Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 324 of 362
Found at i:108372351 original size:73 final size:73
Alignment explanation
Indices: 108372232--108372377 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
108372222 TTCACTTTCA
*
108372232 AAGGTCAATTAGAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
1 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
108372297 CTGCTGAG
66 CTGCTGAG
108372305 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
1 AAGGTCAATTAAAACTCAAGGCGTGATGGATAATAATTACTGCAATTTTAATGTCTTCATTTTTC
108372370 CTGCTGAG
66 CTGCTGAG
108372378 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:108374051 original size:18 final size:19
Alignment explanation
Indices: 108374020--108374062 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
108374010 ATATGTTCAT
108374020 TAATTATTAGAAAA-AATA
1 TAATTATTAGAAAATAATA
** *
108374038 TAATTATTTTAAAATGATA
1 TAATTATTAGAAAATAATA
108374057 TAATTA
1 TAATTA
108374063 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:108375130 original size:28 final size:28
Alignment explanation
Indices: 108375065--108375118 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
108375055 CTGTTGTTCG
* *
108375065 CTCAATTGACTTCCATCTCTATCGCTCA
1 CTCAATTGACTACCATCTCTATCACTCA
*
108375093 CTCAGTTGACTACCATCTCTATCACT
1 CTCAATTGACTACCATCTCTATCACT
108375119 TGCTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.35, G:0.07, T:0.35
Consensus pattern (28 bp):
CTCAATTGACTACCATCTCTATCACTCA
Found at i:108375156 original size:56 final size:56
Alignment explanation
Indices: 108375096--108375235 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 56
108375086 TCGCTCACTC
* * *
108375096 AGTTGACTAC-CATCTCTATCACTTGCTTAATTGACCATCCATTCCATTGCTCGCTT
1 AGTTGACTACTC-GCTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
* * * * *
108375152 AGTTGTCTGCTCGCTCCGTCGCTTGCTTAACTGACCATCCATTCCATTGCTTG-TT
1 AGTTGACTACTCGCTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
* *
108375207 CAGTTGTCTGCTCGCTCCATCACTTGCTT
1 -AGTTGACTACTCGCTCCATCACTTGCTT
108375236 CGTGAACTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
55 2 0.03
56 69 0.96
57 1 0.01
ACGTcount: A:0.16, C:0.31, G:0.15, T:0.38
Consensus pattern (56 bp):
AGTTGACTACTCGCTCCATCACTTGCTTAACTGACCATCCATTCCATTGCTCGCTT
Found at i:108382719 original size:32 final size:30
Alignment explanation
Indices: 108382645--108382725 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 30
108382635 GTATACAATT
* *
108382645 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
108382677 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
108382709 GTTAAA-AGATATTTATT
1 G-TAAATAGATATTTATT
108382726 TATTAATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
30 10 0.23
31 10 0.23
32 20 0.45
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:108382854 original size:3 final size:3
Alignment explanation
Indices: 108382842--108382883 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
108382832 AAATAGATAT
* *
108382842 TTA TTA -TA TTA TTG TTA TAA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
108382884 AAATAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:108391678 original size:33 final size:33
Alignment explanation
Indices: 108391635--108391704 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
108391625 ATTATAAACA
*
108391635 TAACAGATGAATAAATCTATAAACGAAGCTATC
1 TAACAAATGAATAAATCTATAAACGAAGCTATC
108391668 TAACAAATGAATAAATCTATAAACGAAGCTATC
1 TAACAAATGAATAAATCTATAAACGAAGCTATC
108391701 TAAC
1 TAAC
108391705 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:108392552 original size:27 final size:27
Alignment explanation
Indices: 108392521--108392575 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
108392511 AGTTTCCATA
* *
108392521 TGGCATGGCAAGCATAAGCTTG-AATTG
1 TGGCATGACAAGCACAAGC-TGAAATTG
108392548 TGGCATGACAAGCACAAGCTGAAATTG
1 TGGCATGACAAGCACAAGCTGAAATTG
108392575 T
1 T
108392576 CTTCTTGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (27 bp):
TGGCATGACAAGCACAAGCTGAAATTG
Found at i:108394018 original size:3 final size:3
Alignment explanation
Indices: 108394012--108394295 Score: 103
Period size: 3 Copynumber: 93.3 Consensus size: 3
108394002 TGAATTTCTA
* * * *
108394012 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
108394060 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
108394105 TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT
* *
108394151 TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
108394194 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
* * * * *
108394242 TAT T-T ATAC TA- TACT TAA TAT TAT TAT CAT TAT TAT TA- CAT TAC
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108394286 TAT TAT TAT T
1 TAT TAT TAT T
108394296 TATAAATATT
Statistics
Matches: 208, Mismatches: 40, Indels: 66
0.66 0.13 0.21
Matches are distributed among these distances:
2 25 0.12
3 152 0.73
4 27 0.13
5 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:108394220 original size:19 final size:19
Alignment explanation
Indices: 108394196--108394232 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
108394186 AATTTCTATA
*
108394196 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
108394215 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
108394233 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:108394474 original size:3 final size:3
Alignment explanation
Indices: 108394449--108394519 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
108394439 TACTTTCTTT
* * * * *
108394449 TTA TTT TTA CTA TTA TTG CTA TTA TTG TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
108394498 TTA -TA TTTA TATA ATA TTA TTA
1 TTA TTA -TTA T-TA TTA TTA TTA
108394520 ATAGGTACTT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.83
4 7 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:108395794 original size:16 final size:17
Alignment explanation
Indices: 108395768--108395802 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
108395758 GCAACCAAAG
*
108395768 AGAAGTTCATGCACGTA
1 AGAAGTTCATGCACATA
108395785 AGAA-TTCATGCACATA
1 AGAAGTTCATGCACATA
108395801 AG
1 AG
108395803 TCTTGCGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (17 bp):
AGAAGTTCATGCACATA
Found at i:108403777 original size:12 final size:12
Alignment explanation
Indices: 108403735--108403776 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
108403725 TGATTTTATG
108403735 TAAAATATTTTT
1 TAAAATATTTTT
108403747 TAAAATCATTTTT
1 TAAAAT-ATTTTT
108403760 T-AAAT-TTTTT
1 TAAAATATTTTT
108403770 ATAAAAT
1 -TAAAAT
108403777 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:108405812 original size:24 final size:24
Alignment explanation
Indices: 108405785--108405855 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
108405775 TTTATATAAG
*
108405785 ATTAAATATTTATTTATTAATTTT
1 ATTAAATATTTATTTATTCATTTT
* *
108405809 ATT--AGA-GT--TTATTCATTTT
1 ATTAAATATTTATTTATTCATTTT
108405828 ATTAAATATTTATTTATTCATTTT
1 ATTAAATATTTATTTATTCATTTT
108405852 ATTA
1 ATTA
108405856 GAGTTTCGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
19 13 0.35
21 3 0.08
22 3 0.08
24 18 0.49
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTAAATATTTATTTATTCATTTT
Found at i:108409922 original size:8 final size:9
Alignment explanation
Indices: 108409887--108409929 Score: 54
Period size: 8 Copynumber: 4.8 Consensus size: 9
108409877 ACCAAATTTG
108409887 GTTAATTAA
1 GTTAATTAA
108409896 GATTAATATAA
1 G-TTAAT-TAA
108409907 GTTAATTAA
1 GTTAATTAA
108409916 G-TAATTAA
1 GTTAATTAA
108409924 -TTAATT
1 GTTAATT
108409930 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:108419250 original size:13 final size:13
Alignment explanation
Indices: 108419232--108419256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108419222 AGCAATAGCG
108419232 CACGGGCGTGTCA
1 CACGGGCGTGTCA
108419245 CACGGGCGTGTC
1 CACGGGCGTGTC
108419257 CCTGCCGAGC
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:108422632 original size:38 final size:38
Alignment explanation
Indices: 108422576--108422648 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
108422566 AATTTCATCA
* * *
108422576 TCGCGACAAGGAGGCCTTGGGCCAAGTGAATATGTTAC
1 TCGCAACAAGAAGGCCTTGGGCCAAGTCAATATGTTAC
108422614 TCGCAACAAGAAGGCCTTGGGCCAAGTCAATATGT
1 TCGCAACAAGAAGGCCTTGGGCCAAGTCAATATGT
108422649 CACGTCACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (38 bp):
