Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 321 of 343
Found at i:103524468 original size:20 final size:22
Alignment explanation
Indices: 103524427--103524469 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
103524417 AAAATTGTGT
*
103524427 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
103524449 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
103524469 A
1 A
103524470 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:103524539 original size:18 final size:17
Alignment explanation
Indices: 103524465--103524627 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
103524455 ATCCATTTTC
* *
103524465 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
103524483 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
103524501 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
103524517 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
103524534 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
103524552 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
103524569 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
103524587 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
103524604 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
103524622 CAAAAA
1 CAAAAA
103524628 AAAAATCTCG
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:103524627 original size:35 final size:34
Alignment explanation
Indices: 103524465--103524627 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
103524455 ATCCATTTTC
* * * *
103524465 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
103524501 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
103524534 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
103524569 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
103524604 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
103524628 AAAAATCTCG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:103530327 original size:11 final size:11
Alignment explanation
Indices: 103530311--103530349 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
103530301 TGCATATCCC
103530311 ATTGGTTTAAG
1 ATTGGTTTAAG
*
103530322 ATTGGTTT--T
1 ATTGGTTTAAG
103530331 ATTGGTTTAAG
1 ATTGGTTTAAG
103530342 ATTGGTTT
1 ATTGGTTT
103530350 TCTTTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (11 bp):
ATTGGTTTAAG
Found at i:103530336 original size:20 final size:20
Alignment explanation
Indices: 103530311--103530350 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
103530301 TGCATATCCC
103530311 ATTGGTTTAAGATTGGTTTT
1 ATTGGTTTAAGATTGGTTTT
103530331 ATTGGTTTAAGATTGGTTTT
1 ATTGGTTTAAGATTGGTTTT
103530351 CTTTTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (20 bp):
ATTGGTTTAAGATTGGTTTT
Found at i:103530584 original size:30 final size:30
Alignment explanation
Indices: 103530548--103530604 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
103530538 ATATATAACC
*
103530548 TTTTGGTAATGATAAAAGCAAAGGAATGAA
1 TTTTGGTAATAATAAAAGCAAAGGAATGAA
*
103530578 TTTTGGTAATAATTAAAGCAAAGGAAT
1 TTTTGGTAATAATAAAAGCAAAGGAAT
103530605 CAATCTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.30
Consensus pattern (30 bp):
TTTTGGTAATAATAAAAGCAAAGGAATGAA
Found at i:103531994 original size:19 final size:18
Alignment explanation
Indices: 103531962--103532006 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
103531952 AAAAAAATAA
* * *
103531962 AAAAAAATACTTTCCTTT
1 AAAAAAATAATTTCATAT
103531980 AAAAAAATGAATTTCATAT
1 AAAAAAAT-AATTTCATAT
103531999 AAAAAAAT
1 AAAAAAAT
103532007 TGAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAAAATAATTTCATAT
Found at i:103534580 original size:20 final size:19
Alignment explanation
Indices: 103534552--103534591 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103534542 AAGTACTGAG
103534552 TAATGTATAATAAAAAAATT
1 TAATGTAT-ATAAAAAAATT
* *
103534572 TAATTTATATAAAATAATT
1 TAATGTATATAAAAAAATT
103534591 T
1 T
103534592 TTAAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATGTATATAAAAAAATT
Found at i:103535318 original size:11 final size:11
Alignment explanation
Indices: 103535249--103535318 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
103535239 AAATGATAGC
*
103535249 AAAATGGTAGAA
1 AAAATAGTA-AA
* *
103535261 AAAATAATAAG
1 AAAATAGTAAA
* *
103535272 AAAATAGCAAC
1 AAAATAGTAAA
* *
103535283 AAAACAATAAA
1 AAAATAGTAAA
*
103535294 AAAA-AGTAAG
1 AAAATAGTAAA
103535304 AAAATAGTAAA
1 AAAATAGTAAA
103535315 AAAA
1 AAAA
103535319 GAAATATTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
10 8 0.18
11 29 0.66
12 7 0.16
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAAATAGTAAA
Found at i:103536350 original size:22 final size:24
Alignment explanation
Indices: 103536325--103536374 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
103536315 GTTAAACTTG
*
103536325 TTTAGATTTAGTT-ATTTGTTTT-
1 TTTAAATTTAGTTGATTTGTTTTA
* *
103536347 TTTAAATTTATTTGTTTTGTTTTA
1 TTTAAATTTAGTTGATTTGTTTTA
103536371 TTTA
1 TTTA
103536375 TCTTTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (24 bp):
TTTAAATTTAGTTGATTTGTTTTA
Found at i:103536373 original size:18 final size:17
Alignment explanation
Indices: 103536331--103536375 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
103536321 CTTGTTTAGA
*
103536331 TTTAGTTATTTGTTTTT
1 TTTATTTATTTGTTTTT
*
103536348 TTAAATTTATTTGTTTTGT
1 TT-TATTTATTTGTTTT-T
103536367 TTTATTTAT
1 TTTATTTAT
103536376 CTTTTAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTGTTTTT
Found at i:103537066 original size:21 final size:21
Alignment explanation
Indices: 103537042--103537085 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
103537032 TTAAATTAAA
103537042 AATAAAACCCAAAATAGAGTT
1 AATAAAACCCAAAATAGAGTT
103537063 AATAAAACCCAAAATAGAGTT
1 AATAAAACCCAAAATAGAGTT
103537084 AA
1 AA
103537086 ATATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (21 bp):
AATAAAACCCAAAATAGAGTT
Found at i:103537943 original size:23 final size:23
Alignment explanation
Indices: 103537913--103537958 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
103537903 ACGTATATAC
103537913 TTTTAATAT-TATCATATATTTAT
1 TTTTAATATATAT-ATATATTTAT
*
103537936 TTTTAATATATATGTATATTTAT
1 TTTTAATATATATATATATTTAT
103537959 ATAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTAATATATATATATATTTAT
Found at i:103537946 original size:17 final size:16
Alignment explanation
Indices: 103537921--103537969 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
103537911 ACTTTTAATA
*
103537921 TTATCATATATTTATTT
1 TTAT-ATATATTTATAT
*
103537938 TTAATATATATGTATAT
1 TT-ATATATATTTATAT
103537955 TTATATAATATTTAT
1 TTATAT-ATATTTAT
103537970 CAATAGTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 21 0.78
18 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATATATATTTATAT
Found at i:103538299 original size:21 final size:21
Alignment explanation
Indices: 103538275--103538314 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
103538265 GTATATTCTT
103538275 ACTATTA-TCATTATTATCACC
1 ACTATTATTC-TTATTATCACC
103538296 ACTATTATTCTTATTATCA
1 ACTATTATTCTTATTATCA
103538315 TATTATTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
ACTATTATTCTTATTATCACC
Found at i:103538424 original size:3 final size:3
Alignment explanation
Indices: 103538416--103538540 Score: 69
Period size: 3 Copynumber: 42.3 Consensus size: 3
103538406 AATTTCACTT
* * * * * **
103538416 TTA TTA TTA TTA CTA -TA TCA TCA TTG TTA TTA TTA TT- TTC CCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
103538462 TTA TTA ATA CTA ATA TTAA TT- TTC TTA TTA TTA TTG TTA TTA GTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
103538507 TCA TAA TGTA TTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T
103538541 CGTCTTTTAT
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
2 8 0.09
3 81 0.86
4 5 0.05
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:103539307 original size:126 final size:126
Alignment explanation
Indices: 103539082--103539345 Score: 483
