Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 335 of 373
Found at i:112253711 original size:20 final size:20
Alignment explanation
Indices: 112253688--112253797 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 20
112253678 CATTGATGTG
*
112253688 CAAATAGGGGTACCGAAGTA
1 CAAACAGGGGTACCGAAGTA
** * *
112253708 CAAACAGGGCCA-CTAATGTG
1 CAAACAGGGGTACCGAA-GTA
*
112253728 CAAACAAGGGTACCGAAGTA
1 CAAACAGGGGTACCGAAGTA
* * * * *
112253748 CAATCAGGGGCACTGATGTG
1 CAAACAGGGGTACCGAAGTA
*
112253768 CAAACAGGGGTACTGAAGTA
1 CAAACAGGGGTACCGAAGTA
* *
112253788 AAAATAGGGG
1 CAAACAGGGG
112253798 CACTAATGTA
Statistics
Matches: 66, Mismatches: 22, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
19 3 0.05
20 60 0.91
21 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.15
Consensus pattern (20 bp):
CAAACAGGGGTACCGAAGTA
Found at i:112253730 original size:80 final size:80
Alignment explanation
Indices: 112253593--112253806 Score: 243
Period size: 80 Copynumber: 2.7 Consensus size: 80
112253583 AAGTGCAAAT
** ** * * * * *
112253593 AGGGGCACAAATGTGCATTTAGGGGTACCAAAGTACAATTAGGGGAACTGATATGCAAAAAAGGG
1 AGGGGCACTGATGTGCAAATAGGGGTACCGAAGTACAAATAGGGGCACTAATGTGCAAAAAAGGG
112253658 TAACAG-AGTACAA-C
66 T-ACAGAAGTACAATC
* * * *
112253672 TAGGGGCATTGATGTGCAAATAGGGGTACCGAAGTACAAACAGGGCCACTAATGTGCAAACAAGG
1 -AGGGGCACTGATGTGCAAATAGGGGTACCGAAGTACAAATAGGGGCACTAATGTGCAAAAAAGG
*
112253737 GTACCGAAGTACAATC
65 GTACAGAAGTACAATC
* * *
112253753 AGGGGCACTGATGTGCAAACAGGGGTACTGAAGTAAAAATAGGGGCACTAATGT
1 AGGGGCACTGATGTGCAAATAGGGGTACCGAAGTACAAATAGGGGCACTAATGT
112253807 AAAAACATGG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 3 0.03
80 108 0.96
81 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.18
Consensus pattern (80 bp):
AGGGGCACTGATGTGCAAATAGGGGTACCGAAGTACAAATAGGGGCACTAATGTGCAAAAAAGGG
TACAGAAGTACAATC
Found at i:112253808 original size:20 final size:20
Alignment explanation
Indices: 112253752--112253813 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
112253742 GAAGTACAAT
* **
112253752 CAGGGGCACTGATGTGCAAA
1 CAGGGGCACTAATGTAAAAA
*
112253772 CAGGGGTACTGAA-GTAAAAA
1 CAGGGGCACT-AATGTAAAAA
*
112253792 TAGGGGCACTAATGTAAAAA
1 CAGGGGCACTAATGTAAAAA
112253812 CA
1 CA
112253814 TGGGTACTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.16
Consensus pattern (20 bp):
CAGGGGCACTAATGTAAAAA
Found at i:112253821 original size:40 final size:40
Alignment explanation
Indices: 112253575--112253820 Score: 172
Period size: 40 Copynumber: 6.2 Consensus size: 40
112253565 GTGTGATCAG
* ** * *** *
112253575 GGGTATCGAAGTGCAAATAGGGGCACAAATGTGCATTTAG
1 GGGTACCGAAGTAAAAATAGGGGCACTAATGTGCAAACAA
* * * * * * *
112253615 GGGTACCAAAGTACAATTAGGGGAACTGATATGCAAAAAA
1 GGGTACCGAAGTAAAAATAGGGGCACTAATGTGCAAACAA
* * * * * * *
112253655 GGGTAAC-AGAGTACAACTAGGGGCATTGATGTGCAAATAG
1 GGGTACCGA-AGTAAAAATAGGGGCACTAATGTGCAAACAA
* * *
112253695 GGGTACCGAAGTACAAACAGGGCCACTAATGTGCAAACAA
1 GGGTACCGAAGTAAAAATAGGGGCACTAATGTGCAAACAA
* * *
112253735 GGGTACCGAAGT-ACAATCAGGGGCACTGATGTGCAAACAG
1 GGGTACCGAAGTAAAAAT-AGGGGCACTAATGTGCAAACAA
* ** *
112253775 GGGTACTGAAGTAAAAATAGGGGCACTAATGTAAAAACAT
1 GGGTACCGAAGTAAAAATAGGGGCACTAATGTGCAAACAA
112253815 GGGTAC
1 GGGTAC
112253821 TTCATCATTT
Statistics
Matches: 163, Mismatches: 39, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.95
41 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (40 bp):
GGGTACCGAAGTAAAAATAGGGGCACTAATGTGCAAACAA
Found at i:112254454 original size:18 final size:18
Alignment explanation
Indices: 112254431--112254468 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
112254421 CAAAATCACT
112254431 TAACAA-AATACTTTTAAA
1 TAACAATAATAC-TTTAAA
112254449 TAACAATTAATACTTTAAA
1 TAACAA-TAATACTTTAAA
112254468 T
1 T
112254469 TCATTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAACAATAATACTTTAAA
Found at i:112256662 original size:23 final size:22
Alignment explanation
Indices: 112256636--112256681 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
112256626 TTATGAATCA
*
112256636 TATGTTTTGATATGACTTTGGTT
1 TATGATTTGATATG-CTTTGGTT
* *
112256659 TATGATTTGGTATGTTTTGGTT
1 TATGATTTGATATGCTTTGGTT
112256681 T
1 T
112256682 GGATATAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.15, C:0.02, G:0.24, T:0.59
Consensus pattern (22 bp):
TATGATTTGATATGCTTTGGTT
Found at i:112262020 original size:21 final size:21
Alignment explanation
Indices: 112261968--112262009 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
112261958 CGTTAAATTG
*
112261968 CACATGGCCGTGTGGGTCAAT
1 CACACGGCCGTGTGGGTCAAT
112261989 CACACGGCCGTGTGGGTCAAT
1 CACACGGCCGTGTGGGTCAAT
112262010 AGCCAGGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
CACACGGCCGTGTGGGTCAAT
Found at i:112272366 original size:47 final size:48
Alignment explanation
Indices: 112272250--112272369 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
112272240 AAGCGATACC
* *
112272250 TTGATTTGGCTATGGGCCATGGTATAGGTATTTCGGGGAAGAGTTACT
1 TTGATTTGGCTATGGGCCATGGTATAGGTATCTCCGGGAAGAGTTACT
* *
112272298 TTGATTTAGCTATGGGTCATGGTATAGGTA-CTCCGGGATA-AGTTACT
1 TTGATTTGGCTATGGGCCATGGTATAGGTATCTCCGGGA-AGAGTTACT
* *
112272345 TTGATTTGGCTACGAGCCATGGTAT
1 TTGATTTGGCTATGGGCCATGGTAT
112272370 TTGTACTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 34 0.54
48 29 0.46
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (48 bp):
TTGATTTGGCTATGGGCCATGGTATAGGTATCTCCGGGAAGAGTTACT
Found at i:112279505 original size:27 final size:27
Alignment explanation
Indices: 112279467--112279637 Score: 225
Period size: 27 Copynumber: 6.3 Consensus size: 27
112279457 CCCTACTATC
112279467 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
112279494 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
112279521 TCGATAATTCTACCCTAGAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * * *
112279548 TTGGTAATTCTATCCTATAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
112279575 TCAGTAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
112279602 TCAGAAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
112279629 TCAGTAATT
1 TCGGTAATT
112279638 TCACAATCAA
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:112279672 original size:27 final size:27
Alignment explanation
Indices: 112279642--112279998 Score: 400
Period size: 27 Copynumber: 13.3 Consensus size: 27
112279632 GTAATTTCAC
*
112279642 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
112279669 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
112279696 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
112279723 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
112279750 AATCGAGCGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
112279777 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
112279804 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
112279831 AATCGAGGGTAAAATAGTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
112279857 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
112279884 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
112279911 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
112279938 AATCGAGGGCAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
112279965 AA-CTGGGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
112279992 AATCGAG
1 AATCGAG
112279999 AGTACTTTGG
Statistics
Matches: 275, Mismatches: 46, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 246 0.89
28 4 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:112280015 original size:54 final size:54
Alignment explanation
Indices: 112279647--112279998 Score: 478
Period size: 54 Copynumber: 6.5 Consensus size: 54
112279637 TTCACAATCA
*
112279647 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTTTATAAACTG
* * * * *
112279701 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACT-G
* * * *
112279755 AGCGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACTG
* *
112279809 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAA-TTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACTG
** *
112279862 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACT-G
* *
112279916 AGGGTAAAACGGTAATTCTATAAATCGAGGGCAAAACAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACTG
* *
112279970 GGGGTAAAACGGTAATTCTGTAAATCGAG
1 AGGGTAAAACGGTAATTCTATAAATCGAG
112279999 AGTACTTTGG
Statistics
Matches: 265, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
53 52 0.20
54 210 0.79
55 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAACTG
Found at i:112281126 original size:47 final size:49
Alignment explanation
Indices: 112281008--112281136 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 49
112280998 GCGAGCGATG
* ***
112281008 CCTTGATTTGGCTATGGGCCATGGTATAGGTA-TTTTGGAGAAGAGTTA
1 CCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGAGTTA
* * * * *
112281056 TCTTGATTTAGCTAGGGGTCATGGTATAGGTACTCCAGGA-TA-AGTTA
1 CCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGAGTTA
112281103 CCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTACGGGCCATGGTATAGGTACT
112281137 TATCGATTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 35 0.51
48 29 0.43
49 4 0.06
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.34
Consensus pattern (49 bp):
CCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGAGTTA
Found at i:112282145 original size:105 final size:105
Alignment explanation
Indices: 112282015--112282239 Score: 324
Period size: 105 Copynumber: 2.1 Consensus size: 105
112282005 TATGGCCTAG
* * * * * * * *
112282015 ACACACGCCCATGCCCATACATGTGTGACTCACACGGCCTGGGTACACACTCGTGTCCCTGCTCG
1 ACACACGCCCGTGTCCATACATGTGTAACTCACACGGCCTAGATACACACCCGTGTCCCTGCCCA
112282080 TATGGCTTTTATACCAAAAATAGTGATTTACACAGACCAA
66 TATGGCTTTTATACCAAAAATAGTGATTTACACAGACCAA
*
112282120 ACACATGCCCGTGTCCATACATGTGTAACTCACACGGCCTAGATACACACCCGTGTCCCTGCCCA
1 ACACACGCCCGTGTCCATACATGTGTAACTCACACGGCCTAGATACACACCCGTGTCCCTGCCCA
* ** *
112282185 TGTGGCTTTTATACCAAAAATAGTGATTTACATGGACCAG
66 TATGGCTTTTATACCAAAAATAGTGATTTACACAGACCAA