TCGCAACAAGAAGGCCTTGGGCCAAGTCAATATGTTAC
Found at i:108428610 original size:6 final size:6
Alignment explanation
Indices: 108428599--108428624 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108428589 GCTCACCCTT
108428599 TATTCC TATTCC TATTCC TATTCC TA
1 TATTCC TATTCC TATTCC TATTCC TA
108428625 GAGTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTCC
Found at i:108429170 original size:16 final size:18
Alignment explanation
Indices: 108429149--108429200 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
108429139 TAAATTAATA
108429149 TTTA-TTTTT-AAATATT
1 TTTATTTTTTAAAATATT
108429165 TTTATTTTTTAAAATATT
1 TTTATTTTTTAAAATATT
108429183 TTATAATTTTTTATAAAT
1 TT-T-ATTTTTTA-AAAT
108429201 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:108436542 original size:43 final size:43
Alignment explanation
Indices: 108436489--108436613 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
108436479 GCTTGTATTA
108436489 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
108436532 TATTCGGGCCTTTGAGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
108436575 TATTCTGGCCTTCATGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
108436614 AATGATATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:108437004 original size:45 final size:44
Alignment explanation
Indices: 108436930--108437056 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 44
108436920 TTGACTTGAT
* * **
108436930 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCTTAACAGGCTATAATGCCGGTGAGA-AC
*
108436975 TATTTGGGCCTTCGAGCTTAACAGGCTATAATGCCGGT--GAAC
1 TATTCGGGCCTTCGAGCTTAACAGGCTATAATGCCGGTGAGAAC
* *
108437017 TGATATCGGGCC-TCGAGCCTAACAGGCGA-AATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCTTAACAGGCTATAATGCCGGTGA
108437057 TTTGAGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 12 0.17
43 19 0.27
44 6 0.09
45 33 0.47
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (44 bp):
TATTCGGGCCTTCGAGCTTAACAGGCTATAATGCCGGTGAGAAC
Found at i:108442571 original size:16 final size:16
Alignment explanation
Indices: 108442544--108442584 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
108442534 CGCAACAGTA
108442544 AAAAAAATACTGAAAA-
1 AAAAAAA-ACTGAAAAC
108442560 AGAAAAAAACTGAAAAC
1 A-AAAAAAACTGAAAAC
108442577 AAAAAAAA
1 AAAAAAAA
108442585 TAAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAACTGAAAAC
Found at i:108442575 original size:15 final size:16
Alignment explanation
Indices: 108442545--108442583 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
108442535 GCAACAGTAA
*
108442545 AAAAAATACTGAAAAAG
1 AAAAAA-ACTGAAAAAC
108442562 AAAAAAACTG-AAAAC
1 AAAAAAACTGAAAAAC
108442577 AAAAAAA
1 AAAAAAA
108442584 ATAAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAAACTGAAAAAC
Found at i:108442789 original size:26 final size:26
Alignment explanation
Indices: 108442749--108442798 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
108442739 AAATAAAGGG
* *
108442749 AAAGAAAGGAGAGGAGAAGAGAAGAA
1 AAAGAAAGGAGAGGAAAAAAGAAGAA
108442775 AAAG-AAGGAGAAGGAAAAAAGAAG
1 AAAGAAAGGAG-AGGAAAAAAGAAG
108442799 GTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (26 bp):
AAAGAAAGGAGAGGAAAAAAGAAGAA
Found at i:108442868 original size:16 final size:17
Alignment explanation
Indices: 108442844--108442876 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
108442834 TTATTGTGTT
108442844 TTTGCTGTTA-TTATTA
1 TTTGCTGTTAGTTATTA
*
108442860 TTTGTTGTTAGTTATTA
1 TTTGCTGTTAGTTATTA
108442877 ATATTGTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (17 bp):
TTTGCTGTTAGTTATTA
Found at i:108442939 original size:27 final size:27
Alignment explanation
Indices: 108442873--108442931 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
108442863 GTTGTTAGTT
* * *
108442873 ATTAATATTGTTAGTAAAAAAACCCTT
1 ATTATTATTGTTAGTAAAAAAACCATA
*
108442900 GTTATTATTGTTAGT-AAAAAACCATA
1 ATTATTATTGTTAGTAAAAAAACCATA
108442926 ATTATT
1 ATTATT
108442932 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTATTATTGTTAGTAAAAAAACCATA
Found at i:108448326 original size:72 final size:72
Alignment explanation
Indices: 108448204--108448341 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 72
108448194 CGCCCCCGAT
* *
108448204 GAGCTCGGGAAATAGTCATTGCCCACCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
108448269 CAATGAC
66 CAATGAC
** * *
108448276 GAGCCCGGGAAATAGTCATTACCTGCCAAATCTAGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
108448341 C
66 C
108448342 GATCGTTCGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (72 bp):
GAGCCCGGGAAATAGTCATTACCCACCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
CAATGAC
Found at i:108450802 original size:16 final size:16
Alignment explanation
Indices: 108450744--108450802 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
108450734 TGATACTTTC
*
108450744 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
108450760 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
108450775 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
108450790 TTCGTATTTTATT
1 TTCGTATTTTATT
108450803 TTATTTCTTC
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:108451342 original size:135 final size:137
Alignment explanation
Indices: 108451115--108451394 Score: 357
Period size: 135 Copynumber: 2.1 Consensus size: 137
108451105 TTTCTTTATA
* * * **
108451115 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAACA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAG-GTTTTTTTATATTAATTTAATAAACA
* * * * *
108451180 ACACTAATTTTAGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATACATTATT
65 ACACTAACTTTAGCACATTATTCGTATTTTTTATTTTCGGATATTATTTATTAAAATACACTATT
*
108451245 TTCGTATT
130 TTCATATT
* *
108451253 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAA-G-TTTTTTATATTAATTTAATAAATAA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGGTTTTTTTATATTAATTTAATAAACAA
* * * * * * *
108451316 CCCTGACTTTGGCACATTGTTTGTATTTTTTATTTTCGGATTTTATTTATTAAAATATACTATTT
66 CACTAACTTTAGCACATTATTCGTATTTTTTATTTTCGGATATTATTTATTAAAATACACTATTT
108451381 TCATATT
131 TCATATT
108451388 TTATTTT
1 TTATTTT
108451395 TTATATTATT
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
135 88 0.72
136 1 0.01
138 33 0.27
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (137 bp):
TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGGTTTTTTTATATTAATTTAATAAACAA
CACTAACTTTAGCACATTATTCGTATTTTTTATTTTCGGATATTATTTATTAAAATACACTATTT
TCATATT
Found at i:108451911 original size:17 final size:18
Alignment explanation
Indices: 108451889--108451936 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
108451879 TACTTTTTTT
108451889 TCTTCTTTTTCCTTC-CC
1 TCTTCTTTTTCCTTCTCC
*
108451906 TCTTCTTCTTCTCCTTCTCT
1 TCTTCTT-TT-TCCTTCTCC
*
108451926 TTTTCTTTTTC
1 TCTTCTTTTTC
108451937 TTTTTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 4 0.15
19 8 0.31
20 7 0.27
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTTCTTTTTCCTTCTCC
Found at i:108452001 original size:11 final size:10
Alignment explanation
Indices: 108451974--108452033 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
108451964 CCTCCTCCCC
*
108451974 TTCTTTTTCT
1 TTCTTCTTCT
108451984 TTCTTCTTCT
1 TTCTTCTTCT
*
108451994 TATCTTCTTCCC
1 T-TCTTCTT-CT
*
108452006 TTCTTCTCCT
1 TTCTTCTTCT
108452016 TT-TT-TT-T
1 TTCTTCTTCT
108452023 TTCTTCTTCT
1 TTCTTCTTCT
108452033 T
1 T
108452034 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:108452230 original size:17 final size:16
Alignment explanation
Indices: 108452208--108452245 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
108452198 CATGACCCAT
*
108452208 TTTTTATTTTTTTTTC
1 TTTTTAGTTTTTTTTC
108452224 GTTTTTAGTTTTTTTTC
1 -TTTTTAGTTTTTTTTC
108452241 TTTTT
1 TTTTT
108452246 CAGTGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTTTAGTTTTTTTTC
Found at i:108452659 original size:25 final size:25
Alignment explanation
Indices: 108452625--108452672 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
108452615 ATATTAGTCG
108452625 ATTAAATC-TTTCCAACATCATATTA
1 ATTAAATCTTTTCC-ACATCATATTA
108452650 ATTAAATCTTTTCCACATCATAT
1 ATTAAATCTTTTCCACATCATAT
108452673 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:108452682 original size:26 final size:25
Alignment explanation
Indices: 108452625--108452680 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
108452615 ATATTAGTCG
*
108452625 ATTAAATCTTTCCAACATCATATTA
1 ATTAAATCTTTCCAACATCATATCA
