Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold215
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: 2124891
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 5 of 16
Found at i:693172 original size:52 final size:52
Alignment explanation
Indices: 693024--693151 Score: 229
Period size: 52 Copynumber: 2.5 Consensus size: 52
693014 CGAAATATGA
693024 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
693076 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
693128 AATTTTTCCTGCATGTATCGATAC
1 AAATTTGCCTGCATGTATCGATAC
693152 CAAGATCAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:693176 original size:13 final size:13
Alignment explanation
Indices: 693158--693185 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
693148 ATACCAAGAT
693158 CAATGTATCGATA
1 CAATGTATCGATA
693171 CAATGTATCGATA
1 CAATGTATCGATA
693184 CA
1 CA
693186 TTTGAGTAAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:693248 original size:13 final size:13
Alignment explanation
Indices: 693230--693281 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
693220 AGCTTCGTAG
693230 CGATACATTGTAT
1 CGATACATTGTAT
693243 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
693262 CGATACATTGTAT
1 CGATACATTGTAT
693275 CGATACA
1 CGATACA
693282 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:693262 original size:19 final size:19
Alignment explanation
Indices: 693238--693302 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
693228 AGCGATACAT
693238 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
693257 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
693270 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
693289 TGTATCGATACAAA
1 TGTATCGATACAAA
693303 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:693271 original size:32 final size:32
Alignment explanation
Indices: 693230--693300 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
693220 AGCTTCGTAG
693230 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
693262 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
693294 CGATACA
1 CGATACA
693301 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:696783 original size:20 final size:20
Alignment explanation
Indices: 696736--696810 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
696726 AAAAAGACAG
696736 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
* *
696756 AATATATCGATACATT-CAT
1 AATGTATCGATACATTGAAT
* * *
696775 ACATGTATCTATATATTGAAA
1 A-ATGTATCGATACATTGAAT
*
696796 AATGTATTGATACAT
1 AATGTATCGATACAT
696811 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 3 0.07
20 38 0.88
21 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:697465 original size:29 final size:29
Alignment explanation
Indices: 697377--698215 Score: 1119
Period size: 29 Copynumber: 28.9 Consensus size: 29
697367 AAAAAAAATG
*
697377 GTGCCACTAACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
**
697408 GTTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
*
697440 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
697469 ATGCCACTAACTCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
697497 GTGCCATTGACTTACGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
*
697527 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697556 -TGCCACTAACTTGTGGGCTTTGAACAA-A
1 GTGCCACTGACTTGTGGGCTTTGAA-AAGA
* *
697584 GTGCCACTGATTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
697612 GTGCCACTGACTTGCATGGGCTTTGAAAAGA
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
* * *
697643 -TGCCACTAACTTATGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697671 -TGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697698 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
**
697727 GTGCCACTGACTTGTCAGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697756 GTCGCCACCGACTCGTGTGGGCTTTGAAAAGA
1 GT-GCCACTGACT--TGTGGGCTTTGAAAAGA
697788 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
697817 GTGCCACTGAATTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697845 GTGCCACTGACTTGTGGGCTTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
697874 GTGCCACTGATTTGTGGGTTTTG-AAAGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-A
*
697903 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697931 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
697959 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
697988 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
698017 GTGCCACTAATTTGTGGGCTTTAAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
698046 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
698075 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
698104 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
698133 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
698161 GTGCCACTGACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
698190 GTGCCACTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
698216 GGGATGAACA
Statistics
Matches: 723, Mismatches: 65, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
27 5 0.01
28 221 0.31
29 371 0.51
30 56 0.08
31 25 0.03
32 45 0.06
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:697589 original size:115 final size:114
Alignment explanation
Indices: 697376--698215 Score: 1107
Period size: 115 Copynumber: 7.2 Consensus size: 114
697366 AAAAAAAAAT
* **
697376 GGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAG
* * * *
697441 TGCCACTAACTTGTGGGCTTTGAAAAGAATGCCACTAACTCGTGGGCTTTGAAAG
61 TGCCACTGACTTGTGGGCTTTGAAAA-AGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
697496 GGTGCCATTGACTTACGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGC
1 GGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
* *
697559 CACTAACTTGTGGGCTTTGAACAAAGTGCCACTGATTTGTGGGCTTTGAAAG
64 CACTGACTTGTGGGCTTTGAA-AAAGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
697611 GGTGCCACTGACTTGCATGGGCTTTGAAAAGA-TGCCACTAACTTATGGGCTTTGAAAGGA-TGC
1 GGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
** *
697674 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAG
64 CACTGACTTGTGGGCTTTGAAAAAGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** *
697726 AGTGCCACTGACTTGTCAGCTTTGAAAAGAGTCGCCACCGACTCGTGTGGGCTTTGAAAAGAGTG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGT-GCCACTGACT--TGTGGGCTTTGAAAAGAGTG
*
697791 CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGCTTTGAAAG
63 CCACTGACTTGTGGGCTTTGAAAA-AGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
697844 GGTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTGATTTGTGGGTTTTG-AAAGAAGTGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-AGTGCC
**
697908 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
65 ACTGACTTGTGGGCTTTGAAAAAGTGCCACTGACTTGTGGGCTTTGAAAG
*
697958 GGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* *
698023 CTAATTTGTGGGCTTT-AAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
66 CTGACTTGTGGGCTTTGAAAAA--GTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
698074 AGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
** *
698139 CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAG
66 CTGACTTGTGGGCTTTGAAAAAGTGCCACTGACTTGTGGGCTTTG-AAAG
*
698189 AGTGCCACTGACTTGTGGGCTTTGAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAA
698216 GGGATGAACA
Statistics
Matches: 643, Mismatches: 58, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
113 17 0.03
114 123 0.19
115 262 0.41
116 101 0.16
117 26 0.04
118 67 0.10
119 27 0.04
120 20 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (114 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
CTGACTTGTGGGCTTTGAAAAAGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:699446 original size:1 final size:1
Alignment explanation
Indices: 699442--699497 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
699432 TTTTTTGCTA
* * * * * *
699442 TTTTTTCTTGTTTTTTTTTGTTTTATTTTTTTTTGTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
699498 GGTGTAAAGG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:699455 original size:10 final size:9
Alignment explanation
Indices: 699442--699497 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
699432 TTTTTTGCTA
699442 TTTTTTCTTG
1 TTTTTT-TTG
699452 TTTTTTTT-
1 TTTTTTTTG
* *
699460 TGTTTTAT-
1 TTTTTTTTG
699468 TTTTTTTTG
1 TTTTTTTTG
699477 TTTTTTTTG
1 TTTTTTTTG
699486 TTTTTTTT-
1 TTTTTTTTG
699494 TTTT
1 TTTT
699498 GGTGTAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 16 0.39
9 19 0.46
10 6 0.15
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:699470 original size:15 final size:14
Alignment explanation
Indices: 699452--699497 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 14
699442 TTTTTTCTTG
699452 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
699466 ATTTTTTTTTGTTTT
1 -TTTTTTTTTGTTTT
699481 TTTTGTTTTT-TTTT
1 TTTT-TTTTTGTTTT
699495 TTT
1 TTT
699498 GGTGTAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:699497 original size:25 final size:25
Alignment explanation
Indices: 699440--699496 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
699430 CTTTTTTTGC
699440 TATTTTTTCTTGTTTTTTTTTGTTT
1 TATTTTTTCTTGTTTTTTTTTGTTT
*
699465 TATTTTTTTTTG-TTTTTTTTGTTT
1 TATTTTTTCTTGTTTTTTTTTGTTT
*
699489 TTTTTTTT
1 TATTTTTT
699497 TGGTGTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.04, C:0.02, G:0.07, T:0.88
Consensus pattern (25 bp):
TATTTTTTCTTGTTTTTTTTTGTTT
Found at i:709203 original size:19 final size:19
Alignment explanation
Indices: 709179--709218 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
709169 AAATAATGGG
*
709179 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
709198 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
709217 AA
1 AA
709219 ATGGCCCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:713490 original size:20 final size:20
Alignment explanation
Indices: 713461--713535 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
713451 AAAAAGACAG
713461 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
* *
713481 AATATATCGATACATT-CAT
1 AATGTATCGATACATTGAAT
*
713500 ACATGTATCGATACATTGAAA
1 A-ATGTATCGATACATTGAAT
713521 AATGTATCGATACAT
1 AATGTATCGATACAT
713536 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.06
20 43 0.90
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:725510 original size:21 final size:20
Alignment explanation
Indices: 725466--725513 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
725456 ATTTTTTGTG
725466 TTATTT-ATTTAGAATATAT
1 TTATTTAATTTAGAATATAT
*
725485 ATATTTAATTTGAGTAA-ATAT
1 TTATTTAATTT-AG-AATATAT
725506 TTATTTAA
1 TTATTTAA
725514 GATAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 13 0.54
22 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
TTATTTAATTTAGAATATAT
Found at i:729456 original size:32 final size:31
Alignment explanation
Indices: 729393--729458 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
729383 AAACTAATTC
* ** **
729393 AATTAAGTCATCTTTATTTTATCTTTTATTT
