Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 120 of 318
Found at i:37841665 original size:17 final size:17
Alignment explanation
Indices: 37841622--37841666 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
37841612 TATAATTAAA
37841622 AATTAAAAATTATTTAT
1 AATTAAAAATTATTTAT
* **
37841639 TATTTTAAATTATTTAT
1 AATTAAAAATTATTTAT
37841656 AATTAAAAATT
1 AATTAAAAATT
37841667 TCTAGTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAAAATTATTTAT
Found at i:37842138 original size:27 final size:21
Alignment explanation
Indices: 37842079--37842131 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
37842069 CATTGTTTCT
37842079 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATATCC
37842100 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATATCC
37842121 AATCTCACCGC
1 AATCTCACCGC
37842132 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.40, G:0.06, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATATCC
Found at i:37847694 original size:23 final size:23
Alignment explanation
Indices: 37847668--37847716 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37847658 CCCTGTTCAC
37847668 TGCTTTTGATTGAGTTAATGTTA
1 TGCTTTTGATTGAGTTAATGTTA
37847691 TGCTTTTGATTGAGTTAATGTTA
1 TGCTTTTGATTGAGTTAATGTTA
37847714 TGC
1 TGC
37847717 ATTAATCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.51
Consensus pattern (23 bp):
TGCTTTTGATTGAGTTAATGTTA
Found at i:37847802 original size:20 final size:18
Alignment explanation
Indices: 37847777--37847814 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
37847767 AAGTAAATTG
37847777 TATTATTTTAATAATATTTT
1 TATTA-TTTAAT-ATATTTT
37847797 TATTATTTAATATATTTT
1 TATTATTTAATATATTTT
37847815 ATATGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTATTTAATATATTTT
Found at i:37850853 original size:32 final size:32
Alignment explanation
Indices: 37850812--37850876 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37850802 CCGTGTTGCT
37850812 TTAGGCAGTTTCTTACTCTAAAAACGCCTAAG
1 TTAGGCAGTTTCTTACTCTAAAAACGCCTAAG
37850844 TTAGGCAGTTTCTTACTCTAAAAACGCCTAAG
1 TTAGGCAGTTTCTTACTCTAAAAACGCCTAAG
37850876 T
1 T
37850877 CAGCCTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (32 bp):
TTAGGCAGTTTCTTACTCTAAAAACGCCTAAG
Found at i:37851200 original size:22 final size:23
Alignment explanation
Indices: 37851168--37851210 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37851158 GAGTATCTAC
*
37851168 AAATCAAATC-TCTAATATTATA
1 AAATCAAATCTTCTAAGATTATA
*
37851190 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
37851211 CATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTATA
Found at i:37851216 original size:17 final size:17
Alignment explanation
Indices: 37851194--37851246 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
37851184 ATTATAAAAT
37851194 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
37851211 CATATCATATCTAATATTG
1 CATATC-T-TCTAAGATTA
*
37851230 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
37851247 TGTTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:37856275 original size:22 final size:23
Alignment explanation
Indices: 37856248--37856292 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
37856238 GGGTATCTAC
37856248 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
37856270 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
37856293 CATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:37856297 original size:22 final size:22
Alignment explanation
Indices: 37856245--37856302 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
37856235 AAAGGGTATC
*
37856245 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
37856266 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
37856289 TACACATCATATCT
1 TACAAATCATATCT
37856303 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:37856325 original size:17 final size:17
Alignment explanation
Indices: 37856274--37856326 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
37856264 ATTACAAAAT
37856274 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
37856291 CACATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
37856310 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
37856327 TATTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:37859810 original size:53 final size:53
Alignment explanation
Indices: 37859654--37859819 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
37859644 GACGAAAAAT
* **
37859654 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCTTCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
*
37859706 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
* *
37859759 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCTTCGGTAT-A
37859813 TATGTGA
1 -ATGTGA
37859820 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
Found at i:37863688 original size:23 final size:25
Alignment explanation
Indices: 37863648--37863695 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
37863638 TAAAAAAATT
* *
37863648 AATTTATT-AAATATTAAATTAAAA
1 AATTTATTAAAAAATAAAATTAAAA
37863672 AATTT-TTAAAAAATAAAATTAAAA
1 AATTTATTAAAAAATAAAATTAAAA
37863696 TAATATGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTATTAAAAAATAAAATTAAAA
Found at i:37868362 original size:10 final size:9
Alignment explanation
Indices: 37868347--37868394 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
37868337 TAATTTTAGG
37868347 ATTTATTTT
1 ATTTATTTT
37868356 CATTTATCTTT
1 -ATTTAT-TTT
*
37868367 AATTATCTTT
1 ATTTAT-TTT
37868377 ATTTATTTAT
1 ATTTATTT-T
37868387 ATTTATTT
1 ATTTATTT
37868395 GTTAGAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATTTT
Found at i:37869287 original size:10 final size:10
Alignment explanation
Indices: 37869265--37869300 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
37869255 CCCTTATACT
37869265 ATTATTTTT-
1 ATTATTTTTA
37869274 ATTATTTTTA
1 ATTATTTTTA
37869284 ATTATTTTTA
1 ATTATTTTTA
37869294 A-TATTTT
1 ATTATTTT
37869301 ATAGGGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTATTTTTA
Found at i:37872259 original size:3 final size:3
Alignment explanation
Indices: 37872251--37872507 Score: 198
Period size: 3 Copynumber: 85.7 Consensus size: 3
37872241 TTAATTAATT
* * * * *
37872251 TTA TTA TTA TTT TTA CTA TTA TTA TTTA TCA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * *
37872297 CTA TTA TTA TTA TTA TT- TTA CTA TCA TT- TATA TTCT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA
* * * * * *
37872342 TTA TTA TTA CTA TTA CTA TTA TTT TTA TTT TTA TTT TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * **
37872390 CTA TTA CCA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA CGA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
37872438 TTA TTA TTA TTG TTA TTA TTA TCA TTA -TA ATA ATA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
37872485 TTA TTT TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
37872508 TTTAAAACCA
Statistics
Matches: 197, Mismatches: 49, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
2 6 0.03
3 184 0.93
4 7 0.04
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:37872648 original size:11 final size:12
Alignment explanation
Indices: 37872597--37872649 Score: 65
Period size: 11 Copynumber: 4.5 Consensus size: 12
37872587 ATTTTCTTTG
37872597 TTATTTCATTTA
1 TTATTTCATTTA
*
37872609 TTA-TTCCTTTA
1 TTATTTCATTTA
*
37872620 TTATTTTATTTA
1 TTATTTCATTTA
37872632 TTTATTTCATTT-
1 -TTATTTCATTTA
37872644 TTATTT
1 TTATTT
37872650 TGTTTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 16 0.46
12 9 0.26
13 10 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTCATTTA
Found at i:37875760 original size:41 final size:41
Alignment explanation
Indices: 37875715--37875797 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37875705 GAGAGAGAGA
37875715 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
37875756 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
37875797 T
1 T
37875798 TAAATTGATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
Found at i:37879473 original size:24 final size:26
Alignment explanation
Indices: 37879443--37879492 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
37879433 TGACAAATTT
37879443 TTAAA-TTTTAAAAATAAAAA-AAAA
1 TTAAATTTTTAAAAATAAAAATAAAA
37879467 TTAAATTTTTAAAAATAAAAATAAAA
1 TTAAATTTTTAAAAATAAAAATAAAA
37879493 ATAATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.21
25 15 0.62
26 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAATTTTTAAAAATAAAAATAAAA
Found at i:37879488 original size:21 final size:21
Alignment explanation
Indices: 37879458--37879522 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
37879448 TTTTAAAAAT
*
37879458 AAAA-AAAAATTAAATTTTTA
1 AAAATAAAAATTAAATTTATA
* * *
37879478 AAAATAAAAATAAAAATAATA
1 AAAATAAAAATTAAATTTATA
* *
37879499 AAACTAAAATTTAAATTTATA
1 AAAATAAAAATTAAATTTATA
37879520 AAA
1 AAA
37879523 TACATAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATAAAAATTAAATTTATA
Found at i:37884862 original size:18 final size:18
Alignment explanation
Indices: 37884839--37884873 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37884829 ATTAAAACTC
37884839 TCTTGAATACACCAACCT
1 TCTTGAATACACCAACCT
*
37884857 TCTTGAATACTCCAACC
1 TCTTGAATACACCAACC
37884874 ATCAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.29
Consensus pattern (18 bp):
TCTTGAATACACCAACCT
Found at i:37894671 original size:99 final size:99
Alignment explanation
Indices: 37894542--37894737 Score: 288
Period size: 99 Copynumber: 2.0 Consensus size: 99
37894532 TTTTTGAAGC
* ** *