Period size: 126 Copynumber: 2.1 Consensus size: 126
103539072 ATTTGGTTTA
*
103539082 AAATAAAGGCAACATTCGGCATTTGAGAATTCGAGAAAACATGCCCTAACTTACTGGGTTTCGAT
1 AAATAAAGGCAACATTCGGCATTTGAGAATTCGAGAAAACATACCCTAACTTACTGGGTTTCGAT
*
103539147 TTCTCTCGTTTACTCTAAATAGTCGAATACCCTTTTAAAAAGGTCAAAATACATGAATTTC
66 TTCTCTCGTTTACTCTAAATAATCGAATACCCTTTTAAAAAGGTCAAAATACATGAATTTC
* *
103539208 AAATAAAGGCAACATTCGGTATTTGAGAATTCGAGAAAACGTACCCTAACTTACTGGGTTTCGAT
1 AAATAAAGGCAACATTCGGCATTTGAGAATTCGAGAAAACATACCCTAACTTACTGGGTTTCGAT
*
103539273 TTCTCTCGTTTACTCTAAATAATCGAATACCCTTTTAAAAAGGTCAAAATATATGAATTTC
66 TTCTCTCGTTTACTCTAAATAATCGAATACCCTTTTAAAAAGGTCAAAATACATGAATTTC
103539334 AAATAAAGGCAA
1 AAATAAAGGCAA
103539346 GCTCATTCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 133 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (126 bp):
AAATAAAGGCAACATTCGGCATTTGAGAATTCGAGAAAACATACCCTAACTTACTGGGTTTCGAT
TTCTCTCGTTTACTCTAAATAATCGAATACCCTTTTAAAAAGGTCAAAATACATGAATTTC
Found at i:103548489 original size:51 final size:51
Alignment explanation
Indices: 103548418--103548531 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
103548408 CTGATCACAT
103548418 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
103548469 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
103548520 TTGTCGCTTGTC
1 TTATCACTTGTC
103548532 GCTTGTCGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:103548529 original size:7 final size:7
Alignment explanation
Indices: 103548519--103548545 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
103548509 CCACTTATCA
103548519 CTTGTCG
1 CTTGTCG
103548526 CTTGTCG
1 CTTGTCG
103548533 CTTGTCG
1 CTTGTCG
103548540 CTTGTC
1 CTTGTC
103548546 ACTTATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.26, T:0.44
Consensus pattern (7 bp):
CTTGTCG
Found at i:103559727 original size:43 final size:43
Alignment explanation
Indices: 103559666--103559750 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
103559656 AATCTACAAG
*
103559666 ATTTATTGGAGAAGCGTTAGTATAGGGTGTATAATAATTATAA
1 ATTTATTGGAGAAGCGTTAGTATAGAGTGTATAATAATTATAA
103559709 ATTTATTGGAGAAGCGTTAGTATAGAGTGTATAATAATTATA
1 ATTTATTGGAGAAGCGTTAGTATAGAGTGTATAATAATTATA
103559751 GAGCTCACCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (43 bp):
ATTTATTGGAGAAGCGTTAGTATAGAGTGTATAATAATTATAA
Found at i:103562327 original size:35 final size:35
Alignment explanation
Indices: 103562288--103562359 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
103562278 TAATAAGGAG
103562288 AAAATCTATTGGATACTTTAAAGAGAAATCAAAAT
1 AAAATCTATTGGATACTTTAAAGAGAAATCAAAAT
103562323 AAAATCTATTGGATACTTTAAAGAGAAATCAAAAT
1 AAAATCTATTGGATACTTTAAAGAGAAATCAAAAT
103562358 AA
1 AA
103562360 TAAGAGAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (35 bp):
AAAATCTATTGGATACTTTAAAGAGAAATCAAAAT
Found at i:103570727 original size:13 final size:13
Alignment explanation
Indices: 103570711--103570736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103570701 ACTTTATGCA
103570711 AACAAATGGTTTT
1 AACAAATGGTTTT
103570724 AACAAATGGTTTT
1 AACAAATGGTTTT
103570737 TTGGAAACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:103572749 original size:41 final size:41
Alignment explanation
Indices: 103572718--103572823 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
103572708 CGGCCTATCA
*
103572718 ACATGCCAGTGTG-CAAGCCGTGTGTCTCACACGGTTGATC
1 ACATGCCCGTGTGACAAGCCGTGTGTCTCACACGGTTGATC
*
103572758 ACACGCCCGTGTGACAAGCCGTGTGTCTCACACGGTTGATC
1 ACATGCCCGTGTGACAAGCCGTGTGTCTCACACGGTTGATC
103572799 ACATGCCCGTGTGACAAGCCGTGTG
1 ACATGCCCGTGTGACAAGCCGTGTG
103572824 GACTTAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
40 11 0.18
41 51 0.82
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (41 bp):
ACATGCCCGTGTGACAAGCCGTGTGTCTCACACGGTTGATC
Found at i:103574518 original size:16 final size:17
Alignment explanation
Indices: 103574499--103574537 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
103574489 TTTTATTTAC
*
103574499 TTAATAT-ATTATAATA
1 TTAATATAAATATAATA
103574515 TTAATATAAATATAATA
1 TTAATATAAATATAATA
103574532 -TAATAT
1 TTAATAT
103574538 TATTTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATATAAATATAATA
Found at i:103575473 original size:20 final size:20
Alignment explanation
Indices: 103575450--103575499 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
103575440 AAATCCAAAT
103575450 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
103575470 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
103575490 TAAGAATACT
1 TAA-AATACT
103575500 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:103577451 original size:23 final size:25
Alignment explanation
Indices: 103577431--103577479 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
103577421 ATTCATTAAT
103577431 ATAATAATATAATATCAATTAAT-TAA
1 ATAATAATA-AATAT-AATTAATATAA
*
103577457 ATAATAATAAATATAATAAATAT
1 ATAATAATAAATATAATTAATAT
103577480 CTATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATAATAAATATAATTAATATAA
Found at i:103577474 original size:15 final size:13
Alignment explanation
Indices: 103577427--103577475 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
103577417 ATTTATTCAT
103577427 TAATATAATAATA
1 TAATATAATAATA
103577440 TAATATCAATTAAT-
1 TAATAT-AA-TAATA
103577454 TAA-ATAATAATA
1 TAATATAATAATA
103577466 -AATATAATAA
1 TAATATAATAA
103577476 ATATCTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 6 0.19
12 9 0.28
13 8 0.25
14 5 0.16
15 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:103578040 original size:23 final size:24
Alignment explanation
Indices: 103578014--103578072 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
103578004 TTTATTTTCT
103578014 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
103578037 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
103578061 TTAA-ATAATATT
1 TTAATATAATATT
103578073 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:103580655 original size:19 final size:21
Alignment explanation
Indices: 103580628--103580668 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
103580618 ATGGACATTT
103580628 GGACTTTTAATTTTG-TTTTG
1 GGACTTTTAATTTTGATTTTG
103580648 GGAC-TTTAATTTTGATTTTG
1 GGACTTTTAATTTTGATTTTG
103580668 G
1 G
103580669 TATTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (21 bp):
GGACTTTTAATTTTGATTTTG
Found at i:103582079 original size:24 final size:24
Alignment explanation
Indices: 103582042--103582093 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
103582032 AAGATTGAAC
* *
103582042 ATTTATTAGCATAATATATTTGGT
1 ATTTATTAACATAAAATATTTGGT
* * *
103582066 ATTTATTAATATAAAATCTTTGTT
1 ATTTATTAACATAAAATATTTGGT
103582090 ATTT
1 ATTT
103582094 CTTTTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTATTAACATAAAATATTTGGT
Found at i:103594544 original size:29 final size:31
Alignment explanation
Indices: 103594488--103594547 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
103594478 TTTTTATTAA
* **
103594488 TTATTTAAAATTTAAAATTAATTAAACATAT
1 TTATTTAAAATTTAAAATCAACAAAACATAT
103594519 TTATTT-AAATTT-AAATCAACAAAACATAT
1 TTATTTAAAATTTAAAATCAACAAAACATAT
103594548 AAAATAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 6 0.23
31 6 0.23
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (31 bp):
TTATTTAAAATTTAAAATCAACAAAACATAT
Found at i:103608814 original size:43 final size:43
Alignment explanation
Indices: 103608752--103608902 Score: 140
Period size: 44 Copynumber: 3.5 Consensus size: 43
103608742 ATTCACAAGC
* *
103608752 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAAATTATAGAT
* * * * * * * **
103608795 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAA-ATTATAGAT
* *
103608839 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGG-TAGAAATTATAGAT
** *
103608883 CTTGTCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
103608903 CGGAGTAGAT
Statistics
Matches: 82, Mismatches: 24, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