1 AATTAAGTCATATTTATTAAATCTTGGATTT
729424 AATTAAGTCATATTTACTTAAATCTTGGATTT
1 AATTAAGTCATATTTA-TTAAATCTTGGATTT
729456 AAT
1 AAT
729459 ATAACGAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (31 bp):
AATTAAGTCATATTTATTAAATCTTGGATTT
Found at i:734721 original size:20 final size:21
Alignment explanation
Indices: 734696--734734 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
734686 GAAGGTTTAC
734696 GCATAA-GTATCAATACATTT
1 GCATAATGTATCAATACATTT
*
734716 GCATAATGTATTAATACAT
1 GCATAATGTATCAATACAT
734735 CATCGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (21 bp):
GCATAATGTATCAATACATTT
Found at i:736314 original size:77 final size:77
Alignment explanation
Indices: 736129--736331 Score: 232
Period size: 77 Copynumber: 2.6 Consensus size: 77
736119 TATAGAGTTG
* *
736129 TGTAGGAACTTTCA-AGTCGATACATGTCCATTAAGATCATTTA-GTAATAGCACATTAAAACTA
1 TGTAGGAACTTTCATA-TCGATACACGTCCATTAGGATCATTTAGGTAATAGCACATTAAAACTA
736192 GTCTCTAAGGTCA
65 GTCTCTAAGGTCA
* * * ** * * * * *
736205 TATAGGAACTTTTATGTTAATATACGTCCATTAGGATTATTTAGGTACTAGCACCTTAAAATTAA
1 TGTAGGAACTTTCATATCGATACACGTCCATTAGGATCATTTAGGTAATAGCACATTAAAACT-A
*
736270 GTCTTTAAGGTCA
65 GTCTCTAAGGTCA
* *
736283 TGTAGAAACTTTCATATCGATACA-GTCCATTAGGGTCATTTAGGTAATA
1 TGTAGGAACTTTCATATCGATACACGTCCATTAGGATCATTTAGGTAATA
736332 ATACTTTGAA
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
76 33 0.33
77 38 0.38
78 30 0.30
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (77 bp):
TGTAGGAACTTTCATATCGATACACGTCCATTAGGATCATTTAGGTAATAGCACATTAAAACTAG
TCTCTAAGGTCA
Found at i:743453 original size:22 final size:22
Alignment explanation
Indices: 743428--743472 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
743418 GGTGTGGTAG
743428 TATCACTTTTCTAATGAAATAC
1 TATCACTTTTCTAATGAAATAC
743450 TATCACTTTTCTAATGAAATAC
1 TATCACTTTTCTAATGAAATAC
743472 T
1 T
743473 GCTATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (22 bp):
TATCACTTTTCTAATGAAATAC
Found at i:747091 original size:23 final size:23
Alignment explanation
Indices: 747064--747114 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
747054 ATAATACTAG
* *
747064 ATATTATATTAATAAACGAATAA
1 ATATTACATTAATAAACAAATAA
*
747087 ATATTACATTAATAAATAAATAA
1 ATATTACATTAATAAACAAATAA
747110 ATATT
1 ATATT
747115 TTATACAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATTACATTAATAAACAAATAA
Found at i:747235 original size:18 final size:19
Alignment explanation
Indices: 747184--747240 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 19
747174 ATTAATTTTT
*
747184 TTATATTTATATTTAAAAAAA
1 TTAT-TTTATA-TTATAAAAA
747205 TTATTTTA-A--ATAAAAA
1 TTATTTTATATTATAAAAA
*
747221 -TATTTTATATTATAATAA
1 TTATTTTATATTATAAAAA
747239 TT
1 TT
747241 TAAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
18 6 0.20
19 2 0.07
20 4 0.13
21 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTTTATATTATAAAAA
Found at i:752695 original size:78 final size:78
Alignment explanation
Indices: 752585--752790 Score: 243
Period size: 78 Copynumber: 2.6 Consensus size: 78
752575 GAGATAATAA
* * * * * * *
752585 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
752650 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* *
752663 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
752728 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* *
752742 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
752791 GAAATAACGA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 54 0.50
79 53 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:752782 original size:28 final size:28
Alignment explanation
Indices: 752742--752811 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
752732 GGAATAAAGC
** *
752742 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
752770 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
752798 CGAGGTTGGAGTAT
1 CGGGGTTGGAGTAT
752812 TCTTGATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:753009 original size:51 final size:51
Alignment explanation
Indices: 752801--753022 Score: 237
Period size: 52 Copynumber: 4.3 Consensus size: 51
752791 GAAATAACGA
* ** * * *
752801 GGTTGGAGTATTCTTGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAACCGG
* * * * * * *
752853 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAGACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAACCGG
* * * *
752905 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAACCGG
* **
752957 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
753008 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
753023 TCGGAAATAA
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
51 39 0.28
52 92 0.65
53 10 0.07
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
Found at i:753040 original size:28 final size:28
Alignment explanation
Indices: 753005--753078 Score: 148
Period size: 28 Copynumber: 2.6 Consensus size: 28
752995 GAAATAAAGT
753005 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
753033 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
753061 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
753079 GATGATTAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:753192 original size:51 final size:53
Alignment explanation
Indices: 753096--753214 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
753086 AACGGGATTT
* * *
753096 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
753150 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
753201 GAATATCCCCGATT
1 GAGTATCCCCGATT
753215 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:755602 original size:13 final size:13
Alignment explanation
Indices: 755584--755609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
755574 ACAAAAATCC
755584 ATGTATCGATACA
1 ATGTATCGATACA
755597 ATGTATCGATACA
1 ATGTATCGATACA
755610 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:755621 original size:33 final size:32
Alignment explanation
Indices: 755563--755629 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
755553 AAAATTTCCA
*
755563 AATGTATCGATACAAAAATCCATGTATCGATAC
1 AATGTATCGATACAAAAA-CAATGTATCGATAC
755596 AATGTATCGATACACAGAAA-AATGTATCGATAC
1 AATGTATCGATACA-A-AAACAATGTATCGATAC
755629 A
1 A
755630 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 27 0.87
34 1 0.03
35 3 0.10
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (32 bp):
AATGTATCGATACAAAAACAATGTATCGATAC
Found at i:755673 original size:19 final size:18
Alignment explanation
Indices: 755649--755716 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
755639 CAGTAGCTAA
755649 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
755668 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
755683 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
755700 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
755717 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:755689 original size:13 final size:13
Alignment explanation
Indices: 755671--755695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
755661 ACAATACTTA
755671 TGTATCGATACAT
1 TGTATCGATACAT
755684 TGTATCGATACA
1 TGTATCGATACA
755696 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:755693 original size:32 final size:32
Alignment explanation
Indices: 755652--755714 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
755642 TAGCTAATTA
*
755652 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
755684 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
755715 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:755778 original size:21 final size:21
Alignment explanation
Indices: 755752--755807 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
755742 GTTGGGACCC
755752 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
*
755773 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
755794 TGTATCGATACATT
1 TGTATCGATACATT
755808 TGGATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:756639 original size:55 final size:55
Alignment explanation
Indices: 756555--757303 Score: 814
Period size: 55 Copynumber: 13.3 Consensus size: 55
756545 ATAAAGTGTA
* * * * * *
756555 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
756610 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
756665 TCCTGCTCTTTGA-G---G--A--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
756712 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGAG-G
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GTG
* *
756767 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
756822 TCCTGCTCTTTTAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT------G
* *
756883 TCCTGCTCTCTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
756938 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * **
756993 TCCTGCTCTTTGGGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* *
757054 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
757113 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
757172 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
757231 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
757285 TCCTGCTCTTTGAGGACTG
1 TCCTGCTCTTTGAGGACTG
757304 GAAAATGGAA
Statistics
Matches: 618, Mismatches: 43, Indels: 67
0.85 0.06 0.09
Matches are distributed among these distances:
47 41 0.07
48 3 0.00
49 1 0.00
51 1 0.00
52 1 0.00
54 37 0.06
55 268 0.43
56 7 0.01
59 161 0.26
60 27 0.04
61 62 0.10
62 3 0.00
64 6 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:756968 original size:171 final size:167
Alignment explanation
Indices: 756576--757303 Score: 840
Period size: 171 Copynumber: 4.3 Consensus size: 167
756566 GAGGAGTAAA
* * *
756576 AAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAA-GTGCCACC
756641 AACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTT---GA--G--GATGCCACCAACTTGTGTG
65 AACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTG
*
756698 GGCTTT-----G-AAAGGTGTCCTGCTCTTTGAGGACTGG
129 GGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* ** *
756732 AAAATGCCACCAACTTGTGTGGGCTTCGAAAGAG-GTCCTGCTCTTTGGGGACTGAAAGGTGCCA
1 -AAGTGCCACCAACTTGTGTGGGCTTTAAAAG-GTGTCCTGCTCTTTGAGGACTGAAA-GTGCCA
* * *
756796 CCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTTAGGACTGAAAAATGCCACCAACTTGTG
63 CCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG-AAGATGCCACCAACTTGTG
* ** *
756861 TGGGCTTTGAAAGGTGAAGGCGTCCTGCTCTCTGAGGACTGGG
127 TGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT--G
* *
756904 AAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGTGCCACC
* * * * *
756969 AACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGATTGAAAGGTGCCACCAACTTGTGTG
65 AACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG-AAGATGCCACCAACTTGTGTG
* *
757034 GGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
129 GGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * *
757073 AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTGAAGGTG
1 AA-GTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCTGCTCTTTGAGGACTGAAAGTG
* * *
757138 CCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCA
60 CCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAGATGCCACCA
*
757203 ACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
120 ACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG
*
757250 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1 AA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
757304 GAAAATGGAA
Statistics
Matches: 494, Mismatches: 47, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
157 91 0.18
158 2 0.00
160 2 0.00
162 1 0.00
165 24 0.05
169 3 0.01
170 24 0.05
171 163 0.33
172 31 0.06
174 25 0.05
175 24 0.05
177 54 0.11
178 28 0.06
179 22 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (167 bp):
AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGTGCCACCA
ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGG
CTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:757041 original size:29 final size:29
Alignment explanation
Indices: 756962--757043 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 29
756952 GACTGGAAAA
*
756962 TGCCACCAACTTGTGTGGGCTTCGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
* ** * *
756991 GGTCCTGC-TCTT-TG-GGG-ATTGAAAGG
1 TG-CCACCAACTTGTGTGGGCTTTGAAAGG
757017 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
757044 AGAAAAAGCA
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
25 3 0.08
26 11 0.30
27 5 0.14
28 5 0.14
29 10 0.27
30 3 0.08
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.28
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:769888 original size:78 final size:78
Alignment explanation
Indices: 769772--769977 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 78
769762 GAGATAATAA
* * * * * * *
769772 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
769837 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* * *
769850 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
769915 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* *
769929 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
769978 GAAATAACGA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.50
79 52 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:769969 original size:28 final size:28
Alignment explanation
Indices: 769929--769998 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
769919 GGAATAAAGC
** *
769929 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
769957 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
769985 CGAGGTTGGAGTAT
1 CGGGGTTGGAGTAT
769999 TCTTGATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:770136 original size:103 final size:103
Alignment explanation
Indices: 769988--770208 Score: 250
Period size: 103 Copynumber: 2.1 Consensus size: 103
769978 GAAATAACGA
* ** * * * *
769988 GGTTGGAGTATTCTTGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGT-TCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
* ** *
770052 CCGATTAAAGGAAAATTGGTGTTTTGAAAAT-AAGACCGG
66 CCGATT-AAGAAAAATTAATATTTTGAAAATAAAG-CCGG
* *
770091 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATC
* * *
770155 CCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
65 CCCGATTAAGAAAAATTAATATTTTGAAAATAAAGCCGG
770194 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
770209 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
103 77 0.78
104 22 0.22
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAAGAAAAATTAATATTTTGAAAATAAAGCCGG
Found at i:770254 original size:27 final size:27
Alignment explanation
Indices: 770191--770266 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
770181 GAAATAAAGT
770191 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* *
770219 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
770246 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
770267 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.62
28 14 0.31
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:770350 original size:51 final size:52
Alignment explanation
Indices: 770022--770372 Score: 241
Period size: 51 Copynumber: 6.7 Consensus size: 52
770012 AAATTGGTAT
* * * * *
770022 TTTTGGAAATAAAATCGGAGTTGGAGT-TCCCCGATTAAAGGAAAATTGGTG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* * * *
770073 TTTTGAAAATAAGACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* * * *
770125 TTTT-AGCAATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAAAAATTAATA
1 TTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* * ** **** *
770176 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGAAAATA-ACGGGGTTGGAGTA
1 TTTTGAAAATAAAATCGGGGTTGGAGTAT-CCC-CGATTATAGA-AAAATT--AGTG
*** ** * * *
770232 TCCCCGATGAT-TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTG
1 T-TTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAA-AAATTAGTG
* * *
770283 TTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAG-AAAATTAGTG
1 --TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* *
770336 TTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
770373 GTGGAGAATT
Statistics
Matches: 227, Mismatches: 56, Indels: 34
0.72 0.18 0.11
Matches are distributed among these distances:
51 94 0.41
52 59 0.26
53 24 0.11
54 27 0.12
55 15 0.07
56 5 0.02
57 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
Found at i:772758 original size:13 final size:13
Alignment explanation
Indices: 772740--772765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
772730 ACAAAGATCC
772740 ATGTATCGATACA
1 ATGTATCGATACA
772753 ATGTATCGATACA
1 ATGTATCGATACA
772766 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:772761 original size:33 final size:33
Alignment explanation
Indices: 772719--772785 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
772709 AAAATTTCCA
***
772719 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
772752 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
772785 A
1 A
772786 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:772829 original size:19 final size:18
Alignment explanation
Indices: 772805--772872 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
772795 CAGTAGCTAA
772805 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
772824 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
772839 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
772856 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
772873 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:772845 original size:13 final size:13
Alignment explanation
Indices: 772827--772851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
772817 ACAATACTTA
772827 TGTATCGATACAT
1 TGTATCGATACAT
772840 TGTATCGATACA
1 TGTATCGATACA
772852 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:772849 original size:32 final size:32
Alignment explanation
Indices: 772808--772870 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
772798 TAGCTAATTA
*
772808 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
772840 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
772871 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:773763 original size:28 final size:28
Alignment explanation
Indices: 773732--773813 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 28
773722 TGAGGAGTAA
773732 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** * *
773760 AAAG-GCGTCCTACTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
773786 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAA-GTGCCACCAACTCGTGTGGGCTTT
773814 AAGAGGTGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 13
0.63 0.15 0.22
Matches are distributed among these distances:
26 8 0.21
27 12 0.32
28 14 0.37
29 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:773807 original size:55 final size:55
Alignment explanation
Indices: 773712--774459 Score: 787
Period size: 55 Copynumber: 13.3 Consensus size: 55
773702 ATAAAGTGTA
* * * * * *
773712 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
773767 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
773822 TCCTGCTCTTTGA-G---G--A--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
773869 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
773924 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGTGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
773979 TCCTGCTCTTTGA-GACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT------G
* *
774039 TCCTGCTCTCTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
774094 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * **
774149 TCCTGCTCTTTGGGGATTGAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* *
774210 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
774269 TCCCGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
774328 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
774387 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
774441 TCCTGCTCTTTGAGGACTG
1 TCCTGCTCTTTGAGGACTG
774460 GAAAATGGAA
Statistics
Matches: 610, Mismatches: 49, Indels: 69
0.84 0.07 0.09
Matches are distributed among these distances:
47 41 0.07
48 3 0.00
49 1 0.00
51 1 0.00
52 1 0.00
54 68 0.11
55 233 0.38
56 6 0.01
59 159 0.26
60 39 0.06
61 52 0.09
64 6 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:774286 original size:59 final size:56
Alignment explanation
Indices: 773838--774459 Score: 660
Period size: 59 Copynumber: 10.9 Consensus size: 56
773828 TCTTTGAGGA
**
773838 TGCCACCAACTTGTGTGGGCTTT--GAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACT-GAAGG
* * *
773893 TGCCACCAACTTGTGTGGGC-TT-CGAAAGGGGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACTG-AAGG
** **
773948 TGCCACCAACTTGTGTGGGCTTT--GAGTGGTGTCCTGCTCTTTGA-GACTAGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACT-GAAGG
* * *
774002 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCGTCCTGCTCTCTGAGGACTGGGAA-G
1 TGCCACCAACTTGTGTGGGCTTT--AA-G-AAAGGTGTCCTGCTCTTTGAGGACT--GAAGG
**
774063 TGCCACCAACTTGTGTGGGCTTTAAG--AGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACT-GAAGG
* * * *
774118 TGCCACCAACTTGTGTGGGC-TT-CGAAAGGGGTCCTGCTCTTTGGGGATTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACTG-AAGG
* * **
774173 TGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT---AAG-AAAGGTGTCCTGCTCTTTGAGGACTGAAGG
* * * *
774233 TGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTAAAGG
1 TGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGTGTCCTGCTCTTTGAGGACTGAAGG
* *
774292 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGTGTCCTGCTCTTTGAGGACTGAAGG
* *
774351 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGTGTCCTGCTCTTTGAGGACTGAAGG
774410 TGCCACCAACTTGTGTGGGCTTT--GAAAGGTGTCCTGCTCTTTGAGGACTG
1 TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACTG
774460 GAAAATGGAA
Statistics
Matches: 498, Mismatches: 47, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
53 1 0.00
54 63 0.13
55 167 0.34
56 4 0.01
58 1 0.00
59 171 0.34
60 40 0.08
61 48 0.10
62 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (56 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTCCTGCTCTTTGAGGACTGAAGG