37894542 ATCAATGACTCGTTCTGTTAAGGTGTGGTGGTAACTATGACACAAAATCAAATTTAAAA-AA-TT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAA-TTAAAAGAATTT
37894605 AAAAATAATAAAAGCAACTAAAAACAATAAAAAAAA
65 AAAAA-AATAAAAGCAACTAAAAACAATAAAAAAAA
* * *
37894641 ATCAACGACTCTTTCTGTTAAGGTGTGGTGGTACCTACAACAAAAAATCAAATTAAAAGAATTTT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
*
37894706 AAAAAATAAAAGCAACTAAACACAATAAAAAA
66 AAAAAATAAAAGCAACTAAAAACAATAAAAAA
37894738 TATAATTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 6 0.07
99 75 0.86
100 6 0.07
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (99 bp):
ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
AAAAAATAAAAGCAACTAAAAACAATAAAAAAAA
Found at i:37901948 original size:19 final size:20
Alignment explanation
Indices: 37901924--37901961 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
37901914 AAAATGAAAT
37901924 AAAAT-GAATAAATA-AATAC
1 AAAATGGAA-AAATATAATAC
37901943 AAAATGGAAAAATATAATA
1 AAAATGGAAAAATATAATA
37901962 ATAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAATGGAAAAATATAATAC
Found at i:37902032 original size:20 final size:20
Alignment explanation
Indices: 37901996--37902033 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37901986 AATAGGACAA
*
37901996 TAATAATAGTAATAATAAAG
1 TAATAATAGTAAAAATAAAG
37902016 TAATAA-AGTAGAAAATAA
1 TAATAATAGTA-AAAATAA
37902034 TAATGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
TAATAATAGTAAAAATAAAG
Found at i:37902242 original size:15 final size:16
Alignment explanation
Indices: 37902145--37902243 Score: 55
Period size: 15 Copynumber: 6.3 Consensus size: 16
37902135 GATAGGAAAC
* *
37902145 AATAATGATAAAAGAA
1 AATAATAATAATAGAA
* *
37902161 AATAATAATACTA-AT
1 AATAATAATAATAGAA
* *
37902176 AATGGA-AGTAAT-GAA
1 AAT-AATAATAATAGAA
37902191 AATAATAATAATAG-A
1 AATAATAATAATAGAA
* *
37902206 AACAATAGTAATA-AA
1 AATAATAATAATAGAA
*
37902221 AGTAATAATAAAATAGAA
1 AATAATAAT--AATAGAA
37902239 AATAA
1 AATAA
37902244 CAATGATACA
Statistics
Matches: 59, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
14 1 0.02
15 36 0.61
16 12 0.20
17 4 0.07
18 6 0.10
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (16 bp):
AATAATAATAATAGAA
Found at i:37902930 original size:24 final size:24
Alignment explanation
Indices: 37902898--37902946 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
37902888 CTTTTTGCAA
37902898 GCAAGTGGGGTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
*
37902922 GCAAGTGGGTTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
37902946 G
1 G
37902947 TTGGTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (24 bp):
GCAAGTGGGGTGATGGAGTTAGTG
Found at i:37902957 original size:12 final size:12
Alignment explanation
Indices: 37902940--37902970 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37902930 GTTGATGGAG
37902940 TTAGTGGTTGGT
1 TTAGTGGTTGGT
37902952 TTAGTGGTTGGT
1 TTAGTGGTTGGT
37902964 TTAGTGG
1 TTAGTGG
37902971 GGTGCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (12 bp):
TTAGTGGTTGGT
Found at i:37903442 original size:44 final size:44
Alignment explanation
Indices: 37903393--37903625 Score: 152
Period size: 44 Copynumber: 5.3 Consensus size: 44
37903383 ATTTTCAGTA
*
37903393 TGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTAACTTAAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTGGTAACTTAAATC
* ** ** * * **
37903437 TGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGT--CTTCGATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACT-G--GTAACTTAAATC
* ** * * * *
37903482 TGCTCCACTACTGC-TTAGGGAGATAAGACAT-GCAATTTTCAGTC
1 TGCTCCACTGCAACTTTAGGGAGATAAGAC-TGGTAA-CTTAAATC
* * * * *
37903526 TGATCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAACC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTGGTAACTTAAATC
**
37903570 TGCTCCACTGCAACTTTAGGGAGATAAGGA-TGGTGGCTTAAATC
1 TGCTCCACTGCAACTTTAGGGAGATAA-GACTGGTAACTTAAATC
*
37903614 TGCTCCATTGCA
1 TGCTCCACTGCA
37903626 GTTACATAGA
Statistics
Matches: 141, Mismatches: 38, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
41 1 0.01
44 100 0.71
45 38 0.27
47 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGACTGGTAACTTAAATC
Found at i:37903518 original size:133 final size:133
Alignment explanation
Indices: 37903277--37903576 Score: 431
Period size: 133 Copynumber: 2.3 Consensus size: 133
37903267 TTACAATTTC
** * * *
37903277 AGGGAGATAAGGCTGGTGGCTTAAATATACTCCATTGTCACTACATGGAGATAAGATTCGCCATC
1 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCACTACATGGAGATAAGATTCGCCATC
*
37903342 TTCGATCTGATCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAGTATGCTCCACTGCAAC
66 TTCGATCTGATCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAGTATGATCCACTGCAAC
37903407 TTT
131 TTT
* *
37903410 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTC
1 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCACTACATGGAGATAAGATTCGCCATC
* * * *
37903475 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CATGCAATTTTCAGTCTGATCCACTGCAA
66 TTCGATCTGATCCACTACTACTTAGGGAGATAAGATC-TACAATTTTCAGTATGATCCACTGCAA
37903539 CTTT
130 CTTT
* * * * *
37903543 AGGGAGATAAGACTTGTATCTTGAACCTGCTCCA
1 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCA
37903577 CTGCAACTTT
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 1 0.01
133 148 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (133 bp):
AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCACTACATGGAGATAAGATTCGCCATC
TTCGATCTGATCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAGTATGATCCACTGCAAC
TTT
Found at i:37903576 original size:177 final size:176
Alignment explanation
Indices: 37903393--37903726 Score: 537
Period size: 177 Copynumber: 1.9 Consensus size: 176
37903383 ATTTTCAGTA
* * *
37903393 TGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCGCTACATGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATGGTAACTTAAATCTGCTCCATTGCAGCTACATAG
*
37903458 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CATGCAATTTTC
66 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCAATTTTC
*
37903522 AGTCTGA-TCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAACC
130 AGTCT-ACTCCACTGCAAC-TCAGGGAGATAAGACTTGTATCTTGAACC
** *
37903570 TGCTCCACTGCAACTTTAGGGAGATAAGGATGGTGGCTTAAATCTGCTCCATTGCAGTTACATAG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATGGTAACTTAAATCTGCTCCATTGCAGCTACATAG
*
37903635 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTA
66 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCA
*
37903700 GTCTACTCTACTGCAACTCAGGGAGAT
131 GTCTACTCCACTGCAACTCAGGGAGAT
37903727 GAGGCTAGTG
Statistics
Matches: 145, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
176 10 0.07
177 134 0.92
178 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (176 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGGATGGTAACTTAAATCTGCTCCATTGCAGCTACATAG
AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCA
GTCTACTCCACTGCAACTCAGGGAGATAAGACTTGTATCTTGAACC
Found at i:37903726 original size:88 final size:88
Alignment explanation
Indices: 37903456--37903726 Score: 211
Period size: 88 Copynumber: 3.1 Consensus size: 88
37903446 GCCGCTACAT
*
37903456 GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CATGCAATTT
1 GGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCAATTT
* *
37903520 TCAGTCTGA-TCCACTGCAACTTTAG
65 TAAGTCT-ACTCCACTGCAAC-TCAG
* * * ** *
37903545 GGAGATAAGACTTGTA---TCTT-GAACCTGCTCCACTGCAACTTTAGGGAGATAAGGATGGTGG
1 GGAGATAAGA-TT-CACCGTCTTCG-ATCTGCTCCACTACTGC-TTAGGGAGATAA-GAT-CT-G
* * * ** *
37903606 C----TTAAATCTGCTCCATTGCAGTTACAT
59 CAATTTTAAGTCTACTCCACTGCAACT-CAG
*
37903633 AGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTT
1 GGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTT
* *
37903698 TAGTCTACTCTACTGCAACTCAG
66 AAGTCTACTCCACTGCAACTCAG
37903721 GGAGAT
1 GGAGAT
37903727 GAGGCTAGTG
Statistics
Matches: 133, Mismatches: 31, Indels: 37
0.66 0.15 0.18
Matches are distributed among these distances:
85 2 0.02
86 2 0.02
87 7 0.05
88 60 0.45
89 54 0.41
90 5 0.04
91 1 0.01
92 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (88 bp):
GGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTT
AAGTCTACTCCACTGCAACTCAG
Found at i:37903947 original size:44 final size:42
Alignment explanation
Indices: 37903788--37904255 Score: 119
Period size: 44 Copynumber: 10.7 Consensus size: 42
37903778 ACTGTCTTTG
* ** *
37903788 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTC
* * * * * * *
37903831 AGCCTGCTCCACTACTGCTCAGGGAGATAAGGCTAG-TGGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGATAA-GATCGCCGTCTT-C
* * * * *
37903875 ATCTGCTTCC-CTACTACCTCGAGAAGATAAGATTCGCCATCTTC
1 ATCTGC-TCCACTACTGCTTAG-GGAGATAAGA-TCGCCGTCTTC
* **
37903919 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGC-AATT-
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCGCCGTCTTC
* * * * * * * * *
37903960 ATCAGCCTACTCACTGCTGCTCAGAGAGATAAGGCTAG-TGGCTTAA
1 ATCTG-CT-C-CACTACTGCTTAGGGAGATAA-GATCGCCGTCTT-C
* * * * *
37904006 ATCTGCTTCC-CTACTACCTCGGGAAAATGAGATTCGCCGTCTTC
1 ATCTGC-TCCACTACTGCTTAGGG-AGATAAGA-TCGCCGTCTTC
* * **
37904050 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTC
* ** * * * * * * *
37904094 AGCCTGCT-CACGGCTGCTCAGAGAGATAAGGCTAG-TGGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGATAA-GATCGCCGTCTT-C
* *
37904137 ATCTGCTTCC-CTGCTACCTT-GGGAAGATAAGATTCGCCGTCTTC
1 ATCTGC-TCCACTACT-GCTTAGGG-AGATAAGA-TCGCCGTCTTC
* * ***
37904181 GATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTC
*
37904225 AGTCTGCTCCACTGCTGCTTAGGGAGATAAG
1 A-TCTGCTCCACTACTGCTTAGGGAGATAAG
37904256 GCTAGTGGCT
Statistics
