAATTGT
24682318 AAAA
1 AAAA
24682322 ATTATTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAATATATTAACAATTGT
Found at i:24686939 original size:15 final size:15
Alignment explanation
Indices: 24686919--24686963 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
24686909 TTTCAAATTT
24686919 ACTTTTCTAATAAGC
1 ACTTTTCTAATAAGC
*
24686934 ACTTTTC-CAT-AGC
1 ACTTTTCTAATAAGC
24686947 ACTTTT-TAA-AAGC
1 ACTTTTCTAATAAGC
24686960 ACTT
1 ACTT
24686964 CTCACTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 17 0.65
14 2 0.08
15 7 0.27
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (15 bp):
ACTTTTCTAATAAGC
Found at i:24687505 original size:19 final size:19
Alignment explanation
Indices: 24687468--24687504 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24687458 TTATAAAAGT
24687468 TCAAAAAATATTTAAAAAA
1 TCAAAAAATATTTAAAAAA
*
24687487 TCAACAAAT-TTTAAAAAA
1 TCAAAAAATATTTAAAAAA
24687505 AAATTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAAAAATATTTAAAAAA
Found at i:24687646 original size:19 final size:19
Alignment explanation
Indices: 24687622--24687663 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24687612 TTTTTTTATA
24687622 AAAAGAAAGTAATTTAACT
1 AAAAGAAAGTAATTTAACT
24687641 AAAAGAAAGTAATTTAACT
1 AAAAGAAAGTAATTTAACT
24687660 AAAA
1 AAAA
24687664 TTTAAAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAGAAAGTAATTTAACT
Found at i:24698606 original size:35 final size:35
Alignment explanation
Indices: 24698560--24698631 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
24698550 AGAATTTTTA
24698560 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
*
24698595 ATAAAAAGGACTAATTGTTATTTGATTTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
24698630 AT
1 AT
24698632 GAATTAGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (35 bp):
ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
Found at i:24705293 original size:34 final size:33
Alignment explanation
Indices: 24705238--24705328 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 33
24705228 GTATGCATTT
* *
24705238 CTGATATTGTACTGAAATGGGCTAAGGCCCACA
1 CTGATACTGTACTGAAATGGGCTAAGACCCACA
* *
24705271 CTGATACTGTTACTGTATTGGGCTAAGACCCACA
1 CTGATACTG-TACTGAAATGGGCTAAGACCCACA
* *
24705305 CTGATATTGCGACTGAAATGGGCT
1 CTGATACTG-TACTGAAATGGGCT
24705329 TAGGCCCAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
33 8 0.17
34 40 0.83
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGACCCACA
Found at i:24728248 original size:18 final size:17
Alignment explanation
Indices: 24728222--24728258 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
24728212 CCCATGTTGT
*
24728222 AAAACTAAAAAAATATAA
1 AAAAATAAAAAAATA-AA
24728240 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
24728257 AA
1 AA
24728259 TTACACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:24728249 original size:7 final size:8
Alignment explanation
Indices: 24728229--24728258 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
24728219 TGTAAAACTA
24728229 AAAAAATAT
1 AAAAAA-AT
24728238 AAAAAAAT
1 AAAAAAAT
24728246 AAAAAAAT
1 AAAAAAAT
24728254 AAAAA
1 AAAAA
24728259 TTACACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:24731438 original size:27 final size:29
Alignment explanation
Indices: 24731377--24731438 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
24731367 AAAATAATAA
*
24731377 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
24731406 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
24731433 AAATAT
1 AAATAT
24731439 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:24731623 original size:36 final size:32
Alignment explanation
Indices: 24731583--24731656 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
24731573 TATAATAACA
* *
24731583 ATAATATAATGAATAATATATATATAGTAAAATGAT
1 ATAATAT-AT-AATAAAATATATA-AATAAAATG-T
*
24731619 ATAATATATTATAAAATATATAAATAAAATGT
1 ATAATATATAATAAAATATATAAATAAAATGT
24731651 ATAATA
1 ATAATA
24731657 ATGTAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 7 0.20
33 8 0.23
34 11 0.31
35 2 0.06
36 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATAATATATAATAAAATATATAAATAAAATGT
Found at i:24731627 original size:20 final size:19
Alignment explanation
Indices: 24731600--24731641 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
24731590 AATGAATAAT
24731600 ATATATATAGTAAAATGATATA
1 ATATAT-TA-TAAAAT-ATATA
24731622 ATATATTATAAAATATATA
1 ATATATTATAAAATATATA
24731641 A
1 A
24731642 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATTATAAAATATATA
Found at i:24733451 original size:21 final size:21
Alignment explanation
Indices: 24733427--24733498 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
24733417 ATACGCCAAA
24733427 TCTGTCATCTTCGATCTGCTC
1 TCTGTCATCTTCGATCTGCTC
* *
24733448 TCTGTCAAT-ATAGATAC-GC-C
1 TCTGTC-ATCTTCGAT-CTGCTC
24733468 AAATCTGTCATCTTCGATCTGCTC
1 ---TCTGTCATCTTCGATCTGCTC
24733492 TCTGTCA
1 TCTGTCA
24733499 ATACAGAGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 19 0.49
22 6 0.15
23 12 0.31
24 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (21 bp):
TCTGTCATCTTCGATCTGCTC
Found at i:24733663 original size:44 final size:44
Alignment explanation
Indices: 24733217--24733650 Score: 654
Period size: 44 Copynumber: 9.9 Consensus size: 44
24733207 TTCGTTATCC
24733217 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-CTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC-ATCT
* * ** * * *
24733261 CCGATCTGATCTCTAACAATATAGAGACGCCAAACCTGTTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24733305 TCGATCTGCTCTCTGTCAATACAGAAACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * * *
24733349 TTGATCTGTTCTCTGACAATACAGAGACGCCAAATCTGTCATCA
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24733393 TCGATCTGCTCTCTGACAATACAGATACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24733437 TCGATCTGCTCTCTGTCAATATAGATACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24733481 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24733525 TTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATAT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
24733569 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTATCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
24733613 TCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTG
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
24733651 CTATTGGTGA
Statistics
Matches: 351, Mismatches: 38, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
44 351 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
Found at i:24745597 original size:27 final size:29
Alignment explanation
Indices: 24745536--24745597 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
24745526 AAAATAATAA
*
24745536 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
24745565 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
24745592 AAATAT
1 AAATAT
24745598 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:24745749 original size:14 final size:14
Alignment explanation
Indices: 24745730--24745781 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
24745720 AGTAATATAA
24745730 AATATAATAAAAAT
1 AATATAATAAAAAT
*
24745744 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
24745759 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
24745773 GATATAATA
1 AATATAATA
24745782 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:24745784 original size:20 final size:19
Alignment explanation
Indices: 24745754--24745798 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
24745744 AATATAATGA
24745754 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
24745776 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
24745795 ATAA