108452650 ATTAAATCTTTTCC-ACATCATATCA
1 ATTAAATC-TTTCCAACATCATATCA
*
108452675 GTTAAA
1 ATTAAA
108452681 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:108454221 original size:31 final size:31
Alignment explanation
Indices: 108454183--108454245 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
108454173 AACTTGTTTG
108454183 TAATAACAACTAATTCACGATGGAAGGTTAT
1 TAATAACAACTAATTCACGATGGAAGGTTAT
108454214 TAATAACAACTAATTCACGATGGAAGGTTAT
1 TAATAACAACTAATTCACGATGGAAGGTTAT
108454245 T
1 T
108454246 GGCTATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (31 bp):
TAATAACAACTAATTCACGATGGAAGGTTAT
Found at i:108464580 original size:27 final size:27
Alignment explanation
Indices: 108464512--108464670 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
108464502 GCGAGGCTGC
* * *
108464512 CAGATAT-TGTGACGGAGTCACCAGATA
1 CAGATATATGTGGCAGAGCCACCAGA-A
*
108464539 CAGATAT-TGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
*
108464565 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
108464592 CAGATA-ATTGTGGCATAGCCACCAGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
108464619 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
*
108464646 CAGATA-ATTGTGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
108464671 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:108464671 original size:54 final size:54
Alignment explanation
Indices: 108464512--108464673 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
108464502 GCGAGGCTGC
* * * * * *
108464512 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
108464565 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
108464619 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
108464673 C
1 C
108464674 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:108465078 original size:8 final size:8
Alignment explanation
Indices: 108465065--108465095 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
108465055 AATAACGGAT
108465065 TTTCGGCA
1 TTTCGGCA
108465073 TTTCGGCA
1 TTTCGGCA
*
108465081 TTTCGGCT
1 TTTCGGCA
108465089 TTTCGGC
1 TTTCGGC
108465096 TTGTGCCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.26, T:0.42
Consensus pattern (8 bp):
TTTCGGCA
Found at i:108466304 original size:26 final size:26
Alignment explanation
Indices: 108466273--108466354 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
108466263 TGAAATGCCC
108466273 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
108466299 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
108466325 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
108466351 ATCA
1 ATCA
108466355 ATTTGTACCA
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:108473363 original size:93 final size:94
Alignment explanation
Indices: 108473100--108473412 Score: 307
Period size: 93 Copynumber: 3.3 Consensus size: 94
108473090 ATATATTGTC
* * * * * **
108473100 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATACATGTGTTGATG-CATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGTCACTCATCT-C-GGTGCCGATGCCATGTCCCAG
* *
108473164 ACA-CGTTTTACACTGGCTATC-TCTGTCGA-GGCT
62 ACATGGTTTTACACTGGCTATCAT-AGT--ATGGCT
* *
108473197 GATGCATGTCCCAGACATATCTTACACTGTCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTGTCACTCATCTCGGTGCCGATGCCATGTCCCAGACAT
*
108473262 GGTCTTACACTGGCTATCATAGTATGGCT
66 GGTTTTACACTGGCTATCATAGTATGGCT
* * * *
108473291 GTTGCATGTCCCAAACATGTCTTACACTAG-CCCTCGTCT-GGAT-CCGATGCCATGTCCCAGAC
1 GATGCATGTCCCAGACATGTCTTACACT-GTCACTCATCTCGG-TGCCGATGCCATGTCCCAGAC
* * *
108473353 ATGGTTTTACACTGGCTATCATAATGTGGCC
64 ATGGTTTTACACTGGCTATCATAGTATGGCT
* *
108473384 GATGCTTGTCCCAGACATGTTTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
108473413 GCGCACAAAT
Statistics
Matches: 186, Mismatches: 24, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
92 1 0.01
93 80 0.43
94 51 0.27
95 36 0.19
96 14 0.08
97 4 0.02
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCACTCATCTCGGTGCCGATGCCATGTCCCAGACAT
GGTTTTACACTGGCTATCATAGTATGGCT
Found at i:108473414 original size:46 final size:45
Alignment explanation
Indices: 108473099--108473414 Score: 226
Period size: 47 Copynumber: 6.7 Consensus size: 45
108473089 GATATATTGT
* * *
108473099 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATACATGT-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC--AT-C-TGTGGC
* * *
108473149 TGATGCATGTCCCAGACACGTTTTACACTGGCTATC-TCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGT---GGC
* * * *
108473196 TGATGCATGTCCCAGACATATCTTACACTGTC-ACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTG-GC
* *
108473242 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTGGC
* * * * ** * *
108473290 TGTTGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTG-GATC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTG-GC
* *
108473335 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTGGC
* *
108473383 CGATGCTTGTCCCAGACATGTTTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
108473415 GCACAAATCG
Statistics
Matches: 213, Mismatches: 37, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 7 0.03
46 48 0.23
47 85 0.40
48 47 0.22
49 17 0.08
50 4 0.02
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTGGC
Found at i:108476253 original size:12 final size:13
Alignment explanation
Indices: 108476236--108476273 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
108476226 ATCCAGGAAT
108476236 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
108476248 ATTAAGAACACATA
1 ATTAAGAACA-AGA
108476262 ATTAAGAACAAG
1 ATTAAGAACAAG
108476274 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:108485016 original size:34 final size:34
Alignment explanation
Indices: 108484978--108485046 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
108484968 CCTCATGACT
108484978 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
1 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
*
108485012 TGCCACTGATAATTATTTAGTGACATCTCTTCTA
1 TGCCACTGATAATTATTCAGTGACATCTCTTCTA
108485046 T
1 T
108485047 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:108492078 original size:22 final size:21
Alignment explanation
Indices: 108492048--108492113 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
108492038 TACAAATTAA
*
108492048 ATCTCCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
108492070 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
108492091 ATCTT--AGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
108492110 ATCT
1 ATCT
108492114 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:108492101 original size:19 final size:19
Alignment explanation
Indices: 108492065--108492162 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
108492055 AGATTACAAG
108492065 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
108492086 ATCATATCTTAGATTGCAT
1 ATCATATCTAAGATTGCAT
108492105 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
108492122 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
108492141 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
108492160 ATC
1 ATC
108492163 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:108492129 original size:36 final size:37
Alignment explanation
Indices: 108492065--108492162 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
108492055 AGATTACAAG
*
108492065 ATCATATCTTCAAGATTGCATATCATATCTTAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
108492105 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
108492141 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
108492163 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:108506759 original size:55 final size:54
Alignment explanation
Indices: 108506699--108506826 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 54
108506689 GTGCAAGCCC
*
108506699 CACGCCCGTGTTAATTTGAAAGCTTCAACCATGCGTGTTACACATAGGCGTGTCG
1 CACGCCCGTGTTAATTTGAAA-CTTCAACCATGCGTCTTACACATAGGCGTGTCG
* * ** * * * * *
108506754 CACGCCCGTGCTAGTTTCTCAATTTCAACCATGGGTCTTCCACATGGGTGTGTCG
1 CACGCCCGTGTTAATTT-GAAACTTCAACCATGCGTCTTACACATAGGCGTGTCG
* *
108506809 TACGCCCGTGTTATTTTG
1 CACGCCCGTGTTAATTTG
108506827 GCAGGCTTGA
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
55 56 0.97
56 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (54 bp):
CACGCCCGTGTTAATTTGAAACTTCAACCATGCGTCTTACACATAGGCGTGTCG
Found at i:108516072 original size:12 final size:13
Alignment explanation
Indices: 108516055--108516092 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