Found at i:775462 original size:25 final size:24
Alignment explanation
Indices: 775428--775485 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
775418 AAGTAGGTTC
775428 TTTTTCTTTTCTCTCTTTTTCTTTG
1 TTTTT-TTTTCTCTCTTTTTCTTTG
* * * *
775453 TTTTGTTTTTTTGTTTTTTTTTTTG
1 TTTT-TTTTTCTCTCTTTTTCTTTG
775478 TTTTTTTT
1 TTTTTTTT
775486 CTTTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.14
25 23 0.82
26 1 0.04
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (24 bp):
TTTTTTTTTCTCTCTTTTTCTTTG
Found at i:775475 original size:12 final size:12
Alignment explanation
Indices: 775443--775485 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
775433 CTTTTCTCTC
*
775443 TTTTTCTTTGTT
1 TTTTTTTTTGTT
775455 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
775468 TTTTTTTTTGTT
1 TTTTTTTTTGTT
775480 TTTTTT
1 TTTTTT
775486 CTTTTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:775490 original size:15 final size:15
Alignment explanation
Indices: 775425--775491 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
775415 CTTAAGTAGG
*
775425 TTCTTTTTCTTTTCT
1 TTCTTTTTCTTTTTT
* *
775440 CTCTTTTTCTTTGTT
1 TTCTTTTTCTTTTTT
*
775455 TTGTTTTT-TTGTTTT
1 TTCTTTTTCTT-TTTT
*
775470 TT-TTTTTGTTTTTT
1 TTCTTTTTCTTTTTT
775484 TTCTTTTT
1 TTCTTTTT
775492 TGAAGAGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.30
15 30 0.70
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (15 bp):
TTCTTTTTCTTTTTT
Found at i:777005 original size:13 final size:13
Alignment explanation
Indices: 776968--776999 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
776958 GAATTTGAAT
*
776968 TTTATTAAAAAAA
1 TTTATTAAATAAA
776981 TTTATTAAATAAA
1 TTTATTAAATAAA
776994 TTTATT
1 TTTATT
777000 TGATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTATTAAATAAA
Found at i:778687 original size:21 final size:22
Alignment explanation
Indices: 778662--778707 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
778652 AAATATTTAT
*
778662 TTTAAAT-CAAATAAATAAAAC
1 TTTAAATACAAAAAAATAAAAC
*
778683 TTTAAATATAAAAAAATAAAAC
1 TTTAAATACAAAAAAATAAAAC
778705 TTT
1 TTT
778708 TAGTTGCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAATACAAAAAAATAAAAC
Found at i:793174 original size:1 final size:1
Alignment explanation
Indices: 793168--793347 Score: 135
Period size: 1 Copynumber: 180.0 Consensus size: 1
793158 TGTCCTCCGC
* * * * * * * *
793168 AAAAAAAAAAAAAACAAAAAAAAGAACAAAACAAAAAACAAAAAAACAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
793233 AACAAAACAAAAAAACAAAACAAAAAACAAACAAAAAACAAAAAAAAAAAACAAAAACAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
793298 CAAAAAACAAAAAACAAAAAAAAACAAAAAAAAAACAAACAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
793348 GTCCGGATGA
Statistics
Matches: 129, Mismatches: 50, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 129 1.00
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:793198 original size:24 final size:23
Alignment explanation
Indices: 793171--793346 Score: 191
Period size: 24 Copynumber: 7.5 Consensus size: 23
793161 CCTCCGCAAA
793171 AAAAAAAAAAACAAAAAAAAGAAC
1 AAAAAAAAAAACAAAAAAAA-AAC
*
793195 AAAACAAAAAACAAAAAAACAAAC
1 AAAAAAAAAAACAAAAAAA-AAAC
* *
793219 AAAAATAAAAA-AAAAACAAAAC
1 AAAAAAAAAAACAAAAAAAAAAC
*
793241 AAAAAAACAAAACAAAAAACAAAC
1 AAAAAAA-AAAACAAAAAAAAAAC
*
793265 --AAAAAACAA-AAAAAAAAAAC
1 AAAAAAAAAAACAAAAAAAAAAC
793285 AAAAACAGAAAAACAAAAAACAAAA-
1 AAAAA-A-AAAAACAAAAAA-AAAAC
793310 AACAAAAAAAAACAAAAAAAAAAC
1 AA-AAAAAAAAACAAAAAAAAAAC
793334 AAACAACAAAAAA
1 AAA-AA-AAAAAA
793347 AGTCCGGATG
Statistics
Matches: 129, Mismatches: 10, Indels: 25
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.08
21 3 0.02
22 18 0.14
23 16 0.12
24 59 0.46
25 16 0.12
26 7 0.05
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (23 bp):
AAAAAAAAAAACAAAAAAAAAAC
Found at i:793234 original size:58 final size:55
Alignment explanation
Indices: 793168--793347 Score: 204
Period size: 58 Copynumber: 3.1 Consensus size: 55
793158 TGTCCTCCGC
793168 AAAAAAAAAAAAAACAAAAAAAAGAACAAAACAAAAAACAAAAAAACAAACAAAAATA
1 AAAAAAAAAAAAAACAAAAAAAA-AACAAAA-AAAAAACAAAAAAACAAACAAAAA-A
* *
793226 AAAAAAAAACAAAACAAAAAAACAAAACAAAAAACAAAC-AAAAAACAAA-AAAAAA
1 AAAAAAAAAAAAAAC-AAAAAA-AAAACAAAAAAAAAACAAAAAAACAAACAAAAAA
* *
793281 AAACAAAAACAGAAAAACAAAAAACAAAAAACAAAAAAAAACAAAAAAA-AAACAAACAA
1 AAA-AAAAA-A-AAAAACAAAAAA-AAAACA-AAAAAAAAACAAAAAAACAAACAAAAAA
*
793340 CAAAAAAA
1 AAAAAAAA
793348 GTCCGGATGA
Statistics
Matches: 107, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
55 4 0.04
56 10 0.09
57 23 0.21
58 42 0.39
59 26 0.24
60 2 0.02
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (55 bp):
AAAAAAAAAAAAAACAAAAAAAAAACAAAAAAAAAACAAAAAAACAAACAAAAAA
Found at i:794846 original size:28 final size:28
Alignment explanation
Indices: 794776--795000 Score: 287
Period size: 28 Copynumber: 7.9 Consensus size: 28
794766 CCTCACCTTC
* *
794776 CAAAGCCCACAAGTTAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
794804 CAAAAGCCCACAAGTCAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
794833 CAAAGCCCACAAGTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
*
794860 CAGAAGCCCACAAGTCAGTGGCATCTTTT
1 CA-AAGCCCACAAGTCAGTGGCACCTTTT
* *
794889 CAAAAGCCCACAAGTTAGTGGCACATTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
794918 CAAAGCCCACAAGTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
* *
794945 CAAAAGCCCATAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
*
794974 CAAAGTCCACAAGTCAGTGGCAACCTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTT
795001 CAAAAGCACA
Statistics
Matches: 173, Mismatches: 13, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.07
28 94 0.54
29 66 0.38
30 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTT
Found at i:794918 original size:85 final size:84
Alignment explanation
Indices: 794770--794995 Score: 364
Period size: 85 Copynumber: 2.7 Consensus size: 84
794760 GACATTCCTC
*
794770 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
1 ACCTT-CAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCA
794835 AAGCCCACAAGTCAGTGGCA
65 AAGCCCACAAGTCAGTGGCA
* *
794855 ACCTTCAGAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCA
1 ACCTTCA-AAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCA
794920 AAGCCCACAAGTCAGTGGCA
65 AAGCCCACAAGTCAGTGGCA
* * *
794940 ACCTTCAAAAGCCCATAAGTTAGTGGCACCTTTTC-AAAGTCCACAAGTCAGTGGCA
1 ACCTTC-AAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA
794996 ACCTTCAAAA
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
84 21 0.16
85 109 0.83
86 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ACCTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCAA
AGCCCACAAGTCAGTGGCA
Found at i:795006 original size:28 final size:28
Alignment explanation
Indices: 794770--795041 Score: 268
Period size: 28 Copynumber: 9.6 Consensus size: 28
794760 GACATTCCTC
* *
794770 ACCTTCCAAAGCCCACAAGTTAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* *
794798 TCTTTTCAAAAGCCCACAAGTCAGTGGC-
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
794826 ACCTTTTC-AAAGCCCACAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
*
794855 ACCTTCAGAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
794883 TCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
**
794912 CATTTTC-AAAGCCCACAAGTCAGTGGCA
1 -ACCTTCAAAAGCCCACAAGTCAGTGGCA
* *
794940 ACCTTCAAAAGCCCATAAGTTAGTGGC-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
794967 ACCTTTTC-AAAGTCCACAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
* * * *
794996 ACCTTCAAAAGCACATAATTCGGT-GCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
795023 ACCTTTTCAAAAGCCCACA
1 ACC--TTCAAAAGCCCACA
795042 CAAGTTGGTG
Statistics
Matches: 202, Mismatches: 28, Indels: 27
0.79 0.11 0.11
Matches are distributed among these distances:
27 19 0.09
28 110 0.54
29 73 0.36
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:795013 original size:56 final size:56
Alignment explanation
Indices: 794770--795041 Score: 322
Period size: 56 Copynumber: 4.8 Consensus size: 56
794760 GACATTCCTC
* *
794770 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGC-
1 ACCTTCAAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCA
*
794826 ACCTTTTC-AAAGCCCACAAGTCAGTGGCAACC--TTCAGAAGCCCACAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTTAGTGGC-ACCTTTTCA-AAGCCCACAAGTCAGTGGCA
* * *
794883 TCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCAAAGCCCACAAGTCAGTGGCA
1 AC-CTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
794940 ACCTTCAAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGTCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
794996 ACCTTCAAAAGCACATAA-TTCG-GTGCAACCTTTTCAAAAGCCCACA
1 ACCTTCAAAAGCCCACAAGTTAGTG-GC-ACCTTTTC-AAAGCCCACA
795042 CAAGTTGGTG
Statistics
Matches: 190, Mismatches: 14, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
54 1 0.01
55 6 0.03
56 105 0.55
57 69 0.36
58 9 0.05
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (56 bp):
ACCTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:795032 original size:85 final size:84
Alignment explanation
Indices: 794770--795058 Score: 359
Period size: 85 Copynumber: 3.4 Consensus size: 84
794760 GACATTCCTC
*
794770 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTC
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTC
794834 AAAGCCCACAAGTCAGTGGCA
64 AAAGCCCACAAGTCAGTGGCA
* * * **
794855 ACCTTCAGAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTCA
794920 AAGCCCACAAGTCAGTGGCA
65 AAGCCCACAAGTCAGTGGCA
* * *
794940 ACCTTCAAAAGCCCATAAGTTAGTGGCACCTTTTC-AAAGTCCACAAGTCAGTGGCAACCTTCAA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC-A
* * * *
795004 AAGCACATAATTCGGT-GCA
65 AAGCCCACAAGTCAGTGGCA
*
795023 ACCTTTTCAAAAGCCCACACAAGTTGGTGGCATCTT
1 ACC--TTCAAAAG-CC-CACAAGTTAGTGGCATCTT
795059 CTTCTAAGTC
Statistics
Matches: 176, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
83 10 0.06
84 32 0.18
85 115 0.65
86 2 0.01
87 17 0.10
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (84 bp):
ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
AGCCCACAAGTCAGTGGCA
Found at i:795115 original size:43 final size:43
Alignment explanation
Indices: 795063--795197 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 43
795053 CATCTTCTTC
795063 TAAGTCCAATATCGCTGGCCTTGAATCAGAATGTTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGAATGTTGGCACCTT
* * * * * * *
795106 TAAGTCCAATGTTGCTAGTCTTGAATAAGCACATTGGTACCT-TCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAG-A-A-T-GT---TGGCACCTT
* *
795155 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGAATGTTGGCACCTT
795198 ACCTTTAAGA
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
42 1 0.01
43 29 0.43
44 1 0.01
45 2 0.03
46 2 0.03
47 3 0.04
49 29 0.43
50 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGAATGTTGGCACCTT
Found at i:795178 original size:49 final size:48
Alignment explanation
Indices: 795063--795240 Score: 186