*
112282225 ACACACGCCTGTGTC
1 ACACACGCCCGTGTC
112282240 TGTTGCTCGT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (105 bp):
ACACACGCCCGTGTCCATACATGTGTAACTCACACGGCCTAGATACACACCCGTGTCCCTGCCCA
TATGGCTTTTATACCAAAAATAGTGATTTACACAGACCAA
Found at i:112286544 original size:34 final size:34
Alignment explanation
Indices: 112286504--112286572 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
112286494 GAGAAATACT
112286504 TGTTCTTATTCTTGATTGTGAAATTAACCCTTGC
1 TGTTCTTATTCTTGATTGTGAAATTAACCCTTGC
112286538 TGTTCTTATTCTTGATTGTGAAATTAACCCTTGC
1 TGTTCTTATTCTTGATTGTGAAATTAACCCTTGC
112286572 T
1 T
112286573 TTAATATTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (34 bp):
TGTTCTTATTCTTGATTGTGAAATTAACCCTTGC
Found at i:112292164 original size:20 final size:20
Alignment explanation
Indices: 112292139--112292207 Score: 138
Period size: 20 Copynumber: 3.5 Consensus size: 20
112292129 TTCAGCCTCT
112292139 TCGACACTCTAGAGATGTCA
1 TCGACACTCTAGAGATGTCA
112292159 TCGACACTCTAGAGATGTCA
1 TCGACACTCTAGAGATGTCA
112292179 TCGACACTCTAGAGATGTCA
1 TCGACACTCTAGAGATGTCA
112292199 TCGACACTC
1 TCGACACTC
112292208 ACACTAGTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGACACTCTAGAGATGTCA
Found at i:112292592 original size:15 final size:14
Alignment explanation
Indices: 112292577--112292618 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
112292567 TTGAGTCTAT
112292577 TTATTTTATTATTA
1 TTATTTTATTATTA
* *
112292591 TTATTTTTCTTTTTA
1 TTA-TTTTATTATTA
112292606 TTATTTTATTATT
1 TTATTTTATTATT
112292619 CAGGGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:112315265 original size:46 final size:46
Alignment explanation
Indices: 112315197--112315318 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
112315187 TGTAACCCGC
* * *
112315197 CCATAAGCGAACTCGGGCTCAACTCAACGAACTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
* ** *
112315243 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGGACGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
*
112315289 CCATAAGTGAACTCAGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
112315319 TTTCAGATGC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
Found at i:112318143 original size:35 final size:35
Alignment explanation
Indices: 112318096--112318184 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
112318086 TCTAATGTTT
* *
112318096 TGATTCGCATGTTAAGTATGTCATATTTCTGATTA
1 TGATTCACATGTTAAGCATGTCATATTTCTGATTA
* * * *
112318131 TGATTCATATGTTAAGCATGTCATATTTTTTATTC
1 TGATTCACATGTTAAGCATGTCATATTTCTGATTA
112318166 TGATTCACATGTTAAGCAT
1 TGATTCACATGTTAAGCAT
112318185 ACCTACTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGTCATATTTCTGATTA
Found at i:112332516 original size:30 final size:30
Alignment explanation
Indices: 112332480--112332537 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
112332470 CACGGGCTGG
*
112332480 CACATGGGCATGTGGCCTACCCGTGTGGAT
1 CACATGGACATGTGGCCTACCCGTGTGGAT
*
112332510 CACATGGACGTGTGGCCTACCCGTGTGG
1 CACATGGACATGTGGCCTACCCGTGTGG
112332538 GTCCTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (30 bp):
CACATGGACATGTGGCCTACCCGTGTGGAT
Found at i:112334323 original size:18 final size:18
Alignment explanation
Indices: 112334300--112334334 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
112334290 GATAAATAAT
112334300 AATAATAAT-AATAAACTC
1 AATAAT-ATCAATAAACTC
112334318 AATAATATCAATAAACT
1 AATAATATCAATAAACT
112334335 TAAAAGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATATCAATAAACTC
Found at i:112334403 original size:28 final size:29
Alignment explanation
Indices: 112334361--112334427 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
112334351 TAATAATAGT
* *
112334361 AAAAATAAAAAAAATACGAAAGA-AAAAAG
1 AAAAATAATAGAAATACGAAA-ATAAAAAG
* *
112334390 AAAAA-AATAGAAATAGGAAAATAAAAAT
1 AAAAATAATAGAAATACGAAAATAAAAAG
112334418 AAAAATAATA
1 AAAAATAATA
112334428 AAAGTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 22 0.69
29 9 0.28
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (29 bp):
AAAAATAATAGAAATACGAAAATAAAAAG
Found at i:112334415 original size:22 final size:22
Alignment explanation
Indices: 112334361--112334416 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
112334351 TAATAATAGT
112334361 AAAAATAAAAAAAATACGAAAGA
1 AAAAAT-AAAAAAATACGAAAGA
* *
112334384 AAAAAGAAAAAAATA-GAAATA
1 AAAAATAAAAAAATACGAAAGA
*
112334405 GGAAAATAAAAA
1 -AAAAATAAAAA
112334417 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.18
22 18 0.64
23 5 0.18
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAAATAAAAAAATACGAAAGA
Found at i:112334430 original size:20 final size:20
Alignment explanation
Indices: 112334392--112334535 Score: 53
Period size: 20 Copynumber: 7.0 Consensus size: 20
112334382 GAAAAAAGAA
* **
112334392 AAAAATAGAAATAGGAAAAT
1 AAAAATAAAAATAATAAAAT
112334412 AAAAATAAAAATAATAAAAGT
1 AAAAATAAAAATAATAAAA-T
* * *
112334433 ATATA-AAAAATTA-AAAAT
1 AAAAATAAAAATAATAAAAT
* * * *
112334451 ATAAGTACAAGAATACTAAATT
1 AAAAATA-AA-AATAATAAAAT
* * * *
112334473 AATTAAT-TAATTATTAAAAT
1 AA-AAATAAAAATAATAAAAT
112334493 AAAAATAAATAAT-ATAACAATT
1 AAAAATAAA-AATAATAA-AA-T
*
112334515 AAAAATAAAATAAAATAAAAT
1 AAAAATAAAA-ATAATAAAAT
112334536 TAAGGTGATT
Statistics
Matches: 89, Mismatches: 23, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
18 4 0.04
19 8 0.09
20 39 0.44
21 14 0.16
22 18 0.20
23 6 0.07
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATAAAAATAATAAAAT
Found at i:112334447 original size:18 final size:19
Alignment explanation
Indices: 112334416--112334453 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
112334406 GAAAATAAAA
*
112334416 ATAAAAATAATAAAAGTAT
1 ATAAAAATAATAAAAATAT
*
112334435 ATAAAAA-ATTAAAAATAT
1 ATAAAAATAATAAAAATAT
112334453 A
1 A
112334454 AGTACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAAAAATAATAAAAATAT
Found at i:112334505 original size:22 final size:22
Alignment explanation
Indices: 112334492--112334538 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
112334482 ATTATTAAAA
112334492 TAAAAATAAATAATATAACAAT
1 TAAAAATAAATAATATAACAAT
*
112334514 TAAAAATAAAATAAAATAA-AAT
1 TAAAAAT-AAATAATATAACAAT
112334536 TAA
1 TAA
112334539 GGTGATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAAATAAATAATATAACAAT
Found at i:112341801 original size:26 final size:26
Alignment explanation
Indices: 112341772--112341879 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
112341762 TGGTACAAAT
112341772 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112341798 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112341824 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112341850 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112341876 TGAT
1 TGAT
112341880 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112343396 original size:26 final size:26
Alignment explanation
Indices: 112343367--112343419 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
112343357 TTTACAGTTT
112343367 TACCCATAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* * *
112343393 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
112343419 T
1 T
112343420 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:112358479 original size:57 final size:57
Alignment explanation
Indices: 112358410--112358522 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
112358400 TTTACGTCCT
* * *
112358410 GTATCACGTGGCCCGGCTCAAGGAGTTTCGGAGAAAACGAGC-GGGATTTGGGCCGGC
1 GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGG-TTAGGGCCGGC
*
112358467 GTATCATGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGG
1 GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGG
112358523 TGTCCCCAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (57 bp):
GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGGC
Found at i:112360766 original size:21 final size:21
Alignment explanation
Indices: 112360734--112360774 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
112360724 AGGCTCGAGG
112360734 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
112360755 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
112360775 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:112368500 original size:11 final size:11
Alignment explanation
Indices: 112368484--112368508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112368474 ATTTATTTTG
112368484 ATTTTTTTAGT
1 ATTTTTTTAGT
112368495 ATTTTTTTAGT
1 ATTTTTTTAGT
112368506 ATT
1 ATT
112368509 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:112371323 original size:21 final size:21
Alignment explanation
Indices: 112371283--112371333 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
112371273 ATTTATAACA
* *
112371283 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCATCACTTGC
112371304 TATTTCAAATCTCAT-ACTTGC
1 TA-TTCAAATCTCATCACTTGC
112371325 TATTCAAAT
1 TATTCAAAT
112371334 AACTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (21 bp):
TATTCAAATCTCATCACTTGC
Found at i:112371543 original size:37 final size:41
Alignment explanation
Indices: 112371489--112371588 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
112371479 AAGTAAAAAT
*
112371489 TTGACACCCAGTGTCTCATTG-GTTAAACTGAAGT-A-A-A
1 TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
* * *
112371526 TTGGCACCCAGTGTCTCATCGAATTAATCTGAAGTAATATA
1 TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
112371567 TTGACACCCAGTGTCTCATTGA
1 TTGACACCCAGTGTCTCATTGA
112371589 CTCGAAGTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 19 0.36
38 11 0.21
39 1 0.02
40 1 0.02
41 21 0.40
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
Found at i:112371581 original size:41 final size:38
Alignment explanation
Indices: 112371463--112371585 Score: 133
Period size: 37 Copynumber: 3.1 Consensus size: 38
112371453 TATCTAGTAC
*
112371463 CTCATCAGA-TAATTTGAAGTAAAAATTTGACACCCAGTGT
1 CTCATC-GATTAATCTGAAGT-AAAA-TTGACACCCAGTGT
* * * *
112371503 CTCATTGGTTAAACTGAAGT-AAATTGGCACCCAGTGT