1 ATAA
24745799 ATAAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:24745801 original size:20 final size:22
Alignment explanation
Indices: 24745731--24745798 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
24745721 GTAATATAAA
* * * *
24745731 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
24745753 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
24745774 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
24745793 ATATAA
1 ATATAA
24745799 ATAAAATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:24760023 original size:6 final size:6
Alignment explanation
Indices: 24760014--24760041 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24760004 GTAGTACCAT
24760014 TATTAG TATTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATTAG TATT
24760042 GCCTCCACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (6 bp):
TATTAG
Found at i:24764422 original size:30 final size:32
Alignment explanation
Indices: 24764362--24764424 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
24764352 ACACTTATTT
24764362 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
24764395 CACCTATGCCGAATGCAACATATATATATA
1 CACCTATGCCGAATGCAACACATAAATATA
24764425 CATATCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:24764683 original size:41 final size:41
Alignment explanation
Indices: 24764638--24764834 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
24764628 ACCGGCTCTT
*
24764638 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
24764679 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
24764720 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
24764761 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
24764802 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
24764835 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:24766862 original size:6 final size:6
Alignment explanation
Indices: 24766842--24766874 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
24766832 TCTATATTAT
24766842 AAATAA AAA-ATA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAA
24766875 AGAGGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:24768119 original size:17 final size:16
Alignment explanation
Indices: 24768081--24768112 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24768071 GAAGAAAGTT
24768081 AAAATAAGTAATATAC
1 AAAATAAGTAATATAC
24768097 AAAATAA-TAATATAC
1 AAAATAAGTAATATAC
24768112 A
1 A
24768113 CAAAATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATAAGTAATATAC
Found at i:24768364 original size:15 final size:13
Alignment explanation
Indices: 24768332--24768361 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24768322 AAAATAGTTC
*
24768332 AAAATAATATGTT
1 AAAATAATATATT
24768345 AAAATAATATATT
1 AAAATAATATATT
24768358 AAAA
1 AAAA
24768362 AATGAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATAATATATT
Found at i:24768423 original size:21 final size:21
Alignment explanation
Indices: 24768399--24768439 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24768389 TATAAAAACA
*
24768399 TGAACTAAAAA-AAAACTCAAT
1 TGAAATAAAAACAAAA-TCAAT
24768420 TGAAATAAAAACAAAATCAA
1 TGAAATAAAAACAAAATCAA
24768440 AGGGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (21 bp):
TGAAATAAAAACAAAATCAAT
Found at i:24770048 original size:44 final size:43
Alignment explanation
Indices: 24769916--24770140 Score: 141
Period size: 45 Copynumber: 5.0 Consensus size: 43
24769906 GAGACTAGCC
* * *
24769916 TTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGT
1 TTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAA-GA
** * * * **
24769961 TTGTATATTTTTATCCTG-TTCTACTACAACTTTAAAGAGATAAGGA
1 TTGTA-GCTTTAAT-CTGCTTC-ACTGCAACTTCAGGGAGATAA-GA
*
24770007 TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGA
1 TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
* * * * *
24770050 TCTGATATCTTCAACCTG-TACCTCTGCAACTTCAGGGAGATAAGA
1 T-TG-TAGCTTTAATCTGCT-TCACTGCAACTTCAGGGAGATAAGA
* * * * *
24770095 CTTGTAGCTTAAATCTGC-TCTATTGCTACCTCATGGAGATAAGA
1 -TTGTAGCTTTAATCTGCTTC-ACTGCAACTTCAGGGAGATAAGA
24770139 TT
1 TT
24770141 CGCCATCTTC
Statistics
Matches: 138, Mismatches: 32, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
43 6 0.04
44 51 0.37
45 54 0.39
46 27 0.20
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
Found at i:24770111 original size:89 final size:91
Alignment explanation
Indices: 24769915--24770139 Score: 226
Period size: 89 Copynumber: 2.5 Consensus size: 91
24769905 AGAGACTAGC
* * * * * * *
24769915 CTTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGT
1 CTTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT
* *
24769980 TCTACTACAACTTTAAAGAGATAAGGA
65 CCTACTACAACTTCAAAGAGATAAGGA
*
24770007 -TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTG-ATATCTTCAACCTGTA
1 CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT-
* **
24770070 CCT-CTGCAACTTCAGGGAGATAA-GA
65 CCTACTACAACTTCAAAGAGATAAGGA
* * * * *
24770095 CTTGTAGCTTAAATCTGC-TCTATTGCTACCTCATGGAGATAAGAT
1 CTTGTAGCTTTAATCTGCTTC-ACTGCAACTTCAGGGAGATAAGAT
24770140 TCGCCATCTT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
88 4 0.04
89 63 0.57
90 37 0.33
91 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (91 bp):
CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGTC
CTACTACAACTTCAAAGAGATAAGGA
Found at i:24770369 original size:44 final size:44
Alignment explanation
Indices: 24770319--24770612 Score: 175
Period size: 44 Copynumber: 6.6 Consensus size: 44
24770309 ATAAGATCCT
*
24770319 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATGAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * *
24770363 CAATCTTCAG-CTTGTTTCCTTGCTACCTCAGGGAGATAAGGCTA
1 CAATCTTCAGTC-TGCTCCCTTGCTACCTCAGGAAGATAAGACTA
**** ** * * * ** ** *
24770407 GTGGCTAAAATCTGCTCCCCTACTATTTTGGGAAGATAAGATTCA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-A
** * * * *
24770452 CCGTTTTCTA-TCTGC-CCCACTGCTATCTCGAGG-AGACAAGATCTA
1 CAATCTTC-AGTCTGCTCCC-TTGCTACCTC-AGGAAGATAAGA-CTA
* * * *
24770497 CAATATTCGGTCTGCTCCCTTTCTACCTCAGGAAGATAAGACAA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * * *
24770541 CAATCTTTAGTTTCCTCCCTTGCTACCTTAAGAAGATAAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
*
24770585 CAATCATT-AGCCTGCTCCCTTGCTACCT
1 CAATC-TTCAGTCTGCTCCCTTGCTACCT
24770613 TAGGGAGAGA
Statistics
Matches: 183, Mismatches: 56, Indels: 22
0.70 0.21 0.08
Matches are distributed among these distances:
43 1 0.01
44 125 0.68
45 50 0.27
46 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
Found at i:24770565 original size:178 final size:176
Alignment explanation
Indices: 24770162--24770584 Score: 424
Period size: 178 Copynumber: 2.4 Consensus size: 176
24770152 ATCTGATTCA
* * * * * * * *
24770162 TTGCTACCTCATGG-AGATAAGACCTACGATCTTTAGCCTACTCCATTGCT-GCTTAGGGAGATA
1 TTGCTACCTCA-GGAAGATAAGA-CAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATA
* * * *
24770225 AGACTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGTCTTCGATCTG
64 AGACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGGAGATAAGATTCACCGTCTTCGATCTG
** * * *
24770290 TTCCCTATTACTAAGGGAGATAAGATCCTCAATCTTCAGTCTGCTCCC
129 CCCCCTACTACTAAGGGAGACAAGATCCTCAATATTCAGTCTGCTCCC
* * ** *
24770338 TTGCTACCTCAGGAAGATGAGACTACAATCTTCAGCTTGTTTCCTTGCTACCTCAGGGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
* * * * *
24770403 GCTAGTGGCTAAAATCTGCTCCCCTACTA-TTTTGGGAAGATAAGATTCACCGTTTTCTATCTGC
66 ACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGG-AGATAAGATTCACCGTCTTCGATCTGC
* * *
24770467 CCCACTGCTATCT-CGAGGAGACAAGAT-CTACAATATTCGGTCTGCTCCC
130 CCC-CTACTA-CTAAG-GGAGACAAGATCCT-CAATATTCAGTCTGCTCCC
* * * * * *
24770516 TTTCTACCTCAGGAAGATAAGACAACAATCTTTAGTTTCCTCCCTTGCTACCTTAAGAAGATAAG