Period size: 49 Copynumber: 3.8 Consensus size: 48
795053 CATCTTCTTC
* * **
795063 TAAGTCCAATATCGCTGGCCTTGAATCAG-A-A-TGTTGGC--ACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTACCTT
* * * * *
795106 TAAGTCCAATGTTGCTAGTCTTGAATAAGCACATTGGTACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTT-ACCTT
* * *
795155 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTACCTT
* *
795203 TAAGACCAATGTCGCTGGCCTTTAATCAGCACATTGGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGT
795241 GTCGCAATGT
Statistics
Matches: 107, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
43 24 0.22
44 1 0.01
45 1 0.01
46 4 0.04
48 37 0.35
49 40 0.37
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTACCTT
Found at i:798392 original size:20 final size:20
Alignment explanation
Indices: 798367--798441 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
798357 AAATTCCCAG
**
798367 ATGTATCGATACAAAG-ATCA
1 ATGTATCGATACATTGAAT-A
*
798387 ATGTATTGATACATTGAATA
1 ATGTATCGATACATTGAATA
798407 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
798427 ATGTATCGATACATT
1 ATGTATCGATACATT
798442 TCCTTGGCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 48 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:798506 original size:62 final size:62
Alignment explanation
Indices: 798427--798566 Score: 253
Period size: 62 Copynumber: 2.3 Consensus size: 62
798417 ACATTGAATA
*
798427 ATGTATCGATACATTTCCTTGGCAGTAGCTTTATAGCGATACATTGTATCGATACAACACTT
1 ATGTATCGATACATTTCCTTGGCAATAGCTTTATAGCGATACATTGTATCGATACAACACTT
* *
798489 ATGTATCGATACATTTCCTTGGCAATAGCTTTGTAGTGATACATTGTATCGATACAACACTT
1 ATGTATCGATACATTTCCTTGGCAATAGCTTTATAGCGATACATTGTATCGATACAACACTT
798551 ATGTATCGATACATTT
1 ATGTATCGATACATTT
798567 ACTGTTTGTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (62 bp):
ATGTATCGATACATTTCCTTGGCAATAGCTTTATAGCGATACATTGTATCGATACAACACTT
Found at i:798943 original size:49 final size:49
Alignment explanation
Indices: 798871--799098 Score: 237
Period size: 49 Copynumber: 4.6 Consensus size: 49
798861 TGTCACGAGC
* *
798871 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
798920 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * ** * * *
798969 TCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTCA-CATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTCATC-TT--TAAGT
** * * *
799021 CCAATGTCGCTGGCCTTGTCTCAGCACATTAGCA--TTCTTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
799068 CTAATGTCGCTGGCCATGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
799099 TCATTCTTCG
Statistics
Matches: 147, Mismatches: 27, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 29 0.20
49 81 0.55
50 8 0.05
52 29 0.20
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:803296 original size:29 final size:29
Alignment explanation
Indices: 803242--803298 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
803232 AAGTAAATAA
* *
803242 ATAATAAATATTAATGTATAGCATATATG
1 ATAACAAATATTAATGTATAACATATATG
* *
803271 ATAACAAATATTAATTTATAATATATAT
1 ATAACAAATATTAATGTATAACATATAT
803299 AAAAGCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (29 bp):
ATAACAAATATTAATGTATAACATATATG
Found at i:805146 original size:21 final size:22
Alignment explanation
Indices: 805121--805166 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
805111 AAATATTTAT
*
805121 TTTAAAT-CAAATAAATAAAAC
1 TTTAAATACAAAAAAATAAAAC
*
805142 TTTAAATATAAAAAAATAAAAC
1 TTTAAATACAAAAAAATAAAAC
805164 TTT
1 TTT
805167 TAGTTGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAATACAAAAAAATAAAAC
Found at i:805724 original size:22 final size:20
Alignment explanation
Indices: 805694--805733 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
805684 AATTCAAAAT
805694 TTTCACAATTTGTATCGATACA
1 TTTCACAA--TGTATCGATACA
*
805716 TTTCTCAATGTATCGATA
1 TTTCACAATGTATCGATA
805734 TCAAGCCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCACAATGTATCGATACA
Found at i:808234 original size:79 final size:79
Alignment explanation
Indices: 808079--808281 Score: 252
Period size: 79 Copynumber: 2.6 Consensus size: 79
808069 TCATATTTTT
* ** * *
808079 ATTTCTAAAACACCGATTTTCCACCGTTG-GAGATACTCC-ACCCTGTTATTTCTGAGGGGATAC
1 ATTTCTAAAACACCAATTTTCCACAATCGAG-GATACTCCAACCCCGTTATTTCTGAGGGGATAC
808142 TCAAACCTCGATTTA
65 TCAAACCTCGATTTA
* *
808157 ATTTTTAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTT-TCGAGGGGATAC
1 ATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCT-GAGGGGATAC
* *
808221 TCTAAGCC-CGATTTT
65 TC-AAACCTCGATTTA
* *
808236 ATTTCTAAAATACCAATTTTTCACAATCGAGGATACTCCAACCCCG
1 ATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCG
808282 ATTTTATTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 32 0.30
79 72 0.67
80 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
ATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACT
CAAACCTCGATTTA
Found at i:808282 original size:51 final size:51
Alignment explanation
Indices: 808215--808383 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
808205 ATTTTCGAGG
* * * * *
808215 GGATACTCTAAGCCCGATTTTA-TTTCTAAAATACCAATTTTTCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCACAATAGA
* *
808266 GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACCATAGG
1 GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACAATAGA
* *** *
808317 GGATACTCCAA-CCCTAGTTTTATTTTCAAAACATTGATTTTCCATAATCAG-
1 GGATACTCCAACCCCGA-TTTTATTTTCAAAACACCAATTTTCCACAAT-AGA
808368 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
808384 TTATTTTCGA
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
50 4 0.04
51 87 0.87
52 9 0.09
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACAATAGA
Found at i:808497 original size:79 final size:79
Alignment explanation
Indices: 808314--808497 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 79
808304 TTTCCACCAT
** *
808314 AGGGGATACTCCAACCCTAGTTTTATTTTCAAAACATTGATTTTCCATAATCAGGGATACTCCAA
1 AGGGGATACTCCAACCCTAGTTTTATTTTCAAAACACCGATTTTCCACAATCAGGGATACTCCAA
808379 CCCCGTTATTTTCG
66 CCCCGTTATTTTCG
* * * * *
808393 AGAGGATACTCTAA-CCTCGATTTTATTTTCAGAACACCGATTTTTCACAATCAGGGATACTCCA
1 AGGGGATACTCCAACCCTAG-TTTTATTTTCAAAACACCGATTTTCCACAATCAGGGATACTCCA
** *
808457 GTCCTGTTA-TTTCTG
65 ACCCCGTTATTTTC-G
808472 AGGGGATACTCCAACCCT-GTCTTTAT
1 AGGGGATACTCCAACCCTAGT-TTTAT
808498 CTCCAAAATA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 9 0.10
79 76 0.86
80 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
AGGGGATACTCCAACCCTAGTTTTATTTTCAAAACACCGATTTTCCACAATCAGGGATACTCCAA
CCCCGTTATTTTCG
Found at i:810086 original size:23 final size:23
Alignment explanation
Indices: 810042--810087 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
810032 ACTTCTCAAT
*
810042 TTCTCTAAGAATTATACCCCAAG
1 TTCTCTAAGAATTATACACCAAG
*
810065 TTCT-TAAGAGATTGTACACCAAG
1 TTCTCTAAGA-ATTATACACCAAG
810088 GTTGAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (23 bp):
TTCTCTAAGAATTATACACCAAG
Found at i:811266 original size:158 final size:157
Alignment explanation
Indices: 811095--811564 Score: 522
Period size: 158 Copynumber: 3.0 Consensus size: 157
811085 AAATTTAATA
* *
811095 TTTTAG-AGATAAAAATGAAGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTTGAT
1 TTTTAGAAG-TAAAAATGAGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTGAT
* * * * * * * *
811159 GGTAAAAAATTGATATTTT-GAAAATAAAACCGAGGTTAGAGTATCTCTTCAAAAATAACGGGAT
65 TGTGAAAAATAGATGTTTTAG-AAATAAAACCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGT
*
811223 TGGAGTATCCCCGATTGTAGAAAATTGATG
129 TGGAGTATCCCCGATTGT-GAAAATCGATG
* * * * *
811253 TTTTAGAAGTAAAACT-AGGGCTGGAGTATCCCCTCGAAAATAATAAGGTTGGAGTATCCCTGAT
1 TTTTAGAAGTAAAAATGA-GGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTGAT
* *
811317 TATGAAAAATAG-TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
65 TGTGAAAAATAGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGTT
*
811381 AGAGTATCCCCGATTGTGAAAAATCGATG
130 GGAGTATCCCCGATTGTG-AAAATCGATG
* * * * * *
811410 TTTT-GAA-AATAAAATCGAGGTTAGAGTGTCCCCAT-AGAAATAACAGGGTTGGAGTATCCTCG
1 TTTTAGAAGTA-AAAAT-GAGGTTGGAGTATCCCC-TCAAAAATAACAAGGTTGGAGTATCCTTG
* * * * *
811472 ATTGTGAAAAATCGATGTTTTAGGAATAAAGCCGGGGTTGGAGTATCTCCTCGAAAATAATGGGG
63 ATTGTGAAAAATAGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCTCAAAAATAACGGGG
* *
811537 TTGGAGTATCACCGATGGTGGAAAATCG
128 TTGGAGTATCCCCGATTGT-GAAAATCG
811565 GTATTTTAAA
Statistics
Matches: 262, Mismatches: 40, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
155 1 0.00
156 8 0.03
157 119 0.45
158 131 0.50
159 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (157 bp):
TTTTAGAAGTAAAAATGAGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTGATT
GTGAAAAATAGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGTTG
GAGTATCCCCGATTGTGAAAATCGATG
Found at i:811516 original size:236 final size:236
Alignment explanation
Indices: 811114--811546 Score: 606
Period size: 236 Copynumber: 1.8 Consensus size: 236
811104 TAAAAATGAA
** *
811114 GTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTTGATGGTAAAAAATTGATATTTTG
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTAAAAAATCGATATTTTG
*
811179 AAAATAAAACCGAGGTTAGAGTATCTCTTCAAAAATAACGGGATTGGAGTATCCCCGATTGTAGA
66 AAAATAAAACCGAGGTTAGAGTATCTCTCCAAAAATAACGGGATTGGAGTATCCCCGATTGTAGA
* *
811244 AAATTGATGTTTTAGAAGTAAAACTAGGGCTGGAGTATCCCCTCGAAAATAATAAGGTTGGAGTA
131 AAATCGATGTTTTAGAAGTAAAACCAGGGCTGGAGTATCCCCTCGAAAATAATAAGGTTGGAGTA
811309 TCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGG
196 TCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGG
** * * *
811350 GTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTG
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTAAAAAATCGATATTTTG
* * *
811415 AAAATAAAATCGAGGTTAGAGTGTC-C-CCATAGAAATAACAGGG-TTGGAGTATCCTCGATTGT
66 AAAATAAAACCGAGGTTAGAGTATCTCTCCA-A-AAATAAC-GGGATTGGAGTATCCCCGATTGT
* * * * **
811477 -GAAAAATCGATGTTTTAGGAA-TAAAGCCGGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTG
128 AG-AAAATCGATGTTTTA-GAAGTAAAACCAGGGCTGGAGTATCCCCTCGAAAATAATAAGGTTG
811540 GAGTATC
191 GAGTATC
811547 ACCGATGGTG
Statistics
Matches: 172, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
234 2 0.01
235 3 0.02
236 161 0.94
237 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (236 bp):
GTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTAAAAAATCGATATTTTG
AAAATAAAACCGAGGTTAGAGTATCTCTCCAAAAATAACGGGATTGGAGTATCCCCGATTGTAGA
AAATCGATGTTTTAGAAGTAAAACCAGGGCTGGAGTATCCCCTCGAAAATAATAAGGTTGGAGTA
TCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGG
Found at i:811562 original size:79 final size:78
Alignment explanation
Indices: 811114--811583 Score: 428
Period size: 79 Copynumber: 5.9 Consensus size: 78
811104 TAAAAATGAA
* ** * * * * * *
811114 GTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTTGATGGTAAAAAATTGATATTTT-
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CGATTGTGAAAAATCGATGTTTTA
*
811178 GAAAATAAAACCGAG
65 G-AAATAAAACCGGG
* * * * * *
