Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 10 of 325
Found at i:2949449 original size:9 final size:9
Alignment explanation
Indices: 2949435--2949469 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2949425 ACTGCAGAAG
*
2949435 ACGAGGAGT
1 ACGAGGAAT
2949444 ACGAGGAAT
1 ACGAGGAAT
*
2949453 ATGAGGAAT
1 ACGAGGAAT
2949462 ACGAGGAA
1 ACGAGGAA
2949470 GAGGCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.37, T:0.11
Consensus pattern (9 bp):
ACGAGGAAT
Found at i:2952039 original size:2 final size:2
Alignment explanation
Indices: 2952032--2952056 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2952022 GACTGTGCTT
2952032 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2952057 GAAGATGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2953582 original size:31 final size:31
Alignment explanation
Indices: 2953547--2953616 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
2953537 CTTAACAGCC
* *
2953547 TAGTGACTTGAATAAAAAATTTCAAATAGTT
1 TAGTGACTTAAATAAAAAATTTCAAATAATT
* * *
2953578 TAGTGACTTAAATGAAAACTTTTAAATAATT
1 TAGTGACTTAAATAAAAAATTTCAAATAATT
2953609 TAGTGACT
1 TAGTGACT
2953617 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAAATTTCAAATAATT
Found at i:2954448 original size:32 final size:29
Alignment explanation
Indices: 2954406--2954466 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
2954396 AAAGATTGAT
*
2954406 TAATAACCAAATTTAACTGAATAAAAAAAAAA
1 TAATAACCAAA-TTAAC-CAA-AAAAAAAAAA
*
2954438 TAATACCCAAATTAACCAAAAAAAAAAAA
1 TAATAACCAAATTAACCAAAAAAAAAAAA
2954467 GAAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 2 0.07
31 5 0.19
32 10 0.37
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.18
Consensus pattern (29 bp):
TAATAACCAAATTAACCAAAAAAAAAAAA
Found at i:2957472 original size:31 final size:30
Alignment explanation
Indices: 2957434--2957508 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
2957424 AAAATATAAT
2957434 ATTTGGTACTTGAACTTGACACTTTTTCTTA
1 ATTTGGTACTT-AACTTGACACTTTTTCTTA
* * *
2957465 ATTTGGTACCTAACCTTGATACTTTTTGTTA
1 ATTTGGTACTTAA-CTTGACACTTTTTCTTA
*
2957496 AGTTGGTACTTAA
1 ATTTGGTACTTAA
2957509 ACTTTTTGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (30 bp):
ATTTGGTACTTAACTTGACACTTTTTCTTA
Found at i:2959198 original size:49 final size:49
Alignment explanation
Indices: 2959120--2959358 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 49
2959110 GTAGCCGAAG
*
2959120 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
2959169 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
* * * * *
2959219 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGC-TCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCGACCAA
* ** *
2959269 GTTATGAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* **
2959319 CAATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
2959359 CGTGACCTCA
Statistics
Matches: 155, Mismatches: 30, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
49 78 0.50
50 42 0.27
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:2959307 original size:101 final size:100
Alignment explanation
Indices: 2959134--2959362 Score: 329
Period size: 100 Copynumber: 2.3 Consensus size: 100
2959124 CTGGTACGCA
*
2959134 TAGTAGCCTGCACTTAGTACTACACA--TGCGACCAATTATCCGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGCGACCAATTATCAGGTACACATAGTAGCCTGCACT
* *
2959197 TAGTACTACACACGTGACCTAACCATCTGATACACG
66 TAGTACTACACACGCGACC-AACAATCTGATACACG
* * * *
2959233 TAGTAGCCTGCACTTAGTACTACACACGTGC-TCGAAGTTATGAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGCGACCAA-TTATCAGGTACACATAGTAGCCTGCAC
* * *
2959297 TTAGTACTACACATGCGACCAACAATCTGGTACATG
65 TTAGTACTACACACGCGACCAACAATCTGATACACG
2959333 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
2959363 ACCTCACAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
99 26 0.22
100 46 0.39
101 45 0.38
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGCGACCAATTATCAGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCAACAATCTGATACACG
Found at i:2960047 original size:30 final size:29
Alignment explanation
Indices: 2960013--2960071 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
2960003 CTTTAATACG
2960013 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGC-AAATTACAC-TTTTGCCCCTA
* *
2960043 AACTTTTGCATATTACACTTTTGCCCCTA
1 AACTTTGGCAAATTACACTTTTGCCCCTA
2960072 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (29 bp):
AACTTTGGCAAATTACACTTTTGCCCCTA
Found at i:2967098 original size:11 final size:11
Alignment explanation
Indices: 2966991--2967098 Score: 51
Period size: 11 Copynumber: 9.5 Consensus size: 11
2966981 TACTGTTGTG
*
2966991 TTTTGTTATTA
1 TTTTATTATTA
** *
2967002 TTTTGCTATCA
1 TTTTATTATTA
*
2967013 TTTTGTTATTA
1 TTTTATTATTA
* *
2967024 TATTATTACTA
1 TTTTATTATTA
2967035 TTTTATTA-T-
1 TTTTATTATTA
2967044 TTTTATT-TGGATA
1 TTTTATTAT---TA
*
2967057 TTGTATAATTATTG
1 TT-T-T-ATTATTA
*
2967071 TTTTATTGTTAA
1 TTTTATTATT-A
2967083 TTTTATTATTA
1 TTTTATTATTA
2967094 TTTTA
1 TTTTA
2967099 GAGTCATTTG
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
9 7 0.09
10 1 0.01
11 44 0.59
12 11 0.15
13 3 0.04
14 4 0.05
15 1 0.01
16 3 0.04
17 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:2969806 original size:24 final size:26
Alignment explanation
Indices: 2969762--2969813 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
2969752 TAATAAGTAT
2969762 AATAATAAATATAAGGATATAT-GAA
1 AATAATAAATATAAGGATATATAGAA
*
2969787 AATAATAAA-ATAA-TACTATATAGAA
1 AATAATAAATATAAGGA-TATATAGAA
2969812 AA
1 AA
2969814 AGTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.04
24 9 0.38
25 14 0.58
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (26 bp):
AATAATAAATATAAGGATATATAGAA
Found at i:2970180 original size:25 final size:25
Alignment explanation
Indices: 2970137--2970246 Score: 66
Period size: 25 Copynumber: 4.4 Consensus size: 25
2970127 AATAGTTATT
** *
2970137 AAAAATATATGTATGAGATAATATC
1 AAAAATATATACATAAGATAATATC
*
2970162 AAAAATATATACATAAGATAGTA-C
1 AAAAATATATACATAAGATAATATC
* * * * *
2970186 ATAAATAATCTAAATAATATAATATTGAA
1 AAAAAT-ATATACATAAGATAATA-T--C
2970215 AAAAATATATACAT-A-ATAATAT-
1 AAAAATATATACATAAGATAATATC
2970237 ATAAAATATA
1 A-AAAATATA
2970247 ATGTTAAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
22 1 0.02
23 8 0.12
24 6 0.09
25 33 0.50
26 6 0.09
27 1 0.02
28 6 0.09
29 5 0.08
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
AAAAATATATACATAAGATAATATC
Found at i:2970247 original size:14 final size:14
Alignment explanation
Indices: 2970201--2970301 Score: 59
Period size: 14 Copynumber: 7.0 Consensus size: 14
2970191 TAATCTAAAT
2970201 AATATAATAT-TGAA
1 AATATAATATAT-AA
2970215 AA-A-AATATAT-A
1 AATATAATATATAA
*
2970226 CATAATAATATATAA
1 AAT-ATAATATATAA
* *
2970241 AATATAATGTTAAAA
1 AATATAAT-ATATAA
2970256 GCATATATAACATATATAA
1 --A-ATAT-A-ATATATAA
2970275 AATAT-ATATATAA
1 AATATAATATATAA
*
2970288 AATATAATACATAA
1 AATATAATATATAA
2970302 GTATTAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
11 2 0.03
12 5 0.07
13 16 0.24
14 21 0.31
15 7 0.10
16 4 0.06
17 2 0.03
18 4 0.06
19 5 0.07
20 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (14 bp):
AATATAATATATAA
Found at i:2970285 original size:13 final size:13
Alignment explanation
Indices: 2970267--2970293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2970257 CATATATAAC
2970267 ATATATAAAATAT
1 ATATATAAAATAT
2970280 ATATATAAAATAT
1 ATATATAAAATAT
2970293 A
1 A
2970294 ATACATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATATAAAATAT
Found at i:2970339 original size:20 final size:19
Alignment explanation
Indices: 2970278--2970330 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
2970268 TATATAAAAT
*
2970278 ATATATATAAAATATAATAC
1 ATATATATAAAACAT-ATAC
2970298 ATA-AGTATTAAATACATATAC
1 ATATA-TA-TAAA-ACATATAC
2970319 ATATATATAAAA
1 ATATATATAAAA
2970331 GATCATACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 13 0.46
22 4 0.14
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATATATAAAACATATAC
Found at i:2971663 original size:24 final size:24
Alignment explanation
Indices: 2971636--2971686 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