Matches: 294, Mismatches: 94, Indels: 73
0.64 0.20 0.16
Matches are distributed among these distances:
40 4 0.01
41 2 0.01
42 10 0.03
43 77 0.26
44 141 0.48
45 55 0.19
46 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (42 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCGCCGTCTTC
Found at i:37904041 original size:131 final size:130
Alignment explanation
Indices: 37903635--37904485 Score: 1153
Period size: 131 Copynumber: 6.5 Consensus size: 130
37903625 AGTTACATAG
*
37903635 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TTTCA
* * ** * * * ** *
37903700 GTCTACTCTACTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGA
65 GCCTGCTC-ACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
37903765 GA
129 GA
* * * *
37903767 AGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
* * *
37903832 GCCTGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
65 GCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
37903897 GA
129 GA
* * *
37903899 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGCAATTATCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT-TCA
*
37903964 GCCTACTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
65 GCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
37904029 A
130 A
* * * * *
37904030 AAATGAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
* * *
37904095 GCCTGCTCACGGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTGGG
65 GCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
37904160 A
130 A
* * * *
37904161 AGATAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
* * * *
37904226 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
65 GCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
*
37904291 AA
129 GA
* * * * *
37904293 AGATAATATTCACCGTCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
* * *
37904358 GCCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTCGGG
65 GCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
37904423 A
130 A
* * * * *
37904424 AGATGAGATTCACCTTTTTCGATCTACTCAACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
37904486 TCTCCAGTGT
Statistics
Matches: 640, Mismatches: 74, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.00
131 345 0.54
132 292 0.46
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (130 bp):
AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCAG
CCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGA
Found at i:37904254 original size:263 final size:262
Alignment explanation
Indices: 37903635--37904485 Score: 1211
Period size: 263 Copynumber: 3.2 Consensus size: 262
37903625 AGTTACATAG
*
37903635 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TTTCA
* ** * * ** *
37903700 GTCTACTCTACTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGA
65 GTCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * * * * *
37903765 GAAGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCAT
130 GAAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* *
37903830 CAGCCTGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
195 CAGCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
*
37903895 GAGA
259 GGGA
* * *
37903899 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGCAATTATCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT-TCA
* *
37903964 GCCTACT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
65 GTCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * *
37904028 GAAAATGAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
130 GAAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *
37904093 CAGCCTGCTCACGGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTG
195 CAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG
37904158 GGA
260 GGA
* * * *
37904161 AGATAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
* *
37904226 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC-G
65 GTCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * * * *
37904290 AAAAGATAATATTCACCGTCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCTACAATCT
130 GAAA-ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * *
37904355 TCAGCCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTC
194 TCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
37904420 GGGA
259 GGGA
* * * * *
37904424 AGATGAGATTCACCTTTTTCGATCTACTCAACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
37904486 TCTCCAGTGT
Statistics
Matches: 522, Mismatches: 61, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
262 122 0.23
263 336 0.64
264 64 0.12
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (262 bp):
AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCAG
TCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
AAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
GA
Found at i:37904325 original size:394 final size:395
Alignment explanation
Indices: 37903640--37904483 Score: 1242
Period size: 394 Copynumber: 2.1 Consensus size: 395
37903630 CATAGAGATA
* * *
37903640 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTAGTCTA
1 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTA
* * * **
37903705 CTCTACTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGAGAAGA
66 CTCTACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGAGAAGA
* * *
37903770 TAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
131 TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
*
37903835 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAGAA
196 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAA
* * * * *
37903900 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGCAAT-TATCA
261 GATAAGATTCACCATCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCGACAATCT-TCA
* *
37903964 GCCTACTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
325 GCCTACACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGG
37904029 AAAATG
390 AAAATG
* * * *
37904035 AGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTG
1 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTA
** * * * *
37904100 CTC-ACGGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTGGGAAGA
66 CTCTACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGAGAAGA
* * * * * *
37904164 TAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTC
131 TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
* *
37904229 TGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAA
196 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAA
* * *
37904294 GATAATATTCACCGTCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAG
261 GATAAGATTCACCATCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCGACAATCTTCAG
* *
37904359 CCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTCGGGA
326 CCTACACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGGA
*
37904424 AGATG
391 AAATG
* * * *
37904429 AGATTCACCTTTTTCGATCTACTCAACTACTGCTTAGGGAGATAAGATCTGCAAT
1 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
37904484 TTTCTCCAGT
Statistics
Matches: 398, Mismatches: 50, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
394 336 0.84
395 62 0.16
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (395 bp):
AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTA
CTCTACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGAGAAGA
TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAA
GATAAGATTCACCATCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCGACAATCTTCAG
CCTACACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGGA
AAATG
Found at i:37905090 original size:25 final size:25
Alignment explanation
Indices: 37905053--37905112 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
37905043 TTAAGTTGGG
37905053 TAAGTT-CTAAACAATAGTCCTGTTT
1 TAAGTTCCT-AACAATAGTCCTGTTT
*
37905078 TAAGTTCCTAACAATAGTCTTGTTT
1 TAAGTTCCTAACAATAGTCCTGTTT
*
37905103 CAAGTTCCTA
1 TAAGTTCCTA
37905113 CACTGTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (25 bp):
TAAGTTCCTAACAATAGTCCTGTTT
Found at i:37905599 original size:20 final size:19
Alignment explanation
Indices: 37905576--37905619 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
37905566 TGGCCTCTCC
* *
37905576 TTTTTCTTTTTTCTTTTCTT
1 TTTTTCTGTTTTCTCTT-TT
*
37905596 TTTTTGTGTTTTCTCTTTT
1 TTTTTCTGTTTTCTCTTTT
37905615 TTTTT
1 TTTTT
37905620 GAAACTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTCTGTTTTCTCTTTT
Found at i:37910139 original size:50 final size:50
Alignment explanation
Indices: 37910064--37910239 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 50
37910054 CCATGGCAAC
* * *
37910064 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGG
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
37910114 AAGTGATAAGTAATAGCTTGGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
37910164 AAGTG---A-T-A-A-CTTCGGCTACATTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * ** *
37910207 CAATTGAAAAGTGGTAGCTTCTGCTAC-CTTATC
1 -AAGTGATAAGTAATAGCTTCGGCTACACTTATC
37910240 AGTGAAAAGT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 31 0.29
44 5 0.05
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
50 56 0.53
51 9 0.08
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:37910238 original size:93 final size:94
Alignment explanation
Indices: 37910062--37910239 Score: 243
Period size: 93 Copynumber: 1.9 Consensus size: 94
37910052 GACCATGGCA
* * * *
37910062 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGGAAGTGATAAGTAA
1 ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGCAAGTGAAAAGTAA
*
37910127 TAGCTTGGGCTACACTTATCTGATCAAGG
66 TAGCTTCGGCTACACTTATCTGATCAAGG
* * *