811193 GTTAGAGTATCTCTTCAAAAATAACGGGATTGGAGTATCCCCGATTGT-AGAAAATTGATGTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCCGATTGTGA-AAAATCGATGTTTT
* **
811257 AGAAGTAAAACTAGG
64 AGAAATAAAACCGGG
* *** * *
811272 GCTGGAGTATCCCCTCGAAAATAATAAGGTTGGAGTATCCCTGATTATGAAAAATAG-TGTTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC-GATTGTGAAAAATCGATGTTTTA
811336 GAAATAAAACCGGG
65 GAAATAAAACCGGG
* *
811350 GTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTT-
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCCGATTGTGAAAAATCGATGTTTTA
* *
811414 GAAAATAAAATCGAG
65 G-AAATAAAACCGGG
* * * *
811429 GTTAGAGTGTCCCCATAG-AAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTT
1 GTTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCC-CGATTGTGAAAAATCGATGTTTT
* *
811493 AGGAATAAAGCCGGG
64 AGAAATAAAACCGGG
* * * * * *
811508 GTTGGAGTATCTCCTCGAAAATAATGGGGTTGGAGTATCACCGATGGTGGAAAATCGGTATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATC-CCGATTGTGAAAAATCGATGTTTTA
*
811573 AAAATGAAAAC
65 GAAAT-AAAAC
811584 ATCAATGAAA
Statistics
Matches: 316, Mismatches: 61, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
78 72 0.23
79 233 0.74
80 11 0.03
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATCGATGTTTTAG
AAATAAAACCGGG
Found at i:811607 original size:158 final size:157
Alignment explanation
Indices: 811132--811582 Score: 399
Period size: 157 Copynumber: 2.9 Consensus size: 157
811122 ATCCCCTCAA
* * ** * * * *
811132 AAATAACAAGGTTAGAGTATCCTTGATGGTAAAAAATTGATATTTT-GAAAATAAAACCGAGGTT
1 AAATAACAAGGTTGGAGTATCCCTGATTATGAAAAATAG-TGTTTTAG-AAATAAAACCGGGGTT
* * * * * * * * * *
811196 AGAGTATCTCTTCAAAAATAACGGGATTGGAGTATCCCCGATTGT-AGAAAATTGATGTTTTAGA
64 GGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCACCGATGGTGA-AAAATCGATATTTTAAA
* * * * * * *
811260 AGTAAAACTAGGGCTG-GAGTATCCCC-TCG
128 AATAAAA-TCGAGATGAAAGTGTCCCCATAG
*
811289 AAAATAATAAGGTTGGAGTATCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGGGTTG
1 -AAATAACAAGGTTGGAGTATCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGGGTTG
* * * *
811354 GAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAA
65 GAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCACCGATGGTGAAAAATCGATATTTTAAAAA
* * *
811419 TAAAATCGAGGTTAGAGTGTCCCCATAG
130 TAAAATCGAGATGAAAGTGTCCCCATAG
* * * * *
811447 AAATAACAGGGTTGGAGTAT-CCTCGATTGTGAAAAATCGATGTTTTAGGAATAAAGCCGGGGTT
1 AAATAACAAGGTTGGAGTATCCCT-GATTATGAAAAATAG-TGTTTTAGAAATAAAACCGGGGTT
* * * * * *
811511 GGAGTATCTCCTCGAAAATAATGGGGTTGGAGTATCACCGATGGTGGAAAATCGGTATTTTAAAA
64 GGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCACCGATGGTGAAAAATCGATATTTTAAAA
811576 ATGAAAA
129 AT-AAAA
811583 CATCAATGAA
Statistics
Matches: 246, Mismatches: 40, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
156 7 0.03
157 120 0.49
158 115 0.47
159 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (157 bp):
AAATAACAAGGTTGGAGTATCCCTGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCAAAAATAACGGGGTTAGAGTATCACCGATGGTGAAAAATCGATATTTTAAAAAT
AAAATCGAGATGAAAGTGTCCCCATAG
Found at i:814685 original size:13 final size:13
Alignment explanation
Indices: 814667--814691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814657 GCATTTCACC
814667 ATGTATCGATACA
1 ATGTATCGATACA
814680 ATGTATCGATAC
1 ATGTATCGATAC
814692 TGAGTGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:814765 original size:19 final size:20
Alignment explanation
Indices: 814719--814773 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
814709 TTACCAGTTT
*
814719 TATGTATCGATACAATTCAA
1 TATGTATCGATACAATTAAA
* *
814739 TGTGTATCGATACTA-TAAA
1 TATGTATCGATACAATTAAA
814758 TATGTATCGATACAAT
1 TATGTATCGATACAAT
814774 ATATTGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
TATGTATCGATACAATTAAA
Found at i:815813 original size:12 final size:12
Alignment explanation
Indices: 815796--815830 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
815786 ACAACTAGCA
*
815796 TATGACTACTCC
1 TATGACTAATCC
815808 TATGACTAATCC
1 TATGACTAATCC
*
815820 TACGACTAATC
1 TATGACTAATC
815831 GTCACTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (12 bp):
TATGACTAATCC
Found at i:818267 original size:19 final size:19
Alignment explanation
Indices: 818243--818299 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
818233 TAACTATATC
818243 GATACATAAGTGTTGTACT
1 GATACATAAGTGTTGTACT
*
818262 GATAC--AA-TG-TAT-C-
1 GATACATAAGTGTTGTACT
*
818275 GATACATAAGTGTTGTATT
1 GATACATAAGTGTTGTACT
818294 GATACA
1 GATACA
818300 ATGTATCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 4 0.14
16 4 0.14
17 4 0.14
19 11 0.38
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (19 bp):
GATACATAAGTGTTGTACT
Found at i:818280 original size:32 final size:31
Alignment explanation
Indices: 818239--818339 Score: 166
Period size: 32 Copynumber: 3.2 Consensus size: 31
818229 ACAGTAACTA
818239 TATCGATACATAAGTGTTGTACTGATACAATG
1 TATCGATACATAAGTGTTGTA-TGATACAATG
818271 TATCGATACATAAGTGTTGTATTGATACAATG
1 TATCGATACATAAGTGTTGTA-TGATACAATG
*
818303 TATCAATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTAT-GATACAATG
818335 TATCG
1 TATCG
818340 CTACGAAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
31 1 0.02
32 64 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (31 bp):
TATCGATACATAAGTGTTGTATGATACAATG
Found at i:819299 original size:20 final size:20
Alignment explanation
Indices: 819261--819299 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
819251 TAAACCTTGA
** *
819261 TCATGCATTTTTAATATGTT
1 TCATGCATTTACAACATGTT
819281 TCATGCATTTACAACATGT
1 TCATGCATTTACAACATGT
819300 CCAGCACCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TCATGCATTTACAACATGTT
Found at i:822017 original size:20 final size:20
Alignment explanation
Indices: 821992--822057 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
821982 TTTCAACGAT
821992 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
822012 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
822026 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
822045 TTGTATCGATACA
1 TTGTATCGATACA
822058 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:822031 original size:13 final size:13
Alignment explanation
Indices: 822013--822070 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
822003 CATAAAGTGT
822013 TGTATCGATACAA
1 TGTATCGATACAA
822026 TGTATCGATACATAAA
1 TGTATCGATAC---AA
822042 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
822059 TGTATCGATACA
1 TGTATCGATACA
822071 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:822035 original size:33 final size:33
Alignment explanation
Indices: 821993--822091 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
821983 TTCAACGATT
821993 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
822026 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *
822059 TGTATCGATACAT-AAGTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
822091 T
1 T
822092 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 18 0.28
33 46 0.72
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:822150 original size:13 final size:13
Alignment explanation
Indices: 822132--822156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
822122 ATTACTCAAA
822132 TGTATCGATACAT
1 TGTATCGATACAT
822145 TGTATCGATACA
1 TGTATCGATACA
822157 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:830664 original size:13 final size:13
Alignment explanation
Indices: 830646--830670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
830636 ACATTTCACC
830646 ATGTATCGATACA
1 ATGTATCGATACA
830659 ATGTATCGATAC
1 ATGTATCGATAC
830671 TGAGTGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:831366 original size:18 final size:18
Alignment explanation
Indices: 831313--831366 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
831303 TTTCACAAAT
831313 ATATCAAAATTTATATAA
1 ATATCAAAATTTATATAA
*
831331 A-AT--GAA-TTAT-TAA
1 ATATCAAAATTTATATAA
831344 CATATCAAAATTTATATAA
1 -ATATCAAAATTTATATAA
831363 ATAT
1 ATAT
831367 AATATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 3 0.11
14 5 0.18
15 4 0.14
17 4 0.14
18 9 0.32
19 3 0.11
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (18 bp):
ATATCAAAATTTATATAA
Found at i:832540 original size:21 final size:20
Alignment explanation
Indices: 832500--832549 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
832490 AATAAAATCA
*
832500 ATATAACATAAATATGTAAC
1 ATATAAAATAAATATGTAAC
832520 TATATAAAATAAATTAT-TAAC
1 -ATATAAAATAAA-TATGTAAC
*
832541 ATATTAAAT
1 ATATAAAAT
832550 TTATATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 15 0.58
22 3 0.12
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATAAAATAAATATGTAAC
Found at i:832767 original size:17 final size:17
Alignment explanation
Indices: 832747--832780 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
832737 TAACGAATAA
832747 TTTTATATTAAAATTTT
1 TTTTATATTAAAATTTT
* *
832764 TTTTATGTTTAAATTTT
1 TTTTATATTAAAATTTT
832781 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATATTAAAATTTT
Found at i:833978 original size:19 final size:18
Alignment explanation
Indices: 833946--833991 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
833936 ATCATTTAAA
833946 AATAAAAT-AAAATAATT
1 AATAAAATAAAAATAATT
833963 AATTAAAATAAAAATAATT
1 AA-TAAAATAAAAATAATT
833982 AA-AAAATAAA
1 AATAAAATAAA
833992 TTTATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAATAAAAATAATT
Found at i:833992 original size:15 final size:15
Alignment explanation
Indices: 833954--833992 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
833944 AAAATAAAAT
*
833954 AAAATAATTAATTAA
1 AAAATAAATAATTAA
833969 AATAA-AAATAATTAA
1 AA-AATAAATAATTAA
833984 AAAATAAAT
1 AAAATAAAT
833993 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAAATAATTAA
Found at i:834476 original size:19 final size:19
Alignment explanation
Indices: 834452--834507 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
834442 AGTACGTCAT
834452 TTAAATAAAATAAAAA-AA
1 TTAAATAAAATAAAAATAA
834470 CTTAAATTTAAAAATTAAAAATAA
1 -TTAAA--T-AAAA-TAAAAATAA
834494 TT-AATAAAATAAAA
1 TTAAATAAAATAAAA
834508 TTTCTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 1 0.03
21 1 0.03
22 6 0.19
23 8 0.25
24 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAATAAAATAAAAATAA
Found at i:834702 original size:23 final size:22
Alignment explanation
Indices: 834658--834705 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
834648 ATTTATTTTT
*
834658 TATATAATAAAAATTACGTATA
1 TATATAATAAAAATTACATATA
834680 TATATAAATACAAAATTA-ATATA
1 TATAT-AATA-AAAATTACATATA
834703 TAT
1 TAT
834706 TATATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 11 0.48
24 7 0.30
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
TATATAATAAAAATTACATATA
Found at i:834709 original size:24 final size:25
Alignment explanation
Indices: 834657--834719 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
834647 TATTTATTTT
*
834657 TTATATAATAAAAATTACGTATATA
1 TTATATAATAAAAATTACATATATA
834682 -TATA-AATACAAAATTA-ATATATA
1 TTATATAATA-AAAATTACATATATA