2971626 TGGACTTCTG
*
2971636 TTGGGTTAATTTTGAGTGTTGGGC
1 TTGGGTTAATTTTGAGTGTTGAGC
2971660 TTGGGTTAATTTTGAGTGTTGAGC
1 TTGGGTTAATTTTGAGTGTTGAGC
2971684 TTG
1 TTG
2971687 AGTAGGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.14, C:0.04, G:0.35, T:0.47
Consensus pattern (24 bp):
TTGGGTTAATTTTGAGTGTTGAGC
Found at i:2973551 original size:17 final size:17
Alignment explanation
Indices: 2973509--2973551 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2973499 TGCTTTTTTC
2973509 TAAAATAAATGCAAAAAA
1 TAAAA-AAATGCAAAAAA
** *
2973527 CGAGAAAATGCAAAAAA
1 TAAAAAAATGCAAAAAA
2973544 TAAAAAAA
1 TAAAAAAA
2973552 ATAGTAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 1
0.73 0.23 0.04
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.72, C:0.07, G:0.09, T:0.12
Consensus pattern (17 bp):
TAAAAAAATGCAAAAAA
Found at i:2973652 original size:30 final size:29
Alignment explanation
Indices: 2973592--2973665 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 29
2973582 TAAAAAACAT
* *
2973592 AAAATAAAAAAATAATTCAAAAAGAAAAA
1 AAAAGAAAAAAATAATTAAAAAAGAAAAA
* * *
2973621 AAAAGAAAAGAAATCATTAAAAAATATAAA
1 AAAAGAAAA-AAATAATTAAAAAAGAAAAA
*
2973651 AAAA-AACAAAATAAT
1 AAAAGAAAAAAATAAT
2973666 ATAGATATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 6 0.16
29 11 0.30
30 20 0.54
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (29 bp):
AAAAGAAAAAAATAATTAAAAAAGAAAAA
Found at i:2977475 original size:19 final size:19
Alignment explanation
Indices: 2977451--2977490 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2977441 GAAATATGAT
2977451 TTGAACTCGAACTTAAACA
1 TTGAACTCGAACTTAAACA
2977470 TTGAACTCGAACTTAAACA
1 TTGAACTCGAACTTAAACA
2977489 TT
1 TT
2977491 TAAGATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (19 bp):
TTGAACTCGAACTTAAACA
Found at i:2982324 original size:231 final size:230
Alignment explanation
Indices: 2981757--2982435 Score: 798
Period size: 232 Copynumber: 2.9 Consensus size: 230
2981747 GAATAAATTG
* * *
2981757 GAATGTATTCTTATTTATTAATAGGTTTTGGGTTCACGTGACTTGCAGTGGCAAACGCTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
* * * * *
2981822 AAAGTATTTATAATTAATCAGATAGGCGGTTTTGCG-TTATTGTTAAGG-ATTTTAGGTTTTTAT
66 AAAGTATTTGTAATTAATCATATAGGCGATTTTG-GTTTATTATT-AGGAATTTTAGATTTTTAT
* * * * *
2981885 TGGATAATGGGAAGTTTTAAATTTCAAGATTTGTTTGAAATATTTAATAATGTGATTTACAATAA
129 TGGATAATGAGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAATTTGATTTATAATAA
* * *
2981950 TGAGGTTATTTTTTTCATTTGGTAATAGGTCTTTTATTG
194 TGAGGTTA-TTTTTT-ATTTGTTAATAGGTCTTTTACTA
* * * * *
2981989 GAATGTTTTCTTATTTATTGATAGGTTTTCAGTTCACATGACTCACGGTGGCAAACGCTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
* * * * *
2982054 AAAGTATTTGTAACTAATTCGATAT--GC-AGTTTCGGTTTATTATTAGGAATCTTCGATTTTAA
66 AAAGTATTTGTAATTAA-TC-ATATAGGCGA-TTTTGGTTTATTATTAGGAATTTTAGATTTTTA
* *
2982116 TTGGATAATGAGAAGTTTCAAATTTCAAGATTTGTTCAAAATATTTAATAATTTGATTTTTAATA
128 TTGGATAATGAGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAATTTGATTTATAATA
* * * *
2982181 TTGAGGTTCAGTTTTTATTTGTTAATA-TTTTTTTCACTA
193 ATGAGGTT-ATTTTTTATTTGTTAATAGGTCTTTT-ACTA
* *** * **
2982220 GAATGTATTCTTATTTATTAATAGGTTTTTGGTTCACATGACTCGCAACAGTAAATACTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
*
2982285 AAAGTATTTGTAATTAATCATATAGGCGATTTTGGTTTATTATTAGGAATTTTATGTTTTTTATT
66 AAAGTATTTGTAATTAATCATATAGGCGATTTTGGTTTATTATTAGGAATTTTA-GATTTTTATT
* * * *
2982350 AGATAAT-AGAAAGTTTCGAATATCAAGATTTGTTTAAAATATTTAATAACTTGATTTATAATAA
130 GGATAATGAG-AAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAATTTGATTTATAATAA
2982414 TG-GGTTTATTTTTTATTTGTTA
194 TGAGG-TTATTTTTTATTTGTTA
2982436 CTTTGGTATT
Statistics
Matches: 376, Mismatches: 58, Indels: 27
0.82 0.13 0.06
Matches are distributed among these distances:
229 4 0.01
230 7 0.02
231 127 0.34
232 232 0.62
233 3 0.01
234 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (230 bp):
GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
AAAGTATTTGTAATTAATCATATAGGCGATTTTGGTTTATTATTAGGAATTTTAGATTTTTATTG
GATAATGAGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAATTTGATTTATAATAATG
AGGTTATTTTTTATTTGTTAATAGGTCTTTTACTA
Found at i:2983518 original size:15 final size:13
Alignment explanation
Indices: 2983488--2983527 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2983478 ATGTGGGTAA
2983488 ATAACAAAATTTT
1 ATAACAAAATTTT
2983501 ATAACAAATATATTT
1 ATAACAAA-AT-TTT
*
2983516 ATAAAAAAATTT
1 ATAACAAAATTT
2983528 GATTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 10 0.42
14 4 0.17
15 10 0.42
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAACAAAATTTT
Found at i:2983982 original size:76 final size:77
Alignment explanation
Indices: 2983874--2984019 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 77
2983864 ATAAGGGCAC
* *
2983874 TATAATAAGTTTAAATAAGAGATGAAATTATGCTAAA-TCAAA-AAAAAAATTAAATCTCAAATT
1 TATAATAAGTTTAAATAAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAATT
2983937 TGAACTTGAAAA
66 TGAACTTGAAAA
* * * * *
2983949 TATAATAAGTTTAGATAAAGAGATGAAACTATGCCAAATTGAAATAAAAGAATTTACTCTCAAAT
1 TATAATAAGTTTAAAT-AAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAAT
2984014 TTGAAC
65 TTGAAC
2984020 ATAAGTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 15 0.25
76 19 0.31
77 4 0.07
78 23 0.38
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (77 bp):
TATAATAAGTTTAAATAAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAATT
TGAACTTGAAAA
Found at i:2985685 original size:30 final size:31
Alignment explanation
Indices: 2985645--2985703 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
2985635 CTTGTTAGGA
*
2985645 GTAACTGTCTTACAGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAATATGGTTAGCTTT
*
2985676 GTAAC-GTCTTTAGTTAATATGGTTAGCT
1 GTAACTGTCTTCAGTTAATATGGTTAGCT
2985704 GTTAGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAATATGGTTAGCTTT
Found at i:2990217 original size:30 final size:31
Alignment explanation
Indices: 2990177--2990235 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
2990167 CATGTTAGGA
*
2990177 GTAACTGTCTTACAGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAATATGGTTAGCTTT
*
2990208 GTAAC-GTCTTTAGTTAATATGGTTAGCT
1 GTAACTGTCTTCAGTTAATATGGTTAGCT
2990236 GTTAGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAATATGGTTAGCTTT
Found at i:2995633 original size:14 final size:14
Alignment explanation
Indices: 2995616--2995642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2995606 AAATTAATGT
2995616 TAAAAAATTTAAAA
1 TAAAAAATTTAAAA
2995630 TAAAAAATTTAAA
1 TAAAAAATTTAAA
2995643 TTTATGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAAATTTAAAA
Found at i:2997529 original size:28 final size:27
Alignment explanation
Indices: 2997468--2997521 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
2997458 TAAAAAAGTA
2997468 AAATTTTAATATTTATATATTTTGTTT
1 AAATTTTAATATTTATATATTTTGTTT
2997495 AAATTTTCAATATTTATATATTTTGTT
1 AAATTTT-AATATTTATATATTTTGTT
2997522 AAGTTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
AAATTTTAATATTTATATATTTTGTTT
Found at i:3009920 original size:32 final size:33
Alignment explanation
Indices: 3009884--3009954 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 33
3009874 AGTATTTTCA
3009884 TTAAAAGATTGATAGA-TAAATTTAA-TT-TTTTT
1 TTAAAA-ATTG-TAGACTAAATTTAATTTATTTTT
*
3009916 TT-AAATTTGTAGACTAAATTTAATTTATTTTT
1 TTAAAAATTGTAGACTAAATTTAATTTATTTTT
3009948 TTAAAAA
1 TTAAAAA
3009955 ATAAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
29 4 0.12
30 12 0.36
31 5 0.15
32 9 0.27
33 3 0.09
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (33 bp):
TTAAAAATTGTAGACTAAATTTAATTTATTTTT
Found at i:3013606 original size:22 final size:22
Alignment explanation
Indices: 3013581--3013626 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
3013571 GATATTTGTG
* * *
3013581 TTTGCAAACTACTCAAATTTAA
1 TTTGAAAAATACTCAAATTCAA
*
3013603 TTTGAAAAATATTCAAATTCAA
1 TTTGAAAAATACTCAAATTCAA
3013625 TT
1 TT
3013627 CCGTAATATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTGAAAAATACTCAAATTCAA
Found at i:3014840 original size:33 final size:33
Alignment explanation
