Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 326 of 328
Found at i:96632453 original size:20 final size:21
Alignment explanation
Indices: 96632425--96632463 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
96632415 ACTCAACCCC
*
96632425 AAACTCCAAACTCCAAAATCA
1 AAACTCCAAACCCCAAAATCA
96632446 AAAC-CCAAACCCCAAAAT
1 AAACTCCAAACCCCAAAAT
96632464 ACAACATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.36, G:0.00, T:0.10
Consensus pattern (21 bp):
AAACTCCAAACCCCAAAATCA
Found at i:96643247 original size:3 final size:3
Alignment explanation
Indices: 96643239--96643270 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96643229 AATTCTTGTT
96643239 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96643271 TTGAAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:96644088 original size:15 final size:15
Alignment explanation
Indices: 96644068--96644104 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
96644058 TTATTAATTA
96644068 AAATAATAAT-TTTAT
1 AAATAA-AATATTTAT
96644083 AAATAAAATATTTAT
1 AAATAAAATATTTAT
96644098 -AATAAAA
1 AAATAAAA
96644105 AATACCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATAAAATATTTAT
Found at i:96644091 original size:20 final size:21
Alignment explanation
Indices: 96644054--96644092 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
96644044 CTCTAACATG
*
96644054 AATTTTATTAATTAAAATAAT
1 AATTTTATTAAATAAAATAAT
96644075 AATTTTA-TAAATAAAATA
1 AATTTTATTAAATAAAATA
96644093 TTTATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTTATTAAATAAAATAAT
Found at i:96648846 original size:13 final size:13
Alignment explanation
Indices: 96648830--96648856 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96648820 ATTTAAATAA
96648830 AATGTTTAATATT
1 AATGTTTAATATT
96648843 AATGTTTAATATT
1 AATGTTTAATATT
96648856 A
1 A
96648857 TTGTGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AATGTTTAATATT
Found at i:96653640 original size:13 final size:13
Alignment explanation
Indices: 96653622--96653646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96653612 AAATATTAAG
96653622 TGTTTAACCAAAT
1 TGTTTAACCAAAT
96653635 TGTTTAACCAAA
1 TGTTTAACCAAA
96653647 ACGTAAATTT
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTTTAACCAAAT
Found at i:96662757 original size:21 final size:21
Alignment explanation
Indices: 96662731--96662770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96662721 ATGTTCGAAA
* *
96662731 TTTAGTCTTTTTATTTTTATT
1 TTTAGTCTATTTACTTTTATT
96662752 TTTAGTCTATTTACTTTTA
1 TTTAGTCTATTTACTTTTA
96662771 AGATTTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTAGTCTATTTACTTTTATT
Found at i:96678178 original size:11 final size:11
Alignment explanation
Indices: 96678162--96678186 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96678152 ATACTTTTAC
96678162 TTATATTGGTA
1 TTATATTGGTA
96678173 TTATATTGGTA
1 TTATATTGGTA
96678184 TTA
1 TTA
96678187 AAAGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
TTATATTGGTA
Found at i:96678676 original size:2 final size:2
Alignment explanation
Indices: 96678671--96678715 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
96678661 AAATCAGCAC
* *
96678671 AT AT AT TT AT A- AT AT TT AT A- 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 AT AT AT AT AT AT AT
96678711 AT AT A
1 AT AT A
96678716 AACACCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:96678775 original size:13 final size:14
Alignment explanation
Indices: 96678749--96678789 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
96678739 AATATAACCA
96678749 TATTAAATATATTT
1 TATTAAATATATTT
96678763 TATTAAA-ATATTT
1 TATTAAATATATTT
* *
96678776 GATTAAATAAATTT
1 TATTAAATATATTT
96678790 ACTTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTAAATATATTT
Found at i:96679236 original size:117 final size:117
Alignment explanation
Indices: 96679017--96679256 Score: 464
Period size: 116 Copynumber: 2.1 Consensus size: 117
96679007 TTTATTTAAT
96679017 AAAATATGATTAATATACTTTTAGTTAAAATTGAGAGAAGAGGTTATTATAAAAAACTAATTTAG
1 AAAATATGATTAATATACTTTTAGTTAAAATTGAGAGAAGAGGTTATTATAAAAAACTAATTTAG
96679082 TAAAAAAAATTATTTAATTGTTTTTATATATTCAAAGCTGATATAAAGGGTA
66 TAAAAAAAATTATTTAATTGTTTTTATATATTCAAAGCTGATATAAAGGGTA
96679134 AAAATA-GATTAATATACTTTTAGTTAAAATTGAGAGAAGAGGTTATTATAAAAAACTAATTTAG
1 AAAATATGATTAATATACTTTTAGTTAAAATTGAGAGAAGAGGTTATTATAAAAAACTAATTTAG
96679198 TAAAAAAAATTTATTTAATTGTTTTTATATATTCAAAGCTGATATAAAGGGTA
66 TAAAAAAAA-TTATTTAATTGTTTTTATATATTCAAAGCTGATATAAAGGGTA
96679251 AAAATA
1 AAAATA
96679257 AAATATAAAA
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
116 67 0.55
117 55 0.45
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.37
Consensus pattern (117 bp):
AAAATATGATTAATATACTTTTAGTTAAAATTGAGAGAAGAGGTTATTATAAAAAACTAATTTAG
TAAAAAAAATTATTTAATTGTTTTTATATATTCAAAGCTGATATAAAGGGTA
Found at i:96679522 original size:16 final size:16
Alignment explanation
Indices: 96679501--96679533 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
96679491 ATAGAAGTTA
96679501 TGAACAAAGCAGAGAC
1 TGAACAAAGCAGAGAC
96679517 TGAACAAAGCAGAGAC
1 TGAACAAAGCAGAGAC
96679533 T
1 T
96679534 AAATCAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.09
Consensus pattern (16 bp):
TGAACAAAGCAGAGAC
Found at i:96681682 original size:30 final size:30
Alignment explanation
Indices: 96681635--96681719 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
96681625 TATCTTTTGT
*
96681635 ATCGACAATCATCGCATTTTGTCACACACA
1 ATCGACAATCATCGCATTCTGTCACACACA
* **
96681665 ATCGACAA-CTATTGCATTCTGTTGCACACA
1 ATCGACAATC-ATCGCATTCTGTCACACACA
* ** *
96681695 ATCAACAGCCATCGCAATCTGTCAC
1 ATCGACAATCATCGCATTCTGTCAC
96681720 TTCCTATGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.26
Consensus pattern (30 bp):
ATCGACAATCATCGCATTCTGTCACACACA
Found at i:96684179 original size:46 final size:46
Alignment explanation
Indices: 96684129--96684304 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96684119 TGGTTGAGCA
96684129 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96684175 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
96684220 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96684268 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96684305 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96684285 original size:93 final size:93
Alignment explanation
Indices: 96684126--96684297 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96684116 GGATGGTTGA
* *
96684126 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96684191 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
96684219 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96684284 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
96684298 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96691695 original size:46 final size:46
Alignment explanation
Indices: 96691645--96691820 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96691635 TGGTTGAGCA
96691645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96691691 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
96691736 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96691784 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96691821 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96691801 original size:93 final size:93
Alignment explanation
Indices: 96691642--96691813 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96691632 GGATGGTTGA
* *
96691642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96691707 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
96691735 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96691800 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
96691814 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96697300 original size:23 final size:22
Alignment explanation
Indices: 96697251--96697299 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
96697241 TAATGACTTA
*
96697251 GAATTTT--TTTATATTTTTTT
1 GAATTTTCATTTATAATTTTTT
96697271 GAATTTTCATTTATAATTTTTT
1 GAATTTTCATTTATAATTTTTT
96697293 GAATTTT
1 GAATTTT
96697300 TAGAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
22 19 0.73