834705 TTATATAATTAAAAA
1 TTATATAA-TAAAAA
834720 CAGGCAGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 10 0.30
24 15 0.45
25 6 0.18
26 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
TTATATAATAAAAATTACATATATA
Found at i:836778 original size:8 final size:8
Alignment explanation
Indices: 836767--836794 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
836757 TGAATTATTG
836767 ATTAAAAT
1 ATTAAAAT
836775 ATTAAAAT
1 ATTAAAAT
836783 ATTAAAAT
1 ATTAAAAT
836791 ATTA
1 ATTA
836795 TTATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTAAAAT
Found at i:837250 original size:18 final size:17
Alignment explanation
Indices: 837218--837251 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
837208 TAAAATTATT
837218 AAAATTTAATTTATAAC
1 AAAATTTAATTTATAAC
*
837235 AAAATATTATTTTATAA
1 AAAAT-TTAATTTATAA
837252 AAATGACGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTAATTTATAAC
Found at i:838781 original size:18 final size:18
Alignment explanation
Indices: 838758--838797 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
838748 AAGTCAACAA
838758 AAGGTAAGAAAGTTTACC
1 AAGGTAAGAAAGTTTACC
* *
838776 AAGGTAAGAGAGTTTATC
1 AAGGTAAGAAAGTTTACC
838794 AAGG
1 AAGG
838798 ACTGAGCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (18 bp):
AAGGTAAGAAAGTTTACC
Found at i:838917 original size:43 final size:43
Alignment explanation
Indices: 838839--838946 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
838829 TTGGCTAGGG
* * * * * ** *
838839 CTAAACCGATAAGTCAACAAAGGATAAAGGAATTTATCTGGGA
1 CTAAGCCGATAGGTAAACAAAGGATAAAAGAATTTACCCCGAA
838882 CTAAGCCGATAGGTAAACAAAGGATGAAAAG-ATTTACCCCGAA
1 CTAAGCCGATAGGTAAACAAAGGAT-AAAAGAATTTACCCCGAA
* *
838925 CCAAGCTGATAGGTAAACAAAG
1 CTAAGCCGATAGGTAAACAAAG
838947 AATACAAGGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (43 bp):
CTAAGCCGATAGGTAAACAAAGGATAAAAGAATTTACCCCGAA
Found at i:839090 original size:79 final size:80
Alignment explanation
Indices: 838988--839135 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
838978 CTAATTAAAA
* * * *
838988 GGTTGGCCAGGGCGAAACCGATAAAGTCAACCAA-AGAAAG-TTGGCCAAGGCAAAACTGATAAA
1 GGTTGACCAGGACAAAACCGAT-AAGTCAACCAATAGAAAGACTGGCCAAGGCAAAACTGATAAA
839051 GCCAACGAGCTAGAAG
65 GCCAACGAGCTAGAAG
* *
839067 GGTTGACCAGGACAAAACTGATAAGTCAACCAATTGAAAGACTGGCCAAGGCAAAACTGATAAAG
1 GGTTGACCAGGACAAAACCGATAAGTCAACCAATAGAAAGACTGGCCAAGGCAAAACTGATAAAG
839132 CCAA
66 CCAA
839136 TAGATTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 11 0.18
79 23 0.38
80 27 0.44
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (80 bp):
GGTTGACCAGGACAAAACCGATAAGTCAACCAATAGAAAGACTGGCCAAGGCAAAACTGATAAAG
CCAACGAGCTAGAAG
Found at i:839129 original size:39 final size:39
Alignment explanation
Indices: 838989--839131 Score: 139
Period size: 38 Copynumber: 3.6 Consensus size: 39
838979 TAATTAAAAG
* * *
838989 GTTGGCCAGGGCGAAACCGATAAAGTCAACCAA-AGAAA
1 GTTGGCCAAGGCAAAACTGATAAAGTCAACCAATAGAAA
* * * *
839027 GTTGGCCAAGGCAAAACTGATAAAGCCAACGAGCTAGAAGG
1 GTTGGCCAAGGCAAAACTGATAAAGTCAACCA-ATAGAA-A
* *
839068 GTTGACC-AGGACAAAACTGAT-AAGTCAACCAATTGAAA
1 GTTGGCCAAGG-CAAAACTGATAAAGTCAACCAATAGAAA
*
839106 GACTGGCCAAGGCAAAACTGATAAAG
1 G-TTGGCCAAGGCAAAACTGATAAAG
839132 CCAATAGATT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
38 28 0.34
39 18 0.22
40 21 0.25
41 16 0.19
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (39 bp):
GTTGGCCAAGGCAAAACTGATAAAGTCAACCAATAGAAA
Found at i:839188 original size:41 final size:40
Alignment explanation
Indices: 839099--839319 Score: 199
Period size: 40 Copynumber: 5.5 Consensus size: 40
839089 AAGTCAACCA
* * * * *
839099 ATTGAAAGACTGGCCAAGGCAAAACTGATAAAGCCAATAG
1 ATTGAAAGGCTGACCAGGGCGAAACCGATAAAGCCAATAG
* * * * *
839139 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCG
1 ATTGAAA-GGCTGACCAGGGCGAAACCGATAAAGCCAATAG
* * * *
839180 ATTGAAAGGTTGGCTAGGGCGAAACTGATAAAGCCAATAG
1 ATTGAAAGGCTGACCAGGGCGAAACCGATAAAGCCAATAG
** * * *
839220 AGGGGAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCG
1 A-TTGAAAGGCTGACCAGGGCGAAACCGATAAAGCCAATAG
* * * * *
839261 ATTGGAAGGTTGGCTAGGGCGAAATCGATAAAGCCAATAG
1 ATTGAAAGGCTGACCAGGGCGAAACCGATAAAGCCAATAG
*
839301 ATTAAAAGGCTGACCAGGG
1 ATTGAAAGGCTGACCAGGG
839320 TGCAACTGAT
Statistics
Matches: 136, Mismatches: 43, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
40 75 0.55
41 61 0.45
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.16
Consensus pattern (40 bp):
ATTGAAAGGCTGACCAGGGCGAAACCGATAAAGCCAATAG
Found at i:839215 original size:81 final size:81
Alignment explanation
Indices: 838981--839319 Score: 350
Period size: 81 Copynumber: 4.2 Consensus size: 81
838971 AAGTCGACTA
* * * **
838981 ATTAAAA-GGTTGGCCAGGGCGAAACCGATAAAGTCAA-CCAAAGAAA-GTTGGCCAAGGCAAAA
1 ATTAAAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAAGGCAAAA
*
839043 CTGATAAAGCCAA-CG
66 CTGATAAAGCCAATAG
* * * * * * * * **
839058 AGCTAGAAGGGTTGACCAGGACAAAACTGAT-AAGTCAACCAATTGAAAGACTGGCCAAGGCAAA
1 A-TTAAAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAAGGCAAA
839122 ACTGATAAAGCCAATAG
65 ACTGATAAAGCCAATAG
* * * * *
839139 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCTAGGGCGAAA
1 ATTAAAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAAGGCAAAA
839204 CTGATAAAGCCAATAG
66 CTGATAAAGCCAATAG
**** * * * *
839220 AGGGGAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGGAAGGTTGGCTAGGGCGAAA
1 ATTAAAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAAGGCAAAA
839285 -TCGATAAAGCCAATAG
66 CT-GATAAAGCCAATAG
839301 ATTAAAA-GGCTGACCAGGG
1 ATTAAAAGGGCTGACCAGGG
839320 TGCAACTGAT
Statistics
Matches: 217, Mismatches: 38, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
77 1 0.00
78 11 0.05
79 24 0.11
80 61 0.28
81 120 0.55
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.15
Consensus pattern (81 bp):
ATTAAAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAAGGCAAAA
CTGATAAAGCCAATAG
Found at i:839303 original size:162 final size:162
Alignment explanation
Indices: 838981--839776 Score: 699
Period size: 162 Copynumber: 5.0 Consensus size: 162
838971 AAGTCGACTA
* * * * * ** *
838981 ATTAAAA-GGTTGGCCAGGGCGAAACCGATAAAGTCAA-CCAAAGAAA-GTTGGCCAAGGCAAAA
1 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
* * *
839043 CTGATAAAGCCAAC-GAGCTA-GAAGGGTTGACCAGGACAAAACTGAT-AAGTCAACCAATTGAA
66 CTGATAAAGCCAACAGAG--AGGAAGGGCTGACCAGGGCAAAACTGATAAAGTCAACCGATTGAA
** * * * *
839105 AGACTGGCCAAGGC-AAAACTGATAAAGCCAATAG
129 AGGTTGGCTAGGGCGAAATC-GATAAAGCCAACAG
* *
839139 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCTAGGGCGAAA
1 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
* * * * * *
839204 CTGATAAAGCCAATAGAGGGGAAGGGCTGACCAGGGCGAAACCGATAAAGTCAATCGATTGGAAG
66 CTGATAAAGCCAACAGAGAGGAAGGGCTGACCAGGGCAAAACTGATAAAGTCAACCGATTGAAAG
*
839269 GTTGGCTAGGGCGAAATCGATAAAGCCAATAG
131 GTTGGCTAGGGCGAAATCGATAAAGCCAACAG
* *
839301 ATTAAAA-GGCTGACCAGGGTG----C----AA--C--T-GATTGAAAGGTTGGCTAGGGCGAAA
1 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
** * * * ** * * *
839352 CCAATAAAGCCAATAAATAGGAAGGGCTGATTAGGGCGAAA-TCAATAAAGTCAACCGATTGGAA
66 CTGATAAAGCCAACAGAGAGGAAGGGCTGACCAGGGCAAAACT-GATAAAGTCAACCGATTGAAA
* * *
839416 GGTTAGCTAGGGGGAAA-CTAATAAAGCCAACAG
130 GGTTGGCTAGGGCGAAATC-GATAAAGCCAACAG
* * * * * *
839449 ACTAAAAGGGCTGACCAAGGTGCAACCAATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAA
1 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
* ** * * * *
839514 -TCGATAAAGCCAACAGATAGGAAATGTTGACCAAGGCAAAACTGATAAAGTTAACCAATTGAAA
66 CT-GATAAAGCCAACAGAGAGGAAGGGCTGACCAGGGCAAAACTGATAAAGTCAACCGATTGAAA
* * *
839578 GGTTGGCCAGGGCAAAATCGATAAAGCCAACAA
130 GGTTGGCTAGGGCGAAATCGATAAAGCCAACAG
* * * ** *
839611 ACTAAAAGGGCTTACCAAGGTGCAATTGATAAAGTCAACCGATTGAAAGGTTGGCCAGGGCAAAA
1 ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
* * * *
839676 CCGATAAAGCCAACAAATG-GGTAA-GGCTGACTAAGGCAAAACTGATAAAGTCAACCGATTGAA
66 CTGATAAAGCCAACAGA-GAGG-AAGGGCTGACCAGGGCAAAACTGATAAAGTCAACCGATTGAA
* * * *
839739 AGGTTGGCTAAGGTGAAACCGATAAAGCCAAAAG
129 AGGTTGGCTAGGGCGAAATCGATAAAGCCAACAG
839773 ATTA
1 ATTA
839777 GAAAATTGTT
Statistics
Matches: 520, Mismatches: 89, Indels: 54
0.78 0.13 0.08
Matches are distributed among these distances:
147 1 0.00
148 111 0.21
149 14 0.03
151 1 0.00
153 3 0.01
157 3 0.01
158 7 0.01
159 27 0.05
160 6 0.01
161 62 0.12
162 277 0.53
163 8 0.02
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (162 bp):
ATTAAAAGGGCTGACCAGGGTGCAACCGATAAAGTCAATCGATTGAAAGGTTGGCCAGGGCAAAA
CTGATAAAGCCAACAGAGAGGAAGGGCTGACCAGGGCAAAACTGATAAAGTCAACCGATTGAAAG
GTTGGCTAGGGCGAAATCGATAAAGCCAACAG
Found at i:839455 original size:148 final size:149
Alignment explanation
Indices: 839179--839474 Score: 425
Period size: 148 Copynumber: 2.0 Consensus size: 149
839169 AAAGTCAATC
** * *
839179 GATTGAAAGGTTGGCTAGGGCGAAACTGATAAAGCCAATAGAGGGGAAGGGCTGACCAGGGCGAA
1 GATTGAAAGGTTGGCTAGGGCGAAACCAATAAAGCCAATAAAGAGGAAGGGCTGACCAGGGCGAA
* * * * * *
839244 ACCGATAAAGTCAATCGATTGGAAGGTTGGCTAGGGCGAAATCGATAAAGCCAATAGATTAAAA-
66 ACCAATAAAGTCAACCGATTGGAAGGTTAGCTAGGGCGAAATCAATAAAGCCAACAGACTAAAAG
*
839308 GGCTGACCAGGGTGCAACT
131 GGCTGACCAAGGTGCAACT
* **
839327 GATTGAAAGGTTGGCTAGGGCGAAACCAATAAAGCCAATAAATAGGAAGGGCTGATTAGGGCGAA
1 GATTGAAAGGTTGGCTAGGGCGAAACCAATAAAGCCAATAAAGAGGAAGGGCTGACCAGGGCGAA
* *
839392 ATCAATAAAGTCAACCGATTGGAAGGTTAGCTAGGGGGAAA-CTAATAAAGCCAACAGACTAAAA
66 ACCAATAAAGTCAACCGATTGGAAGGTTAGCTAGGGCGAAATC-AATAAAGCCAACAGACTAAAA
839456 GGGCTGACCAAGGTGCAAC
130 GGGCTGACCAAGGTGCAAC
839475 CAATAAAGTC
Statistics
Matches: 130, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 1 0.01
148 112 0.86
149 17 0.13
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.17
Consensus pattern (149 bp):
GATTGAAAGGTTGGCTAGGGCGAAACCAATAAAGCCAATAAAGAGGAAGGGCTGACCAGGGCGAA
ACCAATAAAGTCAACCGATTGGAAGGTTAGCTAGGGCGAAATCAATAAAGCCAACAGACTAAAAG
GGCTGACCAAGGTGCAACT
Found at i:839479 original size:81 final size:82
Alignment explanation
Indices: 839322--839780 Score: 321
Period size: 81 Copynumber: 5.7 Consensus size: 82
839312 GACCAGGGTG
* * ** * * * **
839322 CAACTGATTGAAAGGTTGGCTA-GGGCGAAACCAATAAAGCCAATA-AATAGGAAGGGCTGATTA
1 CAACCGATTGAAAGGTTGGCCAGGGGC-AAACTGATAAAGCCAACAGACTAGAAAGGGCTGACCA
* *
839385 GGGCGAAATCAATAAAGT
65 AGGCGAAACCAATAAAGT
* * * * *
839403 CAACCGATTGGAAGGTTAGCTAGGGGGAAACTAATAAAGCCAACAGACTA-AAAGGGCTGACCAA
1 CAACCGATTGAAAGGTTGGCCAGGGGCAAACTGATAAAGCCAACAGACTAGAAAGGGCTGACCAA
* *
839467 GGTGCAACCAATAAAGT
66 GGCGAAACCAATAAAGT
* * * * * *
839484 CAAACGATTAAAAGGTTGGCCA-AGGCAAAATCGATAAAGCCAACAGA-TAGGAAA-TGTTGACC
1 CAACCGATTGAAAGGTTGGCCAGGGGCAAACT-GATAAAGCCAACAGACTA-GAAAGGGCTGACC
* **
839546 AAGGCAAAACTGATAAAGT
64 AAGGCGAAACCAATAAAGT
* * * * *
839565 TAACCAATTGAAAGGTTGGCCA-GGGCAAAATCGATAAAGCCAACAAACTA-AAAGGGCTTACCA
1 CAACCGATTGAAAGGTTGGCCAGGGGCAAACT-GATAAAGCCAACAGACTAGAAAGGGCTGACCA
* * ***
839628 AGGTGCAATTGATAAAGT
65 AGGCGAAACCAATAAAGT
* * * * *
839646 CAACCGATTGAAAGGTTGGCCA-GGGCAAAACCGATAAAGCCAACA-AATGGGTAA-GGCTGACT