1 CTCATCGATTAATCTGAAGTAAAATTGACACCCAGTGT
112371540 CTCATCGAATTAATCTGAAGTAATATATTGACACCCAGTGT
1 CTCATCG-ATTAATCTGAAGTAA-A-ATTGACACCCAGTGT
112371581 CTCAT
1 CTCAT
112371586 TGACTCGAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
37 19 0.28
38 14 0.20
39 2 0.03
40 15 0.22
41 19 0.28
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (38 bp):
CTCATCGATTAATCTGAAGTAAAATTGACACCCAGTGT
Found at i:112372438 original size:4 final size:4
Alignment explanation
Indices: 112372429--112372462 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
112372419 CTAGTTTCTC
112372429 CTTT CTTT CTTT CTTTT CTTT CTTT CCTTT CTTT
1 CTTT CTTT CTTT C-TTT CTTT CTTT -CTTT CTTT
112372463 TCTTCCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:112372448 original size:9 final size:9
Alignment explanation
Indices: 112372429--112372466 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
112372419 CTAGTTTCTC
112372429 CTTTC-TTT
1 CTTTCTTTT
112372437 CTTTCTTTT
1 CTTTCTTTT
*
112372446 CTTTCTTTC
1 CTTTCTTTT
112372455 CTTTCTTTT
1 CTTTCTTTT
112372464 CTT
1 CTT
112372467 CCTGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:112372448 original size:13 final size:13
Alignment explanation
Indices: 112372427--112372462 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
112372417 CTCTAGTTTC
112372427 TCCTTTCTTTCTT
1 TCCTTTCTTTCTT
*
112372440 TCTTTTCTTTCTT
1 TCCTTTCTTTCTT
112372453 TCCTTTCTTT
1 TCCTTTCTTT
112372463 TCTTCCTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TCCTTTCTTTCTT
Found at i:112373244 original size:15 final size:15
Alignment explanation
Indices: 112373197--112373245 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
112373187 TTTGATAAAC
*
112373197 TGAAAAATTAAGTGC
1 TGAAAAATTAAGTGT
*
112373212 TGAAAAAATAAGTGT
1 TGAAAAATTAAGTGT
*
112373227 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTGT
112373242 TGAA
1 TGAA
112373246 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.29
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:112383616 original size:19 final size:19
Alignment explanation
Indices: 112383588--112383634 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
112383578 TTTTATAATT
* *
112383588 TATATTTTTTTCTAGATT-A
1 TATATATTTTCCTA-ATTGA
*
112383607 TATATATTTTCCTAATTGT
1 TATATATTTTCCTAATTGA
112383626 TATATATTT
1 TATATATTT
112383635 ATTTTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (19 bp):
TATATATTTTCCTAATTGA
Found at i:112384811 original size:3 final size:3
Alignment explanation
Indices: 112384803--112384840 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
112384793 CGTTTCATCA
112384803 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
112384841 CATTTTTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:112386370 original size:45 final size:45
Alignment explanation
Indices: 112386319--112386404 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
112386309 TTCATCATCT
*
112386319 GAAATTGTGAACACGTCAATGGGATTCGGATTTGGGGTACCTTCA
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
* *
112386364 GAAATTGTGACCGCGTCAATGGGATTCGGATTTAGGGTACC
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACC
112386405 CAAAGCTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (45 bp):
GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
Found at i:112388342 original size:52 final size:52
Alignment explanation
Indices: 112388286--112388412 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 52
112388276 ATGTTGGCCG
* *
112388286 AATGTGTAAATTTTGCAAGTTAAAATTTGATAAATCAATACCAACA-TGACAA
1 AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAA-ATTGACAA
* * * * *
112388338 AATGTGTAAATGTTGTAGGTT-AAATTTGTTAAATTAAGACCAAATTGACAA
1 AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAAATTGACAA
112388389 AATGTGTAAACTTTT-AAAGTTAAA
1 AATGTGTAAA-TTTTGAAAGTTAAA
112388413 TTGGTTATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
50 1 0.02
51 39 0.62
52 23 0.37
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (52 bp):
AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAAATTGACAA
Found at i:112390659 original size:2 final size:2
Alignment explanation
Indices: 112390652--112390676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112390642 TGTATTCTAT
112390652 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
112390677 GTGTGTGTGT
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:112391500 original size:30 final size:30
Alignment explanation
Indices: 112391454--112391547 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
112391444 TTTTATTATG
* *
112391454 CCAATATCTCGATACCCATATCCTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
112391485 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
112391515 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
112391545 CCA
1 CCA
112391548 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:112391509 original size:15 final size:15
Alignment explanation
Indices: 112391464--112391541 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
112391454 CCAATATCTC
*
112391464 GATACCCATATCCTT
1 GATACCCATATCTTT
** *
112391479 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
112391494 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
112391509 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
112391524 GATACCCATATCTTT
1 GATACCCATATCTTT
112391539 GAT
1 GAT
112391542 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 9 0.20
15 28 0.61
16 9 0.20
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:112393031 original size:34 final size:34
Alignment explanation
Indices: 112392988--112393056 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
112392978 CCAAAGTTTC
112392988 ACTCAATTAAGCATTTGAGATGACAATAAAAAAA
1 ACTCAATTAAGCATTTGAGATGACAATAAAAAAA
112393022 ACTCAATTAAGCATTTGAGATGACAATAAAAAAA
1 ACTCAATTAAGCATTTGAGATGACAATAAAAAAA
112393056 A
1 A
112393057 AAGAGACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (34 bp):
ACTCAATTAAGCATTTGAGATGACAATAAAAAAA
Found at i:112401995 original size:22 final size:22
Alignment explanation
Indices: 112401970--112402034 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
112401960 AACCTTTTCT
112401970 TAAAATTATAAATCATAAATCA
1 TAAAATTATAAATCATAAATCA
* **
112401992 TAAAATTCTAAAATC-TAACCCA
1 TAAAATTAT-AAATCATAAATCA
* * *
112402014 TCACATCATAAATCATAAATC
1 TAAAATTATAAATCATAAATC
112402035 TAATTAAATA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 5 0.16
22 22 0.69
23 5 0.16
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATTATAAATCATAAATCA
Found at i:112402962 original size:20 final size:20
Alignment explanation
Indices: 112402937--112402974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
112402927 CTAATCTTAA
112402937 AATATGAAAGACAA-AACTCT
1 AATATGAAA-ACAATAACTCT
112402957 AATATGAAAACAATAACT
1 AATATGAAAACAATAACT
112402975 AGTTACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AATATGAAAACAATAACTCT
Found at i:112411427 original size:16 final size:14
Alignment explanation
Indices: 112411406--112411453 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
112411396 CAAAAATTTA
112411406 AAATAAATCATAAAAT
1 AAATAAAT-A-AAAAT
112411422 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
112411436 -AATACATAAAATAT
1 AAATAAATAAAA-AT
112411450 AAAT
1 AAAT
112411454 TTTAACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 10 0.34
14 7 0.24
15 4 0.14
16 8 0.28
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:112411433 original size:13 final size:13
Alignment explanation
Indices: 112411404--112411448 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
112411394 TGCAAAAATT
112411404 TAAAATAAAT-CA
1 TAAAATAAATACA
*
112411416 TAAAATAAATAAA
1 TAAAATAAATACA
112411429 TAAAA-ATAATACA
1 TAAAATA-AATACA
112411442 TAAAATA
1 TAAAATA
112411449 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.39
13 16 0.57
14 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATACA
Found at i:112411545 original size:5 final size:5
Alignment explanation
Indices: 112411535--112411581 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
112411525 TTACAATTAA
* * *
112411535 AATAT AATAT AATAT AAAAT AATA- ATGTAT AATAA AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT AATAT AA
112411582 AATAGTAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:112411574 original size:30 final size:30
Alignment explanation
Indices: 112411535--112411594 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
112411525 TTACAATTAA
*
112411535 AATATAATATAATATAAAATAATAATGTAT
1 AATAAAATATAATATAAAATAATAATGTAT
*
112411565 AATAAAATATAATATAAAATAGTAATGTAT
1 AATAAAATATAATATAAAATAATAATGTAT
112411595 GCCCATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
AATAAAATATAATATAAAATAATAATGTAT
Found at i:112411956 original size:42 final size:39
Alignment explanation
Indices: 112411890--112411977 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 39
112411880 AAAGAAACAA
* *
112411890 ATAATATACATAAATAGATTTAAAAGAAAATATACATAT
1 ATAATATACATAAATAAATTTAAAAGAAAATATACACAT
*
112411929 ATATATATACATGTAAATAAATTTAAAAGAAAATATCCACAT
1 ATA-ATATACA--TAAATAAATTTAAAAGAAAATATACACAT
112411971 ATAATAT
1 ATAATAT
112411978 GAAATCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 3 0.07
40 7 0.16
41 4 0.09
42 29 0.67
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (39 bp):
ATAATATACATAAATAAATTTAAAAGAAAATATACACAT
Found at i:112414385 original size:48 final size:48
Alignment explanation
Indices: 112414314--112414409 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
112414304 CTCAAAAGAG
112414314 TTAAAAAGACTTTTGAGTTCTGAAGGACAATGAGAAATTGAGTATGTT
1 TTAAAAAGACTTTTGAGTTCTGAAGGACAATGAGAAATTGAGTATGTT
112414362 TTAAAAAGACTTTTGAGTTCTGAAGGACAATGAGAAATTGAGTATGTT
1 TTAAAAAGACTTTTGAGTTCTGAAGGACAATGAGAAATTGAGTATGTT
112414410 ACCAGGGAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (48 bp):
TTAAAAAGACTTTTGAGTTCTGAAGGACAATGAGAAATTGAGTATGTT
Found at i:112414755 original size:14 final size:15