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (22 bp):
GAATTTTCATTTATAATTTTTT
Found at i:96714712 original size:5 final size:5
Alignment explanation
Indices: 96714702--96714729 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96714692 GCCATGAACA
96714702 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
96714730 GCTTGCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:96715112 original size:19 final size:19
Alignment explanation
Indices: 96715076--96715113 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
96715066 CATGAGGTTG
*
96715076 TTTATAAATTATTTATAAT
1 TTTATAAATTATTAATAAT
96715095 TTTAT-AATTAATTAATAAT
1 TTTATAAATT-ATTAATAAT
96715114 AAATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATAAATTATTAATAAT
Found at i:96717247 original size:15 final size:14
Alignment explanation
Indices: 96717227--96717260 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96717217 AAAAAAAAAG
*
96717227 AAAAACCTACCCCAA
1 AAAAACCTA-ACCAA
96717242 AAAAACCTAACCAA
1 AAAAACCTAACCAA
96717256 AAAAA
1 AAAAA
96717261 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAACCTAACCAA
Found at i:96717260 original size:39 final size:38
Alignment explanation
Indices: 96717188--96717269 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
96717178 GCCCCCCAAA
96717188 AAAAACCTAACCCAAAAAAAAAAACAAAGAAAAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAC-AAGAAAAAAAAAG
* ** *
96717227 AAAAACCTACCCCAAAAAAACCTAACCA-AAAAAAAAAG
1 AAAAACCTAACCCAAAAAAA-AAAACAAGAAAAAAAAAG
96717265 AAAAA
1 AAAAA
96717270 AAAGAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 15 0.39
39 20 0.53
40 3 0.08
ACGTcount: A:0.73, C:0.20, G:0.04, T:0.04
Consensus pattern (38 bp):
AAAAACCTAACCCAAAAAAAAAAACAAGAAAAAAAAAG
Found at i:96717261 original size:15 final size:15
Alignment explanation
Indices: 96717227--96717261 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
96717217 AAAAAAAAAG
* *
96717227 AAAAACCTACCCCAA
1 AAAAACCTAACCAAA
96717242 AAAAACCTAACCAAA
1 AAAAACCTAACCAAA
96717257 AAAAA
1 AAAAA
96717262 AAGAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCAAA
Found at i:96718131 original size:20 final size:19
Alignment explanation
Indices: 96718106--96718151 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
96718096 TATATGCATA
*
96718106 TATATATATATATATGTATTTT
1 TATATACATAT-TAT-TA-TTT
96718128 TATATACATATTATTATTT
1 TATATACATATTATTATTT
96718147 TATAT
1 TATAT
96718152 TATTATTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 3 0.13
22 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATACATATTATTATTT
Found at i:96721272 original size:75 final size:75
Alignment explanation
Indices: 96721153--96721324 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
96721143 CATGGCAAAG
** *
96721153 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
96721212 CCATACTGAGC
65 CCATACCGAGC
96721223 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
96721288 CATACCGAGT
66 CATACCGAGC
***
96721298 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
96721325 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:96721291 original size:35 final size:35
Alignment explanation
Indices: 96721156--96721322 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
96721146 GGCAAAGTGT
* **
96721156 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
96721191 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
96721226 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
96721266 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
96721302 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
96721323 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:96721314 original size:36 final size:35
Alignment explanation
Indices: 96721252--96721322 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
96721242 ATTATCAAAT
* *
96721252 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
96721287 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
96721323 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:96722553 original size:12 final size:12
Alignment explanation
Indices: 96722533--96722568 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
96722523 ATTCATTTAA
96722533 CATTCATGCATT
1 CATTCATGCATT
*
96722545 CATTTATGCATT
1 CATTCATGCATT
*
96722557 CATTCATTCATT
1 CATTCATGCATT
96722569 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:96729781 original size:127 final size:127
Alignment explanation
Indices: 96729430--96729794 Score: 599
Period size: 127 Copynumber: 2.9 Consensus size: 127
96729420 TTTTAAATTG
* ** *
96729430 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTG
* *
96729493 CTAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCA
65 CGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGCTTGTCAAGAATCA
96729556 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
*
96729621 GAGAGGTGAGTTGAGCCTCAGAACATGATGAGGTAATTTCAATTTCTGCTTGTCAAGAATCA
66 GAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGCTTGTCAAGAATCA
96729683 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
* * ** *
96729748 GAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
66 GAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCT
96729795 TTTTCATTAT
Statistics
Matches: 224, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
126 33 0.15
127 191 0.85
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (127 bp):
ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
GAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGCTTGTCAAGAATCA
Found at i:96729891 original size:14 final size:14
Alignment explanation
Indices: 96729872--96729906 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
96729862 CGCCGAGGTA
96729872 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
96729886 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
96729900 CTTTCAA
1 TTTTCAA
96729907 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:96729931 original size:91 final size:90
Alignment explanation
Indices: 96729738--96729975 Score: 306
Period size: 89 Copynumber: 2.7 Consensus size: 90
96729728 TCAAAATCAG
96729738 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCCGAGGTATTTTCAATTTC--TTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCTGTTTTTC
* ** * **
96729800 ATTATTATGTTTTTGAAAGAATCAA
66 AATATTATGTTTTCAAAAAAAAAAA
* *
96729825 CTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCCGAGGTATTTTCAATTTCTGTTTTT
*
96729890 CAAT-TTCTGTCTTTCAAAAAAAAAAA
65 CAATATTATGT-TTTCAAAAAAAAAAA
* * * *
96729916 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACACTGAGGTAATTTCAATTTCTGTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCTGTT
96729976 GTCAAAAAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 31 0.24
89 48 0.37
90 5 0.04
91 47 0.36
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (90 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCTGTTTTTC
AATATTATGTTTTCAAAAAAAAAAA
Found at i:96730011 original size:74 final size:76
Alignment explanation
Indices: 96729887--96730212 Score: 228
Period size: 74 Copynumber: 4.1 Consensus size: 76
96729877 AATTTCTGTT
* * * *
96729887 TTTCAATTTCTGTCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACA
1 TTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGCACA
*
96729951 CACTGAGGTAA
66 CACCGAGGTAA
** * *
96729962 TTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTACGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTACGAGAGGCGAGTTGAGCCTCAGG-CAC
* *
96730026 ACGCCGAGGTAT
65 ACACCGAGGTAA
* * * * *
96730038 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTCAATTTCTGTCTGTCAA------------AAAAAAA--AACTCATATTACGAGAGGCGAGTT
* *
96730103 GAGCCTCAGG-ACACGCTGAGGTAA
52 GAGCCTCAGGCACACACCGAGGTAA
*** * * * *
96730127 TTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTACGAGAGGCGAGTTGAGCCTCAG-GCAC
** *
96730191 ACGTCGAGGTAT
65 ACACCGAGGTAA
96730203 TTTCAATTTC
1 TTTCAATTTC
96730213 CATTTTTCAA
Statistics
Matches: 201, Mismatches: 31, Indels: 37
0.75 0.12 0.14
Matches are distributed among these distances:
74 71 0.35
75 13 0.06
76 48 0.24
77 5 0.02
88 5 0.02
89 29 0.14
91 30 0.15
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (76 bp):
TTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGCACA
CACCGAGGTAA
Found at i:96730013 original size:165 final size:165
Alignment explanation
Indices: 96729819--96730381 Score: 846
Period size: 165 Copynumber: 3.4 Consensus size: 165
96729809 TTTTTGAAAG
*
96729819 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * *
96729884 GTTTTTCAATTTCTGTCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGA
66 ATTTTTCAATTTCTGCCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
96729949 CACACTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* *
96729984 AATCAACTCGTATTACGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * **
96730049 GTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 ATTTTTCAATTTCTGCCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
96730114 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * * *
96730149 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
96730214 ATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 ATTTTTCAATTTCTGCCTTTCAAAAAAAAA--AACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
96730279 GACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
129 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
96730314 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
96730377 ATTTT
66 ATTTT
96730382 CAAAAAATCA
Statistics
Matches: 367, Mismatches: 29, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
163 28 0.08
165 276 0.75
167 63 0.17
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
ATTTTTCAATTTCTGCCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:96730221 original size:330 final size:313
Alignment explanation
Indices: 96729819--96730539 Score: 867
Period size: 330 Copynumber: 2.2 Consensus size: 313
96729809 TTTTTGAAAG
* * *
96729819 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGACGAGGTATTTTCAATTTCT
* * *
96729884 GTTTTTCAATTTCTGTCTTTCAAAAAAAAA-AACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG
66 ATTTTTCAATTTCTGCCTTTCAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* ***
96729948 ACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTACGAGTGGCGAGTTG
131 ACACACTGAGGTAATTTCAATTTCTGTTGTC--AAAAATCAACTCATATTACGAGAAACGAGTTG
*
96730013 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAAT
194 AGCCTCAAG--ACACGCCGAGGTATTTTCAATTT-C-----T--A----T---TTTC-AAAAAAT
* * *
96730078 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA-CGCTGAGGTAATTTCAATTTCTGT-
241 CAACTCATATTGCGAGAGGTGAGTTGACCCT-AGGCACAGCGCTGAGCTAATTTCAATTTCTATC
96730140 TGTCAAAAA
305 TGTCAAAAA
* * *
96730149 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGACGAGGTATTTTCAATTTCT
*
96730214 ATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 ATTTTTCAATTTCTGCCTTTCAAAAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * * *
96730279 GACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
130 GACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTACGAGAAACGAGTTGA
** *
96730344 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTATTTTCAAAAAATCAACTTATATTGCGAGAGG
195 GCCTCAAGACACGCCGAGGTATTTTCAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGG
* * * *
96730409 TGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAATTTCTATCTTTCAAAAA
260 TGAGTTGACCCTAGGCACA-GCGCTGAGCTAATTTCAATTTCTATCTGTCAAAAA
* * *
96730464 AATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCATATCACAC-ACTGAGGTATTTTTTCAATT
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGAC-GAGGTA--TTTTCAATT
*
96730528 TATATTTTTCAA
63 TCTATTTTTCAA
96730540 AAAAATCAAC
Statistics
Matches: 346, Mismatches: 36, Indels: 31
0.84 0.09 0.08
Matches are distributed among these distances:
311 2 0.01
312 38 0.11
313 4 0.01
314 22 0.06
315 54 0.16
316 1 0.00
317 19 0.05
320 1 0.00
322 1 0.00
327 1 0.00
328 21 0.06
330 121 0.35
332 61 0.18
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (313 bp):
AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGACGAGGTATTTTCAATTTCT
ATTTTTCAATTTCTGCCTTTCAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTACGAGAAACGAGTTGAG
CCTCAAGACACGCCGAGGTATTTTCAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGT
GAGTTGACCCTAGGCACAGCGCTGAGCTAATTTCAATTTCTATCTGTCAAAAA
Found at i:96730340 original size:72 final size:73
Alignment explanation
Indices: 96730238--96730602 Score: 392
Period size: 79 Copynumber: 4.8 Consensus size: 73
96730228 GCCTTTCAAA
*
96730238 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
*
96730303 CTGTTTTC
66 CTATTTTC
* ** ** *
96730311 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
96730375 CTATTTTC
66 CTATTTTC
* * * ** *
96730383 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
96730448 TTCTATCTTTC
64 TTCTAT-TTTC
* *** *
96730459 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCATATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGGACACGCTGAGGTA--TTTTC
*
96730524 AATTTATATTTTTC
61 AATTTCTA-TTTTC
* * *
96730538 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
96730602 A
62 A
96730603 AATCTGTTTT
Statistics
Matches: 241, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
72 64 0.27
73 34 0.14
75 22 0.09
76 4 0.02
77 50 0.21
78 1 0.00
79 65 0.27
80 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTATTTTC
Found at i:96730561 original size:79 final size:76
Alignment explanation
Indices: 96730237--96730745 Score: 386
Period size: 72 Copynumber: 6.5 Consensus size: 76
96730227 TGCCTTTCAA
*** *
96730237 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
*
96730301 TTCT-GTTTTC
66 TTCTATTTTTC
* ** * *
96730311 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA-GACACGTTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
96730373 TTCTA-TTTTC
66 TTCTATTTTTC
* * *** ** *
96730383 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAATCACACGCTGAGGTATTTTCAA
*
96730447 TTTCTATCTTTC
65 TTTCTATTTTTC
* *
96730459 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCATATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-ATCACACGCTGAGGTA--TTTTC
*
96730524 AATTTATATTTTTC
63 AATTTCTATTTTTC
* * ** * *
96730538 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AATCACACGCT-GAGGTATTTTCA
** *
96730602 AAATCTGTTTTTC
64 ATTTCTATTTTTC
* *** **
96730615 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAATCACACGCTGA
* * *
96730680 GCTATTTTGAATTTCTGTTTTTTTTTTC
54 GGTATTTTCAATTTC-----TATTTTTC
96730708 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
96730746 TTTTTAATTT
Statistics
Matches: 349, Mismatches: 56, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
72 64 0.18
73 31 0.09
74 1 0.00
75 22 0.06
76 5 0.01
77 60 0.17
78 3 0.01
79 64 0.18
83 34 0.10
88 53 0.15
89 2 0.01
93 10 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
TTCTATTTTTC
Found at i:96730615 original size:14 final size:13
Alignment explanation
Indices: 96730596--96730631 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
96730586 TGTCGAGGTA
96730596 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
96730609 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
96730623 TTTTCAAAA
1 TTTTCAAAA
96730632 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:96730697 original size:88 final size:83
Alignment explanation
Indices: 96730532--96730745 Score: 218
Period size: 88 Copynumber: 2.5 Consensus size: 83
96730522 TCAATTTATA
* * * * *
96730532 TTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTA
1 TTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTA
96730596 TTTTCAAAATCTGTTTTT
66 TTTTCAAAATCTGTTTTT
*** * *
96730614 CAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-C
1 ----TT-T-TTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC
* **
96730677 TGAGCTATTTTGAATTTCTGTTTTT
60 -GAGCTATTTTCAAAATCTGTTTTT
*
96730702 TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
96730746 TTTTTAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
82 2 0.02
83 35 0.33
84 2 0.02
86 2 0.02
87 2 0.02
88 64 0.60
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (83 bp):
TTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTA
TTTTCAAAATCTGTTTTT
Found at i:96730763 original size:30 final size:30
Alignment explanation