108516045 ATCCTGGAAT
108516055 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
108516067 ATTAAGAACACATA
1 ATTAAGAACA-AGA
108516081 ATTAAGAACAAG
1 ATTAAGAACAAG
108516093 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:108517429 original size:21 final size:21
Alignment explanation
Indices: 108517405--108517454 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
108517395 ATAATGAATC
*
108517405 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
108517426 CGGCTTCCGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
108517447 CGGCTTCC
1 CGGCTTCC
108517455 TTGGGGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (21 bp):
CGGCTTCCGAGATGGATCAAT
Found at i:108540789 original size:43 final size:43
Alignment explanation
Indices: 108540741--108540911 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
108540731 AGATCGTACA
* *
108540741 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
** ** *
108540784 ATGCCATTGTCCCAGACCAGGTCTTACATGAAATCAAAGAT-G
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
** * * * *
108540826 ATGCTTATGTCCTAGACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATC-AAATATCG
*
108540870 ATGCCAACGTCCCAGAAGTGGTCTTACATGAAATCAAATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATC
108540912 AGAAAACCTA
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 27 0.26
43 49 0.48
44 27 0.26
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:108542599 original size:48 final size:48
Alignment explanation
Indices: 108542542--108542671 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
108542532 GCGAGTTATT
* *
108542542 CCTTGATTTGGCTTCGGGACATGGTATAGGTATTTCAGAGATAAGTTA
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACTCCAGAGATAAGTTA
* *
108542590 CCTTGATTTGGCTTC-GAACCATGGTATAGGTACTCCAGGGATAAGTTA
1 CCTTGATTTGGCTTCGGGA-CATGGTATAGGTACTCCAGAGATAAGTTA
* *
108542638 CCTTGATTTGGCTTTGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACT
108542672 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:108545681 original size:13 final size:13
Alignment explanation
Indices: 108545665--108545693 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
108545655 TAGAATTTAT
108545665 TAAACTAATTAAC
1 TAAACTAATTAAC
108545678 TAAACTAATTAAC
1 TAAACTAATTAAC
108545691 TAA
1 TAA
108545694 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:108546574 original size:21 final size:22
Alignment explanation
Indices: 108546543--108546600 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
108546533 CACTCTCGTG
*
108546543 TGCCACGGCCGTGTGACGT-ATT
1 TGCCA-GGCCGTGTGACGTCAAT
*
108546565 TGCCAGGCCGTGTG-GGTCAAT
1 TGCCAGGCCGTGTGACGTCAAT
*
108546586 GGCCAGGCCGTGTGA
1 TGCCAGGCCGTGTGA
108546601 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:108549999 original size:28 final size:27
Alignment explanation
Indices: 108549956--108550008 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
108549946 TAAAACTACT
*
108549956 ATATAGAAAATCCTAAAACAATATTCAA
1 ATATAGAAAATACTAAAACAA-ATTCAA
*
108549984 ATATAGAAAATACTAAAGCAAATTC
1 ATATAGAAAATACTAAAACAAATTC
108550009 CTAACTTATT
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:108553157 original size:19 final size:19
Alignment explanation
Indices: 108553130--108553175 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
108553120 TTTGTTCCAA
*
108553130 AGTAGTGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
108553149 AGTAATGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
*
108553168 GGTAATGA
1 AGTAATGA
108553176 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:108558143 original size:22 final size:22
Alignment explanation
Indices: 108558118--108558163 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
108558108 CTATAGAGAC
108558118 ATCTGACCGATGAGGGTGAGGA
1 ATCTGACCGATGAGGGTGAGGA
108558140 ATCTGACCGATGAGGGTGAGGA
1 ATCTGACCGATGAGGGTGAGGA
108558162 AT
1 AT
108558164 GATTCTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.39, T:0.20
Consensus pattern (22 bp):
ATCTGACCGATGAGGGTGAGGA
Found at i:108568093 original size:93 final size:93
Alignment explanation
Indices: 108567980--108568151 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
108567970 GCCCATAAGT
* *
108567980 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
108568045 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
108568073 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
108568138 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
108568152 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:108568147 original size:46 final size:46
Alignment explanation
Indices: 108567972--108568147 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
108567962 TGTAACCCGC
* * *
108567972 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
108568018 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
108568064 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
108568111 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
108568148 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:108570545 original size:30 final size:30
Alignment explanation
Indices: 108570495--108570582 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
108570485 CAAAGATAAC
108570495 AAGAAAACC-GAATAAA-AAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
108570523 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
108570553 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
108570583 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.14
29 9 0.18
30 31 0.63
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:108570548 original size:15 final size:15
Alignment explanation
Indices: 108570495--108570573 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
108570485 CAAAGATAAC
*
108570495 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
108570509 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
108570523 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
108570538 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
108570553 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
108570568 AAGAAA
1 AAGAAA
108570574 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 6 0.11
14 6 0.11
15 40 0.75
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:108570582 original size:15 final size:15
Alignment explanation
Indices: 108570506--108570582 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
108570496 AGAAAACCGA
108570506 ATAAA-AAATCCAAG
1 ATAAAGAAATCCAAG
* *
108570520 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
108570534 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
108570549 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
108570565 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
108570580 ATA
1 ATA
108570583 CGATACTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
14 8 0.16
15 40 0.78
16 3 0.06
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:108573655 original size:92 final size:93
Alignment explanation
Indices: 108573544--108573714 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
108573534 GCCCATAAGT
* *
108573544 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAC-TCGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTCGACTCAACTCAA
108573608 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
108573636 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTCGACTCAACTCAA
*
108573701 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
108573715 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 47 0.64
93 26 0.36
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTCGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:108573703 original size:46 final size:46
Alignment explanation
Indices: 108573536--108573710 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
108573526 TGTAACCCGC
* *
108573536 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
108573582 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
108573627 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
108573674 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
108573711 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 26 0.24
46 48 0.44
47 25 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:108582139 original size:3 final size:3
Alignment explanation
Indices: 108582120--108582257 Score: 84
Period size: 3 Copynumber: 45.7 Consensus size: 3