43 30 0.37
44 48 0.59
45 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAAATTATAGAT
Found at i:103608894 original size:44 final size:44
Alignment explanation
Indices: 103608846--103608986 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
103608836 GGCCTTAAAC
*
103608846 CCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTGTCT
* * * * * * *
103608890 CCCTAAGCAGTAGCGG-AGTA-GATCGAAGAGGGTA-AG-CCTTGACC
1 CCCTAAGCAGTAG-GGTAATAGGCTAGAA-A--TTACAGATCTTGTCT
* *
103608934 CCCTAAGCAATAGGGTAATAGGCTAAAAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTGTCT
103608978 CCCTAAGCA
1 CCCTAAGCA
103608987 ATAGTGGAGC
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
42 2 0.03
43 9 0.12
44 51 0.71
45 8 0.11
46 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTGTCT
Found at i:103608913 original size:88 final size:88
Alignment explanation
Indices: 103608750--103609157 Score: 468
Period size: 88 Copynumber: 4.6 Consensus size: 88
103608740 AAATTCACAA
* * * ** * *
103608750 GCCTTAACCCCCTAAGCAGTAGGGTAACAGG-TTGAATTTATAGATCTTAACCCCCTAAGTAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCTCCCTAAGCAGTA
* ** *
103608814 G-GGAAACAGATCGAAGGTGATGG
66 GTGG-AGCAGATCGAAGACGAAGG
*
103608837 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
103608902 GCGGAGTAGATCGAAGAGGGTAA--
66 GTGGAGCAGATCGAAGA-CG-AAGG
* * * * *
103608925 GCCTTGACCCCCTAAGCAATAGGGTAATAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAATA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCTCCCTAAGCAGTA
103608990 GTGGAGCAGATCGAAGACGAAGG
66 GTGGAGCAGATCGAAGACGAAGG
* * * *
103609013 GCCTTAACCCCCTAAACAGTAGGGTAACAAG-TTGAAAATTACAAATCTTGTCTCCCTAAGCAGT
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAG-AAATTACAGATCTTGTCTCCCTAAGCAGT
*
103609077 TGTGGAGCAGATCGAAGACGAAGG
65 AGTGGAGCAGATCGAAGACGAAGG
* * * *
103609101 GCCTTAACCCACTAAGTAGTAGGGTAACAGGCT-GAAAATTACAAATCTTATCTCCCT
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAG-AAATTACAGATCTTGTCTCCCT
103609158 GAAGTTGCAG
Statistics
Matches: 276, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.01
87 32 0.12
88 237 0.86
89 4 0.01
90 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGAAGG
Found at i:103609581 original size:21 final size:20
Alignment explanation
Indices: 103609548--103609587 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
103609538 GTGTCCTAAC
*
103609548 TTACTGGATATGACATCTTG
1 TTACTGGAGATGACATCTTG
*
103609568 TTACTTGGAGATGAGATCTT
1 TTAC-TGGAGATGACATCTT
103609588 TGCAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (20 bp):
TTACTGGAGATGACATCTTG
Found at i:103611117 original size:12 final size:12
Alignment explanation
Indices: 103611100--103611126 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103611090 TCCTGTTTCT
103611100 TTTTTTATTTAA
1 TTTTTTATTTAA
103611112 TTTTTTATTTAA
1 TTTTTTATTTAA
103611124 TTT
1 TTT
103611127 CATCCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:103615879 original size:16 final size:16
Alignment explanation
Indices: 103615851--103615890 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
103615841 ATCGAATCGG
103615851 ATTTTTTATTTTTAATA
1 ATTTTTTATTTTTAA-A
103615868 ATTTTTTA-TTTTAAA
1 ATTTTTTATTTTTAAA
*
103615883 ATATTTTA
1 ATTTTTTA
103615891 ATGATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTATTTTTAAA
Found at i:103623958 original size:49 final size:49
Alignment explanation
Indices: 103623901--103623998 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
103623891 TTTAAAGTAT
*
103623901 GATAATGTATTTTTTATTAATATTTACATACTTACTTACTAAGCTATAA
1 GATAATGTATTTTTCATTAATATTTACATACTTACTTACTAAGCTATAA
103623950 GATAATGTATTTTTCATTAATATTTACATACTTACTTACTAAGCTATAA
1 GATAATGTATTTTTCATTAATATTTACATACTTACTTACTAAGCTATAA
103623999 TGCTTACTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (49 bp):
GATAATGTATTTTTCATTAATATTTACATACTTACTTACTAAGCTATAA
Found at i:103630847 original size:23 final size:23
Alignment explanation
Indices: 103630804--103630847 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
103630794 TAAAAAGATA
* *
103630804 AAAAATTATATTTTAGCTTTCAT
1 AAAAATTATAATTTAGATTTCAT
103630827 AAAAATATATAATTTA-ATTTC
1 AAAAAT-TATAATTTAGATTTC
103630848 GGCCTCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAAATTATAATTTAGATTTCAT
Found at i:103631351 original size:17 final size:17
Alignment explanation
Indices: 103631306--103631351 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
103631296 TAGTCATGAC
103631306 AAAATAAATT-AAAATTA
1 AAAAT-AATTAAAAATTA
*
103631323 GAAA-AATATAAAAATTA
1 AAAATAAT-TAAAAATTA
103631340 AAAATAATTAAA
1 AAAATAATTAAA
103631352 TTAAAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.12
16 1 0.04
17 17 0.71
18 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAATAATTAAAAATTA
Found at i:103633846 original size:28 final size:28
Alignment explanation
Indices: 103633747--103633851 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 28
103633737 ATTTAATAAA
* * *
103633747 TTTAAGTACCAAATTAAACCTAAAAAAG
1 TTTAAGTACCAAATTGAGCCAAAAAAAG
* * *
103633775 CTTAGGTACCAAATTAAGAAGACAAAAAGCCAAG
1 TTTAAGTACCAAATT--G-AGCCAAAAA---AAG
* * *
103633809 TTCAACTACCAAATTGAGCCCAAAAAAG
1 TTTAAGTACCAAATTGAGCCAAAAAAAG
103633837 TTTAAGTACCAAATT
1 TTTAAGTACCAAATT
103633852 AGGAAAAAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
28 29 0.51
31 13 0.23
32 1 0.02
34 14 0.25
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (28 bp):
TTTAAGTACCAAATTGAGCCAAAAAAAG
Found at i:103639705 original size:2 final size:2
Alignment explanation
Indices: 103639700--103639727 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
103639690 AATAAAACGA
103639700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103639728 GTGATATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103639813 original size:30 final size:30
Alignment explanation
Indices: 103639775--103639848 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
103639765 TCTTAATAAA
*
103639775 TTTAAATTTAAATTATTATA-TTTTTACTT
1 TTTAAATTTAAATTATTATATTTTTTACAT
* *
103639804 TTTAGAATTT-AATTTTTATATTTTTTAGAT
1 TTTA-AATTTAAATTATTATATTTTTTACAT
103639834 TTTAAAATTTAAATT
1 TTT-AAATTTAAATT
103639849 TAATTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 13 0.34
30 20 0.53
31 5 0.13
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTAAATTTAAATTATTATATTTTTTACAT
Found at i:103639844 original size:23 final size:23
Alignment explanation
Indices: 103639802--103639849 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
103639792 ATATTTTTAC
** *
103639802 TTTTTAGAATTTAATTTTTATAT
1 TTTTTAGAATTTAAAATTTAAAT
*
103639825 TTTTTAGATTTTAAAATTTAAAT
1 TTTTTAGAATTTAAAATTTAAAT
103639848 TT
1 TT
103639850 AATTATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTAGAATTTAAAATTTAAAT
Found at i:103644320 original size:28 final size:28
Alignment explanation
Indices: 103644256--103644313 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
103644246 CAATTGGTCC
**
103644256 TTATATTTTTTTCATTTTGAGTAATTTT
1 TTATATTTTTTTCATTTTGAACAATTTT
103644284 TTATATTTTTTTCATTTTGAACAATTTT
1 TTATATTTTTTTCATTTTGAACAATTTT
103644312 TT
1 TT
103644314 TCCTTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (28 bp):
TTATATTTTTTTCATTTTGAACAATTTT
Found at i:103644389 original size:31 final size:32
Alignment explanation
Indices: 103644336--103644400 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
103644326 AAAAGAGATG
* *
103644336 GAGAAGGGAGAAAAATAGAAGGAAAAG-TAAAA
1 GAGAAGGGAGAAAAAAAAAAGG-AAAGTTAAAA
*
103644368 GAGAATGGA-AAAAAAAAAAGGAAAGTTAAAA
1 GAGAAGGGAGAAAAAAAAAAGGAAAGTTAAAA
103644399 GA
1 GA
103644401 ACATAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.14
31 17 0.59
32 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.08
Consensus pattern (32 bp):
GAGAAGGGAGAAAAAAAAAAGGAAAGTTAAAA
Found at i:103649655 original size:2 final size:2
Alignment explanation