Indices: 96730727--96730788 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
96730717 CAACTCATAT
96730727 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
96730757 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
96730787 TG
1 TG
96730789 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:96732311 original size:75 final size:75
Alignment explanation
Indices: 96732192--96732363 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
96732182 CATGGCAAAG
** *
96732192 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
96732251 CCATACTGAGC
65 CCATACCGAGC
96732262 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
96732327 CATACCGAGT
66 CATACCGAGC
***
96732337 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
96732364 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:96732330 original size:35 final size:35
Alignment explanation
Indices: 96732195--96732361 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
96732185 GGCAAAGTGT
* **
96732195 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
96732230 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
96732265 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
96732305 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
96732341 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
96732362 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:96732353 original size:36 final size:35
Alignment explanation
Indices: 96732291--96732361 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
96732281 ATTATCAAAT
* *
96732291 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
96732326 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
96732362 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:96739805 original size:75 final size:75
Alignment explanation
Indices: 96739686--96739856 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
96739676 CATGGCAAAG
** *
96739686 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
96739745 CCATACTGAGC
65 CCATACCGAGC
96739756 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
96739821 CATACCGAGT
66 CATACCGAGC
***
96739831 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
96739857 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:96739824 original size:35 final size:35
Alignment explanation
Indices: 96739689--96739854 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
96739679 GGCAAAGTGT
* **
96739689 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
96739724 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
96739759 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
96739799 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
96739834 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
96739855 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:96741792 original size:16 final size:16
Alignment explanation
Indices: 96741773--96741809 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
96741763 AACCTAACCC
96741773 AAAAAAAAA-AACAAAG
1 AAAAAAAAAGAA-AAAG
96741789 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
96741805 AAAAA
1 AAAAA
96741810 CCTACCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:96741824 original size:16 final size:16
Alignment explanation
Indices: 96741805--96741840 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
96741795 AAAGAAAAAG
96741805 AAAAACCT-ACCCCAA
1 AAAAACCTAACCCCAA
96741820 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
96741836 AAAAA
1 AAAAA
96741841 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:96741883 original size:45 final size:42
Alignment explanation
Indices: 96741760--96741883 Score: 97
Period size: 50 Copynumber: 2.7 Consensus size: 42
96741750 GCCCCCCAAA
96741760 AAAAACCTAACCCAAAAAAAA-AAACAAAGAAAAAAAAAGAAAAAG
1 AAAAACCTAA--CAAAAAAAATAAA-AAA-AAAAAAAAAGAAAAAG
* * *
96741805 AAAAACCTACCCCAAAAAAACCTAACCCCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTA--ACAAAAAAA-ATAA----AAAAAAAAAAAAAG-AAAAAG
96741855 AAAAACCTAACAAAAAAAGATAAAAAAAA
1 AAAAACCTAACAAAAAAA-ATAAAAAAAA
96741884 CCTAGCCACC
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
44 6 0.09
45 17 0.27
47 2 0.03
48 11 0.17
49 9 0.14
50 18 0.28
51 1 0.02
ACGTcount: A:0.73, C:0.17, G:0.06, T:0.04
Consensus pattern (42 bp):
AAAAACCTAACAAAAAAAATAAAAAAAAAAAAAAAGAAAAAG
Found at i:96742721 original size:20 final size:19
Alignment explanation
Indices: 96742696--96742741 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
96742686 TATATGCATA
*
96742696 TATATATATATATATGTATTTT
1 TATATACATAT-TAT-TA-TTT
96742718 TATATACATATTATTATTT
1 TATATACATATTATTATTT
96742737 TATAT
1 TATAT
96742742 TATTATTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 3 0.13
22 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATACATATTATTATTT
Found at i:96754288 original size:49 final size:50
Alignment explanation
Indices: 96754224--96754323 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
96754214 TTATTTTCAA
*
96754224 TACATAAGATAATATTTATTTTAAAACAAA-TCCAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
* * *
96754273 TACATAAGATAATATTTGTTTTGAAGCAAACTCAAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
96754323 T
1 T
96754324 TCATTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 27 0.59
50 19 0.41
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (50 bp):
TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
Found at i:96754520 original size:16 final size:16
Alignment explanation
Indices: 96754501--96754531 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96754491 GTATATTTTT
*
96754501 ATTAATAAATGATAAA
1 ATTAATAAATAATAAA
96754517 ATTAATAAATAATAA
1 ATTAATAAATAATAA
96754532 GTATAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAATAAATAATAAA
Found at i:96757484 original size:28 final size:27
Alignment explanation
Indices: 96757452--96757512 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
96757442 CATTTACTTA
96757452 TATTTTTACTTA-CATCATCATTATTAT
1 TATTTTTA-TTATCATCATCATTATTAT
* * *
96757479 TAATTTGTATTATCATTATTATTATTAT
1 T-ATTTTTATTATCATCATCATTATTAT
96757507 TATTTT
1 TATTTT
96757513 ACCATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (27 bp):
TATTTTTATTATCATCATCATTATTAT
Found at i:96757608 original size:12 final size:12
Alignment explanation
Indices: 96757529--96757724 Score: 58
Period size: 12 Copynumber: 16.2 Consensus size: 12
96757519 ATAACTTAAC
96757529 ATATTATTA-TT
1 ATATTATTATTT
96757540 ATTACTT-TTATTT
1 A-TA-TTATTATTT
*
96757553 TTATTATTA-TT
1 ATATTATTATTT
*
96757564 ACCATTATTA-TT
1 A-TATTATTATTT
96757576 ATTATTATTATTT
1 A-TATTATTATTT
* *
96757589 TTACTATTA-TT
1 ATATTATTATTT
* **
96757600 ATTTATATTCGTT
1 ATAT-TATTATTT
*
96757613 AGTATCATTA-TT
1 A-TATTATTATTT
96757625 A-ATT-TTATCTT
1 ATATTATTAT-TT
*
96757636 -TATT-TTCTTT
1 ATATTATTATTT
96757646 ACTATTATT-TTT
1 A-TATTATTATTT
*
96757658 ATTATCATTATTT
1 A-TATTATTATTT
96757671 AT-TTATTTATTT
1 ATATTA-TTATTT
96757683 AT-TTATTACTATT
1 ATATTATTA-T-TT
* *
96757696 GTTATTATTGTTGT
1 -ATATTATTATT-T
96757710 CATATTATTATTT
1 -ATATTATTATTT
96757723 AT
1 AT
96757725 GTTTTATTAC
Statistics
Matches: 139, Mismatches: 24, Indels: 43
0.67 0.12 0.21
Matches are distributed among these distances:
9 3 0.02
10 4 0.03
11 21 0.15
12 70 0.50
13 22 0.16
14 14 0.10
15 5 0.04
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:96757674 original size:4 final size:4
Alignment explanation
Indices: 96757665--96757689 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
96757655 TTTATTATCA
96757665 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
96757690 ACTATTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:96757721 original size:3 final size:3
Alignment explanation
Indices: 96757471--96757704 Score: 106
Period size: 3 Copynumber: 76.0 Consensus size: 3
96757461 TTACATCATC
* **
96757471 ATT ATT ATT AATT -TGT ATT ATC ATT ATT ATT ATT ATT ATT -TT ACC
1 ATT ATT ATT -ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** *
96757516 ATT ATA ACTT AAC A-T ATT ATT ATT ATT ACTT -TT ATT TTT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
** * *
96757561 ATT ACC ATT ATT ATT ATT ATT ATT ATT TTT ACT ATT ATT ATT -TAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * * *
96757606 ATT CGTT AGT ATC ATT ATT AATT -TT ATCT -TT ATT -TT CTTT ACT ATT
1 ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT -ATT ATT ATT
* * * *
96757652 ATT TTT ATT ATC ATT ATTT ATTT ATTT ATTT ATTT ATT ACT ATT GTT
1 ATT ATT ATT ATT ATT A-TT A-TT A-TT A-TT A-TT ATT ATT ATT ATT
96757699 ATT ATT
1 ATT ATT
96757705 GTTGTCATAT
Statistics
Matches: 175, Mismatches: 38, Indels: 36
0.70 0.15 0.14
Matches are distributed among these distances:
2 12 0.07
3 127 0.73
4 36 0.21
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:96771537 original size:31 final size:31
Alignment explanation
Indices: 96771502--96771561 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
96771492 CTTAATAACC
96771502 TAGTAACTTAAATGAAAACTTTTGAATAATT
1 TAGTAACTTAAATGAAAACTTTTGAATAATT
* *
96771533 TAGTAACTTAAATGAAAATTTTTTAATAA
1 TAGTAACTTAAATGAAAACTTTTGAATAA
96771562 CTTAATGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (31 bp):
TAGTAACTTAAATGAAAACTTTTGAATAATT
Found at i:96771892 original size:2 final size:2
Alignment explanation
Indices: 96771885--96771913 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
96771875 AAGGAATTGG
96771885 GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
96771914 CGAACTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:96772588 original size:6 final size:6
Alignment explanation
Indices: 96772579--96772603 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
96772569 GCTCAGTCGA
96772579 AAGCTC AAGCTC AAGCTC AAGCTC A
1 AAGCTC AAGCTC AAGCTC AAGCTC A
96772604 TGCCCAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGCTC
Found at i:96777756 original size:24 final size:22
Alignment explanation
Indices: 96777725--96777780 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
96777715 CAAGAGAATC
*
96777725 ATAAATAAACA-TATTTATTAGAT
1 ATAAATAAACAGCATTTA-TA-AT
96777748 ATAAAATAATACAGCATTTATAAT
1 AT-AAATAA-ACAGCATTTATAAT
96777772 ATAAATAAA
1 ATAAATAAA
96777781 TGAATTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.03
23 8 0.28
24 10 0.34
25 5 0.17
26 5 0.17
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAATAAACAGCATTTATAAT
Found at i:96778828 original size:18 final size:19
Alignment explanation
Indices: 96778791--96778828 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
96778781 TTTATAATAC
*
96778791 TTTATATTATAATGTTATT
1 TTTATATTATAATGTAATT
*
96778810 TTTATA-TATTATGTAATT
1 TTTATATTATAATGTAATT
96778828 T
1 T
96778829 AGAATACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATATTATAATGTAATT
Found at i:96778909 original size:17 final size:17
Alignment explanation
Indices: 96778881--96778925 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
96778871 TTTAATGTAA
*
96778881 ATTAAA-AAAAATATTG
1 ATTAAATAAAAATATTC
*
96778897 ATTAAATAAAAATTTTC
1 ATTAAATAAAAATATTC
*
96778914 AATAAATAAAAA
1 ATTAAATAAAAA
96778926 ATGTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATTAAATAAAAATATTC
Found at i:96793328 original size:44 final size:45
Alignment explanation
Indices: 96793240--96793328 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
96793230 AGAACAGAAA
*
96793240 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
96793286 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
96793329 ATAATTCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:96793344 original size:44 final size:45
Alignment explanation
Indices: 96793233--96793366 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
96793223 ACAGGACAGA
* * *
96793233 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
96793279 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * * *
96793323 ACAGGAATAATTCATGAAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96793367 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:96796151 original size:17 final size:19
Alignment explanation
Indices: 96796113--96796152 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
96796103 ACATAAACAC
96796113 AAATATGAATAGTAACGAT
1 AAATATGAATAGTAACGAT
*
96796132 AAATATGAA-GGTAA-GAT
1 AAATATGAATAGTAACGAT
96796149 AAAT
1 AAAT
96796153 TAGTCGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.55, C:0.03, G:0.17, T:0.25
Consensus pattern (19 bp):
AAATATGAATAGTAACGAT
Found at i:96796382 original size:23 final size:23
Alignment explanation
Indices: 96796356--96796440 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
96796346 AAAAAAAAAG
96796356 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
96796379 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
96796403 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
96796426 ATAATGATGATAATA
1 AAAAT-ATAATAATA
96796441 GTGGTATTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 28 0.62
24 11 0.24
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:96796428 original size:33 final size:38
Alignment explanation
Indices: 96796386--96796467 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
96796376 GTAAAAACAC
96796386 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
96796419 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
96796458 AATAATAATA
1 AATAGTAATA
96796468 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:96796476 original size:19 final size:18
Alignment explanation
Indices: 96796452--96796493 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
96796442 TGGTATTAGT
*
96796452 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
96796471 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
96796489 AATAA
1 AATAA
96796494 CACTCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:96796748 original size:22 final size:22
Alignment explanation
Indices: 96796717--96796772 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
96796707 TTTGTAGGCA
*
96796717 AGTGGAGTGGTTATGA-TGGTTT
1 AGTGGAGTGGTT-GGAGTGGTTT
*
96796739 AGTGGGGTGGTTGGAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
96796761 AGTGGAGTGGTT
1 AGTGGAGTGGTT
96796773 TAGTGGGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (22 bp):
AGTGGAGTGGTTGGAGTGGTTT
Found at i:96796766 original size:13 final size:13
Alignment explanation
Indices: 96796717--96796785 Score: 64
Period size: 13 Copynumber: 5.9 Consensus size: 13
96796707 TTTGTAGGCA
96796717 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
96796729 A-T-GA-TGGTTT
1 AGTGGAGTGGTTT
*
96796739 AGTGGGGTGG--T
1 AGTGGAGTGGTTT
96796750 --TGGAGTGGTTT
1 AGTGGAGTGGTTT
96796761 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
*
96796774 AGTGGGGTGGTT
1 AGTGGAGTGGTT
96796786 GGAGTGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
9 10 0.22
10 5 0.11
11 4 0.09
12 2 0.04
13 25 0.54
ACGTcount: A:0.13, C:0.00, G:0.49, T:0.38
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:96803641 original size:64 final size:64
Alignment explanation
Indices: 96803516--96803643 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
96803506 GAAATTAGAG
* * * * * * * *
96803516 TACTTAGAATTCAGTTGTTTAATGTTGAGCATTGGTAGTATTAAGGCAATTTGATTGCTTTGAA
1 TACTTAAAATTAAGTAGTTTAATGTTGAGCATTGGTAGTATAAAGGCAAATGGAGTCCTTTGAA
* * *
96803580 TACTTAAAATTAAGTAGTTTAATGTTGTGCATTGGTAGTGTAAAGTCAAATGGAGTCCTTTGAA
1 TACTTAAAATTAAGTAGTTTAATGTTGAGCATTGGTAGTATAAAGGCAAATGGAGTCCTTTGAA
96803644 CTAATTAGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (64 bp):
TACTTAAAATTAAGTAGTTTAATGTTGAGCATTGGTAGTATAAAGGCAAATGGAGTCCTTTGAA
Found at i:96807110 original size:27 final size:27
Alignment explanation
Indices: 96807080--96807136 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
96807070 TTATTCTTGG
* *
96807080 TGCTGCTG-TTATTGCTGACATCTTTGT
1 TGCT-CTGATTATTGCTCACATATTTGT
* *
96807107 TGCTCTGATTGTTGCTCATATATTTGT
1 TGCTCTGATTATTGCTCACATATTTGT
96807134 TGC
1 TGC
96807137 CAGTAGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (27 bp):
TGCTCTGATTATTGCTCACATATTTGT
Found at i:96808552 original size:47 final size:47
Alignment explanation
Indices: 96808498--96808591 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
96808488 AAACTAGTCT
96808498 AGTTTTGAAAATATTTTTGAAATTGGATAATTGTTACACTCGATCTA
1 AGTTTTGAAAATATTTTTGAAATTGGATAATTGTTACACTCGATCTA