108582110 TAGTTTTAAC
* * * * *
108582120 ATT ATT TTT ATTT ATT ATT ATT ACT ATT ATT ACT ACT ATT -TT CGTT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * * *
108582166 ATT ATT ACT ATT ACT ATT -TT -TT 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
* * * *
108582212 GTT ATT ATT ATT ATT ATT ACT ATT GAATA ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT ATT AT
108582258 ATTTTCTTTC
Statistics
Matches: 103, Mismatches: 26, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
2 6 0.06
3 90 0.87
4 5 0.05
5 2 0.02
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:108582147 original size:12 final size:12
Alignment explanation
Indices: 108582132--108582260 Score: 100
Period size: 12 Copynumber: 10.3 Consensus size: 12
108582122 TATTTTTATT
108582132 TATTATTATTAC
1 TATTATTATTAC
*
108582144 TATTATTACTAC
1 TATTATTATTAC
* *
108582156 TATT-TTCGTTAT
1 TATTATT-ATTAC
*
108582168 TATTACTATTAC
1 TATTATTATTAC
*
108582180 TATTTTTTATTAC
1 TA-TTATTATTAC
*
108582193 TATTTTTATTAC
1 TATTATTATTAC
* *
108582205 TATTTTTGTTATTAT
1 TA---TTATTATTAC
108582220 TATTATTATTAC
1 TATTATTATTAC
*
108582232 TATTGAATAATTAC
1 TATT--ATTATTAC
108582246 TATTATTATTA-
1 TATTATTATTAC
108582257 TATT
1 TATT
108582261 TTCTTTCTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
11 6 0.06
12 56 0.60
13 11 0.12
14 11 0.12
15 10 0.11
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:108585382 original size:12 final size:12
Alignment explanation
Indices: 108585367--108585400 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
108585357 ATGCAGAAGG
108585367 AAATGCAAGAAC
1 AAATGCAAGAAC
*
108585379 AAATGCAAGCAC
1 AAATGCAAGAAC
108585391 AAATGCAAGA
1 AAATGCAAGA
108585401 GTAGTTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.18, G:0.18, T:0.09
Consensus pattern (12 bp):
AAATGCAAGAAC
Found at i:108591187 original size:45 final size:45
Alignment explanation
Indices: 108591121--108591208 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
108591111 TTCTCCTTAT
* * *
108591121 TCATTTTGTATTTTGGAAAAATGC-GATATCTTGATTAATTTATCC
1 TCATTTTGTACTTTAGAAAAAT-CTGATATCGTGATTAATTTATCC
* *
108591166 TCATTTTGTACTTTAGCAAAATCTGCTATCGTGATTAATTTAT
1 TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTAT
108591209 TTCGAGCTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (45 bp):
TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTATCC
Found at i:108592095 original size:92 final size:90
Alignment explanation
Indices: 108591984--108592301 Score: 304
Period size: 92 Copynumber: 3.5 Consensus size: 90
108591974 CAGACTGAAA
* * *
108591984 ATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAA-TTA-AGATCTTAT
108592049 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* ** * *
108592076 ATAGCAAACCTTATCTCCCTAAAGTAGCAGTGGAGTAGGTTGAAG-T-T-A-CAAG-TCTTATCT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
* * ** *
108592136 CCCTGAAGTTGTAGCGGAGCAGACTGAAG
66 CTCTGAAGTTGCAGTAGAGCAGA-T---C
** * * * * * *
108592165 ATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTATAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTAT-AATTA-AGATCTTAT
108592230 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* * * *
108592257 ATAGTAAACCTTATCTCCCTGAAGTAGTAGTGGAGCAGGTTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAG
108592302 TTCCCAAGTT
Statistics
Matches: 176, Mismatches: 39, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
85 27 0.15
86 3 0.02
87 1 0.01
89 36 0.20
90 2 0.01
91 2 0.01
92 73 0.41
93 1 0.01
94 1 0.01
95 3 0.02
96 27 0.15
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (90 bp):
ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
CTCTGAAGTTGCAGTAGAGCAGATC
Found at i:108592209 original size:181 final size:181
Alignment explanation
Indices: 108591905--108592394 Score: 701
Period size: 181 Copynumber: 2.7 Consensus size: 181
108591895 ATGGCGAATA
* * * ** * * *
108591905 TTATCTCCCTAAAGTTGTAGTAGAGCAGATTGAAGCCACAAGTCTTATTTCCTTGAAATTGAAGC
1 TTATCTCCCTAAAGTAGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * *
108591970 GGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
*
108592035 GTTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * *
108592086 TTATCTCCCTAAAGTAGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGC
1 TTATCTCCCTAAAGTAGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * *
108592151 GGAGCAGACTGAAGATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
* *
108592216 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * * * *
108592267 TTATCTCCCTGAAGTAGTAGTGGAGCAGGTTGAAGTTCCCAAGTTTTATCTCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTAGTAGTGGAGCAGGTTGAAGTT-ACAAGTCTTATCTCCCTGAAGTTGAAG
* * * * *
108592332 TGGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTA
65 CGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
108592395 CATAAAGAAA
Statistics
Matches: 273, Mismatches: 35, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
181 195 0.71
182 78 0.29
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (181 bp):
TTATCTCCCTAAAGTAGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
GGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
Found at i:108593794 original size:3 final size:3
Alignment explanation
Indices: 108593786--108593921 Score: 80
Period size: 3 Copynumber: 45.7 Consensus size: 3
108593776 TAATTTTAAC
* * *
108593786 ATT ATT ATT ATTT CTT ATT ATT -GT ATT ATT ATT -GT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * * *
108593830 ACT ATT ATT ACT ACA ATT -TT CGTT ATT AAT ACT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
108593875 TTT ATT ACT ATT TTT ATT ACT ATT TTT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
108593922 ATTTTCTTTC
Statistics
Matches: 99, Mismatches: 29, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
2 4 0.04
3 91 0.92
4 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:108593816 original size:11 final size:11
Alignment explanation
Indices: 108593788--108593839 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
108593778 ATTTTAACAT
108593788 TATTATTATT-
1 TATTATTATTG
*
108593798 TCTTATTATTG
1 TATTATTATTG
108593809 TATTATTATTG
1 TATTATTATTG
*
108593820 TATTATTATTAC
1 TATTATTATT-G
108593832 TATTATTA
1 TATTATTA
108593840 CTACAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 9 0.24
11 20 0.54
12 8 0.22
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
TATTATTATTG
Found at i:108593856 original size:27 final size:26
Alignment explanation
Indices: 108593825--108593926 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 26
108593815 TATTGTATTA
*
108593825 TTATTACTATTATTACTACAATTTTCG
1 TTATTACTATTATTACTACTATTTT-G
* * *
108593852 TTATTAATACTATTACTATTA-TTT-
1 TTATTACTATTATTACTACTATTTTG
* *
108593876 TTATTACTATTTTTATTACTATTTTTG
1 TTATTACTATTATTACTACTA-TTTTG
* *
108593903 TTATTATTATTATTATTA-TATTTT
1 TTATTACTATTATTACTACTATTTT
108593927 CTTTCTTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
24 16 0.26
25 4 0.07
26 8 0.13
27 33 0.54
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTACTATTATTACTACTATTTTG
Found at i:108595863 original size:23 final size:23
Alignment explanation
Indices: 108595837--108595916 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
108595827 CATGATGGAG
*
108595837 TTAATTTTATTCTATGTATGTTA
1 TTAATCTTATTCTATGTATGTTA
*
108595860 TTAATCTTATGT-TACATG-ATG-GA
1 TTAATCTTAT-TCT--ATGTATGTTA
*
108595883 GTTAATTTTATTCTATGTATGTTA
1 -TTAATCTTATTCTATGTATGTTA
108595907 TTAATCTTAT
1 TTAATCTTAT
108595917 GTTATCTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
22 3 0.07
23 24 0.53
24 15 0.33
25 3 0.07
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (23 bp):
TTAATCTTATTCTATGTATGTTA
Found at i:108595880 original size:47 final size:47
Alignment explanation
Indices: 108595827--108595920 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
108595817 ATATATAATT
108595827 CATGATGGAGTTAATTTTATTCTATGTATGTTATTAATCTTATGTTA
1 CATGATGGAGTTAATTTTATTCTATGTATGTTATTAATCTTATGTTA
108595874 CATGATGGAGTTAATTTTATTCTATGTATGTTATTAATCTTATGTTA
1 CATGATGGAGTTAATTTTATTCTATGTATGTTATTAATCTTATGTTA
108595921 TCTTATACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (47 bp):
CATGATGGAGTTAATTTTATTCTATGTATGTTATTAATCTTATGTTA
Found at i:108596278 original size:18 final size:18
Alignment explanation
Indices: 108596202--108596279 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
108596192 TATTAACTCC