37910156 ACAAGTGA-AAGTGATAACTTCGGCTACATTTATCTGATCAAGGACAAATGACAATTGAAAAGTG
1 ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATG-CAAGTGAAAAGTA
* *
37910220 GTAGCTTCTGCTAC-CTTATC
65 ATAGCTTCGGCTACACTTATC
37910240 AGTGAAAAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 45 0.62
94 28 0.38
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (94 bp):
ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGCAAGTGAAAAGTAA
TAGCTTCGGCTACACTTATCTGATCAAGG
Found at i:37910249 original size:31 final size:31
Alignment explanation
Indices: 37910211--37910295 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
37910201 AAATGACAAT
* *
37910211 TGAAAAGTGGTAGCTTCTGCTACCTTATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
37910242 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
37910273 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
37910296 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:37910383 original size:47 final size:46
Alignment explanation
Indices: 37910321--37910526 Score: 181
Period size: 42 Copynumber: 4.5 Consensus size: 46
37910311 TCCGTATAAA
* *
37910321 ACCATATCTGGGATATGGCATCGGTGTGATATATGCTAC-TGTATACG
1 ACCATATCTGGGATATGGCATCGGTGAGATATATGATACGTGTA-A-G
* * *
37910368 ACTATATCTGGGATATGGCATCAGTGAGATATATGATTCGTGTAAG
1 ACCATATCTGGGATATGGCATCGGTGAGATATATGATACGTGTAAG
* * * * *
37910414 ACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAG
1 ACCATATCTGGGATATGGCATCG--GTGAGATATATGA-TACGTGTAAG
* * *
37910463 ACCATAGCTGGGCTATGGCATC-----GATATATGAATATGTGTAAG
1 ACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACGTGTAAG
* *
37910505 ACCATAGCTGGGCTATGGCATC
1 ACCATATCTGGGATATGGCATC
37910527 ATTATGTGAA
Statistics
Matches: 139, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
42 38 0.27
43 1 0.01
46 20 0.14
47 35 0.25
48 14 0.10
49 31 0.22
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
ACCATATCTGGGATATGGCATCGGTGAGATATATGATACGTGTAAG
Found at i:37910471 original size:49 final size:47
Alignment explanation
Indices: 37910395--37910570 Score: 203
Period size: 42 Copynumber: 3.9 Consensus size: 47
37910385 GCATCAGTGA
37910395 GATATATGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATAT-TGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
*
37910443 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATAT-TGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
37910492 GA-A-T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGT
1 GATATTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGT
* **
37910534 GA-A--GA-T-GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GATATTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGA
37910571 GAAAACGAAG
Statistics
Matches: 118, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
41 1 0.01
42 64 0.54
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
48 11 0.09
49 38 0.32
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (47 bp):
GATATTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:37912208 original size:12 final size:12
Alignment explanation
Indices: 37912188--37912225 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37912178 TCTTAGCCAG
37912188 TTGTTCTTGCAT
1 TTGTTCTTGCAT
*
37912200 TTGTGCTTGC-T
1 TTGTTCTTGCAT
37912211 TCTGTTCTTGCAT
1 T-TGTTCTTGCAT
37912224 TT
1 TT
37912226 CCTTTTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.05, C:0.18, G:0.18, T:0.58
Consensus pattern (12 bp):
TTGTTCTTGCAT
Found at i:37914645 original size:3 final size:3
Alignment explanation
Indices: 37914630--37914926 Score: 83
Period size: 3 Copynumber: 99.7 Consensus size: 3
37914620 ATGTTATGTA
* * * *
37914630 AAT AAT GAT AAT AAT AA- AAT AA- AA- AAT AGT AAT AAT AGT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
37914674 TAT AAT AAT AGGA- AAC AAT AAT GAT AA- AAG AA- AAT AAT AGT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
37914718 AAT GGAAGT AAT GAA- AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA-
1 AAT --AA-T AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* *
37914762 AAGT AAT AAT AA- AAT AGA- AAT AAC AAT GAT ACATT AAT AAT AAT AAT
1 AA-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
* ** * * *
37914809 -AT ACGT GCT AAT AAT AAT AAC AAT -AT AA- AAA AAG AA- AAT AA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
37914850 AACT -AT ATT AAT AAA AAT AAT AAT AAT AGGTT AAT AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
* *
37914897 AAA AAGGT AAA AAT AAT AAT AA- AAT AAT AA
1 AAT AA--T AAT AAT AAT AAT AAT AAT AAT AA
37914927 AAACACTATT
Statistics
Matches: 217, Mismatches: 42, Indels: 70
0.66 0.13 0.21
Matches are distributed among these distances:
2 33 0.15
3 162 0.75
4 12 0.06
5 9 0.04
6 1 0.00
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:37914758 original size:30 final size:29
Alignment explanation
Indices: 37914675--37914773 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 29
37914665 TAGTATATTT
* * *
37914675 ATAATAATAGGAAACAATAATGATAAAAGA
1 ATAATAATA-GAAACAATAGTAATAAAATA
* *
37914705 A-AATAATAGTAATAATGGAAGTAATGAAAATA
1 ATAATAATAGAAACAAT---AGTAAT-AAAATA
37914737 ATAATAATAGAAACAATAGTAATAAAAGTA
1 ATAATAATAGAAACAATAGTAATAAAA-TA
37914767 ATAATAA
1 ATAATAA
37914774 AATAGAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
28 6 0.11
29 11 0.20
30 16 0.29
31 4 0.07
32 6 0.11
33 13 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (29 bp):
ATAATAATAGAAACAATAGTAATAAAATA
Found at i:37914883 original size:23 final size:23
Alignment explanation
Indices: 37914857--37914922 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
37914847 TAAAACTATA
37914857 TTAATAAAAATAATAATAATAGG
1 TTAATAAAAATAATAATAATAGG
* * *
37914880 TTAATAATAATAGTAATAAAAAGG
1 TTAATAAAAATAATAAT-AATAGG
37914904 -TAA-AAATAATAATAA-AATA
1 TTAATAAA-AATAATAATAATA
37914923 ATAAAAACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 25 0.71
24 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.29
Consensus pattern (23 bp):
TTAATAAAAATAATAATAATAGG
Found at i:37914927 original size:20 final size:20
Alignment explanation
Indices: 37914858--37914929 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
37914848 AAAACTATAT
*
37914858 TAATAAAAATAATAATAATAGGT
1 TAATAAAAATAATAATAA-A--A
* *
37914881 TAATAATAATAGTAATAAAA
1 TAATAAAAATAATAATAAAA
*
37914901 -AGGTAAAAATAATAATAAAA
1 TA-ATAAAAATAATAATAAAA
37914921 TAATAAAAA
1 TAATAAAAA
37914930 CACTATTACG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 21 0.52
21 1 0.03
22 1 0.03
23 16 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAA
Found at i:37915008 original size:21 final size:21
Alignment explanation
Indices: 37914962--37915014 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
37914952 ATAATAAAAA
*
37914962 AGAA-AATAGTAATAGTATAT
1 AGAATAATAGTAAAAGTATAT
37914982 AGAATAATAGTAAAAGTA-AT
1 AGAATAATAGTAAAAGTATAT
*
37915002 --AATAATATTAAAA
1 AGAATAATAGTAAAA
37915015 ATAACACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AGAATAATAGTAAAAGTATAT
Found at i:37919669 original size:20 final size:20
Alignment explanation
Indices: 37919632--37919671 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37919622 CATAATTTTT
**
37919632 TATATTTAAAATGTAATTTA
1 TATATTTAAAATAAAATTTA
*
37919652 TATATTTAAATTAAAATTTA
1 TATATTTAAAATAAAATTTA
37919672 CTAATAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATTTAAAATAAAATTTA
Found at i:37920838 original size:94 final size:96
Alignment explanation
Indices: 37920660--37920842 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 96
37920650 GCACCTGCAT
* * *
37920660 TTTTCGTGTAAAAATTTCGATTCCAGAAAAGAGAAAAAAGATACATTTTTACCCAAAAGAATAGG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
*
37920725 TTAGAGAAAGTAGTGTCAAATATAAGTCATA
66 TTAGAGAAAGCAGTGTCAAATATAAGTCATA
*
37920756 TTTTC-TGTAAAAATTTCAATTCCAGAAAGAGGGAAAAAA-ACACATTTAT-CCCAAAAGAATAG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAA-AGAGAAAAAAGACACATTTATACCCAAAAGAATAG
37920818 GTTAGAGAAAGCAGAT-TCAAATATA
65 GTTAGAGAAAGCAG-TGTCAAATATA
37920843 TTAGAGGGAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 35 0.44
95 31 0.39
96 14 0.17
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (96 bp):
TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
TTAGAGAAAGCAGTGTCAAATATAAGTCATA
Found at i:37923628 original size:6 final size:6
Alignment explanation
Indices: 37923617--37923651 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37923607 CTTTTCTCGG
* *
37923617 TCCCTA TCCCTA TCCTTA TCTCTA TCCCTA TCCCT
1 TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCT
37923652 GTGGCGATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.40
Consensus pattern (6 bp):
TCCCTA
Found at i:37923638 original size:24 final size:24
Alignment explanation
Indices: 37923604--37923651 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37923594 CACGATCACG
* *
37923604 ATCCTTTTCTCGGTCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
*
37923628 ATCCTTATCTCTATCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
37923652 GTGGCGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.42, G:0.04, T:0.42
Consensus pattern (24 bp):
ATCCTTATCTCGATCCCTATCCCT
Found at i:37925954 original size:20 final size:19
Alignment explanation
Indices: 37925907--37925954 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
37925897 ATTTGGTTAA
37925907 AATTAAA-ACATATAATTT
1 AATTAAATACATATAATTT
* *
37925925 ATAATAAATACTATGTAATTT
1 A-ATTAAATAC-ATATAATTT
37925946 AATTAAATA
1 AATTAAATA
37925955 TTTAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 9 0.38