96808545 AGTTTTGAAAATATTTTTGAAATTGGATAATTGTTACACTCGATCTA
1 AGTTTTGAAAATATTTTTGAAATTGGATAATTGTTACACTCGATCTA
96808592 TGCATAGCTT
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:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (47 bp):
AGTTTTGAAAATATTTTTGAAATTGGATAATTGTTACACTCGATCTA
Found at i:96811849 original size:18 final size:18
Alignment explanation
Indices: 96811826--96811862 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96811816 ATCATGGATG
*
96811826 ATCAATAAATGCATGACA
1 ATCAATAAAAGCATGACA
*
96811844 ATCAATAAAAGTATGACA
1 ATCAATAAAAGCATGACA
96811862 A
1 A
96811863 GTACGTGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (18 bp):
ATCAATAAAAGCATGACA
Found at i:96824228 original size:29 final size:29
Alignment explanation
Indices: 96824180--96824242 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
96824170 CCAAATTAAA
*
96824180 CACCCTACTAGACCGACCACTAACTCCAT
1 CACCCTACTAAACCGACCACTAACTCCAT
* *
96824209 CACCCTACTAAACC-ATCCACTACCTCTAT
1 CACCCTACTAAACCGA-CCACTAACTCCAT
96824238 CACCC
1 CACCC
96824243 CCACTAACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.19
Consensus pattern (29 bp):
CACCCTACTAAACCGACCACTAACTCCAT
Found at i:96824248 original size:18 final size:18
Alignment explanation
Indices: 96824225--96824260 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96824215 ACTAAACCAT
* *
96824225 CCACTACCTCTATCACCC
1 CCACTAACTCCATCACCC
96824243 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
96824261 TACTTGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.56, G:0.00, T:0.19
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:96824687 original size:64 final size:64
Alignment explanation
Indices: 96824546--96824677 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
96824536 TTTATTTTTG
* *
96824546 TTATTTTACTGTTAAATTAATTAATTTGAGGTTTATTCTCATTATTTTTATAGTTGTTTTTATTA
1 TTATTTT-CTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
* * *
96824611 TTATTTTCTATTAATTTAATTAATTTGA-G-TTATGTTTCA-TATTGTTATA-TTATTTATTTAT
1 TTATTTTCTATTAAATTAATTAATTTGAGGTTTAT-TCTCATTATTGTTATAGTT-GTT-TTTAT
96824672 TA
63 TA
96824674 TTAT
1 TTAT
96824678 ATATTTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 2 0.03
62 15 0.25
63 16 0.27
64 19 0.32
65 7 0.12
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (64 bp):
TTATTTTCTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
Found at i:96824698 original size:17 final size:14
Alignment explanation
Indices: 96824658--96824688 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
96824648 CATATTGTTA
*
96824658 TATTATTTATTTAT
1 TATTATATATTTAT
96824672 TATTATATATTTAT
1 TATTATATATTTAT
96824686 TAT
1 TAT
96824689 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:96826202 original size:44 final size:45
Alignment explanation
Indices: 96826112--96826240 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
96826102 GACAGAACGA
*
96826112 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
96826158 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
96826202 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96826241 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:96830473 original size:46 final size:44
Alignment explanation
Indices: 96830369--96830476 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
96830359 TGTCTTTGAC
** * * *
96830369 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
96830413 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
96830459 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96830477 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:96834890 original size:44 final size:45
Alignment explanation
Indices: 96834800--96834928 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
96834790 GACAGAACGA
*
96834800 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
96834846 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
96834890 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96834929 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:96836634 original size:126 final size:126
Alignment explanation
Indices: 96836409--96836652 Score: 443
Period size: 126 Copynumber: 1.9 Consensus size: 126
96836399 CATTGATCTT
*
96836409 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
96836474 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCA
* *
96836535 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTTGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
96836600 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCAAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTA
96836653 AGGCTAAAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCA
Found at i:96839770 original size:86 final size:85
Alignment explanation
Indices: 96839572--96839731 Score: 230
Period size: 86 Copynumber: 1.9 Consensus size: 85
96839562 AAATATAATT
* * * * *
96839572 TTTAATAAAAATTATTTTAAAGATAAAAGGTAAAATTTATATCAATATAAAATTTTAACACTAAT
1 TTTAAT-AAAGTTATTTTAAAAATAAAAGGTAAAATTGATACCAATATAAAATTTTAACACGAAT
*
96839637 ATTTTATAGCATAATTAATAA
65 ATTTTAAAGCATAATTAATAA
* *
96839658 TTTAATAAAAGTTATTTTAAAAATAAAATGTGAAATTGATACCAATATAAAATTTTAACACGAAT
1 TTTAAT-AAAGTTATTTTAAAAATAAAAGGTAAAATTGATACCAATATAAAATTTTAACACGAAT
96839723 ATTTTAAAG
65 ATTTTAAAG
96839732 TATTTTATAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (85 bp):
TTTAATAAAGTTATTTTAAAAATAAAAGGTAAAATTGATACCAATATAAAATTTTAACACGAATA
TTTTAAAGCATAATTAATAA
Found at i:96839840 original size:36 final size:36
Alignment explanation
Indices: 96839789--96839860 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
96839779 ATGACTAAAC
96839789 AATTCAATAAAATAAATA-ATATAAAATATAAAATTT
1 AATTCAATAAAATAAATAGATATAAAA-ATAAAATTT
* * *
96839825 AATTTAATAATATAAATAGTATATATAAATAAAATT
1 AATTCAATAAAATAAATAG-ATATAAAAATAAAATT
96839861 ATTATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 16 0.52
37 8 0.26
38 7 0.23
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (36 bp):
AATTCAATAAAATAAATAGATATAAAAATAAAATTT
Found at i:96840363 original size:22 final size:23
Alignment explanation
Indices: 96840325--96840371 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
96840315 AAAATATTAT
*
96840325 AATTTAATATTTAAATT-ATTCA
1 AATTTAAAATTTAAATTGATTCA
96840347 AATTTAAAAATTT-AATTGATTCA
1 AATTT-AAAATTTAAATTGATTCA
96840370 AA
1 AA
96840372 CTCAAAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTTAAAATTTAAATTGATTCA
Found at i:96840378 original size:23 final size:23
Alignment explanation
Indices: 96840333--96840378 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96840323 ATAATTTAAT
* *
96840333 ATTTAAATTATTCAAATTTAAAA
1 ATTTAAATTATTCAAACTCAAAA
96840356 ATTT-AATTGATTCAAACTCAAAA
1 ATTTAAATT-ATTCAAACTCAAAA
96840379 CTCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTAAATTATTCAAACTCAAAA
Found at i:96840411 original size:30 final size:31
Alignment explanation
Indices: 96840352--96840423 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 31
96840342 ATTCAAATTT
96840352 AAAAATTT-AATTGATTCAAACTCAAAACTCAA
1 AAAAATTTAAATTGATTCAAACT--AAACTCAA
*
96840384 AAAAATTTAAATTGATTTCAAA-T-AACTCGA
1 AAAAATTTAAATTGA-TTCAAACTAAACTCAA
*
96840414 ATAAATTTAA
1 AAAAATTTAA
96840424 CTCAAAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 15 0.42
32 8 0.22
33 7 0.19
34 6 0.17
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (31 bp):
AAAAATTTAAATTGATTCAAACTAAACTCAA
Found at i:96842676 original size:3 final size:3
Alignment explanation
Indices: 96842668--96842693 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
96842658 AAGGCGTGGC
96842668 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
96842694 TAGATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:96848660 original size:21 final size:21
Alignment explanation
Indices: 96848635--96848683 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
96848625 TAAGAAAATG
96848635 AAAAT-ATATAAAATTATCATA
1 AAAATAAT-TAAAATTATCATA
*
96848656 AAAATAATTAATATTATCATA
1 AAAATAATTAAAATTATCATA
96848677 AAAATAA
1 AAAATAA
96848684 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAAATTATCATA
Found at i:96848688 original size:18 final size:18
Alignment explanation