108596202 ATATA-TATGTTTTGTAA
1 ATATATTATGTTTTGTAA
* *
108596219 ATCTATTATG---TGTAT
1 ATATATTATGTTTTGTAA
* *
108596234 ATATATATAT-TTATGTAT
1 ATATAT-TATGTTTTGTAA
108596252 ATATA-TATGTTTTGTAA
1 ATATATTATGTTTTGTAA
*
108596269 ATCTATTATGT
1 ATATATTATGT
108596280 GTATAGTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
15 9 0.19
16 6 0.12
17 14 0.29
18 19 0.40
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (18 bp):
ATATATTATGTTTTGTAA
Found at i:108602361 original size:76 final size:75
Alignment explanation
Indices: 108602271--108602423 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 75
108602261 TACATTTGTG
** ** * * *
108602271 TGCAAGTGTGAGACCATAGCTAAGCTATGGCAAAGTGGTAAAGTTTGTGATCATGGCAAGGCCAT
1 TGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCCAT
*
108602336 GGTAAAATATA
66 GATAAAA-ATA
* *
108602347 TGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTAATAAAGTGTGTGAACATGGTAAAGCCAT
1 TGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCCAT
108602412 GATAAAAATA
66 GATAAAAATA
108602422 TG
1 TG
108602424 TGCAAAACCA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 5 0.07
76 62 0.93
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (75 bp):
TGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCCAT
GATAAAAATA
Found at i:108609452 original size:76 final size:77
Alignment explanation
Indices: 108609370--108609529 Score: 241
Period size: 76 Copynumber: 2.1 Consensus size: 77
108609360 GTTACATTTG
** *
108609370 TGTGCAAGTGTGAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAGGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
*
108609435 ATGGT-AAAATA
66 ATGATAAAAATA
* * *
108609446 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTGATAAAGTTTGTGATCATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
108609511 ATGATAAAAATA
66 ATGATAAAAATA
*
108609523 TATGCAA
1 TGTGCAA
108609530 AACCAAAGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 63 0.84
77 12 0.16
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
ATGATAAAAATA
Found at i:108611814 original size:27 final size:26
Alignment explanation
Indices: 108611784--108611847 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
108611774 TTTATCGAGG
*
108611784 TTATTAATTTATCGATGAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
* * *
108611811 TTATTACTTTATTGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
108611837 TTATTAATTTA
1 TTATTAATTTA
108611848 GAGAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:108619245 original size:13 final size:13
Alignment explanation
Indices: 108619229--108619254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108619219 CTCACAAGTA
108619229 CAGACCACATGGC
1 CAGACCACATGGC
108619242 CAGACCACATGGC
1 CAGACCACATGGC
108619255 TGTGTCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
CAGACCACATGGC
Found at i:108626692 original size:21 final size:22
Alignment explanation
Indices: 108626659--108626706 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
108626649 TTTTCATTGA
**
108626659 AAACCCTTCTTAAAAT-AAAAG
1 AAACCCTAATTAAAATAAAAAG
**
108626680 AAACCCTAATTAACTTAAAAAG
1 AAACCCTAATTAAAATAAAAAG
108626702 AAACC
1 AAACC
108626707 TTTCAGTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.21
Consensus pattern (22 bp):
AAACCCTAATTAAAATAAAAAG
Found at i:108627791 original size:29 final size:29
Alignment explanation
Indices: 108627757--108627829 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
108627747 TCATTTATAA
*
108627757 GGCCCATTAGGCCCAAATCACCTGAATAT
1 GGCCCATTAGGCCCAAATCACATGAATAT
* **
108627786 GGCCCATTAGGCCCAAATCTCATTTATAT
1 GGCCCATTAGGCCCAAATCACATGAATAT
*
108627815 GGCCCGTTAGGCCCA
1 GGCCCATTAGGCCCA
108627830 GTCACATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACATGAATAT
Found at i:108630435 original size:6 final size:6
Alignment explanation
Indices: 108630424--108630449 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108630414 ACACTGTAGG
108630424 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
108630450 CATAGTCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:108636654 original size:45 final size:45
Alignment explanation
Indices: 108636590--108636680 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
108636580 TCAAATAATC
108636590 AATATCAGACAGTCTTCAGTACTTTCATTTACCCCTATTAACATA
1 AATATCAGACAGTCTTCAGTACTTTCATTTACCCCTATTAACATA
108636635 AATATCAGACAGTCTTCAGTACTTTCATTTACCCCTATTAACATA
1 AATATCAGACAGTCTTCAGTACTTTCATTTACCCCTATTAACATA
108636680 A
1 A
108636681 CTCGGACCTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (45 bp):
AATATCAGACAGTCTTCAGTACTTTCATTTACCCCTATTAACATA
Found at i:108637771 original size:18 final size:17
Alignment explanation
Indices: 108637744--108637780 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
108637734 ATTCTTTATT
*
108637744 TTATTAATATATTATAA
1 TTATTAATATAATATAA
108637761 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
108637779 TT
1 TT
108637781 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:108645223 original size:18 final size:17
Alignment explanation
Indices: 108645202--108645241 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
108645192 AGAGAAAATC
*
108645202 AAAAGAATAAGGAAGAAG
1 AAAAGAAAAAGGAA-AAG
108645220 AAAAGAAAAAGGAAAAG
1 AAAAGAAAAAGGAAAAG
108645237 AAAAG
1 AAAAG
108645242 GGAACATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGGAAAAG
Found at i:108667448 original size:27 final size:27
Alignment explanation
Indices: 108667407--108667458 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
108667397 AATATATTTC
* *
108667407 AAAAGATAAATAAAATAAAATAAAATAA
1 AAAAGATAAAGAAAACAAAA-AAAATAA
108667435 AAAAGA-AAAGAAAACAAAAAAAAT
1 AAAAGATAAAGAAAACAAAAAAAAT
108667459 CAATGATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 11 0.50
28 6 0.27
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.12
Consensus pattern (27 bp):
AAAAGATAAAGAAAACAAAAAAAATAA
Found at i:108667523 original size:21 final size:22
Alignment explanation
Indices: 108667499--108667543 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
108667489 TAATAATAAT
*
108667499 AATAATAATA-AAATA-CTAAAA
1 AATAA-AATAGAAATAGCAAAAA
108667520 AATAAAATAGAAATAGCAAAAA
1 AATAAAATAGAAATAGCAAAAA
108667542 AA
1 AA
108667544 ATTAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (22 bp):
AATAAAATAGAAATAGCAAAAA
Found at i:108667587 original size:4 final size:4
Alignment explanation
Indices: 108667578--108667659 Score: 57
Period size: 4 Copynumber: 20.5 Consensus size: 4
108667568 GTATAAGAAT
* *
108667578 AATA AATA AATA AATA AATAA AATA AATT AGTA AA-A TAA-A AATA AAT-
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA -AATA AATA AATA
*
108667625 AATA TAACA AAT- AAT- AATA AATAA AATA GAATA AA
1 AATA -AATA AATA AATA AATA AAT-A AATA -AATA AA
108667660 AGGGGGTGGC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 12 0.19
4 37 0.58
5 15 0.23
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:108667647 original size:32 final size:29
Alignment explanation
Indices: 108667575--108667659 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 29
108667565 TAAGTATAAG
108667575 AATAATAAAT-AAATAAATAAATAAAATA
1 AATAATAAATAAAATAAATAAATAAAATA
*
108667603 AATTAGTAAAATAAAAATAAATAATATAACAA-A
1 AA-TAAT-AAAT-AAAATAAATAA-ATAA-AATA
108667636 TAATAATAAATAAAATAGAATAAA
1 -AATAATAAATAAAATA-AATAAA
108667660 AGGGGGTGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 4 0.09
31 7 0.15
32 19 0.40
33 8 0.17
34 4 0.09
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (29 bp):
AATAATAAATAAAATAAATAAATAAAATA
Found at i:108672947 original size:64 final size:64
Alignment explanation
Indices: 108672866--108673049 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
108672856 AGACATTATG
* * *
108672866 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
108672930 ATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
108672995 AA
63 AA
* * * *
108672997 AT-TGGCTAGGTCACATGGGTGGTATTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
108673050 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 24 0.25
66 19 0.20
67 32 0.34
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:108681468 original size:16 final size:18
Alignment explanation
Indices: 108681441--108681474 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
108681431 TGATGTGCTA
108681441 TGAGTATATTAT-TCATG
1 TGAGTATATTATGTCATG
108681458 TGAGT-TATTATGTCATG