Indices: 3014798--3014864 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
3014788 CAGATATTGC
3014798 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
1 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
3014831 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
1 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
3014864 A
1 A
3014865 CTTACTTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.24, T:0.21
Consensus pattern (33 bp):
AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
Found at i:3018744 original size:14 final size:15
Alignment explanation
Indices: 3018725--3018757 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
3018715 AGTTTCAAAT
3018725 TTATGGATGAAGC-A
1 TTATGGATGAAGCAA
3018739 TTATGGATGAAGCAA
1 TTATGGATGAAGCAA
3018754 TTAT
1 TTAT
3018758 CAAAGGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (15 bp):
TTATGGATGAAGCAA
Found at i:3023134 original size:4 final size:4
Alignment explanation
Indices: 3023125--3023176 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
3023115 CTACTACATG
* *
3023125 ATTA ATTA ATT- ATTC ATTA GATTA ATTA ATT- ATTC ATTA GATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA -ATTA ATTA ATTA ATTA ATTA -ATTA ATTA
3023173 ATTA
1 ATTA
3023177 TTCATTAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 6 0.14
4 28 0.67
5 8 0.19
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:3023152 original size:24 final size:20
Alignment explanation
Indices: 3023124--3023187 Score: 128
Period size: 20 Copynumber: 3.2 Consensus size: 20
3023114 ACTACTACAT
3023124 GATTAATTAATTATTCATTA
1 GATTAATTAATTATTCATTA
3023144 GATTAATTAATTATTCATTA
1 GATTAATTAATTATTCATTA
3023164 GATTAATTAATTATTCATTA
1 GATTAATTAATTATTCATTA
3023184 GATT
1 GATT
3023188 TTCTACTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (20 bp):
GATTAATTAATTATTCATTA
Found at i:3031817 original size:40 final size:40
Alignment explanation
Indices: 3031755--3031849 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
3031745 CTTTTCTTTC
* *
3031755 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
3031796 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
3031836 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
3031850 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:3032659 original size:11 final size:11
Alignment explanation
Indices: 3032620--3032698 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
3032610 TGCATATATG
3032620 ATATAATACATGA
1 ATAT-ATACAT-A
3032633 ATA-ATACGAT-
1 ATATATAC-ATA
3032643 ATATATACATA
1 ATATATACATA
3032654 ATATAT--ATA
1 ATATATACATA
*
3032663 ATA-A-A-AGA
1 ATATATACATA
3032671 ATAATATACATA
1 AT-ATATACATA
3032683 ATATATA-A-A
1 ATATATACATA
3032692 ATATATA
1 ATATATA
3032699 GGTATATAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
8 5 0.09
9 15 0.27
10 7 0.12
11 20 0.36
12 6 0.11
13 3 0.05
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (11 bp):
ATATATACATA
Found at i:3032805 original size:22 final size:22
Alignment explanation
Indices: 3032780--3032830 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
3032770 TATAGCATTA
*
3032780 AAAATATTAAAATAAAA-TAAAT
1 AAAATAATAAAA-AAAACTAAAT
3032802 AAAATAATAAAAAAAACTAAAT
1 AAAATAATAAAAAAAACTAAAT
3032824 ACAAATA
1 A-AAATA
3032831 CATATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAATAAAAAAAACTAAAT
Found at i:3032968 original size:21 final size:21
Alignment explanation
Indices: 3032936--3032980 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3032926 GATATTTAAT
3032936 AAAAAATGAAAA-TAAACGAA
1 AAAAAATGAAAATTAAACGAA
* *
3032956 AAAAAGATTAAAATTAAACTAA
1 AAAAA-ATGAAAATTAAACGAA
3032978 AAA
1 AAA
3032981 CAAAGTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAAAATGAAAATTAAACGAA
Found at i:3035190 original size:15 final size:17
Alignment explanation
Indices: 3035160--3035192 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
3035150 TAAAAAATTT
3035160 AAAATTATTCAAAAATA
1 AAAATTATTCAAAAATA
3035177 AAAATTA-T-AAAAATA
1 AAAATTATTCAAAAATA
3035192 A
1 A
3035193 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTATTCAAAAATA
Found at i:3037768 original size:26 final size:27
Alignment explanation
Indices: 3037732--3037784 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3037722 TGTCAGCTAG
* *
3037732 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
3037758 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
3037785 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:3039665 original size:45 final size:44
Alignment explanation
Indices: 3039601--3039847 Score: 349
Period size: 45 Copynumber: 5.6 Consensus size: 44
3039591 CGAGCTTCGG
* *
3039601 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTTGA
*
3039646 GCCTAGCAGGCTATGATGCCGGTGAGATATCATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATAT-ATTCGGGCCTTTGA
*
3039691 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTTGA
3039736 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTT-GA
* *
3039781 GCCTAGCAGGCTATAATGCCGGTGAAATGATA-TCGGGCC-TCGA
1 GCCTAGCAGGCTATAATGCCGGTGAGAT-ATATTCGGGCCTTTGA
*
3039824 GCCTAGCAGGCGA-AATGCCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
3039848 TTAGAGAAAA
Statistics
Matches: 191, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
42 11 0.06
43 14 0.07
44 11 0.06
45 153 0.80
46 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (44 bp):
GCCTAGCAGGCTATAATGCCGGTGAGATATATTCGGGCCTTTGA
Found at i:3042944 original size:14 final size:14
Alignment explanation
Indices: 3042925--3042952 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3042915 CCTCACAATA
3042925 ATGTTATCTCTAGG
1 ATGTTATCTCTAGG
3042939 ATGTTATCTCTAGG
1 ATGTTATCTCTAGG
3042953 GAGAGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
ATGTTATCTCTAGG
Found at i:3050663 original size:21 final size:19
Alignment explanation
Indices: 3050634--3050672 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
3050624 TTTCTTCTAA
3050634 TAATATTATTGAAAAGTAAC
1 TAATATTATT-AAAAGTAAC
*
3050654 TAATCATTATTTAAAGTAA
1 TAAT-ATTATTAAAAGTAA
3050673 ACTGACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
TAATATTATTAAAAGTAAC
Found at i:3052757 original size:23 final size:23
Alignment explanation
Indices: 3052730--3052773 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3052720 TTAGTAGACT
3052730 AATAACTTAAAAAAAAACTTTTC
1 AATAACTTAAAAAAAAACTTTTC
* * *
3052753 AATAATTTAAATAATAACTTT
1 AATAACTTAAAAAAAAACTTT
3052774 GAAATAGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAACTTAAAAAAAAACTTTTC
Found at i:3052779 original size:23 final size:23
Alignment explanation
Indices: 3052730--3052779 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
3052720 TTAGTAGACT
**
3052730 AATAACTTAAAAAAAAACTTTTC
1 AATAACTTAAAAAAAAACTTTGA
* * *
3052753 AATAATTTAAATAATAACTTTGA
1 AATAACTTAAAAAAAAACTTTGA
3052776 AATA
1 AATA
3052780 GTTGAACGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAACTTAAAAAAAAACTTTGA
Found at i:3058012 original size:16 final size:15
Alignment explanation
Indices: 3057993--3058039 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
3057983 ACTTGTTCCA
3057993 AACATGAGTTGTTTT
1 AACATGAGTTGTTTT
3058008 GAACAT-AGTTGCTTTT
1 -AACATGAGTTG-TTTT
*
3058024 AACAAGAGTTGTTTT
1 AACATGAGTTGTTTT
3058039 A
1 A
3058040 TGGTGATGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (15 bp):
AACATGAGTTGTTTT
Found at i:3058027 original size:15 final size:16
Alignment explanation
Indices: 3057993--3058038 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
3057983 ACTTGTTCCA
3057993 AACATGAGTTGTTTTG
1 AACATGAGTTGTTTTG
3058009 AACAT-AGTTGCTTTT-
1 AACATGAGTTG-TTTTG
*
3058024 AACAAGAGTTGTTTT
1 AACATGAGTTGTTTT
3058039 ATGGTGATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (16 bp):
AACATGAGTTGTTTTG
Found at i:3083606 original size:31 final size:30
Alignment explanation
Indices: 3083571--3083631 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
3083561 GAAACAGAAT
*
3083571 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
3083602 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
3083632 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:3084191 original size:39 final size:39