Alignment explanation
Indices: 112414732--112414784 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
112414722 TGAGATCCAA
*
112414732 AAAATATATTTAT-T
1 AAAATTTATTTATAT
*
112414746 AAAATTTATTTCTAT
1 AAAATTTATTTATAT
* *
112414761 AATATATTAATTATAT
1 AAAAT-TTATTTATAT
112414777 AAAATTTA
1 AAAATTTA
112414785 AAAAATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.35
15 8 0.26
16 12 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATTTATTTATAT
Found at i:112415883 original size:73 final size:73
Alignment explanation
Indices: 112415764--112415909 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
112415754 TTCACTTTCA
*
112415764 AAGGTCAATTAGAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
1 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
112415829 CTGCTGAG
66 CTGCTGAG
112415837 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
1 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
112415902 CTGCTGAG
66 CTGCTGAG
112415910 TTTTGGCCTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (73 bp):
AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
CTGCTGAG
Found at i:112417575 original size:18 final size:19
Alignment explanation
Indices: 112417544--112417586 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
112417534 ATATGTTCAT
112417544 TAATTATTAGAAAA-AATA
1 TAATTATTAGAAAATAATA
** *
112417562 TAATTATTTTAAAATGATA
1 TAATTATTAGAAAATAATA
112417581 TAATTA
1 TAATTA
112417587 GAAGAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAATTATTAGAAAATAATA
Found at i:112418681 original size:56 final size:55
Alignment explanation
Indices: 112418621--112418760 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 55
112418611 TCGCTCACTC
* *
112418621 AGTTGACTAGCAT-CTCTATCACTTGCTTAATTGACCATCCATTCCATTGCTCGCTT
1 AGTTGACT-GC-TCCTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
* * * *
112418677 AGTTGTCTGCTCGCTCCGTCGCTTGCTTAACTGACCATCCATTCCATTGCTTG-TT
1 AGTTGACTGCTC-CTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
*
112418732 CAGTTGTCTGCTCGCTCCATCACTTGCTT
1 -AGTTGACTGCTC-CTCCATCACTTGCTT
112418761 CGTGAACTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.01
55 4 0.05
56 68 0.93
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.38
Consensus pattern (55 bp):
AGTTGACTGCTCCTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
Found at i:112426247 original size:32 final size:30
Alignment explanation
Indices: 112426173--112426254 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
112426163 GTATACAATT
* *
112426173 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
112426205 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
112426237 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
112426255 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:112426378 original size:3 final size:3
Alignment explanation
Indices: 112426366--112426418 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
112426356 AAATAGATAT
* * * *
112426366 TTA TTA -TA TTA TTG TTA -TA ATA ATA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112426412 TTA TTA T
1 TTA TTA T
112426419 AAATAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:112435211 original size:33 final size:33
Alignment explanation
Indices: 112435168--112435237 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
112435158 ATTATAAACA
*
112435168 TAACAGATGAATAAATCTATAAACGAAGCTATC
1 TAACAAATGAATAAATCTATAAACGAAGCTATC
112435201 TAACAAATGAATAAATCTATAAACGAAGCTATC
1 TAACAAATGAATAAATCTATAAACGAAGCTATC
112435234 TAAC
1 TAAC
112435238 GAAACTTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (33 bp):
TAACAAATGAATAAATCTATAAACGAAGCTATC
Found at i:112436098 original size:26 final size:27
Alignment explanation
Indices: 112436050--112436103 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
112436040 AGTTTCCATA
* *
112436050 TGGCATGGCAAGCATAACTTG-AATTG
1 TGGCATGACAAGCACAACTTGAAATTG
112436076 TGGCATGACAAGCACAAGC-TGAAATTG
1 TGGCATGACAAGCACAA-CTTGAAATTG
112436103 T
1 T
112436104 TTTCTTGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (27 bp):
TGGCATGACAAGCACAACTTGAAATTG
Found at i:112437531 original size:3 final size:3
Alignment explanation
Indices: 112437525--112437819 Score: 91
Period size: 3 Copynumber: 97.3 Consensus size: 3
112437515 TGAATTTCTA
* * * *
112437525 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
112437573 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
112437618 TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT
* * *
112437664 T-T TAA TAA CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
112437704 TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TAT
* * * * *
112437752 T-T ATAC TA- TACT TAA TAT TAT TAT CAT TAT TAT TA- CAT TAT CAT
1 TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
112437796 TAT TAT TA- CAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
112437820 TATAAATATT
Statistics
Matches: 214, Mismatches: 44, Indels: 68
0.66 0.13 0.21
Matches are distributed among these distances:
2 26 0.12
3 157 0.73
4 27 0.13
5 4 0.02
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:112437731 original size:176 final size:183
Alignment explanation
Indices: 112437480--112437841 Score: 605
Period size: 176 Copynumber: 2.0 Consensus size: 183
112437470 TTAAATTATC
** *
112437480 TTATTTTAATATTATTATATTATGTTTAGTTTTTTTGAATTTCTATATTATTATTATTATTGTTA
1 TTATTTTAATAACATTATATTATGTTTAGCTTTTTTGAATTTC-ATATTATTATTATTATTGTTA
112437545 CTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTA-T-T-ATTATTA-T
65 CTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATCATTATTATT
* *
112437606 -CATTATTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTATATT
130 ACATTATCATTATTATTACA-TTACTATTATTATTTATAAATATTAGTGTATATT
112437660 TTATTTTAATAACATTATATTATGTTTA-CTTTTTTGAATTTC-TA-TATTATTATTATTGTTAC
1 TTATTTTAATAACATTATATTATGTTTAGCTTTTTTGAATTTCATATTATTATTATTATTGTTAC
112437722 TTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATCATTATTATTA
66 TTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATCATTATTATTA
112437787 CATTATCATTATTATTACATTACTATTATTATTTATAAATATTAGTGTATATT
131 CATTATCATTATTATTACATTACTATTATTATTTATAAATATTAGTGTATATT
112437840 TT
1 TT
112437842 TATTATATAT
Statistics
Matches: 172, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
176 68 0.40
177 3 0.02
178 1 0.01
179 20 0.12
180 63 0.37
181 17 0.10
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (183 bp):
TTATTTTAATAACATTATATTATGTTTAGCTTTTTTGAATTTCATATTATTATTATTATTGTTAC
TTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATCATTATTATTA
CATTATCATTATTATTACATTACTATTATTATTTATAAATATTAGTGTATATT
Found at i:112437791 original size:17 final size:17
Alignment explanation
Indices: 112437771--112437819 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
112437761 ACTTAATATT
112437771 ATTATCATTATTATTAC
1 ATTATCATTATTATTAC
112437788 ATTATCATTATTATTAC
1 ATTATCATTATTATTAC
112437805 ATTA-CTATTATTATT
1 ATTATC-ATTATTATT
112437820 TATAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATCATTATTATTAC
Found at i:112437997 original size:3 final size:3
Alignment explanation
Indices: 112437991--112438045 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
112437981 CTATTATTGC
* *
112437991 TAT TAT TGT TAT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT
112438038 TAT TAT TA
1 TAT TAT TA
112438046 ATAGGTACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.05
3 35 0.80
4 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:112447303 original size:12 final size:12
Alignment explanation
Indices: 112447261--112447302 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
112447251 TGATTTTATG
112447261 TAAAATATTTTT
1 TAAAATATTTTT
112447273 TAAAATCATTTTT
1 TAAAAT-ATTTTT
112447286 T-AAAT-TTTTT
1 TAAAATATTTTT
112447296 ATAAAAT
1 -TAAAAT
112447303 TATATATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.19
11 1 0.04
12 14 0.52
13 7 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
TAAAATATTTTT
Found at i:112449342 original size:24 final size:24
Alignment explanation
Indices: 112449315--112449385 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
112449305 TTTATATAAG
112449315 ATTAAATATTTATTTATTAATTTT
1 ATTAAATATTTATTTATTAATTTT
* * *
112449339 ATT--AGA---GTTTATTCATTTT
1 ATTAAATATTTATTTATTAATTTT
112449358 ATTAAATATTTATTTATTAATTTT
1 ATTAAATATTTATTTATTAATTTT
112449382 ATTA
1 ATTA
112449386 GAGTTTCGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 14 0.39
21 2 0.06
22 2 0.06
24 18 0.50
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTAAATATTTATTTATTAATTTT
Found at i:112452481 original size:15 final size:15
Alignment explanation
Indices: 112452461--112452490 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
112452451 GAAACACTTG
112452461 TTATTGAATTATTAT
1 TTATTGAATTATTAT
*
112452476 TTATTGAATTGTTAT
1 TTATTGAATTATTAT
112452491 ATTTACTTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTATTGAATTATTAT
Found at i:112453454 original size:8 final size:9
Alignment explanation
Indices: 112453419--112453461 Score: 54
Period size: 8 Copynumber: 4.8 Consensus size: 9
112453409 ACCAAATTTG
112453419 GTTAATTAA
1 GTTAATTAA
112453428 GATTAATATAA
1 G-TTAAT-TAA
112453439 GTTAATTAA
1 GTTAATTAA
112453448 G-TAATTAA
1 GTTAATTAA
112453456 -TTAATT
1 GTTAATT
112453462 TATAACCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 12 0.39
9 5 0.16
10 10 0.32
11 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (9 bp):
GTTAATTAA
Found at i:112462788 original size:13 final size:13
Alignment explanation
Indices: 112462770--112462794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112462760 AGCAATAGCG
112462770 CACGGGCGTGTCA
1 CACGGGCGTGTCA
112462783 CACGGGCGTGTC
1 CACGGGCGTGTC
112462795 CTTGCCGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTCA
Found at i:112466170 original size:38 final size:38
Alignment explanation
Indices: 112466114--112466186 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