Indices: 103649648--103649673 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103649638 TGTAGGCCCA
103649648 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
103649674 CAAGTCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103658834 original size:12 final size:12
Alignment explanation
Indices: 103658817--103658849 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
103658807 GGGCCCGCCC
103658817 ATATTAATTTTT
1 ATATTAATTTTT
103658829 ATATT-ATTTTT
1 ATATTAATTTTT
103658840 ATA-TAATTTT
1 ATATTAATTTT
103658850 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:103658889 original size:18 final size:20
Alignment explanation
Indices: 103658850--103658890 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
103658840 ATATAATTTT
*
103658850 AAAATATATATAATACATCA
1 AAAATATATATAATACAGCA
103658870 AAAATAT-TATAA-ACAGCA
1 AAAATATATATAATACAGCA
103658888 AAA
1 AAA
103658891 TAAGTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAATATATATAATACAGCA
Found at i:103659017 original size:30 final size:30
Alignment explanation
Indices: 103658973--103659035 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
103658963 ACTTAACAAG
* *
103658973 CAAATGTCTCTAAAATAATAACAAAATTGA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
103659003 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
103659033 CAA
1 CAA
103659036 TAAAATAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:103659444 original size:69 final size:73
Alignment explanation
Indices: 103659233--103659466 Score: 309
Period size: 69 Copynumber: 3.3 Consensus size: 73
103659223 ATATAGATAA
* * *
103659233 AAAG-AGTAATATTGCAAATTACAACAACAACAAAAA-AAACAAATTTGAAGTTAATAACTACTT
1 AAAGTAGTAATCTTGCAAATTACGACAA-AA-AAAAACATACAAATTTGAAGTTAATAACTACTT
103659296 AAGTCCCTAG
64 AAGTCCCTAG
* *
103659306 AAAGTAGTAATATTGCAAATTACGACAAAAAAAAACATACAAATTTGAAGTTAATAACTACTTAG
1 AAAGTAGTAATCTTGCAAATTACGACAAAAAAAAACATACAAATTTGAAGTTAATAACTACTTAA
*
103659371 GTCCCTAC
66 GTCCCTAG
* * * * *
103659379 AATGTAGTAATCCTGCAAA-T-C-AC-AACAGAAACATACACATTTGAAGTTAATAACTACTTAA
1 AAAGTAGTAATCTTGCAAATTACGACAAAAAAAAACATACAAATTTGAAGTTAATAACTACTTAA
103659440 GTCCCTAG
66 GTCCCTAG
103659448 AAAGTAGTAATCTTGCAAA
1 AAAGTAGTAATCTTGCAAA
103659467 GAAACTCGAC
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
69 58 0.40
70 2 0.01
71 1 0.01
72 6 0.04
73 56 0.39
74 22 0.15
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (73 bp):
AAAGTAGTAATCTTGCAAATTACGACAAAAAAAAACATACAAATTTGAAGTTAATAACTACTTAA
GTCCCTAG
Found at i:103660284 original size:22 final size:23
Alignment explanation
Indices: 103660257--103660303 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
103660247 CTTATCTTAT
* *
103660257 TTTAATTAC-TTAAAAAAATTAA
1 TTTAATCACTTTAAAAAAAATAA
103660279 TTTAATCACTTTAAAAAAAATAA
1 TTTAATCACTTTAAAAAAAATAA
103660302 TT
1 TT
103660304 GTATAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAATCACTTTAAAAAAAATAA
Found at i:103672530 original size:78 final size:78
Alignment explanation
Indices: 103672401--103672556 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
103672391 CAAGCTCTTG
103672401 TCTAATTTCTTATTGAGGCAATAGAAATTATATAGTCTTTAACAACAATATTATCAAAACCATTT
1 TCTAATTTCTTATTGAGGCAATAGAAATTATATAGTCTTTAACAACAATATTATCAAAACCATTT
103672466 TTAACCAAAATTA
66 TTAACCAAAATTA
*
103672479 TCTAATTTCTTATTGAGGCAATAGAAATTATATAGTCTTTAACAACAATATTATCGAAACCATTT
1 TCTAATTTCTTATTGAGGCAATAGAAATTATATAGTCTTTAACAACAATATTATCAAAACCATTT
103672544 TTAACCAAAATTA
66 TTAACCAAAATTA
103672557 GTGGGATTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (78 bp):
TCTAATTTCTTATTGAGGCAATAGAAATTATATAGTCTTTAACAACAATATTATCAAAACCATTT
TTAACCAAAATTA
Found at i:103681500 original size:16 final size:16
Alignment explanation
Indices: 103681465--103681494 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103681455 AACAAAAGAG
103681465 TAATTATAAGATGGTA
1 TAATTATAAGATGGTA
103681481 TAATTATAA-ATGGT
1 TAATTATAAGATGGT
103681495 TTTAATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
TAATTATAAGATGGTA
Found at i:103686773 original size:23 final size:24
Alignment explanation
Indices: 103686746--103686824 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 24
103686736 ACTAACATTG
103686746 TTTAA-TTTCTAACAAACATACAA
1 TTTAAGTTTCTAACAAACATACAA
** * **
103686769 TTTAAGTTGATACACTAACAT--TG
1 TTTAAGTTTCTA-ACAAACATACAA
103686792 TTTAA-TTTCTAACAAACATACAA
1 TTTAAGTTTCTAACAAACATACAA
103686815 TTTAAGTTTC
1 TTTAAGTTTC
103686825 ATTAGCACAT
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
21 7 0.17
22 4 0.10
23 15 0.37
24 8 0.20
25 7 0.17
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (24 bp):
TTTAAGTTTCTAACAAACATACAA
Found at i:103686784 original size:46 final size:46
Alignment explanation
Indices: 103686731--103686822 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
103686721 GTGCTGCAAA
103686731 GATACACTAACATTGTTTAATTTCTAACAAACATACAATTTAAGTT
1 GATACACTAACATTGTTTAATTTCTAACAAACATACAATTTAAGTT
103686777 GATACACTAACATTGTTTAATTTCTAACAAACATACAATTTAAGTT
1 GATACACTAACATTGTTTAATTTCTAACAAACATACAATTTAAGTT
103686823 TCATTAGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (46 bp):
GATACACTAACATTGTTTAATTTCTAACAAACATACAATTTAAGTT
Found at i:103686810 original size:21 final size:21
Alignment explanation
Indices: 103686739--103686810 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
103686729 AAGATACACT
103686739 AACATTGTTTAATTTCTAACA
1 AACATTGTTTAATTTCTAACA
** ** *
103686760 AACATACAATTTAAGTTGATACACT
1 AACAT--TGTTTAA-TTTCTA-ACA
103686785 AACATTGTTTAATTTCTAACA
1 AACATTGTTTAATTTCTAACA
103686806 AACAT
1 AACAT
103686811 ACAATTTAAG
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 12 0.32
22 4 0.11
23 10 0.27
24 4 0.11
25 7 0.19
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (21 bp):
AACATTGTTTAATTTCTAACA
Found at i:103700925 original size:20 final size:20
Alignment explanation
Indices: 103700893--103700935 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
103700883 TGATTTTAAA
103700893 TTAATTCTAAAAGAAATATTT
1 TTAATTCTAAAAGAAA-ATTT
103700914 TTAATT-TAAAAGAAAATTT
1 TTAATTCTAAAAGAAAATTT
103700933 TTA
1 TTA
103700936 TTTGTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 9 0.41
21 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAATTCTAAAAGAAAATTT
Found at i:103701855 original size:19 final size:16
Alignment explanation
Indices: 103701831--103701873 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
103701821 ACCCAAGCCC
103701831 AAAAAGAAAAATGATGAAA
1 AAAAAGAAAAA-GA--AAA
*
103701850 AAAAAGAAGAAGAAAA
1 AAAAAGAAAAAGAAAA
103701866 AAAAAGAA
1 AAAAAGAA
103701874 CCCCACGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
18 2 0.09
19 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:103702025 original size:32 final size:32
Alignment explanation
Indices: 103701982--103702050 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
103701972 ATCAAGTTGT
*
103701982 CGCCGTTAACCCCATTCGTCGTCTTACGTCAC
1 CGCCGTCAACCCCATTCGTCGTCTTACGTCAC
*
103702014 CGCCGTCAACCCCTTTCGTCGTCTTACGTCAC
1 CGCCGTCAACCCCATTCGTCGTCTTACGTCAC
103702046 CGCCG
1 CGCCG
103702051 ATAATCGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.13, C:0.43, G:0.17, T:0.26
Consensus pattern (32 bp):
CGCCGTCAACCCCATTCGTCGTCTTACGTCAC
Found at i:103704464 original size:17 final size:18
Alignment explanation
Indices: 103704428--103704470 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
103704418 TCACCCTATT
* *
103704428 TTTTTTTCTATTTTTTCA
1 TTTTTTTCTATCTTTCCA
103704446 TTTTTTTCT-TCTTTCCA
1 TTTTTTTCTATCTTTCCA
*
103704463 TTTATTTC
1 TTTTTTTC
103704471 CCTTAGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTCTATCTTTCCA
Found at i:103707443 original size:13 final size:14
Alignment explanation
Indices: 103707425--103707454 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
103707415 TTATAATTAG
103707425 TTTAAA-TTTGATT
1 TTTAAATTTTGATT
103707438 TTTAAATTTTGATT
1 TTTAAATTTTGATT
103707452 TTT
1 TTT