1 TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
24770581 ACTA
66 ACTA
24770585 CAATCATTAG
Statistics
Matches: 201, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
175 27 0.13
176 81 0.40
177 7 0.03
178 86 0.43
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (176 bp):
TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
ACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGGAGATAAGATTCACCGTCTTCGATCTGCC
CCCTACTACTAAGGGAGACAAGATCCTCAATATTCAGTCTGCTCCC
Found at i:24786440 original size:43 final size:42
Alignment explanation
Indices: 24786363--24786465 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 42
24786353 GATAAATCCC
* *
24786363 GCAGGCCTAGTGCTGGT-ATTATATTCGGGACTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
* *
24786404 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGAT-TATATTCGGGACTTCGTGCCTA
* *
24786447 GTAGGCTTCGTGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
24786466 AATGATATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 15 0.28
42 2 0.04
43 37 0.69
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.30
Consensus pattern (42 bp):
GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
Found at i:24787348 original size:13 final size:13
Alignment explanation
Indices: 24787310--24787375 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
24787300 AGTTTGGCAA
* *
24787310 TGCTTTTAAAAAA
1 TGCTTTTGAAAAG
*
24787323 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
24787336 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
24787349 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
24787362 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
24787375 T
1 T
24787376 TTGGTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.07
13 38 0.86
14 3 0.07
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24795218 original size:27 final size:28
Alignment explanation
Indices: 24795180--24795239 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 28
24795170 ATGATAAAAT
*
24795180 TCAAAGCAAACAAAGAG-AAAAAGATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
24795207 TCAAAGCAAACAAAGAGAAAAAAAATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
24795235 TCAAA
1 TCAAA
24795240 CACCTATCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.65, C:0.12, G:0.15, T:0.08
Consensus pattern (28 bp):
TCAAAGCAAACAAAGAGAAAAAAAATAG
Found at i:24798514 original size:47 final size:45
Alignment explanation
Indices: 24798368--24798628 Score: 190
Period size: 47 Copynumber: 5.6 Consensus size: 45
24798358 TTATCAATGC
* * * **
24798368 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTG-G-GCCGATG
* * * * *
24798417 CATGTCCCAGGCATGTCTTACACTAGCACAGCTCT-T-AGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGGGCCGATG
* *
24798461 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTG-TG-GGCCGATG
*
24798508 CATGTCCTAGACATGTCTTACACTGGCACTCATCTCTGT--GCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTGGGCCGATG
* * * * * *
24798554 CCATATCCCAGACATGGACTTACACTAGCTCTCATAATGT-GGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTGGGCCGATG
24798602 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
24798629 GCACAAATCA
Statistics
Matches: 170, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
43 5 0.03
44 28 0.16
45 3 0.02
46 21 0.12
47 59 0.35
48 30 0.18
49 17 0.10
50 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGGGCCGATG
Found at i:24798605 original size:94 final size:92
Alignment explanation
Indices: 24798364--24798628 Score: 288
Period size: 94 Copynumber: 2.8 Consensus size: 92
24798354 TATATTATCA
* * *
24798364 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG-CTAATGCATGTCCCAGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGAA-GCATGTCCCAGA
*
24798428 CATGTCTTACACTAGCACAGCTCTTAGCCG
63 CATGTCTTACACTGGCACAGCTCTTAGCCG
* * ** * *
24798458 ATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGTTGAGGCCGATGCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATGAGGCCGAAGCATGTCCCAGAC
*
24798520 ATGTCTTACACTGGCACTCATCTCTGT-GCCG
64 ATGTCTTACACTGGCA--CAGCTCT-TAGCCG
* * * *
24798551 ATGCCATATCCCAGACATGGACTTACACTAGCTCTCATAATGTGGCCGAAGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACAT
24798616 GTCTTACACTGGC
66 GTCTTACACTGGC
24798629 GCACAAATCA
Statistics
Matches: 141, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
91 27 0.19
92 18 0.13
93 30 0.21
94 55 0.39
95 11 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACAT
GTCTTACACTGGCACAGCTCTTAGCCG
Found at i:24801362 original size:13 final size:12
Alignment explanation
Indices: 24801341--24801373 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
24801331 AAAATTTTTG
24801341 TATTTTATATTT
1 TATTTTATATTT
24801353 TATCTTTATATTT
1 TAT-TTTATATTT
24801366 TATTTTAT
1 TATTTTAT
24801374 CTACTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:24801371 original size:18 final size:17
Alignment explanation
Indices: 24801348--24801387 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
24801338 TTGTATTTTA
24801348 TATTTTATCTTTA-TATTT
1 TATTTTATC--TACTATTT
24801366 TATTTTATCTACTATTT
1 TATTTTATCTACTATTT
24801383 TATTT
1 TATTT
24801388 ATTTGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTATCTACTATTT
Found at i:24814562 original size:87 final size:89
Alignment explanation
Indices: 24814249--24814667 Score: 434
Period size: 89 Copynumber: 4.8 Consensus size: 89
24814239 AGTTATCGTG
* * * * *
24814249 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAAATTAGAGCCACAAATCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
*
24814314 TTGTAGTGGAGCAGATTGAAA-ATA
66 TTGCAGTGGAGCAGATT-AAAGATA
* * * * *
24814338 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
* *
24814403 TTGTAGTGGAGCAGATTGAAGATA
66 TTGCAGTGGAGCAGATTAAAGATA
* * * * * *
24814427 GCAAATCTTATCTCTTTCAAGTTACAGTAGAACAGATTAAAGCCACAAATCTTATCTCTCTAAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
* * *
24814492 TTGCA-TAGAGTAGATTAAAGTTA
66 TTGCAGTGGAGCAGATTAAAGATA
* * * * * * * *
24814515 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATTTCCCTAATG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
* *
24814579 TTGCA-TGGAGCAGATTGAAGTTA
66 TTGCAGTGGAGCAGATTAAAGATA
* * * * * * * *
24814602 -TAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTAAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
24814666 TT
66 TT
24814668 ACACTAGAGT
Statistics
Matches: 280, Mismatches: 49, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
87 129 0.46
88 16 0.06
89 135 0.48
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAG
TTGCAGTGGAGCAGATTAAAGATA
Found at i:24814644 original size:44 final size:44
Alignment explanation
Indices: 24814215--24814667 Score: 403
Period size: 44 Copynumber: 10.2 Consensus size: 44
24814205 CCTATACCAT
*
24814215 TGAAGTTGCAGTGTGA-CAGATTGAAGTTATCGTGGCAAATCTTATCTCTC
1 TGAAGTTGCAGTG-GAGCAGATTGAAGTTA------CAAATCTTATCTCCC
* * * **
24814265 TGAAGTTGCAGTAGAGAAAATT-AGAGCCACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGA-AGTTACAAATCTTATCTCCC
* ** * *
24814309 TGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* * ** * *
24814354 TGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * **
24814398 TGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTT
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* * * * * ** *
24814443 TCAAGTTACAGTAGAACAGATTAAAGCCACAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * *
24814487 TAAAGTTGCA-TAGAGTAGATTAAAGTTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * *
24814530 TAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
*
24814574 T-AATGTTGCA-TGGAGCAGATTGAAGTTATAAATCTTATCTCCC