112466104 AATTTCATCA
* *
112466114 TCGCGACAAGGAGGCCTTGGGCCAAGTGAATATGTTAC
1 TCGCAACAAGGAGGCCTTGGGCCAAGTCAATATGTTAC
112466152 TCGCAACAAGGAGGCCTTGGGCCAAGTCAATATGT
1 TCGCAACAAGGAGGCCTTGGGCCAAGTCAATATGT
112466187 CACGTCACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (38 bp):
TCGCAACAAGGAGGCCTTGGGCCAAGTCAATATGTTAC
Found at i:112472262 original size:28 final size:25
Alignment explanation
Indices: 112472201--112472275 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 25
112472191 AAATATTTAG
112472201 AAATATAAAAAATTAAAATTATTAA
1 AAATATAAAAAATTAAAATTATTAA
** *
112472226 GATTTATAAAAACTGTAAAATTTATTAA
1 -AAATATAAAAAAT-TAAAA-TTATTAA
*
112472254 AAATAATAAAATATTTAAAATT
1 AAAT-ATAAAA-AATTAAAATT
112472276 GCAGTAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
26 10 0.26
27 9 0.23
28 18 0.46
29 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATATAAAAAATTAAAATTATTAA
Found at i:112472271 original size:18 final size:17
Alignment explanation
Indices: 112472190--112472273 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 17
112472180 TAATTATTAA
*
112472190 AAAATATTTAGAAATAT
1 AAAATATTTAAAAATAT
* *
112472207 AAAA-AATTAAAATTATT
1 AAAATATTTAAAAATA-T
* *
112472224 AAGAT-TTATAAAAACTGT
1 AAAATATT-TAAAAA-TAT
*
112472242 AAAATTTATTAAAAATAAT
1 AAAATAT-TTAAAAAT-AT
112472261 AAAATATTTAAAA
1 AAAATATTTAAAA
112472274 TTGCAGTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
16 8 0.16
17 9 0.18
18 17 0.34
19 15 0.30
20 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAATATTTAAAAATAT
Found at i:112472656 original size:16 final size:18
Alignment explanation
Indices: 112472635--112472686 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
112472625 TAAATTAATA
112472635 TTTA-TTTTT-AAATATT
1 TTTATTTTTTAAAATATT
112472651 TTTATTTTTTAAAATATT
1 TTTATTTTTTAAAATATT
112472669 TTATAATTTTTTATAAAT
1 TT-T-ATTTTTTA-AAAT
112472687 TTCAATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 9 0.29
19 1 0.03
20 8 0.26
21 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTTTTAAAATATT
Found at i:112480031 original size:43 final size:44
Alignment explanation
Indices: 112479968--112480136 Score: 218
Period size: 43 Copynumber: 3.9 Consensus size: 44
112479958 GCTTGTATTA
*
112479968 TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGCGATGTG
1 TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
112480012 TATT-TGGGCCTTTGAGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
112480055 TATT-CGGGCTTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
112480098 TATTCT-GGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
112480137 AATGATATGT
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
43 105 0.96
44 4 0.04
ACGTcount: A:0.12, C:0.22, G:0.34, T:0.31
Consensus pattern (44 bp):
TATTATGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:112485051 original size:19 final size:20
Alignment explanation
Indices: 112485029--112485073 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
112485019 TTTAGTCTCA
*
112485029 TTTTTTTATTT-ATTTTTTG
1 TTTTTATATTTGATTTTTTG
* *
112485048 TTTTAATATTTGTTTTTTTG
1 TTTTTATATTTGATTTTTTG
112485068 TTTTTA
1 TTTTTA
112485074 AATGTATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTATATTTGATTTTTTG
Found at i:112486098 original size:17 final size:17
Alignment explanation
Indices: 112486059--112486101 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
112486049 CCGCAACAGT
112486059 AAAAAAAACACTGAAAA
1 AAAAAAAACACTGAAAA
112486076 AGAAAAAAA-ACTGAAAA
1 A-AAAAAAACACTGAAAA
112486093 CAAAAAAAA
1 -AAAAAAAA
112486102 TAAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.79, C:0.09, G:0.07, T:0.05
Consensus pattern (17 bp):
AAAAAAAACACTGAAAA
Found at i:112491879 original size:72 final size:72
Alignment explanation
Indices: 112491753--112491893 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
112491743 GCCCCCCGAT
* *
112491753 GAGCTCGGGAAATAGTCATTGCCCACCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
112491818 CGATGAC
66 CGATGAC
** * *
112491825 GAGCCCGGGAAATAGTCATTACCTGCCAAATCTAGATGATAAGAAGTATGAGTCGAATGTGAATG
1 GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
112491890 CGAT
66 CGAT
112491894 CGTTCGGACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (72 bp):
GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
CGATGAC
Found at i:112494098 original size:146 final size:149
Alignment explanation
Indices: 112493773--112494968 Score: 1473
Period size: 146 Copynumber: 8.1 Consensus size: 149
112493763 AATATTTTCG
* * * * * *
112493773 TATATTATTTTAGCAAAAAATGTTTAAAATGTATTATGTAAGT-ATTTTTTATATTAATTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
* *
112493837 AATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATA
66 AATAACCCTGATTTTAGCACTTTATTCGTA---TTTTATTTTCGTATCTTATTTTTTAAAATATA
*
112493902 TTATTTTCATATTTTATTTCTT
128 TTATTTTCGTATTTTATTTCTT
*
112493924 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATT-TTTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
112493988 AATAACCCTGATTTTAGCACTTTATTCGTA-TTT-TTTTCGTATCTTATTTTTTAAAATATATTA
66 AATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATCTTATTTTTTAAAATATATTA
112494051 TTTTCGTATTTTATTTCTT
131 TTTTCGTATTTTATTTCTT
* **
112494070 TATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
112494135 AATAACCCTGATTTTAGCACTTTATTCGTA--TT-TTTTCGTATCTTATTTTTTAAAATATATTA
66 AATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATCTTATTTTTTAAAATATATTA
112494197 TTTTCGTATTTTATTTCTT
131 TTTTCGTATTTTATTTCTT
* * * *
112494216 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
* * *
112494281 AATAACCTTGATTTT-GATACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATAT
66 AATAACCCTGATTTTAG-CACTTTATTCGTA---TTTTATTTTCGTATCTTATTTTTTAAAATAT
*
112494345 ATTATTTTCATATTTTATTTTATTTCTT
127 ATTATTTTC-----GTATTTTATTTCTT
* * *
112494373 CATATTATTTTAGTACATAATGTTTCAAATATATTATTTAAGTGTTTTTTTATATT-TTTTCAAT
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTT-AAT
* * * *
112494437 AAATAATCCTGATTTTAGCACTTTATTCGCA-TTT-TTTTCGTATATTATTTTTTAAAATTTATT
65 AAATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATCTTATTTTTTAAAATATATT
*
112494500 ATTTTTGTATTTTATTT-TT
130 ATTTTCGTATTTTATTTCTT
* * * * *
112494519 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTCTTTATATTAATTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
* *
112494584 AATAACCTTGATTTT-GACACTTTCTTCGTAGTTTTTTTATTTTCGTATCTTATTTTTTAAAATA
66 AATAACCCTGATTTTAG-CACTTTATTCGTA----TTTTATTTTCGTATCTTATTTTTTAAAATA
112494648 TATTATTTTCGTATTTTATTTCTT
126 TATTATTTTCGTATTTTATTTCTT
**
112494672 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG-TTTTTTATATTTTTTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
* * * *
112494736 AATAACACTAATTTTAGCACTTTATTTGTATTTTTTATTTTCGTATATTATTTTTTAAAATATAT
66 AATAACCCTGATTTTAGCACTTTATTCGTA--TTTTATTTTCGTATCTTATTTTTTAAAATATAT
112494801 TATTTTCGTATTTTA------
129 TATTTTCGTATTTTATTTCTT
** *
112494816 T-T-TTA--GCA-TA-A-AATCTTTCAAATGTATTATTTAA--G--TTTTTATATTAATTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
* * * * * * *
112494870 AATAACCCTGACTTTGGCACATTGTTTGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATA
66 AATAACCCTGATTTTAGCACTTTATTCGTA---TTTTATTTTCGTATCTTATTTTTTAAAATATA
* * *
112494935 CTATTTTCATATTTTATTTTTT
128 TTATTTTCGTATTTTATTTCTT
112494957 TATATTATTTTA
1 TATATTATTTTA
112494969 ACATAAAACT
Statistics
Matches: 925, Mismatches: 83, Indels: 80
0.85 0.08 0.07
Matches are distributed among these distances:
134 41 0.04
135 47 0.05
137 22 0.02
138 1 0.00
139 2 0.00
140 1 0.00
141 1 0.00
142 4 0.00
143 4 0.00
144 1 0.00
145 3 0.00
146 316 0.34
147 54 0.06
150 49 0.05
151 78 0.08
152 161 0.17
153 46 0.05
156 3 0.00
157 90 0.10
158 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (149 bp):
TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATA
AATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATCTTATTTTTTAAAATATATTA
TTTTCGTATTTTATTTCTT
Found at i:112494462 original size:303 final size:299
Alignment explanation
Indices: 112493773--112494968 Score: 1620
Period size: 303 Copynumber: 4.0 Consensus size: 299
112493763 AATATTTTCG
* * * * * * **
112493773 TATATTATTTTAGCAAAAAATGTTTAAAATGTATTATGTAAGT-ATTTTTTATATTAATTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
* * *
112493837 AATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATA
66 AATAACCCTGATTTTAGCACTTTATTCGTA----TTTATTTTCGTATATTATTTTTTAAAATATA
* * * *
112493902 TTATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT
127 TTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGT
* *
112493967 GTTTTTTTATATT-TTTTAATAAATAACCCTGATTTT-AGCACTTTATTCGTA----TTT-TTTT
191 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTCTTCGTATTTTTTTATTTT
112494025 CGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
255 CGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
*
112494070 TATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
*
112494135 AATAACCCTGATTTTAGCACTTTATTCGTA-TT-TTTTCGTATCTTATTTTTTAAAATATATTAT
66 AATAACCCTGATTTTAGCACTTTATTCGTATTTATTTTCGTATATTATTTTTTAAAATATATTAT
*
112494198 TTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTT
131 TTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGTTT
* *
112494263 TTTTATATTAATTTAATAAATAACCTTGATTTTGATACTTTCTTCGTATTTTTTTATTTTCGTAT
195 TTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGTAT
*
112494328 CTTATTTTTTAAAATATATTATTTTCATATTTTATTTTATTTCTT
260 CTTATTTTTTAAAATATATTATTTTC-----GTATTTTATTTCTT
* * *
112494373 CATATTATTTTAGTACATAATGTTTCAAATATATTATTTAAGTGTTTTTTTATATTTTTTCAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
* * *
112494438 AATAATCCTGATTTTAGCACTTTATTCGCATTT-TTTTCGTATATTATTTTTTAAAATTTATTAT
66 AATAACCCTGATTTTAGCACTTTATTCGTATTTATTTTCGTATATTATTTTTTAAAATATATTAT
* * *
112494502 TTTTGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTC
131 TTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGTTTT
*