103707455 CTAGTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTAAATTTTGATT
Found at i:103708896 original size:107 final size:105
Alignment explanation
Indices: 103708707--103708902 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 105
103708697 CATTATAATT
* *
103708707 AATGTCAAGGCACGAAGTAATATTTCCGATAAAAATATTTTTTAATTAATAAATCATAATTTAAA
1 AATGTCAAGGCACGAAGTAATATTCCCGATAAAAATATTTTTTAATTAATAAATAATAATTTAAA
*
103708772 TCAAATCAATCATCAAGATTATAAAATACCCTGGTTTGTC
66 TCAAATAAATCATCAAGATTATAAAATACCCTGGTTTGTC
*
103708812 AATGTCAATGGGCACGAA-TAATATTCCCAGA-AAAATATTTTTTTTATAAATT-ATAAATAATA
1 AATGTCAA--GGCACGAAGTAATATTCCC-GATAAAA-A-TATTTTT-T-AATTAATAAATAATA
*
103708874 ATTTAAAT-AAA-AAATCCTCAAGATTATAA
59 ATTTAAATCAAATAAATCATCAAGATTATAA
103708903 CATATTATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
105 8 0.10
106 13 0.16
107 27 0.34
108 9 0.11
109 18 0.23
110 4 0.05
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (105 bp):
AATGTCAAGGCACGAAGTAATATTCCCGATAAAAATATTTTTTAATTAATAAATAATAATTTAAA
TCAAATAAATCATCAAGATTATAAAATACCCTGGTTTGTC
Found at i:103713907 original size:28 final size:30
Alignment explanation
Indices: 103713829--103713907 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 30
103713819 TATAAGTATG
*
103713829 TGTATATATATATAAAAACACGTATGTACATA
1 TGTATATATATATAAAAA-ACGTA-GTAAATA
103713861 TGTATATATAT-TATAAAAA-GTA-TAAATA
1 TGTATATATATATA-AAAAACGTAGTAAATA
103713889 TGTATATATATATAAAAAA
1 TGTATATATATATAAAAAA
103713908 ATGGGTATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 21 0.48
29 2 0.05
30 3 0.07
31 3 0.07
32 15 0.34
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (30 bp):
TGTATATATATATAAAAAACGTAGTAAATA
Found at i:103713974 original size:30 final size:30
Alignment explanation
Indices: 103713942--103713997 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
103713932 ATATTACATA
*
103713942 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
103713971 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
103713998 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:103714138 original size:18 final size:18
Alignment explanation
Indices: 103714117--103714176 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
103714107 AAAATATGTT
*
103714117 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
103714135 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
103714155 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
103714173 TATA
1 TATA
103714177 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:103715912 original size:87 final size:87
Alignment explanation
Indices: 103715785--103716258 Score: 752
Period size: 87 Copynumber: 5.4 Consensus size: 87
103715775 CTTCCACCTA
* * *
103715785 CTCCACTACAACCGATGAAGGCAAGGCCTT-GTTTTCGATCTGTTTCGCTGTTAACGTAGGAAGG
1 CTCCACTACAACCGATGGAGGCAAGG-CTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
103715849 CAAGATCTGCTATCTTTAACCAA
65 CAAGATCTGCTATCTTTAACCAG
* * * * *
103715872 CTCCGCTGCAACCGATGGAGGTAAGGCTTCGTTTTTGATCTGCTTCACTGTTAACGCAGGAAGGC
1 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
103715937 AAGATCTGCTATCTTTAACCAG
66 AAGATCTGCTATCTTTAACCAG
* *
103715959 CTCCACTACAACCGATGGAGGCAAGGCTTCATTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGC
1 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
103716024 AAGATCTGCTATCTTTAACCAG
66 AAGATCTGCTATCTTTAACCAG
* * * *
103716046 CTCCGCTGCAACCGATGGAGGCAAGGCTTCGTTTCCGATCTGCTTCACTGTTAACGCAGGAAGGC
1 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
103716111 AAGATCTGCTATCTTTAACCAG
66 AAGATCTGCTATCTTTAACCAG
* *
103716133 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGC
1 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * *
103716198 AAAATTTACTATCTTTAACCAG
66 AAGATCTGCTATCTTTAACCAG
103716220 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGAT
1 CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGAT
103716259 ATTCACTGAT
Statistics
Matches: 355, Mismatches: 31, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 3 0.01
87 352 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
CTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
AAGATCTGCTATCTTTAACCAG
Found at i:103717338 original size:21 final size:21
Alignment explanation
Indices: 103717312--103717358 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
103717302 GGTATAGTAG
103717312 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
103717333 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
103717354 GATCA
1 GATCA
103717359 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:103717466 original size:16 final size:16
Alignment explanation
Indices: 103717445--103717478 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
103717435 AGCCTCTCCA
103717445 TTTTTACTTTTTCATT
1 TTTTTACTTTTTCATT
*
103717461 TTTTTATTTTTTCATT
1 TTTTTACTTTTTCATT
103717477 TT
1 TT
103717479 CTTCTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTACTTTTTCATT
Found at i:103717608 original size:9 final size:8
Alignment explanation
Indices: 103717572--103717607 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
103717562 CTATTTTGAC
103717572 TTTGATTTT
1 TTTGA-TTT
103717581 TTTGATTT
1 TTTGATTT
103717589 TTTGATTT
1 TTTGATTT
103717597 TTTGATTT
1 TTTGATTT
103717605 TTT
1 TTT
103717608 TTGAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:103722405 original size:17 final size:18
Alignment explanation
Indices: 103722369--103722411 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
103722359 TCACCCTATT
* *
103722369 TTTTTTTCTATTTTTTCA
1 TTTTTTTCTATCTTTCCA
103722387 TTTTTTTCT-TCTTTCCA
1 TTTTTTTCTATCTTTCCA
*
103722404 TTTATTTC
1 TTTTTTTC
103722412 CCTTAGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTCTATCTTTCCA
Found at i:103725383 original size:13 final size:14
Alignment explanation
Indices: 103725365--103725394 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
103725355 TTATAATTAG
103725365 TTTAAA-TTTGATT
1 TTTAAATTTTGATT
103725378 TTTAAATTTTGATT
1 TTTAAATTTTGATT
103725392 TTT
1 TTT
103725395 CTAGTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTAAATTTTGATT
Found at i:103726836 original size:107 final size:105
Alignment explanation
Indices: 103726647--103726842 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 105
103726637 CATTATAATT
* *
103726647 AATGTCAAGGCACGAAGTAATATTTCCGATAAAAATATTTTTTAATTAATAAATCATAATTTAAA
1 AATGTCAAGGCACGAAGTAATATTCCCGATAAAAATATTTTTTAATTAATAAATAATAATTTAAA
*
103726712 TCAAATCAATCATCAAGATTATAAAATACCCTGGTTTGTC
66 TCAAATAAATCATCAAGATTATAAAATACCCTGGTTTGTC
*
103726752 AATGTCAATGGGCACGAA-TAATATTCCCAGA-AAAATATTTTTTTTATAAATT-ATAAATAATA
1 AATGTCAA--GGCACGAAGTAATATTCCC-GATAAAA-A-TATTTTT-T-AATTAATAAATAATA
*
103726814 ATTTAAAT-AAA-AAATCCTCAAGATTATAA
59 ATTTAAATCAAATAAATCATCAAGATTATAA
103726843 CATATTATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
105 8 0.10
106 13 0.16
107 27 0.34
108 9 0.11
109 18 0.23
110 4 0.05
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (105 bp):
AATGTCAAGGCACGAAGTAATATTCCCGATAAAAATATTTTTTAATTAATAAATAATAATTTAAA
TCAAATAAATCATCAAGATTATAAAATACCCTGGTTTGTC
Found at i:103731811 original size:30 final size:27
Alignment explanation
Indices: 103731775--103731850 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 27
103731765 TATGTGTATA
* *
103731775 TATATATATAAAAACACGTATGTACATATG
1 TATATATATAAAAA-AAGTA--TAAATATG
103731805 TATATATATATTATAAAAAGTATAAATATG
1 TATATATATA--A-AAAAAGTATAAATATG
103731835 TATATATATAAAAAAA
1 TATATATATAAAAAAA
103731851 TGGGTATGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
30 27 0.66
32 5 0.12
33 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (27 bp):
TATATATATAAAAAAAGTATAAATATG
Found at i:103731914 original size:30 final size:30
Alignment explanation
Indices: 103731882--103731937 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
103731872 ATATTACATA
*
103731882 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