Indices: 96848642--96848688 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
96848632 ATGAAAATAT
96848642 ATAAA-ATTATCATAAAA
1 ATAAATATTATCATAAAA
96848659 ATAATTAATATTATCATAAAA
1 AT-A--AATATTATCATAAAA
96848680 ATAAATATT
1 ATAAATATT
96848689 TTTAATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
20 3 0.12
21 14 0.54
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAATATTATCATAAAA
Found at i:96848696 original size:25 final size:26
Alignment explanation
Indices: 96848646--96848718 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 26
96848636 AAATATATAA
*
96848646 AATTATCATAAAAAT--A-ATTA-AT
1 AATTATCATAAAAATAAATATTATTT
96848668 -ATTATCATAAAAATAAATATT-TTT
1 AATTATCATAAAAATAAATATTATTT
* * *
96848692 AATTATCATTAAGATAATTATTATTT
1 AATTATCATAAAAATAAATATTATTT
96848718 A
1 A
96848719 TCTTAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 14 0.34
23 1 0.02
24 4 0.10
25 18 0.44
26 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (26 bp):
AATTATCATAAAAATAAATATTATTT
Found at i:96849181 original size:18 final size:19
Alignment explanation
Indices: 96849158--96849196 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
96849148 TATTTAGGGT
96849158 TTGGGTTAGGGAAAT-TGG
1 TTGGGTTAGGGAAATCTGG
*
96849176 TTGGGTTTGGGAAATCTGG
1 TTGGGTTAGGGAAATCTGG
96849195 TT
1 TT
96849197 AAGGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (19 bp):
TTGGGTTAGGGAAATCTGG
Found at i:96851386 original size:17 final size:18
Alignment explanation
Indices: 96851353--96851386 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96851343 TATAATGCAC
96851353 ATAAAAATAAGGTAATAT
1 ATAAAAATAAGGTAATAT
96851371 ATAAAAATAAGG-AATA
1 ATAAAAATAAGGTAATA
96851387 ATAGTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAGGTAATAT
Found at i:96858844 original size:116 final size:116
Alignment explanation
Indices: 96858640--96858872 Score: 457
Period size: 116 Copynumber: 2.0 Consensus size: 116
96858630 TGATGTTTTG
*
96858640 ATACATCAAGACTAAATGTGAATTGCATGTTAAAATATACCTATATGATACTATATGATAACTGA
1 ATACATCAAGACTAAATGTGAATTGCATGTTAAAACATACCTATATGATACTATATGATAACTGA
96858705 TTCAATAAGTAAGATTCACATGCCTAAAGTGATATTCTGCAATAAAGTGAA
66 TTCAATAAGTAAGATTCACATGCCTAAAGTGATATTCTGCAATAAAGTGAA
96858756 ATACATCAAGACTAAATGTGAATTGCATGTTAAAACATACCTATATGATACTATATGATAACTGA
1 ATACATCAAGACTAAATGTGAATTGCATGTTAAAACATACCTATATGATACTATATGATAACTGA
96858821 TTCAATAAGTAAGATTCACATGCCTAAAGTGATATTCTGCAATAAAGTGAA
66 TTCAATAAGTAAGATTCACATGCCTAAAGTGATATTCTGCAATAAAGTGAA
96858872 A
1 A
96858873 ATATGTTCAT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (116 bp):
ATACATCAAGACTAAATGTGAATTGCATGTTAAAACATACCTATATGATACTATATGATAACTGA
TTCAATAAGTAAGATTCACATGCCTAAAGTGATATTCTGCAATAAAGTGAA
Found at i:96859075 original size:43 final size:43
Alignment explanation
Indices: 96858939--96859100 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 43
96858929 GATTTGGCAA
* * * *
96858939 CTTGTCTGTGAATTTGGTGGTTTCGTCCAAAACCTACATGGA-AG
1 CTTGTCTGCGAATTTGGTGGTTT-ATCCACAACCTACA-CGACAG
* * * * *
96858983 CTTGTCTGCGAATTTAGTAGCTTTATCCATAACCTACATGGCAG
1 CTTGTCTGCGAATTTGGT-GGTTTATCCACAACCTACACGACAG
*
96859027 CTTGTCTGTGAATTTGGTGGTTTATCCACAACCTACACGACAG
1 CTTGTCTGCGAATTTGGTGGTTTATCCACAACCTACACGACAG
* * * *
96859070 TTTGTCTACAAATTTGGTGGCTTTGTCCACA
1 CTTGTCTGCGAATTTGGTGG-TTTATCCACA
96859101 TATATATTAG
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 38 0.39
44 55 0.57
45 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
CTTGTCTGCGAATTTGGTGGTTTATCCACAACCTACACGACAG
Found at i:96859983 original size:19 final size:19
Alignment explanation
Indices: 96859961--96860003 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
96859951 CGTGTACTGG
96859961 CACATGAAGTGCATCCTGA
1 CACATGAAGTGCATCCTGA
* *
96859980 CACACGAAGTGCATCCTGG
1 CACATGAAGTGCATCCTGA
96859999 CACAT
1 CACAT
96860004 AAACACATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (19 bp):
CACATGAAGTGCATCCTGA
Found at i:96864365 original size:4 final size:4
Alignment explanation
Indices: 96864356--96864382 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
96864346 TGTTTGCAAA
96864356 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
96864383 GTCCTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:96874539 original size:18 final size:18
Alignment explanation
Indices: 96874490--96874533 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
96874480 TGTTGCTACT
96874490 ATTTTGTTGTTATTGTATA
1 ATTTTGTT-TTATTGTATA
*
96874509 ACTTTGTTTTATTGT-TA
1 ATTTTGTTTTATTGTATA
96874526 ATTTTGTT
1 ATTTTGTT
96874534 ACTATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (18 bp):
ATTTTGTTTTATTGTATA
Found at i:96889037 original size:31 final size:32
Alignment explanation
Indices: 96888999--96889070 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
96888989 ATAACCATTT
*
96888999 TATAATTTTTTTAA-AATTTAATGAT-TAAAA
1 TATAATTTTATTAATAATTTAATGATATAAAA
* *
96889029 TATAAATTTATTAATAATTTAATGATATTAAA
1 TATAATTTTATTAATAATTTAATGATATAAAA
96889061 TATAATTTTA
1 TATAATTTTA
96889071 CCCTCCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 12 0.33
31 11 0.31
32 13 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
TATAATTTTATTAATAATTTAATGATATAAAA
Found at i:96889717 original size:25 final size:25
Alignment explanation
Indices: 96889689--96889736 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
96889679 AATATAAATT
* *
96889689 ATATACACAAACAATTATATTTACC
1 ATATACAAAAACAATTAAATTTACC
* *
96889714 ATATATAAAAATAATTAAATTTA
1 ATATACAAAAACAATTAAATTTA
96889737 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATACAAAAACAATTAAATTTACC
Found at i:96890625 original size:17 final size:18
Alignment explanation
Indices: 96890586--96890629 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
96890576 AGTGATTTAA
* *
96890586 AAAATAAAATATTTATTT
1 AAAATATAATATTTATCT
*
96890604 TAAATATAATA-TTATCT
1 AAAATATAATATTTATCT
96890621 AAAATATAA
1 AAAATATAA
96890630 ATAGAGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATAATATTTATCT
Found at i:96890632 original size:18 final size:19
Alignment explanation
Indices: 96890586--96890632 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
96890576 AGTGATTTAA
*
96890586 AAAATA-AAATATTTATTT
1 AAAATATAAATATTTATCT
*
96890604 TAAATAT-AATA-TTATCT
1 AAAATATAAATATTTATCT
96890621 AAAATATAAATA
1 AAAATATAAATA
96890633 GAGATATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATATAAATATTTATCT
Found at i:96905077 original size:35 final size:35
Alignment explanation
Indices: 96905014--96905082 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
96905004 CTAGTTTTAG
*** *
96905014 TTTTATCCCCAAATCAGTTTCCCAAAATCTCTTAT
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
* *
96905049 TTTTTTCCCCAAATCAAAATCCCCAAATCCCTTA
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTA
96905083 GATTTTCCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.01, T:0.36
Consensus pattern (35 bp):
TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
Found at i:96905157 original size:25 final size:25
Alignment explanation
Indices: 96905098--96905158 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
96905088 TCCCTGAATG
*
96905098 TCTGCTGCATCGCCGTCGACAGTCC
1 TCTGCTGCATCGCCATCGACAGTCC
* * *
96905123 TCTACCGCATCGCCATCGACAGTCT
1 TCTGCTGCATCGCCATCGACAGTCC
*
96905148 TTTGCTGCATC
1 TCTGCTGCATC
96905159 ACCTTGTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.38, G:0.20, T:0.28
Consensus pattern (25 bp):
TCTGCTGCATCGCCATCGACAGTCC
Found at i:96914576 original size:20 final size:18
Alignment explanation
Indices: 96914539--96914577 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
96914529 ATAGAAGCCC
*
96914539 ATATTTTTCCATTATTTT
1 ATATTTTTCCAATATTTT
96914557 ATATTTTTACCACATATTTT
1 ATATTTTT-CCA-ATATTTT
96914577 A
1 A
96914578 CACCTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTTCCAATATTTT
Found at i:96918056 original size:16 final size:16
Alignment explanation
Indices: 96918032--96918099 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
96918022 TGGTTCACTA
*
96918032 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTG
* *
96918048 TAATTGAATAGAGCTA
1 TAATGGAATAGAGCTG
*
96918064 TAATGAAATAGAGCTG