112494567 TTTATATTAATTTAATAAATAACCTTGATTTTGACACTTTCTTCGTAGTTTTTTTATTTTCGTAT
196 TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA-TTTTTTTATTTTCGTAT
112494632 CTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
260 CTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
112494672 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG-TTTTTTATATTTTTTTAATA
1 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
* * *
112494736 AATAACACTAATTTTAGCACTTTATTTGTATTTTTTATTTTCGTATATTATTTTTTAAAATATAT
66 AATAACCCTGATTTTAGCACTTTATTCGTA---TTTATTTTCGTATATTATTTTTTAAAATATAT
* *
112494801 TATTTTCG-----TA-----T-T-TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAA--G-
128 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGT
* * * * * *
112494851 -TTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACATTGTTTGTATTTTTTTATTTTCGG
193 TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGT
* * * *
112494915 ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTT
258 ATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
112494957 TATATTATTTTA
1 TATATTATTTTA
112494969 ACATAAAACT
Statistics
Matches: 820, Mismatches: 60, Indels: 50
0.88 0.06 0.05
Matches are distributed among these distances:
285 64 0.08
286 42 0.05
288 1 0.00
290 34 0.04
291 1 0.00
292 101 0.12
293 34 0.04
294 1 0.00
297 42 0.05
298 125 0.15
299 55 0.07
301 3 0.00
302 34 0.04
303 195 0.24
304 88 0.11
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (299 bp):
TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATA
AATAACCCTGATTTTAGCACTTTATTCGTATTTATTTTCGTATATTATTTTTTAAAATATATTAT
TTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGTTTT
TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGTATC
TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
Found at i:112494526 original size:12 final size:13
Alignment explanation
Indices: 112494496--112494529 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
112494486 TTTTAAAATT
112494496 TATTATTTTTGTA
1 TATTATTTTTGTA
*
112494509 TTTTATTTTT-TA
1 TATTATTTTTGTA
112494521 TATTATTTT
1 TATTATTTT
112494530 AGCAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (13 bp):
TATTATTTTTGTA
Found at i:112494815 original size:449 final size:441
Alignment explanation
Indices: 112493773--112494818 Score: 1603
Period size: 449 Copynumber: 2.3 Consensus size: 441
112493763 AATATTTTCG
* *
112493773 TATATTATTTTAGCAAAAAATGTTTAAAATGTATTATGTAAGTATTTTTTATATTAATTTAATAA
1 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTATATTAATTTAATAA
112493838 ATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
66 ATAA-CCTGATTTT-GCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
* *
112493903 TATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
129 TATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATATATTATTTAAGTG
* *
112493968 TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
194 TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGCATTTTTTTCGTATATT
* * *
112494033 ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAA
259 ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATATTTCAA
* * **
112494098 ATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
324 ATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCG
112494163 TATTTTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
389 TATTTTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
112494216 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATA
1 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG-TTTTTTATATTAATTTAATA
*
112494281 AATAACCTTGATTTTGATACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATA
65 AATAACC-TGATTTTG-CACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATA
112494346 TTATTTTCATATTTTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATATATTATT
128 TTATTTTC--A---TATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATATATTATT
*
112494411 TAAGTGTTTTTTTATATTTTTTCAATAAATAATCCTGATTTTAGCACTTTATTCGCATTTTTTTC
188 TAAGTGTTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGCATTTTTTTC
* *
112494476 GTATATTATTTTTTAAAATTTATTATTTTTGTATTTTATTT-TTTATATTATTTTAGCAAAAAAT
252 GTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAAT
* *
112494540 GTTTCAAATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCTTGATTTT-GACAC
317 ATTTCAAATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTAG-CAC
*
112494604 TTTCTTCGTAGTTTTTTTATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTT
381 TTTATTCGTA------TT-TTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTT
112494669 CTT
439 CTT
* * * * **
112494672 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTTTTTTAATAA
1 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTATATTAATTTAATAA
* * * *
112494737 ATAACACTAATTTTAGCACTTTATTTGTA-TTTTTTATTTTCGTATATTATTTTTTAAAATATAT
66 ATAAC-CTGATTTT-GCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
112494801 TATTTTCGTATTTTATTT
129 TATTTTCATATTTTATTT
112494819 TAGCATAAAA
Statistics
Matches: 552, Mismatches: 32, Indels: 32
0.90 0.05 0.05
Matches are distributed among these distances:
443 45 0.08
444 87 0.16
446 1 0.00
448 1 0.00
449 166 0.30
450 78 0.14
454 41 0.07
455 42 0.08
456 91 0.16
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (441 bp):
TATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTATATTAATTTAATAA
ATAACCTGATTTTGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATATTA
TTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATATATTATTTAAGTGTT
TTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGCATTTTTTTCGTATATTAT
TTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATATTTCAAAT
GTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA
TTTTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
Found at i:112494867 original size:134 final size:137
Alignment explanation
Indices: 112494676--112494954 Score: 384
Period size: 135 Copynumber: 2.1 Consensus size: 137
112494666 TTTCTTTATA
* * * **
112494676 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTTTTTTAATAAATAA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAG-GTTTTTTATATTAATTTAATAAATAA
* * * *
112494741 CACTAATTTTAGCACTTTATTTGTA-TTTTTTATTTTCGTATATTATTTTTTAAAATATATTATT
65 CACTAACTTTAGCACATTATTTGTATTTTTTTATTTTCGGATATTATTTTTTAAAATATACTATT
*
112494805 TTCGTATT
130 TTCATATT
*
112494813 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAA-G-TTTTTATATTAATTTAATAAATAAC
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGGTTTTTTATATTAATTTAATAAATAAC
* * * * *
112494876 CCTGACTTTGGCACATTGTTTGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTT
66 ACTAACTTTAGCACATTATTTGTATTTTTTTATTTTCGGATATTATTTTTTAAAATATACTATTT
112494941 TCATATT
131 TCATATT
112494948 TTATTTT
1 TTATTTT
112494955 TTTATATTAT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
134 41 0.33
135 51 0.41
137 33 0.26
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (137 bp):
TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGGTTTTTTATATTAATTTAATAAATAAC
ACTAACTTTAGCACATTATTTGTATTTTTTTATTTTCGGATATTATTTTTTAAAATATACTATTT
TCATATT
Found at i:112495557 original size:11 final size:10
Alignment explanation
Indices: 112495530--112495589 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
112495520 CCTCCTCCCC
*
112495530 TTCTTTTTCT
1 TTCTTCTTCT
112495540 TTCTTCTTCT
1 TTCTTCTTCT
*
112495550 TATCTTCTTCCC
1 T-TCTTCTT-CT
*
112495562 TTCTTCTCCT
1 TTCTTCTTCT
112495572 TT-TT-TT-T
1 TTCTTCTTCT
112495579 TTCTTCTTCT
1 TTCTTCTTCT
112495589 T
1 T
112495590 CTTTGTTCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 4 0.10
10 15 0.38
11 13 0.32
12 2 0.05
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:112495801 original size:17 final size:20
Alignment explanation
Indices: 112495771--112495816 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
112495761 CCATTTTTTA
112495771 TTTTTTTTCGTTTTT-AGT-
1 TTTTTTTTCGTTTTTCAGTC
112495789 TTTTTTTTC-TTTTTCAGTGC
1 TTTTTTTTCGTTTTTCAGT-C
112495809 TTTTTTTT
1 TTTTTTTT
112495817 ATTGTTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.20
18 12 0.48
20 8 0.32
ACGTcount: A:0.04, C:0.09, G:0.09, T:0.78
Consensus pattern (20 bp):
TTTTTTTTCGTTTTTCAGTC
Found at i:112495991 original size:70 final size:70
Alignment explanation
Indices: 112495878--112496016 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
112495868 GGTGGCGTGA
112495878 CCACCCTGACCCTACCATTTTCGTAATTAAATTTTAATTAGATTTTTAGGTGTATTATTTTAAAA
1 CCACCCTGACCCTACCATTTTCGTAATTAAATTTTAATTAGATTTTTAGGTGTATTATTTTAAAA
112495943 TTTTG
66 TTTTG
*
112495948 CCACCCTGACCCTACCATTTTTGTAATTAAATTTTAATTAGATTTTTAGGTGTATTATTTTAAAA
1 CCACCCTGACCCTACCATTTTCGTAATTAAATTTTAATTAGATTTTTAGGTGTATTATTTTAAAA
112496013 TTTT
66 TTTT
112496017 TTAATTTTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (70 bp):
CCACCCTGACCCTACCATTTTCGTAATTAAATTTTAATTAGATTTTTAGGTGTATTATTTTAAAA
TTTTG
Found at i:112496315 original size:25 final size:25
Alignment explanation
Indices: 112496281--112496328 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
112496271 ATATTAGTCG
112496281 ATTAAATC-TTTCCAACATCATATTA
1 ATTAAATCTTTTCC-ACATCATATTA
112496306 ATTAAATCTTTTCCACATCATAT
1 ATTAAATCTTTTCCACATCATAT
112496329 CAGTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTAAATCTTTTCCACATCATATTA
Found at i:112496338 original size:26 final size:25
Alignment explanation
Indices: 112496281--112496336 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
112496271 ATATTAGTCG
*
112496281 ATTAAATCTTTCCAACATCATATTA
1 ATTAAATCTTTCCAACATCATATCA
112496306 ATTAAATCTTTTCC-ACATCATATCA
1 ATTAAATC-TTTCCAACATCATATCA
*
112496331 GTTAAA
1 ATTAAA
112496337 ATAAGCCCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (25 bp):
ATTAAATCTTTCCAACATCATATCA
Found at i:112500613 original size:8 final size:8
Alignment explanation
Indices: 112500600--112500625 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
112500590 CAAATGGCTT
112500600 TTCATTTA
1 TTCATTTA
112500608 TTCATTTA
1 TTCATTTA
112500616 TTCATTTA
1 TTCATTTA
112500624 TT
1 TT