103731911 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
103731938 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:103732078 original size:18 final size:18
Alignment explanation
Indices: 103732057--103732116 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
103732047 AAAATATGTT
*
103732057 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
103732075 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
103732095 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
103732113 TATA
1 TATA
103732117 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:103746919 original size:16 final size:16
Alignment explanation
Indices: 103746882--103746923 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
103746872 TTAATCATAT
*
103746882 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
103746898 TT-AAATATATTATAA
1 TTAAAATATATTATAA
103746913 TTAAAATATAT
1 TTAAAATATAT
103746924 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:103746930 original size:14 final size:15
Alignment explanation
Indices: 103746891--103746932 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
103746881 TTTAAACATA
*
103746891 ATTATTATTAAATAT
1 ATTATAATTAAATAT
103746906 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
103746920 A-TATAATTTAATA
1 ATTATAATTAAATA
103746933 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:103746982 original size:61 final size:61
Alignment explanation
Indices: 103746917--103747104 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
103746907 TTATAATTAA
103746917 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
103746978 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
103747037 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
103747098 AATATAT
1 AATATAT
103747105 GACTGTTATT
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:103747029 original size:120 final size:120
Alignment explanation
Indices: 103746885--103747106 Score: 435
Period size: 120 Copynumber: 1.9 Consensus size: 120
103746875 ATCATATTTA
103746885 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
103746950 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
103747005 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
103747070 TATTCTTATATGAATTTACTCAAATCATAATATATGA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGA
103747107 CTGTTATTGC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:103747050 original size:14 final size:15
Alignment explanation
Indices: 103747001--103747052 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
103746991 ATAAAATATA
103747001 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
103747016 TATTAAATATATTAT
1 AATTAAATATATTAT
103747031 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
103747044 AATTTAATA
1 AATTAAATA
103747053 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:103751839 original size:156 final size:156
Alignment explanation
Indices: 103751608--103751931 Score: 450
Period size: 156 Copynumber: 2.1 Consensus size: 156
103751598 ACAAGTTCAA
* * * *
103751608 AAGTTTCATTATAGTCAATTTCTTCCACCTAGTGATTACCAAAAACAACAATAAGAGTTTTAATT
1 AAGTGTCATTATAGTCAATTCCTTCCACCTAGTGATTACCAAAAACAACAAGAAGAGTTTTAAGT
* * * *
103751673 CTCTCCATACTTCCATCAGAGTTATATTTAATCTTGTACACCTATTTACTACCTAGTGCTATCTT
66 CTCTCAATACTTCCATCAGAGTTATATTTAACCTTGTACACCCACTTACTACCTAGTGCTATCTT
*
103751738 TCCAGGAGGAAGTATTTCTATAGACC
131 TCCAGGAGGAAGTATTTCCATAGACC
* * ** *
103751764 AAGTGTCATTATAGTCAGTTCCTTCTACCTAGTGATTATTAAAAACAACAAGATGAGTTTTAAGT
1 AAGTGTCATTATAGTCAATTCCTTCCACCTAGTGATTACCAAAAACAACAAGAAGAGTTTTAAGT
* * * *
103751829 CTCTTAATACTTCCATCGGAGTTATATTTAACCTTGTACACCCACTTACTACCTAGTGTTTTCTT
66 CTCTCAATACTTCCATCAGAGTTATATTTAACCTTGTACACCCACTTACTACCTAGTGCTATCTT
** * *
103751894 TTTATGAGGAAGTGTTTCCATAGACC
131 TCCAGGAGGAAGTATTTCCATAGACC
103751920 AAGTGTCATTAT
1 AAGTGTCATTAT
103751932 CCTCCAGAGC
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
156 146 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (156 bp):
AAGTGTCATTATAGTCAATTCCTTCCACCTAGTGATTACCAAAAACAACAAGAAGAGTTTTAAGT
CTCTCAATACTTCCATCAGAGTTATATTTAACCTTGTACACCCACTTACTACCTAGTGCTATCTT
TCCAGGAGGAAGTATTTCCATAGACC
Found at i:103753987 original size:43 final size:42
Alignment explanation
Indices: 103753926--103754028 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 42
103753916 AATATCTCAT
* *
103753926 AATAATATTCTATAATATCTCATTAGGAATCAAACTGCTAAGA
1 AATAATATCCTATAATATCCCATTAGGAATCAAACTGCTAA-A
*
103753969 AATAATATCCTATAATATCCCATTAGGAATCAAATTGCTAAA
1 AATAATATCCTATAATATCCCATTAGGAATCAAACTGCTAAA
*
103754011 AGATAATATCCCATAATA
1 A-ATAATATCCTATAATA
103754029 ATATCCTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.31
Consensus pattern (42 bp):
AATAATATCCTATAATATCCCATTAGGAATCAAACTGCTAAA
Found at i:103755524 original size:16 final size:15
Alignment explanation
Indices: 103755503--103755535 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
103755493 ATATGTATAA
103755503 AAAATATATAATAATT
1 AAAATATATAA-AATT
103755519 AAAATATATAAAATT
1 AAAATATATAAAATT
103755534 AA
1 AA
103755536 GCTTTAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATATATAAAATT
Found at i:103758632 original size:17 final size:17
Alignment explanation
Indices: 103758610--103758643 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
103758600 ATGGGGTCCT
103758610 GTCCAAAGACATAATTC
1 GTCCAAAGACATAATTC
103758627 GTCCAAAGACATAATTC
1 GTCCAAAGACATAATTC
103758644 ATTATCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (17 bp):
GTCCAAAGACATAATTC
Found at i:103760996 original size:15 final size:15
Alignment explanation
Indices: 103760976--103761029 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
103760966 ATACTACAAA
103760976 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
103760991 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
103761008 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
103761025 ATATT
1 ATATT
103761030 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:103762089 original size:33 final size:33
Alignment explanation
Indices: 103762051--103762119 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
103762041 AACCCTTATC
*
103762051 AAATTAACTATTAA-TTTT-TAAATTTAATGTTAA
1 AAATTAA--ATTAATTTTTGTAAATTTAATATTAA
*
103762084 AAATTAAATTAATTTTTGTAATTTTAATATTAA
1 AAATTAAATTAATTTTTGTAAATTTAATATTAA
103762117 AAA
1 AAA
103762120 CTATTTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.16
32 4 0.12
33 23 0.72
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (33 bp):
AAATTAAATTAATTTTTGTAAATTTAATATTAA
Found at i:103765077 original size:22 final size:22
Alignment explanation
Indices: 103765049--103765094 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
103765039 AACCTACCTC
103765049 CAACTGAATTATATCG-ATTA-AT
1 CAACTG-ATTA-ATCGAATTAGAT
103765071 CAACTGATTAATCGAATTAGAT
1 CAACTGATTAATCGAATTAGAT
103765093 CA
1 CA
103765095 GTTTAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (22 bp):
CAACTGATTAATCGAATTAGAT
Found at i:103777369 original size:21 final size:20
Alignment explanation
Indices: 103777307--103777369 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
103777297 ATTTTCTTTT
*
103777307 TTTTCTTTATTT-TCCATTC
1 TTTTCTTCATTTCTCCATTC
* *
103777326 TCTTC-TC-TTTCTCCATTTG
1 TTTTCTTCATTTCTCCA-TTC
103777345 TTTTCTTCATTTCTCCATCTC
1 TTTTCTTCATTTCTCCAT-TC
103777366 TTTT
1 TTTT
103777370 AACATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.09
18 5 0.15
19 10 0.29
20 3 0.09
21 13 0.38
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTCTTCATTTCTCCATTC
Found at i:103786441 original size:11 final size:9
Alignment explanation
Indices: 103786414--103786469 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 9
103786404 TACTTCATGC
103786414 TAATTTTTA
1 TAATTTTTA
103786423 TAAATTTTTA
1 T-AATTTTTA
103786433 TGAACTTTTTA
1 T-AA-TTTTTA
103786444 TAATTTTT-
1 TAATTTTTA
*
103786452 TGAATTTTAAA
1 T-AATTTT-TA
103786463 TAATTTT
1 TAATTTT