21 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAAATACATATAATTT
Found at i:37926081 original size:21 final size:21
Alignment explanation
Indices: 37926058--37926097 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37926048 TTAAAAACAA
37926058 AAAATA-TA-TATCTAAAAATT
1 AAAATATTATTAT-TAAAAATT
37926078 AAAATATTATTATTAAAAAT
1 AAAATATTATTATTAAAAAT
37926098 AACTTCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATTATTATTAAAAATT
Found at i:37929201 original size:30 final size:30
Alignment explanation
Indices: 37929167--37929263 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
37929157 TAAACTAAAA
37929167 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37929197 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
37929227 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
37929257 TGAGCTA
1 TGAGCTA
37929264 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37931134 original size:9 final size:9
Alignment explanation
Indices: 37931120--37931148 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
37931110 AAACAAAGAA
37931120 TCCTTACCT
1 TCCTTACCT
37931129 TCCTTACCT
1 TCCTTACCT
37931138 TCCTTACCT
1 TCCTTACCT
37931147 TC
1 TC
37931149 GATCGCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.00, T:0.45
Consensus pattern (9 bp):
TCCTTACCT
Found at i:37931404 original size:30 final size:29
Alignment explanation
Indices: 37931367--37931450 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
37931357 TTCTTTTGTT
*
37931367 TCAATTTCTTTTTCATCTTTTTTTCACTC
1 TCAATTTCTTTTTCATCTTTTTTTCAATC
* *
37931396 TCAAATTTC-TTTTCGTTCTCTTTTTCAATC
1 TC-AATTTCTTTTTC-ATCTTTTTTTCAATC
* *
37931426 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATCTT-TTTTT
37931451 GATTTTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.32
30 30 0.68
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTTCATCTTTTTTTCAATC
Found at i:37931441 original size:12 final size:12
Alignment explanation
Indices: 37931426--37931457 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37931416 TTTTTCAATC
37931426 TCATTTTCTTTT
1 TCATTTTCTTTT
37931438 TCATTTTCTTTT
1 TCATTTTCTTTT
*
37931450 TGATTTTC
1 TCATTTTC
37931458 AAAGGCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.16, G:0.03, T:0.72
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:37931555 original size:15 final size:15
Alignment explanation
Indices: 37931521--37931564 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
37931511 TTTGCCTCTC
*
37931521 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTTCA
*
37931537 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCA
37931552 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
37931565 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTCTTCA
Found at i:37931585 original size:21 final size:21
Alignment explanation
Indices: 37931517--37931586 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
37931507 GCCTTTTGCC
37931517 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTTATTT-ATTT
*
37931540 TCT-TTTTCTTCTT-TTTCTTT
1 TCTCTTTTCTT-TTATTTATTT
*
37931560 T-TCTTTTCTTTTATTTGTTT
1 TCTCTTTTCTTTTATTTATTT
37931580 TCTCTTT
1 TCTCTTT
37931587 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.07
20 18 0.44
21 10 0.24
22 7 0.17
23 3 0.07
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (21 bp):
TCTCTTTTCTTTTATTTATTT
Found at i:37934230 original size:30 final size:30
Alignment explanation
Indices: 37934196--37934292 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
37934186 TAAACTAAAA
37934196 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37934226 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
37934256 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
37934286 TGAGCTA
1 TGAGCTA
37934293 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37951636 original size:3 final size:3
Alignment explanation
Indices: 37951628--37951653 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37951618 ATATGATTCA
37951628 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
37951654 CTCACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:37953176 original size:23 final size:23
Alignment explanation
Indices: 37953124--37953176 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
37953114 AATTCTAAAC
*
37953124 AAATTCTAAAGAATATATAAAAA
1 AAATTTTAAAGAATATATAAAAA
*
37953147 AAGTTTTAAA-AAT-TATAAAATA
1 AAATTTTAAAGAATATATAAAA-A
37953169 ATAATTTT
1 A-AATTTT
37953177 TGGGATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AAATTTTAAAGAATATATAAAAA
Found at i:37959010 original size:22 final size:23
Alignment explanation
Indices: 37958978--37959023 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
37958968 GTAAGGGGGG
*
37958978 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATCGTATTTTGAGGAGAGA
*
37959000 ATCGATCGTATTTTGGGGAGAGA
1 ATCGATCGTATTTTGAGGAGAGA
37959023 A
1 A
37959024 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (23 bp):
ATCGATCGTATTTTGAGGAGAGA
Found at i:37959033 original size:23 final size:22
Alignment explanation
Indices: 37958985--37959034 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
37958975 GGGATCGATG
**
37958985 GTATTTTGAGGAAGAATCGATC
1 GTATTTTGAGGAAGAAGAGATC
* *
37959007 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATC
37959030 GTATT
1 GTATT
37959035 ACAGGGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.34
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATC
Found at i:37959749 original size:39 final size:40
Alignment explanation
Indices: 37959637--37959778 Score: 252
Period size: 40 Copynumber: 3.6 Consensus size: 40
37959627 ATAAAGTATG
37959637 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
37959677 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
37959717 GTTTTAATTAATAAT-AAAACAAAATAGAATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
37959756 GTTTTAATTAATAAT-AAAACAAA
1 GTTTTAATTAATAATAAAAACAAA
37959779 GTAGCATAGA
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 45 0.45
40 55 0.55
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:37962236 original size:23 final size:25
Alignment explanation
Indices: 37962195--37962242 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
37962185 AAATCTAGTT
*
37962195 TTTAATATTTATATATTTTTATTAA
1 TTTAATATTTATATATTTTAATTAA
*
37962220 TTTAAT-TTT-TATTTTTTAATTAA
1 TTTAATATTTATATATTTTAATTAA
37962243 ATTTGACTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 3 0.14
25 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTAATATTTATATATTTTAATTAA
Found at i:37963743 original size:19 final size:19
Alignment explanation
Indices: 37963719--37963787 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
37963709 ATAAAATTTC
37963719 AAATATTAAAAATTAGAAA
1 AAATATTAAAAATTAGAAA
* *
37963738 AAATA-TAAAAATCATAAA
1 AAATATTAAAAATTAGAAA
*
37963756 AAATATAAAAAATT-GTAAA
1 AAATATTAAAAATTAG-AAA
37963775 AAA-ATTATAAAAT
1 AAATATTA-AAAAT
37963788 ATATAGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATATTAAAAATTAGAAA
Found at i:37963748 original size:18 final size:18
Alignment explanation
Indices: 37963719--37963813 Score: 70
Period size: 18 Copynumber: 5.1 Consensus size: 18
37963709 ATAAAATTTC
37963719 AAATATTAAAAATTAGAAA
1 AAATA-TAAAAATTAGAAA
* *
37963738 AAATATAAAAATCATAAA
1 AAATATAAAAATTAGAAA
37963756 AAATATAAAAAATT-GTAAAA
1 AAATAT-AAAAATTAG--AAA
37963776 AAATTATAAAATATATAG-AA
1 AAA-TATAAAA-AT-TAGAAA
* *
37963796 ATATA-AAAAATTATAAA
1 AAATATAAAAATTAGAAA
37963813 A
1 A
37963814 TTTTATAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 2 0.03
17 5 0.08
18 21 0.34
19 13 0.21
20 14 0.23
21 5 0.08
22 1 0.02
23 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATATAAAAATTAGAAA
Found at i:37963797 original size:10 final size:9
Alignment explanation
Indices: 37963737--37963814 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
37963727 AAAATTAGAA
37963737 AAAATATA-
1 AAAATATAT
*
37963745 AAAATCATAA
1 AAAAT-ATAT
*
37963755 AAAATATAA
1 AAAATATAT
*
37963764 AAAAT-TGT
1 AAAATATAT
*
37963772 AAAAAAATTAT
1 -AAAATA-TAT
37963783 AAAATATAT
1 AAAATATAT
*
37963792 AGAAATATAA
1 A-AAATATAT
37963802 AAAAT-TAT
1 AAAATATAT
37963810 AAAAT
1 AAAAT
37963815 TTTATAAAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 13 0.23
9 24 0.42
10 18 0.32
11 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAATATAT
Found at i:37966381 original size:19 final size:19
Alignment explanation
Indices: 37966340--37966381 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
37966330 AACTGGTAGA
*
37966340 AATAAATATGATTGGCGTT
1 AATAAATATGATTGGCGTG
*
37966359 AATAAATAT-ATTTGGTGTG
1 AATAAATATGA-TTGGCGTG
37966378 AATA
1 AATA
37966382 TAATTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (19 bp):
AATAAATATGATTGGCGTG
Found at i:37969620 original size:17 final size:16
Alignment explanation
Indices: 37969600--37969653 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
37969590 TCATTCCAAT
37969600 TAACAGTTCATACTACA
1 TAACAGTTCATAC-ACA
*
37969617 TAACAGTTTATAACACA
1 TAACAGTTCAT-ACACA
37969634 TAACAGTTCATATCACA
1 TAACAGTTCATA-CACA
37969651 TAA
1 TAA
37969654 TAATTCTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 1 0.03
17 30 0.91
18 2 0.06
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (16 bp):
TAACAGTTCATACACA
Found at i:37970328 original size:18 final size:18
Alignment explanation
Indices: 37970314--37970357 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
37970304 CACAGTTTGG
37970314 CAAATTAATACAGTTCGC
1 CAAATTAATACAGTTCGC
* ** *
37970332 CATATTAATACAAATCAC
1 CAAATTAATACAGTTCGC
37970350 CAAATTAA
1 CAAATTAA