1 TGAA-GTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * *
24814617 TGAAGTTGCAATGGAGTAGATTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
*
24814661 TAAAGTT
1 TGAAGTT
24814668 ACACTAGAGT
Statistics
Matches: 336, Mismatches: 58, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
43 77 0.23
44 165 0.49
45 72 0.21
49 3 0.01
50 19 0.06
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
Found at i:24816599 original size:27 final size:28
Alignment explanation
Indices: 24816568--24816630 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
24816558 ATCTACTATA
*
24816568 TTATTTATTTGCACATGTTATT-TTATT
1 TTATTTATTTGCACATGTCATTATTATT
* ** *
24816595 TTA-TTCTTTGTGCTTGTCATTATTATT
1 TTATTTATTTGCACATGTCATTATTATT
24816622 TTATTTATT
1 TTATTTATT
24816631 CAATTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 13 0.46
27 11 0.39
28 4 0.14
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (28 bp):
TTATTTATTTGCACATGTCATTATTATT
Found at i:24817072 original size:19 final size:19
Alignment explanation
Indices: 24817048--24817109 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
24817038 AATCTTTAAG
24817048 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24817067 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24817086 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24817107 GAT
1 GAT
24817110 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24821392 original size:18 final size:18
Alignment explanation
Indices: 24821369--24821405 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24821359 TTGAATCAAG
24821369 AGTTTTTGAATTTATTTT
1 AGTTTTTGAATTTATTTT
* *
24821387 AGTTTTTTAATTTTTTTT
1 AGTTTTTGAATTTATTTT
24821405 A
1 A
24821406 ATCGAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (18 bp):
AGTTTTTGAATTTATTTT
Found at i:24824849 original size:15 final size:16
Alignment explanation
Indices: 24824823--24824855 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24824813 ATTTGATCAT
24824823 TAAAATAATAATTATA
1 TAAAATAATAATTATA
*
24824839 TAAAA-AATAATTTTA
1 TAAAATAATAATTATA
24824854 TA
1 TA
24824856 CTAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATAATTATA
Found at i:24827779 original size:11 final size:10
Alignment explanation
Indices: 24827751--24827777 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24827741 AAAAGAAGAG
24827751 TTTTTTTGTT
1 TTTTTTTGTT
24827761 TTTTTTTGTT
1 TTTTTTTGTT
24827771 TTTTTTT
1 TTTTTTT
24827778 TGAAAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:24828331 original size:3 final size:3
Alignment explanation
Indices: 24828317--24828347 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24828307 GTTGTTTTAG
*
24828317 TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24828348 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:24828332 original size:12 final size:12
Alignment explanation
Indices: 24828311--24828349 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
24828301 GAATTAGTTG
*
24828311 TTTTAGTATTAT
1 TTTTATTATTAT
24828323 TTTTATTATTAT
1 TTTTATTATTAT
*
24828335 TATTATTATTAT
1 TTTTATTATTAT
24828347 TTT
1 TTT
24828350 CTTTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:24828491 original size:26 final size:22
Alignment explanation
Indices: 24828454--24828504 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 22
24828444 TTCCTTTTTA
*
24828454 TTTTTTGTTTTCTTCGTTTGTCGTT
1 TTTTTTCTTTTCTT--TTTGT-GTT
24828479 TTTTTTCTATTTCTTTTTGTGTT
1 TTTTTTCT-TTTCTTTTTGTGTT
24828502 TTT
1 TTT
24828505 GGTTATCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 5 0.21
25 7 0.29
26 6 0.25
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTTTGTGTT
Found at i:24832371 original size:12 final size:12
Alignment explanation
Indices: 24832356--24832401 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
24832346 ATGCAGAAGG
*
24832356 AGATGCAATAAC
1 AGATGCAAGAAC
24832368 AGATGCAAGAAC
1 AGATGCAAGAAC
*
24832380 AGATGCAAGTAC
1 AGATGCAAGAAC
*
24832392 AAATGCAAGA
1 AGATGCAAGA
24832402 GCAATTGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.22, T:0.13
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:24832373 original size:24 final size:24
Alignment explanation
Indices: 24832341--24832401 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
24832331 GAAAGGTTCG
*
24832341 AACAAATGC-AGAAGGAGATGCAAT
1 AACAAATGCAAGAA-CAGATGCAAT
*
24832365 AACAGATGCAAGAACAGATGCAAGT
1 AACAAATGCAAGAACAGATGCAA-T
24832390 -ACAAATGCAAGA
1 AACAAATGCAAGA
24832402 GCAATTGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.11
Consensus pattern (24 bp):
AACAAATGCAAGAACAGATGCAAT
Found at i:24833448 original size:9 final size:9
Alignment explanation
Indices: 24833434--24833458 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24833424 ACTAAACCGA
24833434 AAATTTTGG
1 AAATTTTGG
24833443 AAATTTTGG
1 AAATTTTGG
24833452 AAATTTT
1 AAATTTT
24833459 ACCTAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
AAATTTTGG
Found at i:24834743 original size:54 final size:52
Alignment explanation
Indices: 24834613--24834762 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 52
24834603 CATTTCTTCA
* * * *
24834613 ATGCCATAGCCTAGTTATGGTCTTATAC-AGATCACCTGTATCACTTTAATCTG
1 ATGCCATAGCCCAGCTATGGTCTTATACGAAATCA-CT-TATCACTTTAATCCG
* * **
24834666 AAGCCATAGCCCAACTATGGTCTTATACGAAAATCACTTATCACTTGTTTTCCG
1 ATGCCATAGCCCAGCTATGGTCTTATACG-AAATCACTTATCACTT-TAATCCG
*
24834720 ATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCA
1 ATGCCATAGCCCAGCTATGGTCTTATAC-GAAATCACTTATCA
24834763 ATTGCCGCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 32 0.39
54 44 0.54
55 6 0.07
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGAAATCACTTATCACTTTAATCCG
Found at i:24834861 original size:17 final size:17
Alignment explanation
Indices: 24834841--24834886 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
24834831 AATCCGATGT
24834841 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
24834858 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
*
24834875 TTTCTTCAATTT
1 TTTATTCAATTT
24834887 CATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTATTCAATTTGATTA
Found at i:24841052 original size:43 final size:43
Alignment explanation
Indices: 24841004--24841093 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
24840994 ATTTATCAAC
24841004 TCAAGGGAGAATAGAAGACAAGAGATCCCAAGTTGATTGATTA
1 TCAAGGGAGAATAGAAGACAAGAGATCCCAAGTTGATTGATTA
24841047 TCAAGGGAGAATAGAAGACAAGAGATCCCAAGTTGATTGATTA
1 TCAAGGGAGAATAGAAGACAAGAGATCCCAAGTTGATTGATTA
24841090 TCAA
1 TCAA
24841094 AAACTAGTCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (43 bp):
TCAAGGGAGAATAGAAGACAAGAGATCCCAAGTTGATTGATTA
Found at i:24843811 original size:133 final size:134
Alignment explanation
Indices: 24843624--24843880 Score: 338
Period size: 133 Copynumber: 1.9 Consensus size: 134
24843614 GCTATAAATA
* * *
24843624 AGCAGATCTTATTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCACAATTCTTATCTCTCTGAAG
1 AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
* ** * * ** *
24843689 TTGCAGTAGAGTAGG-TTGAAGTA-GCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGA
66 TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
24843752 AGAC
131 AGAC
* * * * * *
24843756 AGCAGATCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCCACGATCCTTATCTCTCTGAA
1 AGCAGATCTTAT-TACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAA
24843821 GTTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
65 GTTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
24843881 AGTTGAAGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
132 11 0.10
133 59 0.56
134 5 0.05
135 30 0.29
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (134 bp):
AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
AGAC
Found at i:24843834 original size:44 final size:43
Alignment explanation
Indices: 24843624--24843835 Score: 180
Period size: 44 Copynumber: 4.8 Consensus size: 43
24843614 GCTATAAATA
* * *
24843624 AGCAGATCTTAT-TCCCTGAAGTTACAGTAGAGCAGATCGAAGCC
1 AGCA-ATCTTATCT-CCTGAAGTTGCAGTAGAGTAGATTGAAGCC
* *
24843668 A-CAATTCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-T
1 AGCAA-TCTTATCTC-CTGAAGTTGCAGTAGAGTAGATTGAAGCC
* * * *
24843711 AGCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAC
1 AGCAA-TCTTATCTCC-TGAAGTTGCAGTAGAGTAGATTGAAGCC
* * *
24843756 AGCAGATCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCC
1 AGCA-ATCTTATCT-CCTGAAGTTGCAGTAGAGTAGATTGAAGCC
* *
24843801 A-CGATCCTTATCTCTCTGAAGTTGCACTAGAGTAG
1 AGCAAT-CTTATCTC-CTGAAGTTGCAGTAGAGTAG
24843836 GATAAAAATA
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 14 0.10
44 83 0.61
45 36 0.26
46 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
AGCAATCTTATCTCCTGAAGTTGCAGTAGAGTAGATTGAAGCC
Found at i:24843926 original size:135 final size:133
Alignment explanation
Indices: 24843657--24843939 Score: 293
Period size: 135 Copynumber: 2.1 Consensus size: 133
24843647 ACAGTAGAGC
* * ** * * **
24843657 AGATCGAAGCCACAATTCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTAGCAAGTCTTA
1 AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGTAAAAATAACAAACCTTA
* * * * * * * *
24843722 TCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAGATCTTCTCTACCTAAAGTTGCAGTGG
66 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACACCAGATCTTATATACCTAAAGCTCCAATGA
24843787 AGT
131 AGT
* *
24843790 AGATTGAAGCCACGATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGATAAAAATACACAAACCT
1 AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGG-TAAAAATA-ACAAACCT
* ** *
24843855 TATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTACCA-ATTCTTATAT-CCTTTAAGCTCC
64 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGACACCAGA-TCTTATATACC-TAAAGCTCC
24843917 AATGAAGT
126 AATGAAGT
*
24843925 AGATCGAAGCTACAA
1 AGATCGAAGCCACAA
24843940 ATCTCTTCTC
Statistics
Matches: 120, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
133 43 0.36
134 9 0.08
135 68 0.57
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (133 bp):
AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGTAAAAATAACAAACCTTA
TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACACCAGATCTTATATACCTAAAGCTCCAATGA
AGT
Found at i:24845440 original size:3 final size:3
Alignment explanation
Indices: 24845432--24845456 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24845422 GTTTTAGTAA
24845432 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24845457 TCTTATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24845607 original size:27 final size:25
Alignment explanation
Indices: 24845564--24845620 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
24845554 AAATTGTTCC
24845564 TTTTTATTTTTATTTTCTTCGTTTGTCG
1 TTTTTATTTTTATTTTCTT--TTTGT-G
24845592 TTTTT-TTTTCTA-TTTCTTTTTGTG
1 TTTTTATTTT-TATTTTCTTTTTGTG
24845616 TTTTT
1 TTTTT
24845621 GTTATCAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 6 0.21
25 5 0.18
27 10 0.36
28 7 0.25
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTTATTTTCTTTTTGTG
Found at i:24857655 original size:12 final size:12
Alignment explanation
Indices: 24857638--24857671 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
24857628 ATATTAATAA
24857638 TTTTATATAATT
1 TTTTATATAATT
*
24857650 TTTTATTTAAATT
1 TTTTATAT-AATT
24857663 TTTTATATA
1 TTTTATATA
24857672 TAGATAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:24860377 original size:21 final size:22
Alignment explanation
Indices: 24860338--24860379 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24860328 TTTTTCTCTC
* *
24860338 ATTTTATCTTTTTCCAAACACT
1 ATTTTATCTTCTTCAAAACACT
24860360 ATTTT-TCTTCTTCAAAACAC
1 ATTTTATCTTCTTCAAAACAC
24860380 AACATTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTATCTTCTTCAAAACACT
Found at i:24865920 original size:31 final size:30
Alignment explanation
Indices: 24865868--24865932 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
24865858 ATATATACAT
*
24865868 TTTCTTTTAAATCTATTTATGTA-TATATTA
1 TTTCTTTTAAATCTATATATGTAGTAT-TTA
24865898 TTTCTTCTTAAATC-ATCATATGTAGTATTTA
1 TTTCTT-TTAAATCTAT-ATATGTAGTATTTA
24865929 TTTC
1 TTTC
24865933 GAGATCCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 8 0.26
31 20 0.65
32 3 0.10
ACGTcount: A:0.28, C:0.11, G:0.05, T:0.57
Consensus pattern (30 bp):
TTTCTTTTAAATCTATATATGTAGTATTTA
Found at i:24866238 original size:23 final size:22
Alignment explanation
Indices: 24866147--24866273 Score: 69
Period size: 23 Copynumber: 5.5 Consensus size: 22
24866137 TACATGAAAA
*
24866147 TTATTTTAAACTCTTTTATTAT
1 TTATTTTAAACTTTTTTATTAT
* * **
24866169 TCATTGTAAACTTTTATTATTGC
1 TTATTTTAAACTTTT-TTATTAT
* * * *
24866192 TAATTTTAAGA-TTATATAGGTAT
1 TTATTTTAA-ACTTTTTTA-TTAT
24866215 TTATTTTAAACTTTTTTA-TAT
1 TTATTTTAAACTTTTTTATTAT
*
24866236 ATTATTTTAGATATATATATTTTATTAT
1 -TTATTTTA-A-A-CT-T-TTTTATTAT
24866264 TTATTTTAAA
1 TTATTTTAAA
24866274 TTTCTCTTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 23 0.29
23 30 0.38
24 2 0.03
25 2 0.03
26 2 0.03
27 13 0.17
28 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTTTTTTATTAT
Found at i:24866876 original size:4 final size:4
Alignment explanation
Indices: 24866867--24866892 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24866857 GTCATATATG
24866867 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
24866893 TTGCTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:24872116 original size:45 final size:44
Alignment explanation
Indices: 24872036--24872126 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
24872026 AATAGGAAAA
* *
24872036 GAGAAATGGGAAACATTTAGGAATGATTATGGGTTTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGGAATGAATATAGG--TTTCCAAAATG
* *
24872082 GAGAAAT-GGAACCATTT-GGAAATGAATGTAGGTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGG-AATGAATATAGGTTTCCAAAATG
24872125 GA
1 GA
24872127 AATGAAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 13 0.32
44 2 0.05
45 18 0.45
46 7 0.17
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (44 bp):
GAGAAATGGGAAACATTTAGGAATGAATATAGGTTTCCAAAATG
Found at i:24881432 original size:16 final size:16
Alignment explanation
Indices: 24881411--24881441 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24881401 GCTCATCACA
24881411 TAGCAGCAATACAACG
1 TAGCAGCAATACAACG
*
24881427 TAGCAGCGATACAAC
1 TAGCAGCAATACAAC
24881442 ACCCTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.13
Consensus pattern (16 bp):
TAGCAGCAATACAACG
Found at i:24882048 original size:25 final size:25
Alignment explanation
Indices: 24882020--24882068 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
24882010 TACAGTTTAT
* *
24882020 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGGATATACTAC
*
24882045 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
24882069 TCAAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAC
Found at i:24901423 original size:71 final size:71
Alignment explanation
Indices: 24901307--24901446 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
24901297 AGGCGTTACA
* *
24901307 ACATGGTACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTTAAAAAATGATTCTAAGGT
1 ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
24901372 CTCAAG
66 CTCAAG
* *
24901378 ACATGGCACGCAAGTCTCGGGACATGGCAAGTAAGGTCTAAGGTCTCAAGAAATGATTCTAAGGT
1 ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
24901443 CTCA
66 CTCA
24901447 TGAAATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (71 bp):
ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
CTCAAG
Found at i:24901438 original size:21 final size:21
Alignment explanation
Indices: 24901414--24901458 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
24901404 GCAAGTAAGG
24901414 TCTAAGGTCTCAAGAAATGAT
1 TCTAAGGTCTCAAGAAATGAT
*
24901435 TCTAAGGTCTCATGAAATGAT
1 TCTAAGGTCTCAAGAAATGAT
24901456 TCT
1 TCT
24901459 TATATCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (21 bp):
TCTAAGGTCTCAAGAAATGAT
Found at i:24901466 original size:21 final size:21
Alignment explanation
Indices: 24901414--24901470 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
24901404 GCAAGTAAGG
*
24901414 TCTAAGGTCTCAAGAAATGAT
1 TCTAAGATCTCAAGAAATGAT
* *
24901435 TCTAAGGTCTCATGAAATGAT
1 TCTAAGATCTCAAGAAATGAT
* *
24901456 TCTTATATCTCAAGA
1 TCTAAGATCTCAAGA
24901471 CATACGAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
TCTAAGATCTCAAGAAATGAT
Found at i:24909656 original size:21 final size:21
Alignment explanation
Indices: 24909630--24909672 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
24909620 GGTTCGCTGT
*
24909630 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
24909651 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
24909672 A
1 A
24909673 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:24909672 original size:16 final size:16
Alignment explanation
Indices: 24909653--24909685 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24909643 TGTATTGGAT
*
24909653 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
24909669 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
24909685 T
1 T
24909686 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:24909730 original size:45 final size:44
Alignment explanation
Indices: 24909664--24909758 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
24909654 GGATTAGAGG
* *
24909664 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
24909709 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
24909753 TGTAAT
1 TGTAAT
24909759 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:24909940 original size:18 final size:17
Alignment explanation
Indices: 24909919--24909953 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24909909 TTATTATTTA
*
24909919 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24909937 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24909954 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24909947 original size:28 final size:27
Alignment explanation
Indices: 24909876--24909949 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
24909866 TATTTATTAT
*
24909876 CAAAATAAATAATTTAATCATATTTAAA
1 CAAAATATATAATTTAAT-ATATTTAAA
* * *
24909904 CATAAT-TATTATTTAATATATTTTAAT
1 CAAAATATATAATTTAATATA-TTTAAA
*
24909931 TAAAATATATAATTTAATA
1 CAAAATATATAATTTAATA
24909950 AAATTCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.08
27 18 0.49
28 16 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAAATATATAATTTAATATATTTAAA
Found at i:24910047 original size:144 final size:146
Alignment explanation
Indices: 24909839--24910109 Score: 485
Period size: 144 Copynumber: 1.9 Consensus size: 146
24909829 ATGATTATTG
24909839 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAATAAATAATTTAATCATATTTAAA
*
24909904 CATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
64 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
24909969 GAAATTTGTTTTGGTAAA
129 GAAATTTGTTTTGGTAAA
24909987 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAA-AATAAATAATTTAATCATATTTAAAC
24910049 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
24910110 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 1, Indels: 6
0.95 0.01 0.05
Matches are distributed among these distances:
143 6 0.05
144 87 0.72
147 23 0.19
148 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAATAAATAATTTAATCATATTTAAACA
TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGA
AATTTGTTTTGGTAAA
Found at i:24910084 original size:18 final size:17
Alignment explanation
Indices: 24910063--24910097 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24910053 TTATTATTAA
*
24910063 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24910081 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24910098 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24910141 original size:54 final size:54
Alignment explanation
Indices: 24910083--24910261 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
24910073 ATTAAAATAT
*
24910083 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
24910137 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
24910200 TAT
53 -AC
*
24910203 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
24910257 ATAAT
1 ATAAT
24910262 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:24910143 original size:61 final size:61
Alignment explanation
Indices: 24910078--24910265 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
24910068 TTTTAATTAA
*
24910078 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
24910139 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
24910198 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
24910259 AATATAT
1 AATATAT
24910266 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:24910176 original size:120 final size:120
Alignment explanation
Indices: 24910046--24910268 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
24910036 ATCATATTTA
* *
24910046 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24910111 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
24910166 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
24910231 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
24910269 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:24910204 original size:18 final size:17
Alignment explanation
Indices: 24910183--24910217 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24910173 TTATTATTAA
24910183 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
24910201 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
24910218 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:24910280 original size:17 final size:16
Alignment explanation
Indices: 24910258--24910304 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
24910248 ACTCAAATCA
24910258 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
24910275 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
24910289 TAAATATATGATTTAA
1 T-AATATATGATTTAA
24910305 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:24910305 original size:17 final size:17
Alignment explanation
Indices: 24910277--24910310 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24910267 ATTATAACTA
*
24910277 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
24910294 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
24910311 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:24922088 original size:21 final size:20
Alignment explanation
Indices: 24922048--24922103 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
24922038 TTAGTACTTA
* *
24922048 TTTTTTTCTTTTTTT-CTTT
1 TTTTTTTATTTTTTTAATTT
24922067 TTTTTTTATTTTTTTAAATTT
1 TTTTTTTATTTTTTT-AATTT
* * *
24922088 TATTATTATTTATTTA
1 TTTTTTTATTTTTTTA
24922104 CTTAGGAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.47
20 1 0.03
21 15 0.50
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTATTTTTTTAATTT
Found at i:24922367 original size:118 final size:118
Alignment explanation
Indices: 24922207--24922437 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
24922197 TATTTCCGAT
*
24922207 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGTAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