103786470 ATTTTTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.03
9 12 0.30
10 19 0.47
11 8 0.20
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:103786455 original size:19 final size:19
Alignment explanation
Indices: 103786415--103786469 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
103786405 ACTTCATGCT
103786415 AATTTTTATAAATTTTTATG
1 AATTTTTAT-AATTTTTATG
103786435 AACTTTTTATAATTTTT-TG
1 AA-TTTTTATAATTTTTATG
*
103786454 AATTTTAAATAATTTT
1 AATTTT-TATAATTTT
103786470 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 9 0.28
21 7 0.22
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
AATTTTTATAATTTTTATG
Found at i:103786457 original size:9 final size:10
Alignment explanation
Indices: 103786415--103786459 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
103786405 ACTTCATGCT
*
103786415 AATTTTTATA
1 AATTTTTATG
103786425 AATTTTTATG
1 AATTTTTATG
103786435 AACTTTTTAT-
1 AA-TTTTTATG
103786445 AATTTTT-TG
1 AATTTTTATG
103786454 AATTTT
1 AATTTT
103786460 AAATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 1 0.03
9 11 0.34
10 13 0.41
11 7 0.22
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTTATG
Found at i:103787982 original size:20 final size:19
Alignment explanation
Indices: 103787937--103787982 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
103787927 TTTTGGTTGG
103787937 TTAATTATTGAATTAATTA
1 TTAATTATTGAATTAATTA
*
103787956 TTCAATTATTGAGTTAATTA
1 TT-AATTATTGAATTAATTA
103787976 CTTAATT
1 -TTAATT
103787983 TAGTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (19 bp):
TTAATTATTGAATTAATTA
Found at i:103788518 original size:22 final size:22
Alignment explanation
Indices: 103788493--103788536 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
103788483 AAGCATCAAC
*
103788493 TGTTAAATGCATTAAAGCCCAA
1 TGTTAAATGCATTAAAACCCAA
103788515 TGTTAAATGCATTAAAACCCAA
1 TGTTAAATGCATTAAAACCCAA
103788537 CTTCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (22 bp):
TGTTAAATGCATTAAAACCCAA
Found at i:103791327 original size:18 final size:18
Alignment explanation
Indices: 103791306--103791340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103791296 AATCAGTAAT
* *
103791306 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
103791324 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
103791341 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:103791382 original size:45 final size:45
Alignment explanation
Indices: 103791327--103791426 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
103791317 GCAGTAGCAG
* *
103791327 TAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAA
1 TAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACAA
* * * *
103791372 TAGCGGTAACAGTATTCGACACACAAAGTGTTGAATCGGTAACAG
1 TAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACAA
103791417 TAACGGTAAC
1 TAACGGTAAC
103791427 GGTAACAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
TAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACAA
Found at i:103791385 original size:51 final size:49
Alignment explanation
Indices: 103791312--103791436 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 49
103791302 TAATCAGTAA
* *
103791312 CGGTAGCAGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CGGTAACAATAGC-GTAAC-GTAACAGTATTCAACACACAAAGTGCTGAAT
* * *
103791363 CTGTAACAATAGCG----GTAACAGTATTCGACACACAAAGTGTTGAAT
1 CGGTAACAATAGCGTAACGTAACAGTATTCAACACACAAAGTGCTGAAT
* *
103791408 CGGTAACAGTAACGGTAACGGTAACAGTA
1 CGGTAACAATAGC-GTAAC-GTAACAGTA
103791437 GTCGGCACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
45 39 0.65
46 1 0.02
50 1 0.02
51 19 0.32
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.21
Consensus pattern (49 bp):
CGGTAACAATAGCGTAACGTAACAGTATTCAACACACAAAGTGCTGAAT
Found at i:103791824 original size:21 final size:22
Alignment explanation
Indices: 103791797--103791853 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
103791787 ATATATTAAA
103791797 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
103791819 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
103791840 TTATTGTTATTATT
1 TTATTATTATTATT
103791854 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:103792491 original size:23 final size:21
Alignment explanation
Indices: 103792444--103792484 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
103792434 TTTGGTTAAA
103792444 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
103792466 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
103792485 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:103792852 original size:15 final size:15
Alignment explanation
Indices: 103792810--103792860 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
103792800 TGAATTTATC
103792810 AAATTTATATTGATT
1 AAATTTATATTGATT
* * *
103792825 AAAATCATTTTGATT
1 AAATTTATATTGATT
103792840 AAATTTATATTGATT
1 AAATTTATATTGATT
103792855 GAAATT
1 -AAATT
103792861 ATAATATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (15 bp):
AAATTTATATTGATT
Found at i:103795701 original size:5 final size:5
Alignment explanation
Indices: 103795665--103795719 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
103795655 TATTTGTTTG
103795665 TTTTA -TTTA TTTTA TGCTTTA TTTCT- TTTTA TTTTA TTTTA TTTATA
1 TTTTA TTTTA TTTTA T--TTTA TTT-TA TTTTA TTTTA TTTTA TTT-TA
*
103795712 TTATA TTT
1 TTTTA TTT
103795720 AATTAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 5 0.12
5 27 0.64
6 5 0.12
7 5 0.12
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:103796228 original size:20 final size:19
Alignment explanation
Indices: 103796201--103796242 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
103796191 ATATAAAACC
103796201 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
103796220 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
103796240 ATA
1 ATA
103796243 TAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:103796235 original size:12 final size:12
Alignment explanation
Indices: 103796209--103796257 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
103796199 CCATAACAAT
103796209 TAATAATTATAA
1 TAATAATTATAA
103796221 TAATCAATTAT-A
1 TAAT-AATTATAA
*
103796233 TAATATAATATAA
1 TAATA-ATTATAA
103796246 T-ATAA-TATAA
1 TAATAATTATAA
103796256 TA
1 TA
103796258 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 6 0.19
11 2 0.06
12 16 0.50
13 8 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:103796240 original size:5 final size:5
Alignment explanation
Indices: 103796230--103796269 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
103796220 ATAATCAATT
103796230 ATATA ATATA ATATA ATATA ATATA ATAT- ATAT- ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
103796270 TTAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:103796248 original size:15 final size:14
Alignment explanation
Indices: 103796216--103796269 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 14
103796206 AATTAATAAT
103796216 TATAATAATCAAT-TA
1 TATAAT-AT-AATATA
103796231 TATAATATAATATAA
1 TATAATATAATAT-A
103796246 TATAATATAATATA
1 TATAATATAATATA
103796260 TAT-ATATAAT
1 TATAATATAAT
103796270 TTAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.27
14 7 0.19
15 20 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATATAATATA
Found at i:103799895 original size:54 final size:53
Alignment explanation
Indices: 103799808--103799984 Score: 185
Period size: 54 Copynumber: 3.3 Consensus size: 53
103799798 GATGAGGTTT
* * *
103799808 GGGGGAAAGCAAAAGGAAAAAAGTTTTGGGGGGTTTGGGGGAAGTAAAAGTTTT-
1 GGGGGAAAGTAAAAGGAAAAAA-ATTT-AGGGGTTTGGGGGAAGTAAAAGTTTTA
* * * * *
103799862 GGGAGAAAAGTAAAAGGAAAAAAATTTAAGGGGTTTTGAGAAAGTAAATGTTTTA
1 GGG-GGAAAGTAAAAGGAAAAAAATTT-AGGGGTTTGGGGGAAGTAAAAGTTTTA
* * * * *
103799917 AGGGGAAAGTAAAAGGAAAAAAGTTTTGGAGGTTTGGGGGAAGTACAATTTTTA
1 GGGGGAAAGTAAAAGGAAAAAAATTTAGG-GGTTTGGGGGAAGTAAAAGTTTTA
103799971 GGGGGAAAGTAAAA
1 GGGGGAAAGTAAAA
103799985 AGGTTTGAAA
Statistics