37970358 CATAGTTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGTTCGC
Found at i:37970754 original size:15 final size:15
Alignment explanation
Indices: 37970734--37970764 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37970724 TAATGACAAT
37970734 AACAAATTAAATGAA
1 AACAAATTAAATGAA
37970749 AACAAATTAAATGAA
1 AACAAATTAAATGAA
37970764 A
1 A
37970765 TAGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AACAAATTAAATGAA
Found at i:37976692 original size:13 final size:14
Alignment explanation
Indices: 37976675--37976715 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
37976665 ATGGGGGTAG
37976675 GATTCTGTATATCT
1 GATTCTGTATATCT
*
37976689 -ATTCTGTTTATCT
1 GATTCTGTATATCT
37976702 GATTCTG-ATATCT
1 GATTCTGTATATCT
37976715 G
1 G
37976716 TATCTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:37977497 original size:41 final size:41
Alignment explanation
Indices: 37977448--37977528 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
37977438 TACTTTTAGG
37977448 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
1 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
37977489 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTT
1 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTT
37977529 ACTCTAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
Found at i:37977768 original size:49 final size:49
Alignment explanation
Indices: 37977691--37977796 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 49
37977681 TCTAGAAGGG
* * * *
37977691 ATAAATAGTGATAAGAGTGTAGATAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGAAATGC
37977740 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGAAATGC
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGAAATGC
37977789 ATAGAATA
1 ATA-AATA
37977797 ATTTATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 48 0.92
50 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGAAATGC
Found at i:37978255 original size:33 final size:34
Alignment explanation
Indices: 37978197--37978302 Score: 100
Period size: 32 Copynumber: 3.3 Consensus size: 34
37978187 CGCAAGCATT
* *
37978197 TCAAAACCCATATACATATATATTATATA-A-AA
1 TCAAGACCCATATACATATAAATTATATATATAA
37978229 -CAAGACCCATATATGCATATAAATTATATATATAA
1 TCAAGACCCATATA--CATATAAATTATATATATAA
** *
37978264 TCAAGACCC--ACGCATATATATTATATATATAA
1 TCAAGACCCATATACATATAAATTATATATATAA
37978296 -CAA-ACCC
1 TCAAGACCC
37978303 CACACATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
30 4 0.06
31 15 0.23
32 19 0.30
33 14 0.22
34 2 0.03
35 2 0.03
36 8 0.12
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (34 bp):
TCAAGACCCATATACATATAAATTATATATATAA
Found at i:37978287 original size:32 final size:31
Alignment explanation
Indices: 37978243--37978311 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
37978233 ACCCATATAT
37978243 GCATATAAATTATATATATAATCAAGA-CCCAC
1 GCATATAAATTATATATATAA-CAA-ACCCCAC
*
37978275 GCATATATATTATATATATAACAAACCCCAC
1 GCATATAAATTATATATATAACAAACCCCAC
*
37978306 ACATAT
1 GCATAT
37978312 TTTGCATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 1 0.03
31 13 0.38
32 20 0.59
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.29
Consensus pattern (31 bp):
GCATATAAATTATATATATAACAAACCCCAC
Found at i:37980993 original size:17 final size:18
Alignment explanation
Indices: 37980971--37981005 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37980961 TGATTTGGAT
*
37980971 CGTGTGGG-CTACACGGG
1 CGTGTGGGTCCACACGGG
37980988 CGTGTGGGTCCACACGGG
1 CGTGTGGGTCCACACGGG
37981006 GAGTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
CGTGTGGGTCCACACGGG
Found at i:37985376 original size:22 final size:23
Alignment explanation
Indices: 37985351--37985396 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37985341 CAACCAAATC
37985351 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
37985373 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
37985396 A
1 A
37985397 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:37985402 original size:23 final size:23
Alignment explanation
Indices: 37985358--37985402 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37985348 ATCAATTCAA
*
37985358 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
37985381 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
37985403 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:37992247 original size:19 final size:19
Alignment explanation
Indices: 37992223--37992264 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
37992213 TGTTACCCTG
37992223 TTTCAACTCAAGAAATTCT
1 TTTCAACTCAAGAAATTCT
37992242 TTTCAACTCAAGAAATTCT
1 TTTCAACTCAAGAAATTCT
37992261 TTTC
1 TTTC
37992265 TTTTCTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (19 bp):
TTTCAACTCAAGAAATTCT
Found at i:37998541 original size:18 final size:18
Alignment explanation
Indices: 37998480--37998543 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
37998470 AATCGGTTAA
* *
37998480 TCAGTAATATTCATTTAT
1 TCAGTAACAGTCATTTAT
* *
37998498 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
* *
37998516 TCTGTAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
37998534 TCAGTAACAG
1 TCAGTAACAG
37998544 ATAGTCTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:37999759 original size:13 final size:13
Alignment explanation
Indices: 37999741--37999771 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
37999731 TTTAATTTTC
37999741 TCTTTTCTTCCTT
1 TCTTTTCTTCCTT
37999754 TCTTTTCTTCCTT
1 TCTTTTCTTCCTT
37999767 TCTTT
1 TCTTT
37999772 CTTTTTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTCCTT
Found at i:38007546 original size:64 final size:63
Alignment explanation
Indices: 38007439--38007629 Score: 229
Period size: 64 Copynumber: 3.0 Consensus size: 63
38007429 TGTATGCTTT
* * * ** * * *
38007439 GGTTAAATTTCGATAATGCACTAAGTGCCAGAATGACAAGATAGTGCTAAGTGCATATTACTTC
1 GGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTAA-TGCATATTACTTC
* *
38007503 GGTTATATTTTGATGATGCACTAAGTGTTAGAATGATATGATAGTGTTGAACGCATATTACTTC
1 GGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTT-AATGCATATTACTTC
* * * *
38007567 GGTTATATTCTGATGATGCACTAAGTGATAGAATAATATGATAGCGTTGACTGCATATTACTT
1 GGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTT-AATGCATATTACTT
38007630 TGGACTTTCC
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
64 109 0.98
65 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (63 bp):
GGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTAATGCATATTACTTC
Found at i:38016346 original size:3 final size:3
Alignment explanation
Indices: 38016338--38016370 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
38016328 AACTATATAT
38016338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38016371 ACTGGTTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38016761 original size:64 final size:64
Alignment explanation
Indices: 38016678--38016807 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
38016668 GGGTATATAT
* ** *
38016678 TTCGGTTAAATTCCAATGATGCACTAAGTGTTAAAATGATATGATAGTGCTAAGCACATATTAC
1 TTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATATTAC
* * * * *
38016742 TTCGGTTATATTTCGATGATACACTAAGTGCCAGAATGATATGATAGGGCTAAGCGCATATTAC
1 TTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATATTAC
38016806 TT
1 TT
38016808 TGGACTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (64 bp):
TTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATATTAC
Found at i:38018692 original size:28 final size:27
Alignment explanation
Indices: 38018660--38018743 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
38018650 AAAAAAATCA
*
38018660 AAATATATAATATGTAAAAGTTTAAAAT
1 AAATA-ATAATATGTAAAAATTTAAAAT
** **
38018688 AAATAATATATACATAAAAAAATAAAAT
1 AAATAATA-ATATGTAAAAATTTAAAAT
38018716 AAATAAT-ATATG-AAATAATTTAAAAT
1 AAATAATAATATGTAAA-AATTTAAAAT
38018742 AA
1 AA
38018744 TATGTAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.07
26 13 0.29
27 3 0.07
28 26 0.58
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
AAATAATAATATGTAAAAATTTAAAAT
Found at i:38021321 original size:30 final size:30
Alignment explanation
Indices: 38021286--38021348 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
38021276 CGTTAATCAC
38021286 ATTATTTTTATGAAATAAACATAGAAAAAT
1 ATTATTTTTATGAAATAAACATAGAAAAAT
38021316 ATTATTTTTATGAAATAAACATAGAAAAAT
1 ATTATTTTTATGAAATAAACATAGAAAAAT
38021346 ATT
1 ATT
38021349 GAAAACATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (30 bp):
ATTATTTTTATGAAATAAACATAGAAAAAT
Found at i:38026483 original size:28 final size:27
Alignment explanation
Indices: 38026452--38026512 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
38026442 CAACTCTCAC
* *
38026452 ATTTTGATTCTCAATTTTCTTATTCTCG
1 ATTTTGATTCTCAATTGTC-AATTCTCG
* *
38026480 ATTTTTTATTCTTAATTGTCAATTCTCG
1 A-TTTTGATTCTCAATTGTCAATTCTCG
38026508 ATTTT
1 ATTTT
38026513 CTAATCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.14
28 9 0.32
29 15 0.54
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (27 bp):
ATTTTGATTCTCAATTGTCAATTCTCG
Found at i:38026490 original size:14 final size:14
Alignment explanation
Indices: 38026453--38026496 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38026443 AACTCTCACA
*
38026453 TTTTGATTCTCAAT
1 TTTTTATTCTCAAT
*
38026467 TTTCTTATTCTCGAT
1 TTT-TTATTCTCAAT
*
38026482 TTTTTATTCTTAAT
1 TTTTTATTCTCAAT
38026496 T
1 T
38026497 GTCAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.64
Consensus pattern (14 bp):
TTTTTATTCTCAAT
Found at i:38026530 original size:28 final size:28
Alignment explanation
Indices: 38026473--38026532 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