24922272 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGAC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGAC
****
24922325 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
24922390 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
24922438 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGAC
Found at i:24923384 original size:6 final size:6
Alignment explanation
Indices: 24923368--24923434 Score: 70
Period size: 6 Copynumber: 11.5 Consensus size: 6
24923358 ATATTTAACT
*
24923368 AAAAT- AAAATA AAAAT- AAAA-G AAAATA ATAAATAA AAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAAT-A AAAATA AAAATA
*
24923414 TAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
24923435 GAAAGATCGG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
5 17 0.32
6 26 0.49
7 8 0.15
8 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:24923384 original size:11 final size:11
Alignment explanation
Indices: 24923368--24923434 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 11
24923358 ATATTTAACT
24923368 AAAATAAAATA
1 AAAATAAAATA
*
24923379 AAAATAAAA-G
1 AAAATAAAATA
24923389 AAAATAATAAATAA
1 AAAAT-A-AAAT-A
24923403 AAAATAAAA-A
1 AAAATAAAATA
24923413 ATAAATAAAAATA
1 A-AAAT-AAAATA
24923426 AAAATAAAA
1 AAAATAAAA
24923435 GAAAGATCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 7 0.15
11 18 0.38
12 14 0.30
13 3 0.06
14 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:24923397 original size:24 final size:25
Alignment explanation
Indices: 24923369--24923438 Score: 94
Period size: 24 Copynumber: 2.9 Consensus size: 25
24923359 TATTTAACTA
24923369 AAATAAAATAAAAATAAAAGAAAAT
1 AAATAAAATAAAAATAAAAGAAAAT
*
24923394 -AAT-AAATAAAAA-ATAA-AAAAT
1 AAATAAAATAAAAATAAAAGAAAAT
24923415 AAATAAAAATAAAAATAAAAGAAA
1 AAAT-AAAATAAAAATAAAAGAAA
24923439 GATCGGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 5 0.13
22 6 0.16
23 9 0.24
24 12 0.32
25 3 0.08
26 3 0.08
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (25 bp):
AAATAAAATAAAAATAAAAGAAAAT
Found at i:24933689 original size:15 final size:14
Alignment explanation
Indices: 24933659--24933685 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24933649 AACATGTGTT
24933659 TTTTTAAATATTTA
1 TTTTTAAATATTTA
24933673 TTTTTAAATATTT
1 TTTTTAAATATTT
24933686 TATTATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:24934017 original size:49 final size:49
Alignment explanation
Indices: 24933961--24934060 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
24933951 CAAAAATTAC
* * *
24933961 TAGATTTATATAGATTTGAAGT-GGGATATTAGATTTTATATTTAAAA-AT
1 TAGATTTATATAGATTAGAAGTAGGG-TATAACATTTTATA-TTAAAATAT
* *
24934010 TAGATTTATATGGATTAGAATTAGGGTATAACATTTTATATTAAAATAT
1 TAGATTTATATAGATTAGAAGTAGGGTATAACATTTTATATTAAAATAT
24934059 TA
1 TA
24934061 TTAGAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 6 0.14
49 35 0.80
50 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (49 bp):
TAGATTTATATAGATTAGAAGTAGGGTATAACATTTTATATTAAAATAT
Found at i:24935414 original size:14 final size:14
Alignment explanation
Indices: 24935368--24935416 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
24935358 ATTGAGCTAT
* *
24935368 TTATAAAATCTTCTT
1 TTATAAAAT-TTATA
24935383 TTATAAATATTATATA
1 TTATAAA-ATT-TATA
24935399 TTATAAAATTTATA
1 TTATAAAATTTATA
24935413 TTAT
1 TTAT
24935417 TTTAAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 11 0.37
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAAATTTATA
Found at i:24939108 original size:47 final size:47
Alignment explanation
Indices: 24938999--24939097 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
24938989 CATTTGCTCA
24938999 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
1 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
* * * *
24939046 CATTTGACTAAAACCATGATTGAGCTTTGTCTATAATTTTGCAAACT
1 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
24939093 CATTT
1 CATTT
24939098 ATTTGAAACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (47 bp):
CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
Found at i:24941799 original size:19 final size:19
Alignment explanation
Indices: 24941775--24941811 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
24941765 TAGGCTTAGA
24941775 CTTGCGGATTCAATTTCTG
1 CTTGCGGATTCAATTTCTG
24941794 CTTGCGGATTCAATTTCT
1 CTTGCGGATTCAATTTCT
24941812 AGGTTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (19 bp):
CTTGCGGATTCAATTTCTG
Found at i:24944799 original size:27 final size:27
Alignment explanation
Indices: 24944737--24944787 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24944727 AATTCATCTG
* *
24944737 TAATATTAAAAATATTATGAAAACAAT
1 TAATAATAAAAAAATTATGAAAACAAT
*
24944764 TAATTATAAAAAAATTAT-AAAACA
1 TAATAATAAAAAAATTATGAAAACA
24944788 TGATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
TAATAATAAAAAAATTATGAAAACAAT
Found at i:24960784 original size:46 final size:46
Alignment explanation
Indices: 24960734--24960827 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
24960724 TCTTATGTTT
* *
24960734 TAATTTCATCAATTTTAGTTTTTATATTTTTCCAATCAATTAATTC
1 TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
*
24960780 TAATTTCATCAATTTCAATTTTTATATTTTTCGAATCAATTAATTC
1 TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
24960826 TA
1 TA
24960828 GTCCTGACTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (46 bp):
TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
Found at i:24960785 original size:23 final size:24
Alignment explanation
Indices: 24960756--24960827 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
24960746 TTTTAGTTTT
24960756 TATATTTTTCCAATCAATTAATTC
1 TATATTTTTCCAATCAATTAATTC
*
24960780 TA-A--TTT-C-ATCAATTTCAATTTT
1 TATATTTTTCCAATCAA-TT-AA-TTC
*
24960802 TATATTTTTCGAATCAATTAATTC
1 TATATTTTTCCAATCAATTAATTC
24960826 TA
1 TA
24960828 GTCCTGACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 5 0.14
22 4 0.11
23 2 0.05
24 6 0.16
25 5 0.14
26 2 0.05
27 5 0.14
ACGTcount: A:0.33, C:0.14, G:0.01, T:0.51
Consensus pattern (24 bp):
TATATTTTTCCAATCAATTAATTC
Found at i:24961479 original size:18 final size:17
Alignment explanation
Indices: 24961438--24961481 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
24961428 CAAAATTTTT
24961438 TATTTAAAT-TTAATTA
1 TATTTAAATATTAATTA
24961454 TA--TAAATATTAATGTA
1 TATTTAAATATTAAT-TA
24961470 TATTTAAATATT
1 TATTTAAATATT
24961482 TGTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 6 0.25
18 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTTAAATATTAATTA
Found at i:24963031 original size:19 final size:19
Alignment explanation
Indices: 24962996--24963033 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
24962986 GAGATGATAG
24962996 TTTGATTGAGTGAAAAAAT
1 TTTGATTGAGTGAAAAAAT
24963015 TTTGAATTGAGTGAAAAAA
1 TTTG-ATTGAGTGAAAAAA
24963034 AGTTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
TTTGATTGAGTGAAAAAAT
Found at i:24963034 original size:21 final size:19
Alignment explanation
Indices: 24962994--24963039 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
24962984 TAGAGATGAT
24962994 AGTTTGATTGAGTGAAAAA
1 AGTTTGATTGAGTGAAAAA
*
24963013 ATTTTGAATTGAGTGAAAAAA
1 AGTTTG-ATTGAGTG-AAAAA
24963034 AGTTTG
1 AGTTTG
24963040 TTATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (19 bp):
AGTTTGATTGAGTGAAAAA
Found at i:24967011 original size:15 final size:15
Alignment explanation
Indices: 24966991--24967021 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24966981 TTGGTTGGAT
*
24966991 TAGCTCTTATGAGCA
1 TAGCTCTCATGAGCA
24967006 TAGCTCTCATGAGCA
1 TAGCTCTCATGAGCA
24967021 T
1 T
24967022 TTGGAGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
TAGCTCTCATGAGCA
Found at i:24967918 original size:20 final size:20
Alignment explanation