112500626 TATTATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTCATTTA
Found at i:112502027 original size:28 final size:27
Alignment explanation
Indices: 112501960--112502023 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
112501950 AATCAAAAAT
112501960 TAAAATA-CTAATTAAACTAATTATCC
1 TAAAATACCTAATTAAACTAATTATCC
* *
112501986 TAAAATAACCTAATTAAATTGATTAAT-C
1 TAAAAT-ACCTAATTAAACTAATT-ATCC
112502014 TAAAATACCT
1 TAAAATACCT
112502024 TAATGGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 5 0.15
28 20 0.61
29 2 0.06
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (27 bp):
TAAAATACCTAATTAAACTAATTATCC
Found at i:112508736 original size:27 final size:27
Alignment explanation
Indices: 112508668--112508826 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
112508658 GCGAGGCTGC
* * *
112508668 CAGATAT-TGTGACGGAGTCACCAGATA
1 CAGATATATGTGGCAGAGCCACCAGA-A
*
112508695 CAGATAT-TGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
*
112508721 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
112508748 CAGATA-ATTGTGGCATAGCCACCAGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
112508775 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
*
112508802 CAGATA-ATTGTGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
112508827 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
26 10 0.09
27 104 0.90
28 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:112508827 original size:54 final size:54
Alignment explanation
Indices: 112508668--112508829 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
112508658 GCGAGGCTGC
* * * * * *
112508668 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
112508721 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
112508775 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
112508829 C
1 C
112508830 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 12 0.12
54 89 0.88
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:112509234 original size:8 final size:8
Alignment explanation
Indices: 112509221--112509250 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
112509211 AATAACGGAT
112509221 TTTCGGCA
1 TTTCGGCA
112509229 TTTCGGCA
1 TTTCGGCA
*
112509237 TTTCGGCT
1 TTTCGGCA
112509245 TTTCGG
1 TTTCGG
112509251 TTTGTGCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.07, C:0.23, G:0.27, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:112510461 original size:26 final size:26
Alignment explanation
Indices: 112510430--112510511 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
112510420 TGAAATGCCC
112510430 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
112510456 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
112510482 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
112510508 ATCA
1 ATCA
112510512 ATTTGTACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:112517602 original size:93 final size:92
Alignment explanation
Indices: 112517294--112517614 Score: 370
Period size: 93 Copynumber: 3.4 Consensus size: 92
112517284 GATATATTGT
*
112517294 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACATGTGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-CATG-GCTGATGCATGTCCCA
* * *
112517358 GACATGTCTTACACTAGCACATCTCTTAGC
64 GACATGTCTTACACTAGC-CCTCTCTGATC
* * * *
112517388 CGATG-CGTGTCCCAGACA-CGTTTTACACTGGCTATC-TCTGTCGA-GGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTC-ATGGCTGATGCATGTCCCA
*
112517449 GACATATCTTACACT-GTCACTCATCTCTG-TGC
64 GACATGTCTTACACTAG-C-C-C-TCTCTGAT-C
* *
112517481 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-ATGGCTGTTGCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTCATGGCTGATGCATGTCCCAGA
112517545 CATGTCTTACACTAGCCCTCGTCTGGATC
66 CATGTCTTACACTAGCCCTC-TCT-GATC
*
112517574 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA
112517615 ATGTGGCCGA
Statistics
Matches: 195, Mismatches: 17, Indels: 31
0.80 0.07 0.13
Matches are distributed among these distances:
90 1 0.01
91 36 0.18
92 21 0.11
93 69 0.35
94 48 0.25
95 19 0.10
96 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTCATGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCTCTGATC
Found at i:112517634 original size:47 final size:45
Alignment explanation
Indices: 112517294--112517635 Score: 246
Period size: 47 Copynumber: 7.3 Consensus size: 45
112517284 GATATATTGT
*
112517294 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC--AT-C-TGTGGC
* * * *
112517344 TGATGCATGTCCCAGACATGTCTTACACTAGC-A-CATCTCTTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCT-GTGGC
* * *
112517388 CGATGCGTGTCCCAGACACGTTTTACACTGGCTATC-TCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGT---GGC
* * * *
112517435 TGATGCATGTCCCAGACATATCTTACACTGTC-ACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTG-GC
* *
112517481 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTGGC
* * * * ** * *
112517529 TGTTGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTG-GATC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTG-GC
* *
112517574 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTGGC
*
112517622 CGATGCTTGTCCCA
1 CGATGCATGTCCCA
112517636 TGTTTTACAC
Statistics
Matches: 229, Mismatches: 44, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 33 0.14
45 10 0.04
46 37 0.16
47 79 0.34
48 44 0.19
49 19 0.08
50 4 0.02
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTGGC
Found at i:112517635 original size:187 final size:184
Alignment explanation
Indices: 112517294--112517635 Score: 467
Period size: 187 Copynumber: 1.8 Consensus size: 184
112517284 GATATATTGT
* *
112517294 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACATGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATA-ATGTGCTGATGCATGTCCCAA
* *
112517359 ACATGTCTTACACTAGCACATCTCTTAGCCGATGCGTGTCCCAGACACGTTTTACACTGGCTATC
65 ACATGTCTTACACTAGCACATCTCTGAGCCGATGCATGTCCCAGACACGTTTTACACTGGCTATC
* *
112517424 TCTGTCGAGGCTGATGCATGTCCCAGACATATCTTACACTGTCACTCATCTCTGTGC
130 TATGT--AGGCCGATGCATGTCCCAGACATATCTTACACTGTCACTCATCTCTGTGC
*
112517481 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-ATG-GCTGTTGCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-TAATGTGCTGATGCATGTCCCAA
* * *
112517544 ACATGTCTTACACTAGC-CCTCGTCTGGATCCGATGCCATGTCCCAGACATGGTTTTACACTGGC
65 ACATGTCTTACACTAGCACATC-TCT-GAGCCGATG-CATGTCCCAGACA-CGTTTTACACTGGC
*
112517608 TATCATAATGT-GGCCGATGCTTGTCCCA
126 TATC-T-ATGTAGGCCGATGCATGTCCCA
112517636 TGTTTTACAC
Statistics
Matches: 137, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
184 3 0.02
185 35 0.26
186 10 0.07
187 67 0.49
188 18 0.13
189 1 0.01
190 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (184 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAATGTGCTGATGCATGTCCCAAA
CATGTCTTACACTAGCACATCTCTGAGCCGATGCATGTCCCAGACACGTTTTACACTGGCTATCT
ATGTAGGCCGATGCATGTCCCAGACATATCTTACACTGTCACTCATCTCTGTGC
Found at i:112520037 original size:13 final size:13
Alignment explanation
Indices: 112520027--112520058 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
112520017 GGGACACGTT
112520027 CGTGTGACACGCC
1 CGTGTGACACGCC
*
112520040 CGTGTGACGCGCC
1 CGTGTGACACGCC
112520053 CGTGTG
1 CGTGTG
112520059 CGTTTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.34, G:0.38, T:0.19
Consensus pattern (13 bp):
CGTGTGACACGCC
Found at i:112520490 original size:12 final size:13
Alignment explanation
Indices: 112520473--112520510 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
112520463 ATCCAGGAAT
112520473 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
112520485 ATTAAGAACACATA
1 ATTAAGAACA-AGA
112520499 ATTAAGAACAAG
1 ATTAAGAACAAG
112520511 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:112529341 original size:34 final size:34
Alignment explanation
Indices: 112529303--112529371 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
112529293 CCTCATGACT
112529303 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
1 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
*
112529337 TGCCACTGATAATTATTTAGTGACATCTCTTCTA
1 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
112529371 T
1 T
112529372 AAATTCATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (34 bp):
TGCCACTGATAATTATTCAGTGACATCTCTTCTA
Found at i:112536402 original size:22 final size:21
Alignment explanation
Indices: 112536372--112536437 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
112536362 TACAAATTAA
*
112536372 ATCTCCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
112536394 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
112536415 ATCTT--AGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
112536434 ATCT
1 ATCT
112536438 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 18 0.44
21 11 0.27
22 12 0.29
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:112536425 original size:19 final size:19
Alignment explanation
Indices: 112536389--112536486 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
112536379 AGATTACAAG
112536389 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
112536410 ATCATATCTTAGATTGCAT
1 ATCATATCTAAGATTGCAT
112536429 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
112536446 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
112536465 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
112536484 ATC
1 ATC
112536487 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:112536453 original size:36 final size:37
Alignment explanation
Indices: 112536389--112536486 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
112536379 AGATTACAAG
*
112536389 ATCATATCTTCAAGATTGCATATCATATCTTAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
112536429 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
112536465 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
112536487 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:112550724 original size:39 final size:40
Alignment explanation
Indices: 112550629--112550812 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 40