38026463 CAATTTTCTT
* * * **
38026473 ATTCTCGATTTTTTATTCTTAATTGTCA
1 ATTCTCGATTTTCTAATCTAAATTCCCA
38026501 ATTCTCGATTTTCTAATCTAAATTCCCA
1 ATTCTCGATTTTCTAATCTAAATTCCCA
38026529 ATTC
1 ATTC
38026533 CAAAGTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (28 bp):
ATTCTCGATTTTCTAATCTAAATTCCCA
Found at i:38033611 original size:19 final size:19
Alignment explanation
Indices: 38033583--38033637 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
38033573 ATTACAAAAT
*
38033583 AATTTCAAAATAATTTTTAA
1 AATTTCAAAAT-ATTTATAA
38033603 AATTT-AAAATATTTATAA
1 AATTTCAAAATATTTATAA
* *
38033621 AAATTCCAAA-ATTTATA
1 AATTTCAAAATATTTATA
38033638 TTTTGGGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 18 0.58
19 8 0.26
20 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTCAAAATATTTATAA
Found at i:38033621 original size:18 final size:20
Alignment explanation
Indices: 38033583--38033632 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
38033573 ATTACAAAAT
*
38033583 AATTTCAAAATAATTTTTAA
1 AATTTCAAAATAATTTATAA
38033603 AATTT-AAAAT-ATTTATAAA
1 AATTTCAAAATAATTTAT-AA
*
38033622 AATTCCAAAAT
1 AATTTCAAAAT
38033633 TTATATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTCAAAATAATTTATAA
Found at i:38036418 original size:23 final size:25
Alignment explanation
Indices: 38036364--38036418 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
38036354 CATATACTAT
*
38036364 TATGTATACATTTTAATGTTATTAG
1 TATGTATACATTTTAATGCTATTAG
* *
38036389 T-TATATACCTTTT-ATGCTATT-G
1 TATGTATACATTTTAATGCTATTAG
38036411 TATGTATA
1 TATGTATA
38036419 TTCTTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 10 0.40
25 1 0.04
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (25 bp):
TATGTATACATTTTAATGCTATTAG
Found at i:38036638 original size:26 final size:25
Alignment explanation
Indices: 38036586--38036679 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 25
38036576 TATATATTTC
* *
38036586 TATGTACATATTTTT-ATACCATCT
1 TATGTATATATTTTTAATACCATAT
*
38036610 TATGTATATATTTTTAAATACTATATT
1 TATGTATATATTTTT-AATACCATA-T
*
38036637 ATATGTATATATATATTCTTAGTACCATAT
1 -TATG--TATATAT-TT-TTAATACCATAT
38036667 TATGTATATATTT
1 TATGTATATATTT
38036680 ATTTTTACCC
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
24 14 0.25
26 8 0.14
27 8 0.14
28 4 0.07
29 4 0.07
30 8 0.14
31 9 0.16
32 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
TATGTATATATTTTTAATACCATAT
Found at i:38036677 original size:31 final size:32
Alignment explanation
Indices: 38036614--38036677 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
38036604 CCATCTTATG
* * *
38036614 TATATATTTTTAAATACTATATTATATGTATA
1 TATATATTCTTAAATACCATATTATATATATA
* *
38036646 TATATATTCTT-AGTACCATATTATGTATATA
1 TATATATTCTTAAATACCATATTATATATATA
38036677 T
1 T
38036678 TTATTTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (32 bp):
TATATATTCTTAAATACCATATTATATATATA
Found at i:38036688 original size:26 final size:28
Alignment explanation
Indices: 38036594--38036682 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
38036584 TCTATGTACA
* *
38036594 TATTTTTATACCATCTTATGTATATATT
1 TATTATTATACCATATTATGTATATATT
* * *
38036622 T-TTA-AATACTATATTATATGTATATATA
1 TATTATTATACCATA-T-TATGTATATATT
*
38036650 TATTCTTAGTACCATATTATGTATATATT
1 TATTATTA-TACCATATTATGTATATATT
38036679 TATT
1 TATT
38036683 TTTACCCCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
26 6 0.13
27 3 0.06
28 13 0.28
29 17 0.36
30 2 0.04
31 6 0.13
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTATTATACCATATTATGTATATATT
Found at i:38037019 original size:20 final size:21
Alignment explanation
Indices: 38036991--38037032 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
38036981 TATTAGTTTC
38036991 TTTTTATATAT-TAT-TATCG
1 TTTTTATATATATATATATCG
38037010 TTTTTAATATATATATATATCG
1 TTTTT-ATATATATATATATCG
38037032 T
1 T
38037033 ACATATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 3 0.15
22 6 0.30
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTATATATATATATATCG
Found at i:38037020 original size:22 final size:23
Alignment explanation
Indices: 38036971--38037032 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
38036961 TGTATATATT
* **
38036971 TATATATTATTATTAGTTTCTTTT
1 TATATATTATTA-TCGTTTCTTAA
38036995 TATATATTATTATCGTTT-TTAA
1 TATATATTATTATCGTTTCTTAA
38037017 TATATA-TATATATCGT
1 TATATATTAT-TATCGT
38037033 ACATATCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.09
22 14 0.41
23 5 0.15
24 12 0.35
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (23 bp):
TATATATTATTATCGTTTCTTAA
Found at i:38039166 original size:23 final size:25
Alignment explanation
Indices: 38039112--38039166 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
38039102 CATATACTAT
*
38039112 TATGTATACATTTTAATGTTATTAG
1 TATGTATACATTTTAATGCTATTAG
* *
38039137 T-TATATACCTTTT-ATGCTATT-G
1 TATGTATACATTTTAATGCTATTAG
38039159 TATGTATA
1 TATGTATA
38039167 TTCTTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 10 0.40
25 1 0.04
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (25 bp):
TATGTATACATTTTAATGCTATTAG
Found at i:38039387 original size:26 final size:25
Alignment explanation
Indices: 38039335--38039428 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 25
38039325 TATATATTTC
* *
38039335 TATGTACATATTTTT-ATACCATCT
1 TATGTATATATTTTTAATACCATAT
*
38039359 TATGTATATATTTTTAAATACTATATT
1 TATGTATATATTTTT-AATACCATA-T
*
38039386 ATATGTATATATATATTCTTAGTACCATAT
1 -TATG--TATATAT-TT-TTAATACCATAT
38039416 TATGTATATATTT
1 TATGTATATATTT
38039429 ATTTTTACCC
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
24 14 0.25
26 8 0.14
27 8 0.14
28 4 0.07
29 4 0.07
30 8 0.14
31 9 0.16
32 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
TATGTATATATTTTTAATACCATAT
Found at i:38039426 original size:31 final size:32
Alignment explanation
Indices: 38039363--38039426 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
38039353 CCATCTTATG
* * *
38039363 TATATATTTTTAAATACTATATTATATGTATA
1 TATATATTCTTAAATACCATATTATATATATA
* *
38039395 TATATATTCTT-AGTACCATATTATGTATATA
1 TATATATTCTTAAATACCATATTATATATATA
38039426 T
1 T
38039427 TTATTTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (32 bp):
TATATATTCTTAAATACCATATTATATATATA
Found at i:38039437 original size:26 final size:28
Alignment explanation
Indices: 38039343--38039431 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
38039333 TCTATGTACA
* *
38039343 TATTTTTATACCATCTTATGTATATATT
1 TATTATTATACCATATTATGTATATATT
* * *
38039371 T-TTA-AATACTATATTATATGTATATATA
1 TATTATTATACCATA-T-TATGTATATATT
*
38039399 TATTCTTAGTACCATATTATGTATATATT
1 TATTATTA-TACCATATTATGTATATATT
38039428 TATT
1 TATT
38039432 TTTACCCCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
26 6 0.13
27 3 0.06
28 13 0.28
29 17 0.36
30 2 0.04
31 6 0.13
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTATTATACCATATTATGTATATATT
Found at i:38039771 original size:18 final size:21
Alignment explanation
Indices: 38039743--38039782 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
38039733 ATTAGTTTCT
38039743 TTTTTATATAT-TAT-TATCG
1 TTTTTATATATATATATATCG
38039762 TTTTTA-ATATATATATATCG
1 TTTTTATATATATATATATCG
38039782 T
1 T
38039783 ATATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTATATATATATATATCG
Found at i:38039771 original size:20 final size:20
Alignment explanation
Indices: 38039742--38039782 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38039732 TATTAGTTTC
*
38039742 TTTTTTATATAT-TATTATCG
1 TTTTTAATATATATA-TATCG
38039762 TTTTTAATATATATATATCG
1 TTTTTAATATATATATATCG
38039782 T
1 T
38039783 ATATATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTAATATATATATATCG
Found at i:38048554 original size:311 final size:311
Alignment explanation
Indices: 38047986--38048608 Score: 1156
Period size: 311 Copynumber: 2.0 Consensus size: 311
38047976 TTCCTACAAG
* * *
38047986 CCTCCAAATATCCAGAATGGATGGCTAACATAGTCTCGGTACCAAAGAAAGATGGCAAAGTACGA
1 CCTCCAAATATCCAGAATGGATGGCTAACATAGTCCCAGTACCAAAGAAAGACGGCAAAGTACGA
* *
38048051 ATGTGCATGAATTATCGTGACCTGAATCGAGCAAGTCTTAAAGATAATTTTCCCTTACCACACAT
66 ATGTGCATGAATTATCATGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
38048116 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
131 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
* *
38048181 ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
196 ATAATCAGATCAAAATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATATAGGGAACA
38048246 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
261 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
* *
38048297 CCTCCAAATATCCAGAATGGGTGGCTAACATAGTCCCAGTACTAAAGAAAGACGGCAAAGTACGA
1 CCTCCAAATATCCAGAATGGATGGCTAACATAGTCCCAGTACCAAAGAAAGACGGCAAAGTACGA
*
38048362 ATGTGCGTGAATTATCATGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
66 ATGTGCATGAATTATCATGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
38048427 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
131 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
38048492 ATAATCAGATCAAAATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATATAGGGAACA
196 ATAATCAGATCAAAATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATATAGGGAACA
38048557 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
261 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
38048608 C
1 C
38048609 AAAGGGCTAT
Statistics
Matches: 302, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
311 302 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (311 bp):