1 CAACCGATTGAAAGGTTGGCCAGGGGC-AAACTGATAAAGCCAACAGACT-AGAAAGGGCTGACC
* **
839708 AAGGCAAAACTGATAAAGT
64 AAGGCGAAACCAATAAAGT
* * * * *
839727 CAACCGATTGAAAGGTTGGCTAAGGTG-AAACCGATAAAGCCAAAAGATTAGAAA
1 CAACCGATTGAAAGGTTGGC-CAGGGGCAAACTGATAAAGCCAACAGACTAGAAA
839781 ATTGTTTGAT
Statistics
Matches: 303, Mismatches: 62, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
80 13 0.04
81 269 0.89
82 19 0.06
83 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (82 bp):
CAACCGATTGAAAGGTTGGCCAGGGGCAAACTGATAAAGCCAACAGACTAGAAAGGGCTGACCAA
GGCGAAACCAATAAAGT
Found at i:839521 original size:40 final size:40
Alignment explanation
Indices: 839477--839684 Score: 138
Period size: 40 Copynumber: 5.2 Consensus size: 40
839467 GGTGCAACCA
839477 ATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAATCG
1 ATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAATCG
* * *
839517 ATAAAG-CCAACAGA-TAGGAAATGTTGACCAAGGCAAAA-CTG
1 ATAAAGTCAAAC-GATTA--AAAGGTTGGCCAAGGCAAAATC-G
* * * * *
839558 ATAAAGTTAACCAATTGAAAGGTTGGCCAGGGCAAAATCG
1 ATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAATCG
* * * * *** *
839598 ATAAAG-CCAACAAACTAAAAGGGCTT-ACCAAGGTGCAATTG
1 ATAAAGTCAAAC-GATTAAAA-GG-TTGGCCAAGGCAAAATCG
* * * *
839639 ATAAAGTCAACCGATTGAAAGGTTGGCCAGGGCAAAACCG
1 ATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAATCG
839679 ATAAAG
1 ATAAAG
839685 CCAACAAATG
Statistics
Matches: 122, Mismatches: 34, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
39 10 0.08
40 55 0.45
41 49 0.40
42 8 0.07
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (40 bp):
ATAAAGTCAAACGATTAAAAGGTTGGCCAAGGCAAAATCG
Found at i:839549 original size:41 final size:39
Alignment explanation
Indices: 839494--839769 Score: 155
Period size: 41 Copynumber: 6.8 Consensus size: 39
839484 CAAACGATTA
839494 AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAACAGATAGG
1 AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAACA-AT-GG
* * ** *
839535 AAATGTTGACCAAGGCAAAA-CTGATAAAGTTAACCAATTG
1 AAAGGTTGGCCAAGGCAAAATC-GATAAAGCCAA-CAATGG
* *
839575 AAAGGTTGGCCAGGGCAAAATCGATAAAGCCAACAAACT-A
1 AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAAC-AA-TGG
* *** * * * *
839615 AAAGGGCTT-ACCAAGGTGCAATTGATAAAGTCAACCGATTG
1 AAA-GG-TTGGCCAAGGCAAAATCGATAAAGCCAA-CAATGG
* *
839656 AAAGGTTGGCCAGGGCAAAACCGATAAAGCCAACAAATGGG
1 AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAAC-AAT-GG
* * * * * * *
839697 TAAGGCTGACTAAGGCAAAA-CTGATAAAGTCAACCGATTG
1 AAAGGTTGGCCAAGGCAAAATC-GATAAAGCCAA-CAATGG
* ** *
839737 AAAGGTTGGCTAAGGTGAAACCGATAAAGCCAA
1 AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAA
839770 AAGATTAGAA
Statistics
Matches: 176, Mismatches: 44, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
39 4 0.02
40 82 0.47
41 84 0.48
42 6 0.03
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.16
Consensus pattern (39 bp):
AAAGGTTGGCCAAGGCAAAATCGATAAAGCCAACAATGG
Found at i:840556 original size:93 final size:93
Alignment explanation
Indices: 840423--840597 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 93
840413 GATAAAGTAG
* * * *
840423 ACATGATTGGGAATGTGTGGTCTGGATACCTTAACCCCAAAGGAAATCAGACTTTGTGATGCATT
1 ACATGATTGGGAATGTATGGTCTGGATACCCTAACCCCAAAGGAAATCAGACTATGTGATGCATC
840488 AATACCAACTAGTGGTTGGATAAAGGGA
66 AATACCAACTAGTGGTTGGATAAAGGGA
* * * * *
840516 ACATGATTGGGGATGTATGGTTTGGATATCCCT-ACTCCAAAGGAAATCAGGCTATGTGATGCGT
1 ACATGATTGGGAATGTATGGTCTGGATA-CCCTAACCCCAAAGGAAATCAGACTATGTGATGCAT
* *
840580 CAGTACCATCTAGTGGTT
65 CAATACCAACTAGTGGTT
840598 AAAGGAAAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 67 0.96
94 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (93 bp):
ACATGATTGGGAATGTATGGTCTGGATACCCTAACCCCAAAGGAAATCAGACTATGTGATGCATC
AATACCAACTAGTGGTTGGATAAAGGGA
Found at i:840680 original size:90 final size:90
Alignment explanation
Indices: 840586--840897 Score: 471
Period size: 90 Copynumber: 3.5 Consensus size: 90
840576 GCGTCAGTAC
* * *
840586 CATCTAGTGGTTAAAGGAAAAGGACATGACTAGGAAATGAATGGGCTACACCTTTGCCCCAAGGT
1 CATCTAGTGGTTGAAGGAAAAGGACATGACTAGGAAATGTATGGGCTGCACCTTTGCCCCAAGGT
* * *
840651 ATTAGGCTTTGGGATGCATCAATAT
66 ATCAAGCTCTGGGATGCATCAATAT
* * *
840676 CATCTGGTGGTTGAAGGAAAAGGACATGACTAAGAAATGTATAGGCTGCACCTTTGCCCCAAGGT
1 CATCTAGTGGTTGAAGGAAAAGGACATGACTAGGAAATGTATGGGCTGCACCTTTGCCCCAAGGT
*
840741 ATCAAGCTCTGGGATGCATTAATAT
66 ATCAAGCTCTGGGATGCATCAATAT
* * * * *
840766 CATATGGTGGTTGAAGGAAAAGGATATGACTAGGAAATGTATGGGCTGCACCTTTGCCCTAACGT
1 CATCTAGTGGTTGAAGGAAAAGGACATGACTAGGAAATGTATGGGCTGCACCTTTGCCCCAAGGT
840831 ATCAAGCTCTGGGATGCATCAATAT
66 ATCAAGCTCTGGGATGCATCAATAT
* *
840856 CATCTAGTGGTTGAAGGAAAAGGATATGACTAGGAGATGTAT
1 CATCTAGTGGTTGAAGGAAAAGGACATGACTAGGAAATGTAT
840898 TGTCGGTGGT
Statistics
Matches: 202, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 202 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (90 bp):
CATCTAGTGGTTGAAGGAAAAGGACATGACTAGGAAATGTATGGGCTGCACCTTTGCCCCAAGGT
ATCAAGCTCTGGGATGCATCAATAT
Found at i:846871 original size:30 final size:29
Alignment explanation
Indices: 846835--846929 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 29
846825 TACATTGAAA
846835 AATGTATCGATACATCTGGGTAAAAAAAAG
1 AATGTATCGATACATCT-GGTAAAAAAAAG
*
846865 AATGTATCGAT--ATAT--T----AAAA-
1 AATGTATCGATACATCTGGTAAAAAAAAG
*
846885 AATGTATCGATACATCTAGGTAAAAAATAG
1 AATGTATCGATACATCT-GGTAAAAAAAAG
*
846915 ATTGTATCGATACAT
1 AATGTATCGATACAT
846930 GTACTGTTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
20 11 0.22
21 4 0.08
22 3 0.06
25 2 0.04
28 3 0.06
29 3 0.06
30 25 0.49
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (29 bp):
AATGTATCGATACATCTGGTAAAAAAAAG
Found at i:846907 original size:50 final size:50
Alignment explanation
Indices: 846832--846926 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
846822 CAATACATTG
*
846832 AAAAATGTATCGATACATCTGGGTAAAAAAAAGAATGTATCGATATATTA
1 AAAAATGTATCGATACATCTAGGTAAAAAAAAGAATGTATCGATATATTA
* *
846882 AAAAATGTATCGATACATCTAGGTAAAAAATAGATTGTATCGATA
1 AAAAATGTATCGATACATCTAGGTAAAAAAAAGAATGTATCGATA
846927 CATGTACTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.28
Consensus pattern (50 bp):
AAAAATGTATCGATACATCTAGGTAAAAAAAAGAATGTATCGATATATTA
Found at i:846909 original size:24 final size:24
Alignment explanation
Indices: 846832--846910 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 24
846822 CAATACATTG
*
846832 AAAAATGTATCGATACATCTGGGT
1 AAAAATGTATCGATACATCTAGGT
*
846856 AAAAAAAAGAATGTATCGATATAT-TA---
1 -----AAA-AATGTATCGATACATCTAGGT
846882 AAAAATGTATCGATACATCTAGGT
1 AAAAATGTATCGATACATCTAGGT
846906 AAAAA
1 AAAAA
846911 ATAGATTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
20 14 0.33
21 5 0.12
24 5 0.12
29 4 0.10
30 14 0.33
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (24 bp):
AAAAATGTATCGATACATCTAGGT
Found at i:857941 original size:6 final size:6
Alignment explanation
Indices: 857930--857954 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
857920 TGTATTTTCA
857930 CCTTTT CCTTTT CCTTTT CCTTTT C
1 CCTTTT CCTTTT CCTTTT CCTTTT C
857955 GACTTCCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
CCTTTT
Found at i:864886 original size:55 final size:57
Alignment explanation
Indices: 864827--864932 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 57
864817 TGTGACTGGC
*
864827 CATGTGTAAGCTCAATCTAGT-AGGTT-CA-AAAAGAACAAAACCCAATGTAACTACG
1 CATGTGTAAGCTCAATCTAGTAAGCTTACAGAAAAGAA-AAAACCCAATGTAACTACG
* * *
864882 CATGTGTAAGCTGAGTCTAGTAAGCTTATAGAAAAGAAAAAACCCAATGTA
1 CATGTGTAAGCTCAATCTAGTAAGCTTACAGAAAAGAAAAAACCCAATGTA
864933 GTTGGCCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 19 0.43
56 4 0.09
57 14 0.32
58 7 0.16
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (57 bp):
CATGTGTAAGCTCAATCTAGTAAGCTTACAGAAAAGAAAAAACCCAATGTAACTACG
Found at i:865151 original size:34 final size:34
Alignment explanation
Indices: 865113--865184 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
865103 TTTCTTTTGT
* * *
865113 AAGCCTCTTTTGAAGT-TGTTTTGAGAGATTTTAA
1 AAGCCTCTCTTG-AGTATGTTTTAAGAGATTTCAA
*
865147 AAGCCTCTCTTGATTATGTTTTAAGAGATTTCAA
1 AAGCCTCTCTTGAGTATGTTTTAAGAGATTTCAA
865181 AAGC
1 AAGC
865185 TTTTCCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (34 bp):
AAGCCTCTCTTGAGTATGTTTTAAGAGATTTCAA
Found at i:865632 original size:133 final size:133
Alignment explanation
Indices: 865383--865664 Score: 325
Period size: 133 Copynumber: 2.1 Consensus size: 133
865373 CACTCCATTG
* ** *
865383 GATCAAGCAAAAAATTGATAGAGTCAATTTTGAGTCAACTTCATCCGATTAGGCAGAAAATTGGT
1 GATCAAGCAAAAAATTGATAAAGTCAATTTTGAGTCAACTTCATCCGACCAAGCAGAAAATTGGT
*
865448 GAAGTTTTTCTTTTGTCAACTTCATTTGGTCAAGCAAGAAACCAGTGAAGTTGTCCTCCATTCTA
66 GAAGTTTTTCTTTTGTCAACTTCATTTGGTCAAGCAAGAAACCAGTAAAGTTGTCCTCCATTCTA
865513 TTC
131 TTC
* * *** *
865516 GATCAGGCAAGAAATTGATAAAGTTGGTTTTGAGTCAATTTCATCCGACCAAGCA-AAAATTTGG
1 GATCAAGCAAAAAATTGATAAAGTCAATTTTGAGTCAACTTCATCCGACCAAGCAGAAAA-TTGG
* * * * * ** * *
865580 TGAAGTTTTTCTTTTGTTAGCTTTATTTGGTCAAG-TAGAAAACTAGTAAAGTTAGTGTTTCACT
65 TGAAGTTTTTCTTTTGTCAACTTCATTTGGTCAAGCAAG-AAACCAGTAAAGTT-GTCCTCCATT
* *
865644 CCATTT
128 CTATTC
865650 GATCAAGCAAAAAAT
1 GATCAAGCAAAAAAT
865665 CGATGGAGTT
Statistics
Matches: 122, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
132 6 0.05
133 93 0.76
134 23 0.19
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (133 bp):
GATCAAGCAAAAAATTGATAAAGTCAATTTTGAGTCAACTTCATCCGACCAAGCAGAAAATTGGT
GAAGTTTTTCTTTTGTCAACTTCATTTGGTCAAGCAAGAAACCAGTAAAGTTGTCCTCCATTCTA
TTC
Found at i:865751 original size:43 final size:45
Alignment explanation
Indices: 865651--865766 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 45
865641 ACTCCATTTG
* * **
865651 ATCAAGCAAAAAATCGATGGAGTTAGTTTTAGGTCAGTTTCATCTA
1 ATCAAGCAGAAAATCGATGAAGTTAGTTTTA-GTCAACTTCATCTA
* * *
865697 ATCAGGGAGAAAATCGATGAAGTT-TTTTTA-TCAACTTCATCTA
1 ATCAAGCAGAAAATCGATGAAGTTAGTTTTAGTCAACTTCATCTA
* * * *
865740 GTCAAGCAGAAAACCAATGAAGCTAGT
1 ATCAAGCAGAAAATCGATGAAGTTAGT
865767 CCTTTGCTCC
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
43 29 0.53
44 1 0.02
45 5 0.09
46 20 0.36
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (45 bp):
ATCAAGCAGAAAATCGATGAAGTTAGTTTTAGTCAACTTCATCTA
Found at i:868829 original size:20 final size:20
Alignment explanation
Indices: 868804--868951 Score: 161
Period size: 20 Copynumber: 7.8 Consensus size: 20
868794 TTTTCACAAT
*
868804 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
868824 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
868844 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
868864 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
868884 TTGTATTGAT--A-----CA
1 TTGTATCGATACATTGTTCA
*
868897 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
868917 TTGTATTGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
868937 ATGTATCGATACATT
1 TTGTATCGATACATT
868952 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
13 11 0.10
15 1 0.01
18 1 0.01
19 3 0.03
20 93 0.85
21 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Done.