1 TGAGTATATTATGTCATG
108681475 CGACCTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (18 bp):
TGAGTATATTATGTCATG
Found at i:108683741 original size:75 final size:75
Alignment explanation
Indices: 108683645--108683822 Score: 279
Period size: 75 Copynumber: 2.4 Consensus size: 75
108683635 ATAGGTACAC
* * * *
108683645 CTTTAGCGACG-TTTTTCAAAAAGCGCCTCAAAAGAG-TTTGCAAAACGATGTCGTTTTGTATTG
1 CTTTAGCGGCGCTTTTT-AAAAA-CGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTG
*
108683708 GCCTTTTAGTGG
64 ACCTTTTAGTGG
108683720 CTTTAGCGGCGCTTTTTAAAAACGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGAC
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGAC
108683785 CTTTTAGTGG
66 CTTTTAGTGG
108683795 CTTTAGCGGCGCTTTTTAAAAACGCCGC
1 CTTTAGCGGCGCTTTTTAAAAACGCCGC
108683823 TATAGGTACA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
74 12 0.12
75 79 0.82
76 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (75 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGAC
CTTTTAGTGG
Found at i:108683850 original size:39 final size:39
Alignment explanation
Indices: 108683795--108683901 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
108683785 CTTTTAGTGG
*
108683795 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAACGCCGCTATAGGTACAC
108683834 CTTTAGCGGCGTTTTTTAAAAA-GCACTGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAACGC-C-GCTATAGGTACAC
** * *
108683874 CCATAGTGGCGTTTTTCAAAAAGCGCCG
1 CTTTAGCGGCGTTTTTTAAAAA-CGCCG
108683902 GAAAAGAGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.03
39 22 0.37
40 32 0.54
41 1 0.02
42 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTTAAAAACGCCGCTATAGGTACAC
Found at i:108684040 original size:155 final size:154
Alignment explanation
Indices: 108683720--108684060 Score: 440
Period size: 155 Copynumber: 2.2 Consensus size: 154
108683710 CTTTTAGTGG
108683720 CTTTAGCGGCGCTTTTTAAAAA-CGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGA
1 CTTTAGCGGCG-TTTTTAAAAAGCGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGA
* * *
108683784 CCTTTTAGTGGCTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACACCTTTAGCGGCGTTTT
65 CCTTTTAGTGGCTGTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACACCTTTAGCAGCGCTTT
* * * *
108683849 TTAAAAAGCACTGCTATAGGTACAC
130 ATAAAAAACACCGCTATAGCTACAC
** * * *
108683874 CCATAGTGGCGTTTTTCAAAAAGCGCCGGAAAAGAGTTTTGA-AAAATGACGTCGTTTTTGTATT
1 CTTTAGCGGCGTTTTT-AAAAAGCGCCGCAAAAGAGTTTT-ACAAAACGACGTCG-TTTTGTATT
* *
108683938 GACCTTTTAGTTGCTGTAGCGGCGC-TTTTAAAAACGCCGCTATAGGTACACCTTTAGTAGCGCT
63 GACCTTTTAGTGGCTGTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACACCTTTAGCAGCGCT
* *
108684002 TTATAAAAAACGCCGCTA-ATGCT-CGAT
128 TTATAAAAAACACCGCTATA-GCTAC-AC
*
108684029 CTTTAGCGGCGTTTTTAAAAAGCGCCACAAAA
1 CTTTAGCGGCGTTTTTAAAAAGCGCCGCAAAA
108684061 AAAACATTTC
Statistics
Matches: 160, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
153 5 0.03
154 29 0.18
155 93 0.58
156 33 0.21
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (154 bp):
CTTTAGCGGCGTTTTTAAAAAGCGCCGCAAAAGAGTTTTACAAAACGACGTCGTTTTGTATTGAC
CTTTTAGTGGCTGTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACACCTTTAGCAGCGCTTTA
TAAAAAACACCGCTATAGCTACAC
Found at i:108684375 original size:14 final size:14
Alignment explanation
Indices: 108684356--108684400 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
108684346 TTAATTATCA
108684356 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
108684370 TTATAGTTTAAGGT
1 TTATAGTTTAGGGT
*
108684384 ATATTA-TTTAGGGT
1 TTA-TAGTTTAGGGT
108684398 TTA
1 TTA
108684401 AAGTGTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:108684419 original size:28 final size:29
Alignment explanation
Indices: 108684362--108684429 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
108684352 ATCATTATAG
* * *
108684362 TTTAGGGTTTATAGTTTAAGGTATATTA-
1 TTTAGGGTTTAAAGTGTAAGGTATACTAT
*
108684390 TTTAGGGTTTAAAGTGTATGAGT-TACTAT
1 TTTAGGGTTTAAAGTGTAAG-GTATACTAT
*
108684419 TTTAAGGTTTA
1 TTTAGGGTTTA
108684430 TGGATTATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (29 bp):
TTTAGGGTTTAAAGTGTAAGGTATACTAT
Found at i:108684437 original size:7 final size:7
Alignment explanation
Indices: 108684419--108684457 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
108684409 GAGTTACTAT
*
108684419 TTTAAGG
1 TTTATGG
108684426 TTTATGG
1 TTTATGG
*
108684433 ATTATGG
1 TTTATGG
108684440 TTTATGG
1 TTTATGG
108684447 TTTATGG
1 TTTATGG
108684454 TTTA
1 TTTA
108684458 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:108685056 original size:8 final size:8
Alignment explanation
Indices: 108685045--108685094 Score: 61
Period size: 7 Copynumber: 6.6 Consensus size: 8
108685035 AAAATGCTCA
108685045 AAAAAATT
1 AAAAAATT
108685053 -AAAAATT
1 AAAAAATT
108685060 -AAAAATT
1 AAAAAATT
108685067 -AAAAATT
1 AAAAAATT
*
108685074 AAAAAACT
1 AAAAAATT
*
108685082 AAAAAACT
1 AAAAAATT
108685090 AAAAA
1 AAAAA
108685095 TAATAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 21 0.52
8 19 0.47
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAAATT
Found at i:108685085 original size:21 final size:21
Alignment explanation
Indices: 108685046--108685095 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
108685036 AAATGCTCAA
*
108685046 AAAAATTAAAAATTAAAAATT
1 AAAAATTAAAAACTAAAAATT
*
108685067 AAAAATTAAAAAACTAAAAAACT
1 AAAAATT-AAAAACT-AAAAATT
108685090 AAAAAT
1 AAAAAT
108685096 AATAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 6 0.24
23 12 0.48
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATTAAAAACTAAAAATT
Found at i:108685094 original size:7 final size:7
Alignment explanation
Indices: 108685046--108685078 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
108685036 AAATGCTCAA
108685046 AAAAATT
1 AAAAATT
108685053 AAAAATT
1 AAAAATT
108685060 AAAAATT
1 AAAAATT
108685067 AAAAATT
1 AAAAATT
108685074 AAAAA
1 AAAAA
108685079 ACTAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:108689563 original size:23 final size:23
Alignment explanation
Indices: 108689536--108689761 Score: 212
Period size: 23 Copynumber: 9.9 Consensus size: 23
108689526 TGGATGCTGT
*
108689536 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
108689559 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
108689582 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
108689605 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* ** *
108689628 TGTTTAAGTATTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
108689651 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
108689673 ATGTTCT-ATTGCTGT-AATTG-AG
1 -TGTT-TAAATGCTGTAAATTGAAG
* * *
108689695 TTGTATAAATGTTGTTAATTG-AG
1 -TGTTTAAATGCTGTAAATTGAAG
*
108689718 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* *
108689742 TGCTTAAATGTTGTAAATTG
1 TGTTTAAATGCTGTAAATTG
108689762 GCATCTGTTT
Statistics
Matches: 173, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.01
22 22 0.13
23 142 0.82
24 8 0.05
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:108690023 original size:19 final size:19
Alignment explanation
Indices: 108690000--108690046 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
108689990 ATTTAATCTA
*
108690000 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
108690018 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
108690038 ATTTTTATT
1 ATTTTTATT
108690047 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:108690368 original size:43 final size:43
Alignment explanation
Indices: 108690307--108690413 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
108690297 TTTTTAAATT
**
108690307 TTATGACCTTTAGCGGCGTTTGTGAGATTAGCGCCACTAAAGG
1 TTATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGG
* * *
108690350 TTATGACCATTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TTATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGG
*
108690393 TCATGACCTTTAGCGGCGTTT
1 TTATGACCTTTAGCGGCGTTT
108690414 TTTGCGGCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
TTATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGG
Found at i:108690484 original size:21 final size:21
Alignment explanation
Indices: 108690459--108690504 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
108690449 AGCGGCACTT
108690459 AAAAGCGCCACTAAAGGTAAA
1 AAAAGCGCCACTAAAGGTAAA
* **
108690480 AAAAGTGCTGCTAAAGGTAAA
1 AAAAGCGCCACTAAAGGTAAA
108690501 AAAA
1 AAAA