Alignment explanation
Indices: 3084084--3084218 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
3084074 GACCTCGAGT
* * *
3084084 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
* ** ** *
3084125 TGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
3084163 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
3084202 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
3084219 CCATATTGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 14 0.19
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:3085828 original size:131 final size:129
Alignment explanation
Indices: 3085594--3085923 Score: 484
Period size: 131 Copynumber: 2.6 Consensus size: 129
3085584 CTATTCATTC
* *
3085594 AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATTGTG
1 AAAAATTC-TTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
* **
3085659 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT-TT
3085724 T
129 T
* *
3085725 AAAAATTCTTCAAAACGAAGGAAATGTTTGGTGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
1 AAAAATTCTT-AAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
3085790 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
** * * * * **
3085855 CTAAATTC-TAAAAC-AAAGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTACCATGC
1 AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTGC
3085918 TGGGTT
66 TGGGTT
3085924 TCGATTTTTT
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 47 0.26
128 5 0.03
129 1 0.01
130 11 0.06
131 117 0.65
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTGC
TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:3095759 original size:24 final size:25
Alignment explanation
Indices: 3095732--3095788 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
3095722 TAATTGGAAG
3095732 GTTTTTAGTCTGCT-GTTTTGGCAC
1 GTTTTTAGTCTGCTAGTTTTGGCAC
* *
3095756 GTTTAT-GTCTGCTATTTTTGGCAC
1 GTTTTTAGTCTGCTAGTTTTGGCAC
3095780 GTTTCTTAG
1 GTTT-TTAG
3095789 GATTTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 1 0.04
26 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (25 bp):
GTTTTTAGTCTGCTAGTTTTGGCAC
Found at i:3097339 original size:9 final size:9
Alignment explanation
Indices: 3097325--3097364 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
3097315 TGCGGTGGCG
3097325 CGTGAGGCC
1 CGTGAGGCC
*
3097334 CGTGAGGCG
1 CGTGAGGCC
3097343 CGTGAGGCC
1 CGTGAGGCC
*
3097352 CGTGAGGCG
1 CGTGAGGCC
3097361 CGTG
1 CGTG
3097365 CAGCGGTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.10, C:0.28, G:0.50, T:0.12
Consensus pattern (9 bp):
CGTGAGGCC
Found at i:3097344 original size:18 final size:18
Alignment explanation
Indices: 3097321--3097364 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
3097311 CGTGTGCGGT
3097321 GGCGCGTGAGGCCCGTGA
1 GGCGCGTGAGGCCCGTGA
3097339 GGCGCGTGAGGCCCGTGA
1 GGCGCGTGAGGCCCGTGA
3097357 GGCGCGTG
1 GGCGCGTG
3097365 CAGCGGTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.27, G:0.52, T:0.11
Consensus pattern (18 bp):
GGCGCGTGAGGCCCGTGA
Found at i:3098101 original size:16 final size:17
Alignment explanation
Indices: 3098080--3098114 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
3098070 AAAAATTGTT
3098080 TTACTTTTC-TATATTA
1 TTACTTTTCATATATTA
3098096 TTACTTTTCATATATTA
1 TTACTTTTCATATATTA
3098113 TT
1 TT
3098115 TTATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTACTTTTCATATATTA
Found at i:3098286 original size:14 final size:14
Alignment explanation
Indices: 3098264--3098299 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
3098254 GTTTTGTTTC
3098264 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
3098279 ATTATTTTATTTAT
1 ATTATTTTATATAT
3098293 ATTATTT
1 ATTATTT
3098300 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:3098335 original size:23 final size:20
Alignment explanation
Indices: 3098319--3098366 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
3098309 TATATATAAA
3098319 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
3098339 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
3098356 TTTTATTATAT
1 TTTTATTATAT
3098367 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:3098344 original size:20 final size:18
Alignment explanation
Indices: 3098270--3098374 Score: 86
Period size: 18 Copynumber: 5.5 Consensus size: 18
3098260 TTTCATTACT
* *
3098270 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
3098288 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
* *
3098311 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
3098329 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
3098349 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
3098366 TTTTTATAT
1 TTTATATAT
3098375 GTAAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.14
18 25 0.36
19 9 0.13
20 11 0.16
21 1 0.01
22 4 0.06
23 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:3098373 original size:25 final size:28
Alignment explanation
Indices: 3098321--3098374 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
3098311 TATATAAATT
*
3098321 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
3098349 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
3098374 T
1 T
3098375 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:3117605 original size:13 final size:14
Alignment explanation
Indices: 3117587--3117615 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3117577 CCTAAAATGG
3117587 TAATTTTTA-AATT
1 TAATTTTTATAATT
3117600 TAATTTTTATAATT
1 TAATTTTTATAATT
3117614 TA
1 TA
3117616 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATTTTTATAATT
Found at i:3124127 original size:14 final size:14
Alignment explanation
Indices: 3124110--3124144 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3124100 TGTTGTCATT
3124110 TTATTATCATATTG
1 TTATTATCATATTG
**
3124124 TTATTATTTTATTG
1 TTATTATCATATTG
3124138 TTATTAT
1 TTATTAT
3124145 TTAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (14 bp):
TTATTATCATATTG
Found at i:3124145 original size:14 final size:14
Alignment explanation
Indices: 3124119--3124146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3124109 TTTATTATCA
3124119 TATTGTTATTATTT
1 TATTGTTATTATTT
3124133 TATTGTTATTATTT
1 TATTGTTATTATTT
3124147 AAATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TATTGTTATTATTT
Found at i:3124209 original size:31 final size:31
Alignment explanation
Indices: 3124174--3124238 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
3124164 TATTTTATTA
3124174 TTAATTTTGCTACTATTTTAGAAGTATTTGC
1 TTAATTTTGCTACTATTTTAGAAGTATTTGC
3124205 TTAATTTTGCTACTATTTTAGAAGTATTTGC
1 TTAATTTTGCTACTATTTTAGAAGTATTTGC
3124236 TTA
1 TTA
3124239 TTAAGTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.52
Consensus pattern (31 bp):
TTAATTTTGCTACTATTTTAGAAGTATTTGC
Found at i:3126616 original size:121 final size:121
Alignment explanation
Indices: 3126401--3126618 Score: 296
Period size: 121 Copynumber: 1.8 Consensus size: 121
3126391 CTCATGCATT
* * * * *
3126401 TGAAATTTCAAAAGGATATTTGGCTATCTGGTCAAACGGTAAGTCGAAACCTAGCACGATTGGAT
1 TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGAC
* **
3126466 ACGATTTCTCGAATTTCTAAATGCAAAATATTGCCTCAAATTTAAGAAAACATGAA
66 ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
* *
3126522 TGAAACTTCAAAAGGATATTTAGTTAT-TCGGTCAAACGGAAAATCGAAACTTAGCACG-TTAGG
1 TGAAACTTCAAAAGGATATTTAGCTATCT-GGTCAAACGGAAAATCGAAACCTAGCACGATT-GG
* *
3126585 GCACGATTTCTCGAATTTCCAAACACGAAATATT
64 ACACGATTTCTCGAATTTCCAAACACAAAATATT
3126619 TTCTTATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 3 0.04
121 80 0.96
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (121 bp):
TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGAC
ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
Found at i:3127319 original size:16 final size:19
Alignment explanation
Indices: 3127298--3127333 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
3127288 AGTATAAATG
3127298 ATATAC-AA-AAC-AATAT
1 ATATACGAATAACTAATAT
3127314 ATATACGAATAACTAATAT
1 ATATACGAATAACTAATAT
3127333 A
1 A
3127334 CACAAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 3 0.18
19 6 0.35