CCTCCAAATATCCAGAATGGATGGCTAACATAGTCCCAGTACCAAAGAAAGACGGCAAAGTACGA
ATGTGCATGAATTATCATGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
ATAATCAGATCAAAATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATATAGGGAACA
TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
Found at i:38051367 original size:43 final size:43
Alignment explanation
Indices: 38051285--38051367 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
38051275 ATTATGCCTA
* *
38051285 AAAAAAGATCAAGGTGAAAACCCAAAAAGGGCGTCTTGATAAT
1 AAAAAAGATCAAGGTGAAAACCCAAAAAGGGCATATTGATAAT
*
38051328 AAAAAGGATCAAGGTGAAAACCCAAAAAGGGCATATTGAT
1 AAAAAAGATCAAGGTGAAAACCCAAAAAGGGCATATTGAT
38051368 TAACACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (43 bp):
AAAAAAGATCAAGGTGAAAACCCAAAAAGGGCATATTGATAAT
Found at i:38052336 original size:73 final size:73
Alignment explanation
Indices: 38052189--38052399 Score: 282
Period size: 73 Copynumber: 2.9 Consensus size: 73
38052179 TTGTTTTTCA
* *
38052189 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCGATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTA
* *
38052253 CTGTTTTTC
66 ATG-TCTTC
* * * * *
38052262 AAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATT
38052327 AATG-CTTC
65 AATGTCTTC
* *
38052335 AAAAATTAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATT
38052400 CCTGTTTTCT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
73 98 0.82
75 21 0.18
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTA
ATGTCTTC
Found at i:38052460 original size:161 final size:161
Alignment explanation
Indices: 38052262--38052647 Score: 460
Period size: 161 Copynumber: 2.4 Consensus size: 161
38052252 TCTGTTTTTC
* *
38052262 AAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATT
* *
38052327 AATGC-TTC-AAAAATTAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCTGAGGT
66 AATGCTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCA-G-CACACGCTGAGGT
*
38052390 ATTTTCAATTCCT-GTTTTCTAA-AAAAAAAGAA
129 ATTTTCAATTCCTATTTTTC-AATAAAAAAAGAA
* * * *
38052422 AAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGGCAC--GCCGATGTATTTTCAAT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAT
** *
38052485 TTCTTCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACACGCTGAGG
65 TAATGC-TTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACACGCTGAGG
* * * ******
38052550 TATTTTCAATTTCTATTTTTCAATTTATATTTTTC
128 TATTTTCAATTCCTATTTTTCAA-TAAAAAAAGAA
* *
38052585 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATATGTCGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAA
38052648 AATCTACTTT
Statistics
Matches: 189, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
159 19 0.10
160 5 0.03
161 65 0.34
162 42 0.22
163 44 0.23
164 14 0.07
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATT
AATGCTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACACGCTGAGGTAT
TTTCAATTCCTATTTTTCAATAAAAAAAGAA
Found at i:38052501 original size:86 final size:88
Alignment explanation
Indices: 38052342--38052560 Score: 220
Period size: 75 Copynumber: 2.7 Consensus size: 88
38052332 TTCAAAAATT
* *
38052342 AACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCAATTCCTGTTT
1 AACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTCCTCTTT
38052407 TCTAAAAAAAAAGAAAAAAAGTC
66 TCTAAAAAAAAAGAAAAAAAGTC
* ** * *
38052430 AACTCGTATTGCGAGAGGC-GAGTTGAGCCTC-GG-GGCACGCCGATGTATTTTCAATTTCTTCT
1 AACTCATATTGCGAGA-GCTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAA-TTCCTCT
38052492 TTTC-----------AAAAAAA-TC
64 TTTCTAAAAAAAAAGAAAAAAAGTC
* *
38052505 AACTCATATTGCGAGAGATGAGTTGAGCCTCA-G-CACACGCTGAGGTATTTTCAATT
1 AACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
38052561 TCTATTTTTC
Statistics
Matches: 114, Mismatches: 13, Indels: 22
0.77 0.09 0.15
Matches are distributed among these distances:
74 3 0.03
75 47 0.41
76 7 0.06
86 17 0.15
87 11 0.10
88 27 0.24
89 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (88 bp):
AACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTCCTCTTT
TCTAAAAAAAAAGAAAAAAAGTC
Found at i:38052571 original size:14 final size:14
Alignment explanation
Indices: 38052552--38052586 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38052542 CGCTGAGGTA
*
38052552 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
38052566 TTTTCAATTTATAT
1 TTTTCAATTTATAT
38052580 TTTTCAA
1 TTTTCAA
38052587 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:38052584 original size:89 final size:88
Alignment explanation
Indices: 38052477--38052800 Score: 288
Period size: 89 Copynumber: 3.7 Consensus size: 88
38052467 CGCCGATGTA
*
38052477 TTTTCAATTTCT-TCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCAC
1 TTTTCAATTTATAT-TTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCAC
38052541 ACGCTGAGGTATTTTCAATTTCTAT
64 ACGCTGAGGTATTTTCAATTTCTAT
* * *
38052566 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAT
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AG-CAC
* ** *
38052630 ATG-TCGAGGTATTTTCAAAATCTAC
64 ACGCT-GAGGTATTTTCAATTTCTAT
* * * * * ** *
38052655 TTTTCAAATTA-A-GTTTCAAAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACA
* *
38052718 CGTGCTGAGCTATTTTCAATTTCTGT
65 C--GCTGAGGTATTTTCAATTTCTAT
* * * * * *
38052744 TTTT-AATGTT-TGTTTTT-AAAGAGTTAATTCATATTGCGAGAAATGAGTTGAG-CTCAG
1 TTTTCAAT-TTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
38052801 GATCACATGC
Statistics
Matches: 189, Mismatches: 34, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
87 46 0.24
88 34 0.18
89 104 0.55
90 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (88 bp):
TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACAC
GCTGAGGTATTTTCAATTTCTAT
Found at i:38052971 original size:21 final size:21
Alignment explanation
Indices: 38052925--38052973 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
38052915 ACCAGAGCCC
* **
38052925 TGAAGTTACATTGGAGCTGAT
1 TGAAGTTACAGTGGAGCACAT
*
38052946 CGAAGTTACAGTGGAGCACAT
1 TGAAGTTACAGTGGAGCACAT
38052967 TGAAGTT
1 TGAAGTT
38052974 GCAGATCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAAGTTACAGTGGAGCACAT
Found at i:38053037 original size:44 final size:44
Alignment explanation
Indices: 38052988--38053087 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
38052978 ATCTTATCTT
38052988 CCTGAAGATACAGCAGAAGAGCAGA-TCACAACAAATTTTATATC
1 CCTGAAGATACAGCAGAAGAGCA-ACTCACAACAAATTTTATATC
* * *
38053032 TCTGAAGATATAGCAGAAGAGCAACTCACAACGAATTTTATATC
1 CCTGAAGATACAGCAGAAGAGCAACTCACAACAAATTTTATATC
38053076 CCTGAAGATACA
1 CCTGAAGATACA
38053088 AGTAGACTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 49 0.98
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (44 bp):
CCTGAAGATACAGCAGAAGAGCAACTCACAACAAATTTTATATC
Found at i:38054891 original size:31 final size:32
Alignment explanation
Indices: 38054828--38054891 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
38054818 CCATCTTATG
* * *
38054828 TATATATTTTTAAATACTATATTATATGTATA
1 TATATATTCTTAAATACCATATTATATATATA
* *
38054860 TATATATTCTT-AGTACCATATTATGTATATA
1 TATATATTCTTAAATACCATATTATATATATA
38054891 T
1 T
38054892 TTATTTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (32 bp):
TATATATTCTTAAATACCATATTATATATATA
Found at i:38054902 original size:26 final size:28
Alignment explanation
Indices: 38054808--38054896 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
38054798 TCCATGTACA
* *
38054808 TATTTTTATACCATCTTATGTATATATT
1 TATTATTATACCATATTATGTATATATT
* * *
38054836 T-TTA-AATACTATATTATATGTATATATA
1 TATTATTATACCATA-T-TATGTATATATT
*
38054864 TATTCTTAGTACCATATTATGTATATATT
1 TATTATTA-TACCATATTATGTATATATT
38054893 TATT
1 TATT
38054897 TTTACCCCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
26 6 0.13
27 3 0.06
28 13 0.28
29 17 0.36
30 2 0.04
31 6 0.13
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTATTATACCATATTATGTATATATT
Found at i:38066369 original size:29 final size:31
Alignment explanation
Indices: 38066306--38066384 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
38066296 TGAAACCCTT
* *
38066306 ATTTGAACATTTTTAAAAAGATTTAAAGTTT
1 ATTTGAACATTTTTAAAAAGATTTAAACTTC
* *
38066337 ATTTGACCA-TTTT-AAAAGATTTGAACTTC
1 ATTTGAACATTTTTAAAAAGATTTAAACTTC
*
38066366 ATTTTAACAGTTTTGTAAA
1 ATTTGAACA-TTTT-TAAA
38066385 GATTAAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.53
30 4 0.11
31 11 0.29
32 1 0.03
33 2 0.05
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
ATTTGAACATTTTTAAAAAGATTTAAACTTC
Found at i:38068621 original size:20 final size:20
Alignment explanation
Indices: 38068596--38068647 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
38068586 CTCTCTTAAT
38068596 TAAATTATTTATTATTCTAC
1 TAAATTATTTATTATTCTAC
38068616 TAAATTATTTATTATTCTAC
1 TAAATTATTTATTATTCTAC
38068636 TAAATTATTTAT
1 TAAATTATTTAT
38068648 GCTTTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATTATTTATTATTCTAC
Found at i:38072078 original size:50 final size:49
Alignment explanation
Indices: 38071957--38072132 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
38071947 TGAGGTCGCA
* * * * *
38071957 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGTATAA-T-TGGTCACG
**
38072008 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGTATAATT-GGTCACG
* * ** *
38072058 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGTATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGTATAATTGGTCACG
38072107 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38072133 TGCGTACCAG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 33 0.31
50 42 0.39
51 33 0.31
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGTATAATTGGTCACG
Done.