108690505 AGCGTCGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.13, G:0.20, T:0.13
Consensus pattern (21 bp):
AAAAGCGCCACTAAAGGTAAA
Found at i:108690514 original size:22 final size:20
Alignment explanation
Indices: 108690459--108690516 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
108690449 AGCGGCACTT
*
108690459 AAAAGCGCCACTAAAGGTAAA
1 AAAAGCG-CGCTAAAGGTAAA
*
108690480 AAAAGTGCTGCTAAAGGTAAAA
1 AAAAGCGC-GCTAAAGGT-AAA
108690502 AAAAGCGTCGCTAAA
1 AAAAGCG-CGCTAAA
108690517 AATCTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 14 0.45
22 15 0.48
23 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.14
Consensus pattern (20 bp):
AAAAGCGCGCTAAAGGTAAA
Found at i:108692617 original size:13 final size:13
Alignment explanation
Indices: 108692595--108692637 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
108692585 ACAAATTCTA
108692595 TATA-AATATATT
1 TATACAATATATT
* *
108692607 TATGCAATATATA
1 TATACAATATATT
108692620 TATACAATAATATT
1 TATACAAT-ATATT
108692634 TATA
1 TATA
108692638 TTTAATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 3 0.12
13 14 0.56
14 8 0.32
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (13 bp):
TATACAATATATT
Found at i:108694601 original size:14 final size:14
Alignment explanation
Indices: 108694582--108694611 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
108694572 TGATTGTTTT
108694582 TAATCTAATTTAAC
1 TAATCTAATTTAAC
108694596 TAATCTAATTTAAC
1 TAATCTAATTTAAC
108694610 TA
1 TA
108694612 CGAACGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:108695767 original size:16 final size:16
Alignment explanation
Indices: 108695746--108695777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108695736 AATTGGGTTG
*
108695746 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
108695762 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
108695778 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:108704943 original size:8 final size:8
Alignment explanation
Indices: 108704930--108704978 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
108704920 ATTAAAGTAC
108704930 AATATAAT
1 AATATAAT
108704938 AATATAAT
1 AATATAAT
*
108704946 AATATATT
1 AATATAAT
108704954 AATATAAT
1 AATATAAT
108704962 -A-A-AAT
1 AATATAAT
108704967 AATATAAT
1 AATATAAT
108704975 AATA
1 AATA
108704979 CATGAAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 3 0.08
6 2 0.06
7 2 0.06
8 29 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AATATAAT
Found at i:108704991 original size:29 final size:30
Alignment explanation
Indices: 108704924--108704994 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
108704914 CTTAATATTA
* * *
108704924 AAGTACAATATAATAATATAATAATATATT
1 AAGTACAATAAAATAATATAATAATACATG
*
108704954 AA-TATAATAAAATAATATAATAATACATG
1 AAGTACAATAAAATAATATAATAATACATG
108704983 AAGTA-AATAAAA
1 AAGTACAATAAAA
108704995 GAAAGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 32 0.89
30 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
AAGTACAATAAAATAATATAATAATACATG
Found at i:108705038 original size:20 final size:20
Alignment explanation
Indices: 108705015--108705052 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
108705005 GAAATAAAAA
108705015 GAAA-GAAAGAACAGAGAAGT
1 GAAACGAAA-AACAGAGAAGT
*
108705035 GAAACGAAAAAGAGAGAA
1 GAAACGAAAAACAGAGAA
108705053 AGAAAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.03
Consensus pattern (20 bp):
GAAACGAAAAACAGAGAAGT
Found at i:108709214 original size:25 final size:25
Alignment explanation
Indices: 108709167--108709217 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
108709157 TCAGTATTAC
*
108709167 TCTGCTCTATTCCGTTATGTTTTGT
1 TCTGCTCTATTCCGTTATATTTTGT
** *
108709192 TCTGCTCTATTTGGTTCTATTTTGT
1 TCTGCTCTATTCCGTTATATTTTGT
108709217 T
1 T
108709218 TGAATTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.08, C:0.18, G:0.16, T:0.59
Consensus pattern (25 bp):
TCTGCTCTATTCCGTTATATTTTGT
Found at i:108715268 original size:29 final size:29
Alignment explanation
Indices: 108715190--108715268 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 29
108715180 TGATGTTGGT
* * *
108715190 GATATTTTATAATTAT-TTAATTAAATAA
1 GATATTTTATTATTTTATTAATTTAATAA
* * * *
108715218 -TTATTAT-TTA-TTTAATATTTTAATAA
1 GATATTTTATTATTTTATTAATTTAATAA
108715244 GATATTTTATTATTTTATTAATTTA
1 GATATTTTATTATTTTATTAATTTA
108715269 TTTAGTCTCT
Statistics
Matches: 36, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 10 0.28
28 3 0.08
29 10 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
GATATTTTATTATTTTATTAATTTAATAA
Found at i:108733957 original size:5 final size:5
Alignment explanation
Indices: 108733947--108733971 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
108733937 ATTTTTCTTG
108733947 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
108733972 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:108737034 original size:55 final size:55
Alignment explanation
Indices: 108736920--108737044 Score: 151
Period size: 55 Copynumber: 2.3 Consensus size: 55
108736910 TGCTATATGG
* * * *
108736920 CCGTGGTTGAGCCTACCAAAACAGCACAGGCGTTCGACACGCCCGCATAGAAGAA
1 CCGTGGTCGAGCCTGCCAAAACAGCACAGGCATTCGACACGCCCGCATAGAACAA
* * ** * *
108736975 CCGTGGTCGAGCCTGCCAAAATAGCACGGGCATTCGACACGCCCGTGTGGAACAC
1 CCGTGGTCGAGCCTGCCAAAACAGCACAGGCATTCGACACGCCCGCATAGAACAA
*
108737030 CCGTGGTCGAACCTG
1 CCGTGGTCGAGCCTG
108737045 TTAAATTAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (55 bp):
CCGTGGTCGAGCCTGCCAAAACAGCACAGGCATTCGACACGCCCGCATAGAACAA
Found at i:108737058 original size:55 final size:55
Alignment explanation
Indices: 108736920--108737060 Score: 129
Period size: 55 Copynumber: 2.6 Consensus size: 55
108736910 TGCTATATGG
* * * * * * * *
108736920 CCGTGGTTGAGCCTACCAAAACAGCACAGGCGTTCGACACGCCCGCATAGAAGAA
1 CCGTGGTCGAACCTGCCAAAATAACACGGGCATTCGACACGCCCGCATAGAACAA
* * ** * *
108736975 CCGTGGTCGAGCCTGCCAAAATAGCACGGGCATTCGACACGCCCGTGTGGAACAC
1 CCGTGGTCGAACCTGCCAAAATAACACGGGCATTCGACACGCCCGCATAGAACAA
** *
108737030 CCGTGGTCGAACCTGTTAAATTAACACGGGC
1 CCGTGGTCGAACCTGCCAAAATAACACGGGC
108737061 GTAGGGCTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (55 bp):
CCGTGGTCGAACCTGCCAAAATAACACGGGCATTCGACACGCCCGCATAGAACAA
Found at i:108742594 original size:15 final size:16
Alignment explanation
Indices: 108742568--108742597 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108742558 TCTCTCTTGC
108742568 TTTTAGATCATATATA
1 TTTTAGATCATATATA
108742584 TTTTA-ATCATATAT
1 TTTTAGATCATATAT
108742598 GAGACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:108747177 original size:8 final size:8
Alignment explanation
Indices: 108747166--108747253 Score: 76
Period size: 7 Copynumber: 10.9 Consensus size: 8
108747156 GACTAAAATA
108747166 TTAAATTT
1 TTAAATTT
108747174 TT-AATTT
1 TTAAATTT
*
108747181 TTAAGTTT
1 TTAAATTT
108747189 TT-AATTT
1 TTAAATTT
*
108747196 TTTAATTT
1 TTAAATTT
108747204 TT-AATTT
1 TTAAATTT
*
108747211 TTATA-TT
1 TTAAATTT
108747218 TTAAATTTTT
1 TTAAA--TTT
108747228 TTGAAGATTT
1 TT-AA-ATTT
108747238 TTATAATTT
1 TTA-AATTT
108747247 TTAAATT
1 TTAAATT
108747254 AAAATATAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 18
0.75 0.04 0.20
Matches are distributed among these distances:
7 26 0.39
8 20 0.30
9 8 0.12
10 10 0.15
11 2 0.03
12 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
TTAAATTT
Found at i:108747179 original size:7 final size:7
Alignment explanation
Indices: 108747169--108747227 Score: 82
Period size: 7 Copynumber: 8.0 Consensus size: 7
108747159 TAAAATATTA
108747169 AATTTTT
1 AATTTTT
108747176 AATTTTT
1 AATTTTT
108747183 AAGTTTTT
1 AA-TTTTT
108747191 AATTTTTT
1 AA-TTTTT
108747199 AATTTTT
1 AATTTTT
108747206 AATTTTT
1 AATTTTT
*
108747213 ATATTTTA
1 A-ATTTTT
108747221 AATTTTT
1 AATTTTT
108747228 TTGAAGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
7 27 0.57
8 20 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:108747189 original size:15 final size:14
Alignment explanation
Indices: 108747169--108747227 Score: 82
Period size: 15 Copynumber: 4.0 Consensus size: 14
108747159 TAAAATATTA
108747169 AATTTTTAATTTTT
1 AATTTTTAATTTTT
108747183 AAGTTTTTAATTTTTT
1 AA-TTTTTAA-TTTTT
108747199 AATTTTTAATTTTT
1 AATTTTTAATTTTT
*
108747213 ATATTTTAAATTTTT
1 A-ATTTTTAATTTTT
108747228 TTGAAGATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
14 8 0.20
15 26 0.63
16 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
AATTTTTAATTTTT
Done.