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (19 bp):
ATATACGAATAACTAATAT
Found at i:3127462 original size:14 final size:14
Alignment explanation
Indices: 3127443--3127475 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3127433 AAAACAGAAT
3127443 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
3127457 GAAAATAACAACAA
1 GAAAATAACAACAA
3127471 GAAAA
1 GAAAA
3127476 AAAAAAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:3127960 original size:24 final size:24
Alignment explanation
Indices: 3127928--3127973 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3127918 GGAGTGGTTT
* *
3127928 AGTGGGGTGATGGAGTTAGTGGCA
1 AGTGAGGTGACGGAGTTAGTGGCA
3127952 AGTGAGGTGACGGAGTTAGTGG
1 AGTGAGGTGACGGAGTTAGTGG
3127974 TCGGTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
AGTGAGGTGACGGAGTTAGTGGCA
Found at i:3129947 original size:177 final size:176
Alignment explanation
Indices: 3129638--3130027 Score: 645
Period size: 177 Copynumber: 2.2 Consensus size: 176
3129628 GAGATACTTC
*
3129638 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* *
3129703 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCGAAATTGAATTCTTTAAGTGACCCAAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
3129768 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * *
3129815 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCCACTGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* * *
3129880 TAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
*
3129945 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* *
3129992 AGCTTTCTCTGGTTTTCCGTTGTATGTTTCACCAAC
1 AGCTTTCTCTGGCTTT-CATTGTATGTTTCACCAAC
3130028 TCTACATACA
Statistics
Matches: 198, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
176 3 0.02
177 195 0.98
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (176 bp):
AGCTTTCTCTGGCTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAGT
AGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTGA
TGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:3130057 original size:177 final size:175
Alignment explanation
Indices: 3129638--3130077 Score: 630
Period size: 177 Copynumber: 2.5 Consensus size: 175
3129628 GAGATACTTC
* *
3129638 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGGT-TTTCATTGTATGTTTCACCAACACGACATTCA-GAATTTCCAACGACTTAG
** *
3129703 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCGAAATTGAATTCTTTAAGTGACCCAAGAGTG
64 TAGCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
3129768 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
129 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * *
3129815 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCC-ACTGACTTA
1 AGCTTTCTCTGG-TTTTCATTGTATGTTTCACCAACACGACATTCAGAA-TTTCCAAC-GACTTA
* *
3129879 GTAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGT
63 GTAGCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGT
*
3129944 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
128 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * * *
3129992 AGCTTTCTCTGGTTTTCCGTTGTATGTTTCACCAACTCTACATACAGAATTATCCAACAACTTAG
1 AGCTTTCTCTGGTTTT-CATTGTATGTTTCACCAACACGACATTCAGAATT-TCCAACGACTTAG
* * *
3130057 TGGCGTTTTCTTCTCTCTCTC
64 TAGCATTTTCTTCTATCTCTC
3130078 TTGCTGCTTC
Statistics
Matches: 233, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
176 7 0.03
177 224 0.96
178 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (175 bp):
AGCTTTCTCTGGTTTTCATTGTATGTTTCACCAACACGACATTCAGAATTTCCAACGACTTAGTA
GCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTGAT
GGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:3134240 original size:89 final size:89
Alignment explanation
Indices: 3134122--3134300 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
3134112 TGAAGTTTTA
3134122 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
1 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
3134187 GAGTTTGATATTTATCCTTTTCTT
66 GAGTTTGATATTTATCCTTTTCTT
3134211 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
1 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
3134276 GAGTTTGATATTTATCCTTTTCTT
66 GAGTTTGATATTTATCCTTTTCTT
3134300 T
1 T
3134301 CTAATATTTT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (89 bp):
TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
GAGTTTGATATTTATCCTTTTCTT
Found at i:3139283 original size:15 final size:17
Alignment explanation
Indices: 3139262--3139302 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
3139252 TAATTTTTTA
3139262 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
3139278 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
3139294 AAAATTATA
1 AAAATTATA
3139303 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:3140163 original size:19 final size:19
Alignment explanation
Indices: 3140128--3140184 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
3140118 TTTTAAAAAA
*
3140128 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
3140146 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
3140165 TAAAAATTATTTTG-ATTTT
1 TATAAA-TATTTTGAATTTT
3140184 T
1 T
3140185 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 7 0.20
19 21 0.60
20 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:3140534 original size:31 final size:31
Alignment explanation
Indices: 3140499--3140557 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
3140489 GAATAATTAC
3140499 TGAACAATAT-GAAAGTTTTCATTTAAGTAAT
1 TGAACAAT-TCGAAAGTTTTCATTTAAGTAAT
* *
3140530 TGAACTATTCGAAAGTTTTTATTTAAGT
1 TGAACAATTCGAAAGTTTTCATTTAAGT
3140558 TGTTAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (31 bp):
TGAACAATTCGAAAGTTTTCATTTAAGTAAT
Found at i:3152084 original size:29 final size:29
Alignment explanation
Indices: 3152043--3152106 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
3152033 AATGAGTTAT
*
3152043 ATGAC-AGACATCCTTCACATGCGCAATG
1 ATGACAAGACATCCTTCACATGCACAATG
*
3152071 ATGACAAGACATCCTTCTCATGCACAATG
1 ATGACAAGACATCCTTCACATGCACAATG
3152100 ATGACAA
1 ATGACAA
3152107 CACCTCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
ATGACAAGACATCCTTCACATGCACAATG
Found at i:3164496 original size:8 final size:9
Alignment explanation
Indices: 3164467--3164500 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3164457 ATTCCCTGTG
*
3164467 AAAATTTAA
1 AAAAATTAA
3164476 AAAGAATTAA
1 AAA-AATTAA
3164486 AAAAATTAA
1 AAAAATTAA
3164495 AAAAAT
1 AAAAAT
3164501 AACGTGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:3165870 original size:66 final size:68
Alignment explanation
Indices: 3165800--3165925 Score: 166
Period size: 66 Copynumber: 1.9 Consensus size: 68
3165790 CAATTTTGTC
* * *
3165800 TTTTTTAGTCACCAAAATGAAAACATCC-AATATCCAAGATAGTTGGGTGA-CAAAAAAAAGTTT
1 TTTTTTAGTCACCAAAATGAAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAAAGTTT
3165863 GCT
66 GCT
* * * * *
3165866 TTTTTTGGTCTCCAGAATGGAGACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAA
1 TTTTTTAGTCACCAAAATGAAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAA
3165926 GATAAAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
66 23 0.46
67 19 0.38
68 8 0.16
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (68 bp):
TTTTTTAGTCACCAAAATGAAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAAAGTTT
GCT
Found at i:3168625 original size:26 final size:26
Alignment explanation
Indices: 3168589--3168641 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3168579 GGAGAGGAGA
3168589 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
3168615 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
3168641 T
1 T
3168642 GGGAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TTATGACATTTAAGATAGTTGAAGGC
Found at i:3168824 original size:15 final size:15
Alignment explanation
Indices: 3168804--3168832 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3168794 GAGCCTGCTC
3168804 TAATATTCCTTTTGT
1 TAATATTCCTTTTGT
3168819 TAATATTCCTTTTG
1 TAATATTCCTTTTG
3168833 CTGAAGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TAATATTCCTTTTGT
Found at i:3170369 original size:42 final size:41
Alignment explanation
Indices: 3170317--3170419 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