Indices: 24967893--24967932 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24967883 GTCATGTATC
24967893 CATTGGTTTTTAATTTTATT
1 CATTGGTTTTTAATTTTATT
24967913 CATTGGTTTTTAATTTTATT
1 CATTGGTTTTTAATTTTATT
24967933 TAACTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (20 bp):
CATTGGTTTTTAATTTTATT
Found at i:24971828 original size:26 final size:26
Alignment explanation
Indices: 24971798--24971850 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24971788 TTATTGCATG
24971798 TAAGTCCCTAGCCATTTTTCATTGAT
1 TAAGTCCCTAGCCATTTTTCATTGAT
24971824 TAAGTCCCTAGCCATTTTTCATTGAT
1 TAAGTCCCTAGCCATTTTTCATTGAT
24971850 T
1 T
24971851 TTTTTTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (26 bp):
TAAGTCCCTAGCCATTTTTCATTGAT
Found at i:24977629 original size:68 final size:68
Alignment explanation
Indices: 24977453--24977634 Score: 249
Period size: 68 Copynumber: 2.7 Consensus size: 68
24977443 AGAGGTTTAA
* * *
24977453 TGTGTAAGACCATAGCTAGGCTAT-GACAACATATGGAGTCCTCCAAGACAATAAACACGGGTTT
1 TGTGTAAGACCATAGCTAGGCTATGGA-AACATATGAAGTCTTCCAAGACAATAAACACGAGTTT
24977517 ATAT
65 ATAT
* * * *
24977521 TGTTTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAGGACAGTAAACATGAGTTTA
1 TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAAGACAATAAACACGAGTTTA
24977586 TAT
66 TAT
* * * *
24977589 TGTGTAAGACTATAGCTAGGCTATGGTAACAAATGAAGTCTGCCAA
1 TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAA
24977635 AATGGAAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 98 0.98
69 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (68 bp):
TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAAGACAATAAACACGAGTTTA
TAT
Found at i:24985427 original size:12 final size:12
Alignment explanation
Indices: 24985410--24985434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24985400 GGTGTTCATT
24985410 CGGTTAACCGAC
1 CGGTTAACCGAC
24985422 CGGTTAACCGAC
1 CGGTTAACCGAC
24985434 C
1 C
24985435 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:24985608 original size:9 final size:9
Alignment explanation
Indices: 24985594--24985672 Score: 113
Period size: 9 Copynumber: 8.8 Consensus size: 9
24985584 TTTGGTTAAA
24985594 AATTACCCG
1 AATTACCCG
*
24985603 AATTACCTG
1 AATTACCCG
*
24985612 AATTACCTG
1 AATTACCCG
24985621 AATTACCCG
1 AATTACCCG
24985630 AATTACCCG
1 AATTACCCG
*
24985639 AATTAACCG
1 AATTACCCG
*
24985648 AATTAACCG
1 AATTACCCG
*
24985657 AATTAACCG
1 AATTACCCG
24985666 AATTACC
1 AATTACC
24985673 GAAAAATACC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:24986175 original size:35 final size:35
Alignment explanation
Indices: 24986136--24986206 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
24986126 CGTCGTGCCC
*
24986136 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
24986171 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
24986206 A
1 A
24986207 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:24994444 original size:35 final size:35
Alignment explanation
Indices: 24994398--24994468 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
24994388 CGTCGTGCCC
*
24994398 AGCGTCGTGCCCACGA-CTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACCT-CAACCGTGACAGAATA
24994433 AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
24994468 A
1 A
24994469 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
Found at i:24999397 original size:20 final size:20
Alignment explanation
Indices: 24999374--24999414 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24999364 AAGAATTGAG
24999374 ATAGTCGAGTGTGCATATTA
1 ATAGTCGAGTGTGCATATTA
24999394 ATAGTCGAGTGTGCATATTA
1 ATAGTCGAGTGTGCATATTA
24999414 A
1 A
24999415 CTTCATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
ATAGTCGAGTGTGCATATTA
Found at i:25000445 original size:28 final size:26
Alignment explanation
Indices: 25000387--25000438 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
25000377 ATGCAGTTAT
25000387 ATTATTTTTTTTGGTTGATTAATTAC
1 ATTATTTTTTTTGGTTGATTAATTAC
* *
25000413 TTTATTGTTTCTTTGGTTGTTTAATT
1 ATTATT-TTT-TTTGGTTGATTAATT
25000439 TGATTATGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 3 0.14
28 14 0.64
ACGTcount: A:0.17, C:0.04, G:0.13, T:0.65
Consensus pattern (26 bp):
ATTATTTTTTTTGGTTGATTAATTAC
Found at i:25016906 original size:28 final size:29
Alignment explanation
Indices: 25016875--25016939 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
25016865 TACTTCTCCG
*
25016875 ACTCTTTTTCTACTCTTTATCCTT-GTTT
1 ACTCTTTTTATACTCTTTATCCTTCGTTT
* * * *
25016903 ACTCGTTTTATTCTCTTTTTCCTTCTTTT
1 ACTCTTTTTATACTCTTTATCCTTCGTTT
25016932 A-TCTTTTT
1 ACTCTTTTT
25016940 TCTCTACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.65
Consensus pattern (29 bp):
ACTCTTTTTATACTCTTTATCCTTCGTTT
Found at i:25022287 original size:12 final size:11
Alignment explanation
Indices: 25022272--25022349 Score: 70
Period size: 12 Copynumber: 7.0 Consensus size: 11
25022262 TCCAATACAT
25022272 TATTTTATCATA
1 TATTTTAT-ATA
*
25022284 TATTTTATCTA
1 TATTTTATATA
**
25022295 TAAATTATATTA
1 TATTTTATA-TA
* *
25022307 TATTATATATTT
1 TATTTTATA-TA
25022319 TATTTTATATA
1 TATTTTATATA
25022330 TATTTT-TATA
1 TATTTTATATA
25022340 TATTTT-TATA
1 TATTTTATATA
25022350 AAATTGTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
10 14 0.25
11 15 0.27
12 26 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTTATATA
Found at i:25022301 original size:28 final size:26
Alignment explanation
Indices: 25022270--25022345 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 26
25022260 TATCCAATAC
25022270 ATTATTTTATCATATATTTTATCTATAA
1 ATTATTTTAT-ATATATTTTAT-TATAA
* *
25022298 ATTATATTATATTATATATTTTATTTTAT
1 ATTAT-TT-TA-TATATATTTTATTATAA
25022327 ATATATTTT-TATATATTTT
1 AT-TATTTTATATATATTTT
25022346 TATAAAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
26 10 0.24
28 6 0.14
29 9 0.21
30 16 0.38
31 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTTTATATATATTTTATTATAA
Found at i:25022341 original size:10 final size:10
Alignment explanation
Indices: 25022319--25022349 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
25022309 TTATATATTT
25022319 TATTTTATATA
1 TATTTT-TATA
25022330 TATTTTTATA
1 TATTTTTATA
25022340 TATTTTTATA
1 TATTTTTATA
25022350 AAATTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTTTATA
Found at i:25035004 original size:206 final size:206
Alignment explanation
Indices: 25034636--25035186 Score: 834
Period size: 206 Copynumber: 2.7 Consensus size: 206
25034626 GTAGATCTGG
*
25034636 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAATACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
25034701 GATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * **
25034766 AGAACAAATCAAAGTTTGGCGTCTCTATATTCGACGAAGAGCAGATACATAGCAGATATGGCCTT
130 AGAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTT
* * *
25034831 TAGATGTTTATA
195 CAGATGATTAGA
* * * *
25034843 CTGAAGCAGATCCAAGATGATTTGGCATCTTTGTGTTTACAAGGAACAAATCGAAGACATAGCCG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
25034908 ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
25034973 GAACAAATAAAAGTTTGGCGTCTCCATATTCGATGGAGGGTAGACACATAGCAGATCTAACCTTC
131 GAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTTC
25035038 AGATGATTAGA
196 AGATGATTAGA
*
25035049 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
25035114 ATTTGGTTTTCACGTGCTTAC-ATTGAATCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
66 ATTTGGCTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
25035178 AGAACAAAT
130 AGAACAAAT
25035187 CGAATAAGCA
Statistics
Matches: 308, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
206 301 0.98
207 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTTC
AGATGATTAGA
Done.