Matches: 100, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
53 2 0.02
54 79 0.79
55 19 0.19
ACGTcount: A:0.41, C:0.01, G:0.34, T:0.23
Consensus pattern (53 bp):
GGGGGAAAGTAAAAGGAAAAAAATTTAGGGGTTTGGGGGAAGTAAAAGTTTTA
Found at i:103801375 original size:11 final size:11
Alignment explanation
Indices: 103801343--103801422 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
103801333 TTTAAAAACG
103801343 TACATAATATA
1 TACATAATATA
*
103801354 TAAAT-ATATA
1 TACATAATATA
103801364 TACATAATATA
1 TACATAATATA
*
103801375 TA-AAATATATA
1 TACATA-ATATA
103801386 TACATACATA-A
1 TACATA-ATATA
*
103801397 T--ATAATATT
1 TACATAATATA
*
103801406 TACATAATGTA
1 TACATAATATA
103801417 TACATA
1 TACATA
103801423 TTAGAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 11 0.20
11 32 0.58
12 5 0.09
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (11 bp):
TACATAATATA
Found at i:103801392 original size:26 final size:21
Alignment explanation
Indices: 103801343--103801562 Score: 99
Period size: 22 Copynumber: 10.5 Consensus size: 21
103801333 TTTAAAAACG
103801343 TACATAATATATAAATATATA
1 TACATAATATATAAATATATA
103801364 TACATAATATATAAAATATATA
1 TACATAATATAT-AAATATATA
103801386 TACATACATA-ATATAATAT-T-
1 TACATA-ATATATA-AATATATA
* *
103801406 TACATAATGTATACATAT-TA
1 TACATAATATATAAATATATA
* * *
103801426 GAAATAA-A-A-AGACTAT-TAA
1 TACATAATATATA-AATATAT-A
* *
103801445 TA-ATACTACATAAATATATA
1 TACATAATATATAAATATATA
** *
103801465 CGCATACATAT-TAAAAATATA
1 TACATA-ATATATAAATATATA
*
103801486 TACATATATAATATTAAAAAATGTATA
1 TACATA-AT-ATA-T---AAATATATA
103801513 TACATAATATAT--ATA-A-A
1 TACATAATATATAAATATATA
* * *
103801530 AACATAATATAGTAAAAAAATA
1 TACATAATATA-TAAATATATA
103801552 TACATAATATA
1 TACATAATATA
103801563 AGAATGTTAA
Statistics
Matches: 151, Mismatches: 24, Indels: 47
0.68 0.11 0.21
Matches are distributed among these distances:
17 12 0.08
18 10 0.07
19 12 0.08
20 22 0.15
21 35 0.23
22 37 0.25
23 3 0.02
24 2 0.01
25 3 0.02
26 2 0.01
27 13 0.09
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (21 bp):
TACATAATATATAAATATATA
Found at i:103801504 original size:23 final size:24
Alignment explanation
Indices: 103801467--103801557 Score: 68
Period size: 23 Copynumber: 4.0 Consensus size: 24
103801457 AATATATACG
*
103801467 CATACATATTAAAAATATATACATA
1 CATA-ATATTAAAAAAATATACATA
* * *
103801492 TATAATATT-AAAAAATGTATATA
1 CATAATATTAAAAAAATATACATA
* *
103801515 CATAATA-TATATAAA-A-ACATA
1 CATAATATTAAAAAAATATACATA
*
103801536 -AT-ATAGTAAAAAAATATACATA
1 CATAATATTAAAAAAATATACATA
103801558 ATATAAGAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.06
20 8 0.16
21 5 0.10
22 6 0.12
23 21 0.41
24 5 0.10
25 3 0.06
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (24 bp):
CATAATATTAAAAAAATATACATA
Found at i:103801536 original size:17 final size:17
Alignment explanation
Indices: 103801514--103801563 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
103801504 AAATGTATAT
103801514 ACATAATATATATAAAA
1 ACATAATATATATAAAA
*
103801531 ACATAATATAGTAAAAAA
1 ACATAATATA-TATAAAA
*
103801549 ATATACATA-ATATAA
1 ACATA-ATATATATAA
103801564 GAATGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 14 0.50
18 11 0.39
19 3 0.11
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (17 bp):
ACATAATATATATAAAA
Found at i:103801740 original size:12 final size:12
Alignment explanation
Indices: 103801704--103801743 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
103801694 AATAGTGAAA
*
103801704 ATAATAAATATA
1 ATAATAAATATG
103801716 ATAATAAATATG
1 ATAATAAATATG
103801728 ATAATAGAA-ATG
1 ATAATA-AATATG
103801740 ATAA
1 ATAA
103801744 CTGTCGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 24 0.92
13 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
ATAATAAATATG
Found at i:103803266 original size:56 final size:55
Alignment explanation
Indices: 103803142--103803267 Score: 127
Period size: 56 Copynumber: 2.3 Consensus size: 55
103803132 TATAACGTAG
* *
103803142 AAAATA-ATG-ATAATAATATATGAATTTAAAATATATATATACATACATATACCA
1 AAAATATATGCATAATAATATATGAATTTAAAATATATATATACATA-AGAGACCA
* * *
103803196 AAGACATATTCATAATAATAGTATTGAATATTAAAAGTATATATATA-AT-AGAGA-CA
1 AAAATATATGCATAATAATA-TA-TGAAT-TTAAAA-TATATATATACATAAGAGACCA
103803252 AAAATATATGCATAAT
1 AAAATATATGCATAAT
103803268 GTACTATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
54 4 0.07
55 2 0.03
56 24 0.41
57 5 0.09
58 5 0.09
59 8 0.14
60 10 0.17
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (55 bp):
AAAATATATGCATAATAATATATGAATTTAAAATATATATATACATAAGAGACCA
Found at i:103803400 original size:38 final size:38
Alignment explanation
Indices: 103803332--103803404 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
103803322 TGATATTAAA
* *
103803332 AATATATACATAAAAATATAATAGATATATATATATCT
1 AATATATACATAAAAATATAATAAAAATATATATATCT
* *
103803370 AATATATACAT-AATATAGTATTAAAAATATATATA
1 AATATATACATAAAAATA-TAATAAAAATATATATA
103803405 ATACATACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 5 0.17
38 25 0.83
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (38 bp):
AATATATACATAAAAATATAATAAAAATATATATATCT
Found at i:103805288 original size:3 final size:3
Alignment explanation
Indices: 103805280--103805309 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
103805270 TAGAGTTAAG
103805280 AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
103805310 AAAGAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:103805421 original size:22 final size:22
Alignment explanation
Indices: 103805388--103805440 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
103805378 TGCTAATAAA
*
103805388 TAAT-AAACATAATA-ATGATAG
1 TAATAAAATATAATACAT-ATAG
103805409 TAATAAAATATAATAGCATATAG
1 TAATAAAATATAATA-CATATAG
*
103805432 TATTAAAAT
1 TAATAAAAT
103805441 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 12 0.44
24 2 0.07
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (22 bp):
TAATAAAATATAATACATATAG
Found at i:103812512 original size:33 final size:32
Alignment explanation
Indices: 103812463--103812534 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
103812453 TAAAAAAATT
* *
103812463 AATATTTTTTGGTGTTTAGATAAATTTGTGT-AA
1 AATATTTGTTGGTGTTT-GATAAATTTCT-TAAA
* *
103812496 AATATTTGTTGTTGTTTGATAGATTTCTTAAA
1 AATATTTGTTGGTGTTTGATAAATTTCTTAAA
103812528 AATATTT
1 AATATTT
103812535 TATAAAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 18 0.53
33 15 0.44
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (32 bp):
AATATTTGTTGGTGTTTGATAAATTTCTTAAA
Found at i:103812929 original size:15 final size:15
Alignment explanation
Indices: 103812906--103812943 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
103812896 TTTATACTAC
103812906 AAAATATTTATTATT
1 AAAATATTTATTATT
*
103812921 AATATATTTATTATT
1 AAAATATTTATTATT
103812936 AAAATATT
1 AAAATATT
103812944 AATATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:103816269 original size:6 final size:6
Alignment explanation
Indices: 103816260--103816293 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
103816250 TGAAAAATGA
103816260 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
103816294 ATTTTCCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:103816590 original size:6 final size:6
Alignment explanation
Indices: 103816570--103816619 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
103816560 ACACTTCTTC
*
103816570 TCCCCTT TCCCCT TCCTCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
103816619 T
1 T
103816620 TTGAAATCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:103817903 original size:17 final size:18
Alignment explanation
Indices: 103817870--103817906 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
103817860 TGTTTCCTTT
*
103817870 GAGGTCCATGATAATTGG
1 GAGGTCCAAGATAATTGG
103817888 GAGGTCCAAG-TAATTGG
1 GAGGTCCAAGATAATTGG
103817905 GA
1 GA
103817907 ATTCCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.24
Consensus pattern (18 bp):
GAGGTCCAAGATAATTGG
Done.