3170307 AATAAATTAA
* *
3170317 ATTATAAAAATAATTATTTTTATTTA-TCACA-TATGACATTTT
1 ATTAT-AAAATAATTATTTTTAATCACTCACATTAT--CATTTT
* *
3170359 ATATTTAAAAT-ATTATATTTTAATCACTTACATTATCATTTT
1 AT-TATAAAATAATTAT-TTTTAATCACTCACATTATCATTTT
3170401 ATTATAAAATAATTATTTT
1 ATTATAAAATAATTATTTT
3170420 ACTGTTAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
41 15 0.29
42 27 0.53
43 6 0.12
44 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (41 bp):
ATTATAAAATAATTATTTTTAATCACTCACATTATCATTTT
Found at i:3175084 original size:9 final size:9
Alignment explanation
Indices: 3174956--3175084 Score: 50
Period size: 10 Copynumber: 13.3 Consensus size: 9
3174946 AAATTCTAAT
3174956 AAATTA-TA
1 AAATTATTA
3174964 AAATTATTTA
1 AAATTA-TTA
*
3174974 AACA-TATTT
1 AA-ATTATTA
3174983 AAATTATTTA
1 AAATTA-TTA
3174993 AAATT-TTACAA
1 AAATTATT---A
*
3175004 AAACGTATTA
1 AAA-TTATTA
*
3175014 AAATTCTTAA
1 AAATTATT-A
*
3175024 AAATTTATAA
1 AAA-TTATTA
*
3175034 CAAATTATTTG
1 -AAATTA-TTA
3175045 AAA-TATTA
1 AAATTATTA
3175053 AAATTGATATA
1 AAATT-AT-TA
* *
3175064 AACTTATGA
1 AAATTATTA
3175073 AAATTATTA
1 AAATTATTA
3175082 AAA
1 AAA
3175085 AAAATCATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
8 14 0.16
9 23 0.26
10 32 0.36
11 18 0.20
12 1 0.01
13 2 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (9 bp):
AAATTATTA
Found at i:3175673 original size:16 final size:16
Alignment explanation
Indices: 3175652--3175685 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3175642 TCGATATATT
3175652 TTATATTTTATTAGAA
1 TTATATTTTATTAGAA
*
3175668 TTATATTTTATTATAA
1 TTATATTTTATTAGAA
3175684 TT
1 TT
3175686 TTTATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATATTTTATTAGAA
Found at i:3177827 original size:24 final size:22
Alignment explanation
Indices: 3177792--3177835 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
3177782 ATACAAAGAT
*
3177792 ATTTATAAATGATATTTAAATA
1 ATTTATAAATGATATATAAATA
3177814 ATTTAATATAATGATATATAAA
1 ATTT-ATA-AATGATATATAAA
3177836 ATATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTATAAATGATATATAAATA
Found at i:3177849 original size:32 final size:35
Alignment explanation
Indices: 3177766--3177851 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 35
3177756 TATACATGAA
*
3177766 ATATTTGAATAATTTAATACAAAGATATTTATAAATG
1 ATATTTAAATAATTTAATACAAAGATA-TTATAAA-G
* *
3177803 ATATTTAAATAATTTAATATAATGATA-TATAAA-
1 ATATTTAAATAATTTAATACAAAGATATTATAAAG
*
3177836 ATA-TTAATTAATTTAA
1 ATATTTAAATAATTTAA
3177852 AATTTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 12 0.27
33 3 0.07
35 6 0.13
37 24 0.53
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (35 bp):
ATATTTAAATAATTTAATACAAAGATATTATAAAG
Found at i:3193048 original size:133 final size:133
Alignment explanation
Indices: 3192810--3193077 Score: 473
Period size: 133 Copynumber: 2.0 Consensus size: 133
3192800 ATGCACAATG
* *
3192810 TGCTCATAAAAGAAGAGACATTCTTGCCCTAGTATGCAAACCCAAACCAAAAGAAAAACATTTAA
1 TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
* * *
3192875 CACAAATAATTTACAATCACTTTCAAGCTCTGGGGAATCCATAACTACCATTCCTGAGATATTTA
66 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
3192940 GGC
131 GGC
* *
3192943 TGCTCGTAAAAGAAGAGACATTCTTGCCCCAGTATGCAAATCCAAACCAAAAGAAAAACAATTAA
1 TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
3193008 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
66 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
3193073 GGC
131 GGC
3193076 TG
1 TG
3193078 AGATATGCAG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 128 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (133 bp):
TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
GGC
Found at i:3198507 original size:29 final size:29
Alignment explanation
Indices: 3198458--3198513 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3198448 ATTCAAGACT
* **
3198458 AGAGTTTGAGGGGAGTTTTTTGGGAGAAA
1 AGAGTTTGAGGAGAGAGTTTTGGGAGAAA
*
3198487 AGAGTTTGAGGAGAGAGTTTTTGGAGA
1 AGAGTTTGAGGAGAGAGTTTTGGGAGA
3198514 GGCTAAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.30
Consensus pattern (29 bp):
AGAGTTTGAGGAGAGAGTTTTGGGAGAAA
Found at i:3198754 original size:15 final size:12
Alignment explanation
Indices: 3198714--3198757 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
3198704 GCCGCCGTGT
*
3198714 ACGGTGGCACCG
1 ACGGCGGCACCG
3198726 ACGGCGGCACCG
1 ACGGCGGCACCG
3198738 ACGGCGGCACCG
1 ACGGCGGCACCG
*
3198750 ACGACGGC
1 ACGGCGGC
3198758 CCGTGGGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.18, C:0.39, G:0.41, T:0.02
Consensus pattern (12 bp):
ACGGCGGCACCG
Found at i:3198846 original size:3 final size:3
Alignment explanation
Indices: 3198825--3198868 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
3198815 GGGAAGAATG
* * * *
3198825 TTA TTT TTA TTA CTA TTA TTA TTA TTA TCA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3198869 TTTAATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3198998 original size:19 final size:19
Alignment explanation
Indices: 3198975--3199037 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
3198965 TTATATATTT
3198975 TTATTATTGTTATTAACATA
1 TTATTATT-TTATTAACATA
3198995 -TATTA--TTATTAACATA
1 TTATTATTTTATTAACATA
* **
3199011 TTATTTTTTTATTAATGTA
1 TTATTATTTTATTAACATA
3199030 TTATTATT
1 TTATTATT
3199038 ATTTGCATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
19 21 0.58
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTATTATTTTATTAACATA
Found at i:3199003 original size:16 final size:16
Alignment explanation
Indices: 3198979--3199011 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3198969 ATATTTTTAT
*
3198979 TATTGTTATTAACATA
1 TATTATTATTAACATA
3198995 TATTATTATTAACATA
1 TATTATTATTAACATA
3199011 T
1 T
3199012 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTATTATTAACATA
Found at i:3199761 original size:30 final size:30
Alignment explanation
Indices: 3199722--3199803 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
3199712 AAAACCCTAG
* ** *
3199722 CCACATTGCCTCTGACTTGCACCTATTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
3199752 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
3199782 CCACCTTGCCTCCCACTTGCAC
1 CCACCTTGCCTCCCACTTGCAC
3199804 TTATACCATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.17, C:0.49, G:0.09, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:3200137 original size:16 final size:16
Alignment explanation
Indices: 3200116--3200148 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3200106 AAAAAAAATA
*
3200116 ATATGTTAATAATAAT
1 ATATGTTAATAACAAT
3200132 ATATGTTAATAACAAT
1 ATATGTTAATAACAAT
3200148 A
1 A
3200149 ATAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATGTTAATAACAAT
Found at i:3200254 original size:21 final size:21
Alignment explanation
Indices: 3200227--3200272 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3200217 TGGTAGTAAT
*
3200227 AATAAAAA-GATAAAAATAAA
1 AATAAAAATAATAAAAATAAA
**
3200247 AATAAAAATAATAGTAATAAA
1 AATAAAAATAATAAAAATAAA
3200268 AATAA
1 AATAA
3200273 CACTTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AATAAAAATAATAAAAATAAA
Found at i:3200259 original size:15 final size:15
Alignment explanation
Indices: 3200224--3200272 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3200214 TAGTGGTAGT
* *
3200224 AATAATAAAAAGATA
1 AATAATAAAAATAAA
3200239 AA-AATAAAAATAAA
1 AATAATAAAAATAAA
**
3200253 AATAATAGTAATAAA
1 AATAATAAAAATAAA
3200268 AATAA
1 AATAA
3200273 CACTTTTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:3200727 original size:30 final size:30
Alignment explanation
Indices: 3200693--3200774 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
3200683 GATGGTGCAA
* * *
3200693 GTGCAAGTGAGAGGCGATGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAATGTGGTAGAGTAG
*
3200723 GTGCAAGTGGGAGGCAAGGTGGTAGAGTAG
1 GTGCAAGTGGGAGGCAATGTGGTAGAGTAG
3200753 GTGCAAGTGGGAGGCAATGTGG
1 GTGCAAGTGGGAGGCAATGTGG
3200775 CTAGGGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.24, C:0.07, G:0.50, T:0.18
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAATGTGGTAGAGTAG
Found at i:3206177 original size:23 final size:24
Alignment explanation
Indices: 3206151--3206197 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3206141 CAACCAAACC
3206151 AATTCA-ACATATTT-TCAAGATAA
1 AATTCATACATATTTAT-AAGATAA
*
3206174 AATTCATGCATATTTATAAGATAA
1 AATTCATACATATTTATAAGATAA
3206198 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 14 0.67
25 1 0.05
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (24 bp):
AATTCATACATATTTATAAGATAA
Found at i:3208040 original size:120 final size:120
Alignment explanation
Indices: 3207827--3208068 Score: 421
Period size: 120 Copynumber: 2.0 Consensus size: 120
3207817 TTATTCTATG
* *
3207827 AGAAACTAGACTCAATAATATTTAATTACATATTTTTTTCATCTTCTAATTCGATTCCTACAATT
1 AGAAACTAGACTCAATAATATTTAATTACATATTTTGTTAATCTTCTAATTCGATTCCTACAATT
* *
3207892 TATGATGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCA
66 TATGATGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
* *
3207947 AGAAACTAGACTCAATAATCTTTAATTACATATTTTGTTAATCTTGTAATTCGATTCCTACAATT
1 AGAAACTAGACTCAATAATATTTAATTACATATTTTGTTAATCTTCTAATTCGATTCCTACAATT
*
3208012 TATGGTGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
66 TATGATGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
3208067 AG
1 AG
3208069 CTATTTATTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (120 bp):
AGAAACTAGACTCAATAATATTTAATTACATATTTTGTTAATCTTCTAATTCGATTCCTACAATT
TATGATGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
Found at i:3221307 original size:3 final size:3
Alignment explanation
Indices: 3221286--3221376 Score: 64
Period size: 3 Copynumber: 29.3 Consensus size: 3
3221276 ACTAAATAGA
* *
3221286 AAT AAA AAT -AT ATAT AAT AAT AAT ATAT AAA AAT AAT AAT AAT ATAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT
*
3221333 AAAT AGAT AAT -AT AAT AAT AGAT -AG AAT AAT AA- AAT AAAT AAT A
1 -AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT A
3221377 TAGAAATATA
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
2 7 0.10
3 45 0.63
4 18 0.25
5 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3221310 original size:27 final size:27
Alignment explanation
Indices: 3221230--3221374 Score: 113
Period size: 27 Copynumber: 5.2 Consensus size: 27
3221220 ACAGCGATGT
*
3221230 AAATAATAACTAA-ATAATAACTAAATAG
1 AAATAA-AAATAATATAATAA-TAAATAG
*
3221258 AAATAAAAACAA-ATAATAACTAAATAG
1 AAATAAAAATAATATAATAA-TAAATAG
3221285 AAATAAAAATATATATAATAAT-AAT--
1 AAATAAAAATA-ATATAATAATAAATAG
*
3221310 ATATAAAAATAATAATAATATATAAATAG
1 AAATAAAAATAAT-ATAATA-ATAAATAG
* *
3221339 ATAATATAATAATAGATAGAATAATAAA-AT
1 A-AATA-AA-AATA-ATATAATAATAAATAG
3221369 AAATAA
1 AAATAA
3221375 TATAGAAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 22
0.77 0.05 0.17
Matches are distributed among these distances:
24 2 0.02
25 16 0.16
26 2 0.02
27 35 0.35
28 9 0.09
29 12 0.12
30 5 0.05
31 7 0.07
32 9 0.09
33 2 0.02
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (27 bp):
AAATAAAAATAATATAATAATAAATAG
Found at i:3221323 original size:19 final size:21
Alignment explanation
Indices: 3221299--3221414 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 21
3221289 AAAAATATAT
3221299 ATAATAATAATATATAAA-A-
1 ATAATAATAATATATAAATAG
3221318 ATAATAATAATATATAAATAG
1 ATAATAATAATATATAAATAG
*
3221339 ATAAT-ATAATA-ATAGATAG
1 ATAATAATAATATATAAATAG
*
3221358 AATAATAA-AATAAATAATATAG
1 -ATAATAATAATATATAA-ATAG
* *
3221380 A-AAT-ATAGATTTATAAATCG
1 ATAATAATA-ATATATAAATAG
3221400 A-AATATATTAATATA
1 ATAATA-A-TAATATA
3221415 ATAATATAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
19 26 0.32
20 27 0.34
21 16 0.20
22 9 0.11
23 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAATAATAATATATAAATAG
Found at i:3221331 original size:32 final size:32
Alignment explanation
Indices: 3221268--3221346 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 32
3221258 AAATAAAAAC
* *
3221268 AAATAATAACTAAATAGAAATAAAAATATATAT
1 AAATAATAA-TATATAAAAATAAAAATATATAT
*
3221301 -AATAATAATATATAAAAATAATAATAATATAT
1 AAATAATAATATATAAAAATAAAAAT-ATATAT
3221333 AAATAGATAATATA
1 AAATA-ATAATATA
3221347 ATAATAGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
31 14 0.35
32 14 0.35
33 4 0.10
34 8 0.20
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (32 bp):
AAATAATAATATATAAAAATAAAAATATATAT
Found at i:3221347 original size:32 final size:31
Alignment explanation
Indices: 3221286--3221384 Score: 85
Period size: 32 Copynumber: 3.0 Consensus size: 31
3221276 ACTAAATAGA
3221286 AATAAAAATATATATAATAATAATATATAAAAAT
1 AATAAAAATATATA-AATAAT-A-ATATAAAAAT
* *
3221320 AATAATAATATATAAATAGATAATATAATAAT
1 AATAAAAATATATAAATA-ATAATATAAAAAT
* *
3221352 AGAT-AGAATA-ATAAAATAAATAATATAGAAAT
1 A-ATAAAAATATAT-AAAT-AATAATATAAAAAT
3221384 A
1 A
3221385 TAGATTTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 2 0.04
32 31 0.55
33 8 0.14
34 15 0.27
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (31 bp):
AATAAAAATATATAAATAATAATATAAAAAT
Found at i:3221353 original size:15 final size:14
Alignment explanation
Indices: 3221285--3221380 Score: 78
Period size: 15 Copynumber: 6.9 Consensus size: 14
3221275 AACTAAATAG
* *
3221285 AAATAAAAATATAT
1 AAATAATAATAGAT
*
3221299 ATAATAATAATATAT
1 A-AATAATAATAGAT
3221314 AAA-AATAATA-AT
1 AAATAATAATAGAT
3221326 -AATATATAAATAGAT
1 AAATA-AT-AATAGAT
3221341 AATATAATAATAGAT
1 AA-ATAATAATAGAT
3221356 AGAATAATAA-A-AT
1 A-AATAATAATAGAT
3221369 AAATAAT-ATAGA
1 AAATAATAATAGA
3221381 AATATAGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 21
0.76 0.01 0.23
Matches are distributed among these distances:
11 3 0.04
12 10 0.14
13 13 0.18
14 8 0.11
15 30 0.42
16 4 0.06
17 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:3221361 original size:12 final size:10
Alignment explanation
Indices: 3221229--3221376 Score: 79
Period size: 11 Copynumber: 14.9 Consensus size: 10
3221219 CACAGCGATG
3221229 TAAATAATAA
1 TAAATAATAA
3221239 CTAAATAATAA
1 -TAAATAATAA
3221250 CTAAATAGA-AA
1 -TAAATA-ATAA
3221261 T--A-AA-AA
1 TAAATAATAA
*
3221267 CAAATAATAA
1 TAAATAATAA
3221277 CTAAATAGA-AA
1 -TAAATA-ATAA
3221288 TAAA-AAT-A
1 TAAATAATAA
*
3221296 TATATAATAA
1 TAAATAATAA
3221306 T-AAT-AT-A
1 TAAATAATAA
3221313 TAAA-AATAA
1 TAAATAATAA
3221322 T-AATAATATA
1 TAAATAATA-A
3221332 TAAATAGATAA
1 TAAATA-ATAA
3221343 TATAATAATAGA
1 TA-AATAATA-A
3221355 TAGAATAATAAAA
1 TA-AATAAT--AA
3221368 TAAATAATA
1 TAAATAATA
3221377 TAGAAATATA
Statistics
Matches: 111, Mismatches: 5, Indels: 43
0.70 0.03 0.27
Matches are distributed among these distances:
6 3 0.03
7 3 0.03
8 15 0.14
9 14 0.13
10 12 0.11
11 36 0.32
12 24 0.22
13 3 0.03
14 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
TAAATAATAA
Found at i:3221431 original size:23 final size:23
Alignment explanation
Indices: 3221400--3221483 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
3221390 TTATAAATCG
3221400 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
3221422 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
3221448 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
3221470 AAATTAATATTAAT
1 AAA-TATTATTAAT
3221484 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:3221491 original size:26 final size:26
Alignment explanation
Indices: 3221404--3221492 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
3221394 AAATCGAAAT
3221404 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
3221427 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
3221450 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
3221476 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
3221493 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:3223292 original size:16 final size:16
Alignment explanation
Indices: 3223271--3223321 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
3223261 AAGAAAGAGC
3223271 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
3223287 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
3223303 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
3223319 AAA
1 AAA
3223322 ATACTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:3224261 original size:16 final size:17
Alignment explanation
Indices: 3224240--3224273 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