112550619 TTGGATGATG
*
112550629 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
112550667 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
112550708 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
112550747 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
112550786 AACCAGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
112550813 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
39 53 0.43
40 58 0.48
41 10 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:112550764 original size:79 final size:81
Alignment explanation
Indices: 112550629--112550812 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 81
112550619 TTGGATGATG
112550629 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
112550692 CGTGCGAGA-TACTA-A
66 CGTGCGA-ATTACTATA
* * **
112550707 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
112550768 ATTTGTGCGAATTACTATA
63 ATTCGTGCGAATTACTATA
* * *
112550787 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
112550813 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 11 0.12
79 56 0.62
80 23 0.26
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAATTACTATA
Found at i:112550834 original size:79 final size:79
Alignment explanation
Indices: 112550681--112550845 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
112550671 GGACTAAGAT
* * ** *
112550681 CCGAAGGCATTCGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
112550746 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
112550760 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTCGTGCGAGA-TACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
112550822 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
112550839 CCGAAGG
1 CCGAAGG
112550846 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 44 0.61
80 25 0.35
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:112558644 original size:39 final size:41
Alignment explanation
Indices: 112558549--112558732 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
112558539 TTGGATGATG
*
112558549 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
* *
112558588 TCCGGACTAAGAT-CCGAAGGCATTCGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
112558628 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
112558667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
112558707 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
112558733 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
39 53 0.43
40 61 0.49
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:112558684 original size:79 final size:81
Alignment explanation
Indices: 112558549--112558732 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
112558539 TTGGATGATG
112558549 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
112558612 CGTGCGAGA-TACTA-A
66 CGTGCGA-ATTACTATA
* * **
112558627 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
112558688 ATTTGTGCGAATTACTATA
63 ATTCGTGCGAATTACTATA
* *
112558707 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
112558733 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAATTACTATA
Found at i:112558754 original size:79 final size:79
Alignment explanation
Indices: 112558601--112558765 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
112558591 GGACTAAGAT
* ** *
112558601 CCGAAGGCATTCGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
112558666 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
112558680 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTCGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
112558742 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
112558759 CCGAAGG
1 CCGAAGG
112558766 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:112571363 original size:12 final size:13
Alignment explanation
Indices: 112571346--112571383 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
112571336 ATCCTGGAAT
112571346 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
112571358 ATTAAGAACACATA
1 ATTAAGAACA-AGA
112571372 ATTAAGAACAAG
1 ATTAAGAACAAG
112571384 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:112596034 original size:43 final size:43
Alignment explanation
Indices: 112595986--112596156 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
112595976 AGATCGTACA
* *
112595986 ATGCCAACATCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATCG
** * *
112596029 ATGCCATTGTCCCAGACAG-GGTCTTACATGAAATCAAAGAT-G
1 ATGCCAACGTCCCAGAC-GTGGTCTTACATGAAACCAAATATCG
** * * *
112596071 ATGCTTATGTCCTAGACATGGTCTTACATGTAAATCTC-AA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAA-C-CAAATATCG
*
112596115 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATC
112596157 AGAAAACCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 44 0.43
44 29 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATCG
Found at i:112597846 original size:48 final size:48
Alignment explanation
Indices: 112597789--112597918 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
112597779 GCGAGTTATT
* *
112597789 CCTTGATTTGGCTTCGGGACATGGTATAGGTATTTCAGAGATAAGTTA
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACTCCAGAGATAAGTTA
* *
112597837 CCTTGATTTGGCTTC-GAACCATGGTATAGGTACTCCAGGGATAAGTTA
1 CCTTGATTTGGCTTCGGGA-CATGGTATAGGTACTCCAGAGATAAGTTA
* *
112597885 CCTTGATTTGGCTTTGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACT
112597919 TATTGTGTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 2 0.03
48 70 0.96
49 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (48 bp):
CCTTGATTTGGCTTCGGGACATGGTATAGGTACTCCAGAGATAAGTTA
Found at i:112600936 original size:17 final size:17
Alignment explanation
Indices: 112600914--112600949 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
112600904 GAATTTATTA
*
112600914 AACTAATTAACTAAACT
1 AACTAACTAACTAAACT
*
112600931 AACTAACTAATTAAACT
1 AACTAACTAACTAAACT
112600948 AA
1 AA
112600950 AGCAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
AACTAACTAACTAAACT
Found at i:112601821 original size:21 final size:22
Alignment explanation
Indices: 112601790--112601847 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
112601780 CACTCTCGTG
*
112601790 TGCCACGGCCGTGTGACGT-ATT
1 TGCCA-GGCCGTGTGACGTCAAT
*
112601812 TGCCAGGCCGTGTG-GGTCAAT
1 TGCCAGGCCGTGTGACGTCAAT
*
112601833 GGCCAGGCCGTGTGA
1 TGCCAGGCCGTGTGA
112601848 ATCGTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 2 0.06
21 24 0.77
22 5 0.16
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (22 bp):
TGCCAGGCCGTGTGACGTCAAT
Found at i:112605278 original size:28 final size:27
Alignment explanation
Indices: 112605235--112605287 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
112605225 TAAAACTAGT
*
112605235 ATATAGAAAATCCTAAAACAATATTCAA
1 ATATAGAAAATACTAAAACAA-ATTCAA
*
112605263 ATATAGAAAATACTAAAGCAAATTC
1 ATATAGAAAATACTAAAACAAATTC
112605288 CTAACTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.25
Consensus pattern (27 bp):
ATATAGAAAATACTAAAACAAATTCAA
Found at i:112608436 original size:19 final size:19
Alignment explanation
Indices: 112608409--112608454 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
112608399 TTTGTTCCCA
*
112608409 AGTAGTGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
112608428 AGTAATGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
*
112608447 GGTAATGA
1 AGTAATGA
112608455 GTTCAACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (19 bp):
AGTAATGATAGACCCTCGT
Found at i:112624511 original size:93 final size:93
Alignment explanation
Indices: 112624398--112624569 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
112624388 GCCCATAAGT
* *
112624398 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
112624463 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
112624491 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
112624555 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
112624570 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:112624565 original size:46 final size:46
Alignment explanation
Indices: 112624390--112624565 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
112624380 TGTAACCCGC
* * *
112624390 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
112624436 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
112624482 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
112624529 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
112624566 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:112632994 original size:3 final size:3
Alignment explanation
Indices: 112632975--112633107 Score: 81
Period size: 3 Copynumber: 43.7 Consensus size: 3
112632965 TAGTTTTAAC
* * * *
112632975 ATT ATT TTT ATTT ATT ATT ATT ACT ATT ATT ACT ACT ATT -TT CATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * * * *
112633021 ATT ATT ACT ATT ACT ATT -TT TTT ATT ACT ATT TTT ATT ACT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
112633068 GTT ATT ATT ATT ATT ACT ATT GAATA ATT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT AT
112633108 ATTTTCTTTC
Statistics
Matches: 98, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.04
3 87 0.89
4 5 0.05
5 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:112633002 original size:12 final size:12
Alignment explanation
Indices: 112632987--112633107 Score: 109
Period size: 12 Copynumber: 9.8 Consensus size: 12
112632977 TATTTTTATT
112632987 TATTATTATTAC
1 TATTATTATTAC
*
112632999 TATTATTACTAC
1 TATTATTATTAC
*
112633011 TATT-TTCATTAT
1 TATTATT-ATTAC
*
112633023 TATTACTATTAC
1 TATTATTATTAC
*
112633035 TATTTTTTTATTAC
1 TA--TTATTATTAC
*
112633049 TATTTTTATTAC
1 TATTATTATTAC
* * *
112633061 TATTTTTGTTAT
1 TATTATTATTAC
112633073 TATTATTATTAC
1 TATTATTATTAC
*
112633085 TATTGAATAATTAC
1 TATT--ATTATTAC
112633099 TATTATTAT
1 TATTATTAT
112633108 ATTTTCTTTC
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
11 2 0.02
12 65 0.73
13 1 0.01
14 21 0.24
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATTATTAC
Done.