3224230 AATTAGAGAA
3224240 TTCTATTTAA-TTCTAT
1 TTCTATTTAATTTCTAT
3224256 TTCTATTTAATTTCTAT
1 TTCTATTTAATTTCTAT
3224273 T
1 T
3224274 AAATCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTATTTAATTTCTAT
Found at i:3229095 original size:11 final size:11
Alignment explanation
Indices: 3229079--3229104 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3229069 TCAATCTCTA
3229079 TTTTGAAGAAT
1 TTTTGAAGAAT
3229090 TTTTGAAGAAT
1 TTTTGAAGAAT
3229101 TTTT
1 TTTT
3229105 CTTTTGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTTGAAGAAT
Found at i:3230268 original size:13 final size:15
Alignment explanation
Indices: 3230240--3230268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3230230 CAAAATAAAA
3230240 TCAAGTTAATATTTT
1 TCAAGTTAATATTTT
3230255 TCAAGTTAAT-TTTT
1 TCAAGTTAATATTTT
3230269 AACACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TCAAGTTAATATTTT
Found at i:3230348 original size:13 final size:13
Alignment explanation
Indices: 3230330--3230360 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3230320 TTTAAAATTT
3230330 TAAAAATTAAAAA
1 TAAAAATTAAAAA
*
3230343 TAAAAATTTAAAA
1 TAAAAATTAAAAA
3230356 TAAAA
1 TAAAA
3230361 TGTGTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAATTAAAAA
Found at i:3230400 original size:21 final size:20
Alignment explanation
Indices: 3230349--3230402 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3230339 AAAATAAAAA
*
3230349 TTTAAAATAAAATGTGTAGC
1 TTTAAAATTAAATGTGTAGC
3230369 -TTAATATATTAAATGTGTAGC
1 TTTAA-A-ATTAAATGTGTAGC
*
3230390 TTTTAACATTAAA
1 -TTTAAAATTAAA
3230403 ATTAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.14
20 1 0.04
21 19 0.68
23 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (20 bp):
TTTAAAATTAAATGTGTAGC
Found at i:3231920 original size:22 final size:22
Alignment explanation
Indices: 3231895--3231941 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
3231885 GGTGTTAAGT
3231895 TTTGGAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
*
3231917 TTTGTAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
3231939 TTT
1 TTT
3231942 TAACTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTGGAAGGGTTTAATTAAAAA
Found at i:3232653 original size:9 final size:9
Alignment explanation
Indices: 3232639--3232687 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
3232629 GTAGACATGA
3232639 TAAAAATAT
1 TAAAAATAT
3232648 TAAAAATA-
1 TAAAAATAT
3232656 -AAAAA-AT
1 TAAAAATAT
* *
3232663 AAAAAATTT
1 TAAAAATAT
3232672 TAAAAATAT
1 TAAAAATAT
3232681 ATAAAAA
1 -TAAAAA
3232688 ATTCATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.15
8 5 0.15
9 16 0.48
10 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAATAT
Found at i:3232697 original size:20 final size:20
Alignment explanation
Indices: 3232653--3232710 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
3232643 AATATTAAAA
3232653 ATAAAAAA--ATAAAAAATT
1 ATAAAAAACTATAAAAAATT
*
3232671 TTAAAAATA-TATAAAAAATT
1 ATAAAAA-ACTATAAAAAATT
3232691 CAT-AAAAACT-TAAAAAATT
1 -ATAAAAAACTATAAAAAATT
3232710 A
1 A
3232711 GTATGAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 7 0.21
19 11 0.32
20 15 0.44
21 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAAACTATAAAAAATT
Found at i:3233522 original size:107 final size:108
Alignment explanation
Indices: 3233336--3233557 Score: 338
Period size: 107 Copynumber: 2.1 Consensus size: 108
3233326 GTTGCGGACT
* * * *
3233336 GATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCGTACCAACAACCTTATGCACTTGG
1 GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
*
3233401 CTATGTAGTTCAAGATTATCCGCCATCTGTT-CCCTACCACCC
66 CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCACCC
* *
3233443 GATTATCATCAAAATCCTCCTATGGATGAATATCCACCACCATACCAACAACCTTATGCGCCTCG
1 GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
* * *
3233508 CTATGTAGTTCAAGATTATCCGTCGTCTGTTACCCCGCCACCC
66 CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCACCC
*
3233551 AATTATC
1 GATTATC
3233558 CGTCGTCTGT
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
107 88 0.85
108 15 0.15
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.27
Consensus pattern (108 bp):
GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCACCC
Found at i:3233558 original size:30 final size:30
Alignment explanation
Indices: 3233522--3233587 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
3233512 GTAGTTCAAG
*
3233522 ATTATCCGTCGTCTGTTACC-CCGCCACCCA
1 ATTATCCGTCGTCTG-TACCTCCACCACCCA
*
3233552 ATTATCCGTCGTCTGTCCCTCCACCACCCA
1 ATTATCCGTCGTCTGTACCTCCACCACCCA
3233582 ATTATC
1 ATTATC
3233588 GACCATCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (30 bp):
ATTATCCGTCGTCTGTACCTCCACCACCCA
Found at i:3235241 original size:30 final size:30
Alignment explanation
Indices: 3235207--3235266 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3235197 ACTTAACAAG
*
3235207 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
3235237 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
3235267 TAATAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:3237212 original size:13 final size:11
Alignment explanation
Indices: 3237183--3237208 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3237173 TCAATCTCTA
3237183 TTTTGAAGAAT
1 TTTTGAAGAAT
3237194 TTTTGAAGAAT
1 TTTTGAAGAAT
3237205 TTTT
1 TTTT
3237209 TTGAGCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTTGAAGAAT
Found at i:3238441 original size:19 final size:19
Alignment explanation
Indices: 3238419--3238455 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3238409 AAAATACATT
* *
3238419 TAAAATTTTAAAATTAAAA
1 TAAAAATTTAAAAATAAAA
3238438 TAAAAATTTAAAAATAAA
1 TAAAAATTTAAAAATAAA
3238456 TGTGTAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATTTAAAAATAAAA
Found at i:3239999 original size:21 final size:21
Alignment explanation
Indices: 3239975--3240014 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3239965 TAAGGTTTGG
3239975 AAGGGTTTAATTAAAAATTGT
1 AAGGGTTTAATTAAAAATTGT
3239996 AAGGGTTTAATTAAAAATT
1 AAGGGTTTAATTAAAAATT
3240015 TTTTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
AAGGGTTTAATTAAAAATTGT
Found at i:3241581 original size:107 final size:106
Alignment explanation
Indices: 3241395--3241587 Score: 298
Period size: 107 Copynumber: 1.8 Consensus size: 106
3241385 GTTGCGGACT
* * * *
3241395 GATTATCATCAAATCTCCTATGGATGGATACCCACCACCGTACCAACAAAACTTATGCACTTGGC
1 GATTATCATCAAATCTCCTATGGATGAATACCCACCACCATACCAACAAAACTTATGCACCTCGC
3241460 TATGTAGTTCAAGATTATCCGCCATCTTTCCCCTACCACCC
66 TATGTAGTTCAAGATTATCCGCCATCTTTCCCCTACCACCC
* * *
3241501 GATTATCATCAAAATCCTCCTATGGATGAATATCCACCACCATACCAAC-AACCTTATGCGCCTC
1 GATTATCATC-AAAT-CTCCTATGGATGAATACCCACCACCATACCAACAAAACTTATGCACCTC
3241565 GCTATGTAGTTCAAGATTATCCG
64 GCTATGTAGTTCAAGATTATCCG
3241588 TCGTCTGTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 10 0.13
107 38 0.49
108 30 0.38
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (106 bp):
GATTATCATCAAATCTCCTATGGATGAATACCCACCACCATACCAACAAAACTTATGCACCTCGC
TATGTAGTTCAAGATTATCCGCCATCTTTCCCCTACCACCC
Found at i:3245262 original size:11 final size:11
Alignment explanation
Indices: 3245246--3245271 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3245236 TCAATCTCTA
3245246 TTTTGAAGAAT
1 TTTTGAAGAAT
3245257 TTTTGAAGAAT
1 TTTTGAAGAAT
3245268 TTTT
1 TTTT
3245272 CTTTTGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTTGAAGAAT
Found at i:3246436 original size:13 final size:15
Alignment explanation
Indices: 3246408--3246436 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3246398 CAAAATAAAA
3246408 TCAAGTTAATATTTT
1 TCAAGTTAATATTTT
3246423 TCAAGTTAAT-TTTT
1 TCAAGTTAATATTTT
3246437 AACACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TCAAGTTAATATTTT
Found at i:3246515 original size:13 final size:13
Alignment explanation
Indices: 3246497--3246527 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3246487 TTTAAAATTT
3246497 TAAAAATTAAAAA
1 TAAAAATTAAAAA
*
3246510 TAAAAATTTAAAA
1 TAAAAATTAAAAA
3246523 TAAAA
1 TAAAA
3246528 TGTGTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAATTAAAAA
Done.