1 TAATGGAATAGAGCTG
96918080 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
96918096 TAAT
1 TAAT
96918100 CAGTAATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:96918138 original size:46 final size:44
Alignment explanation
Indices: 96918081--96918173 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
96918071 ATAGAGCTGT
96918081 AATGGAATAGAGCTGTAATCAGTAATT-TAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAAT-AG-AATTCT--TGTGTTTGGTTGAATGG
96918127 AATGGAATAGAGCTGTAATAGAATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAGAATTCTTGTGTTTGGTTGAATGG
96918171 AAT
1 AAT
96918174 AGATGTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 3 0.07
46 19 0.42
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAGAATTCTTGTGTTTGGTTGAATGG
Found at i:96918298 original size:26 final size:26
Alignment explanation
Indices: 96918268--96918363 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 26
96918258 TTGTTATTAA
96918268 ATTTTAATAAAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
* * **
96918294 ATTTTATTAAAAATAATAAATAATTTAACCAT
1 ATTTTAAT-AAAAT--T--ATTA-TTAAATAT
* *
96918326 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
*
96918352 AATTTAATAAAA
1 ATTTTAATAAAA
96918364 AATACAATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
26 22 0.43
27 8 0.16
29 2 0.04
31 7 0.14
32 12 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTTAATAAAATTATTATTAAATAT
Found at i:96918372 original size:17 final size:17
Alignment explanation
Indices: 96918346--96918378 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
96918336 AATTATTATT
*
96918346 AAATATAATTTAATAAA
1 AAATACAATTTAATAAA
96918363 AAATACAATTTAATAA
1 AAATACAATTTAATAA
96918379 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACAATTTAATAAA
Found at i:96922875 original size:57 final size:59
Alignment explanation
Indices: 96922812--96922933 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
96922802 TCATATTCAT
* *
96922812 TTTTCATTTTCATTTTAAAGAAAACCACATTAATTTCCAAATGA-TTC-CATTTCTCCA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
** * * * *
96922869 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATAATTTCTCATTTCTCTA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
96922928 TTTTCA
1 TTTTCA
96922934 ACCATTTCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 37 0.67
58 3 0.05
59 15 0.27
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (59 bp):
TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
Found at i:96925780 original size:47 final size:47
Alignment explanation
Indices: 96925718--96925843 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
96925708 CTTTACATAA
* * * * *
96925718 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGACATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
96925765 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGACATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
96925812 CGATGACATATCCCAGATATGGTCTTATACAG
1 TGATGACATATCCCAGATATGGTCTTACACAG
96925844 AAATCACTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGACATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:96925859 original size:7 final size:7
Alignment explanation
Indices: 96925847--96925875 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
96925837 TATACAGAAA
96925847 TCACTTG
1 TCACTTG
96925854 TCACTTG
1 TCACTTG
96925861 TCACTTG
1 TCACTTG
96925868 TCACTTG
1 TCACTTG
96925875 T
1 T
96925876 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:96925909 original size:31 final size:31
Alignment explanation
Indices: 96925874--96926082 Score: 301
Period size: 31 Copynumber: 6.7 Consensus size: 31
96925864 CTTGTCACTT
* *
96925874 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
96925905 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
96925936 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
96925967 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
96925998 GTAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
96926029 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
96926060 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
96926083 GTTGTCATTT
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:96926156 original size:50 final size:51
Alignment explanation
Indices: 96926060--96926188 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
96926050 CACTGATCAG
* * * *
96926060 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
96926111 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTG-CCATTGATCAGATAAGT
96926161 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
96926189 TTCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
Found at i:96929084 original size:34 final size:34
Alignment explanation
Indices: 96929046--96929113 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
96929036 TCTGTCTTCA
96929046 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
*
96929080 CCAACCATGTGTATTGCTTTAGTTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
96929114 ATTGACCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (34 bp):
CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
Found at i:96931670 original size:22 final size:19
Alignment explanation
Indices: 96931638--96931681 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
96931628 TTCAAATATT
96931638 ATAATAAAACATTTTCAAATC
1 ATAATAAAACATTTT-AAA-C
96931659 ATAATTAAAACATTTTAAAC
1 ATAA-TAAAACATTTTAAAC
96931679 ATA
1 ATA
96931682 TTCAACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 11 0.50
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATAAAACATTTTAAAC
Found at i:96933462 original size:10 final size:9
Alignment explanation
Indices: 96933438--96933463 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
96933428 ACAAGGTTGA
96933438 TTAAAAATT
1 TTAAAAATT
96933447 TTAAAAATT
1 TTAAAAATT
96933456 TTAAAAAT
1 TTAAAAAT
96933464 AAATAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TTAAAAATT
Found at i:96942064 original size:2 final size:2
Alignment explanation
Indices: 96942057--96942086 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
96942047 GTTGCTTCAT
96942057 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96942087 AAACTTATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96944622 original size:8 final size:8
Alignment explanation
Indices: 96944605--96944660 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
96944595 AACAAACTGA
96944605 AGGG-TTT
1 AGGGTTTT
96944612 AGGGTTTT
1 AGGGTTTT
*
96944620 A-GGATTT
1 AGGGTTTT
*
96944627 AAGG-TTT
1 AGGGTTTT
96944634 AGGGTTTT
1 AGGGTTTT
*
96944642 AGAGTTTT
1 AGGGTTTT
*
96944650 AGAGTTTT
1 AGGGTTTT
96944658 AGG
1 AGG
96944661 CTTTCTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 16 0.38
8 26 0.62
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (8 bp):
AGGGTTTT
Found at i:96944651 original size:358 final size:358
Alignment explanation
Indices: 96943971--96944687 Score: 1258
Period size: 358 Copynumber: 2.0 Consensus size: 358
96943961 AAATAAGCAT
*
96943971 TCTACTAGTTCGAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
1 TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
*
96944036 AAACTTACTATAGCCATGGCTAATGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
66 AAACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
96944101 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
131 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
*
96944166 AAAATGAAAATAGTGGAAATAGTAAGAATGGTGGTAATGAGAAACCACATAATGGGAAGTGGAAG
196 AAAATGAAAATAGTGGAAATAGTAAGAATGGTGGTAATGAGAAACCACATAATGGAAAGTGGAAG
* * *
96944231 TCTAACAACAAATTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAGGGTTTAGGGTTTTAGAG
261 TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTAAGAATTTAGGGTTTAGAGTTTTAGAG
96944296 TTTTAGGCTTTCTTTATGACAATTCGCGTATAA
326 TTTTAGGCTTTCTTTATGACAATTCGCGTATAA
* * * *
96944329 TCTACTATTTCAAAGATGGGTTGAAGTTTTGGGCAAAATAGGAGTTGCGTCGACAAGGTATCATT
1 TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
*
96944394 AAACTTACTATAGCTATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
66 AAACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
96944459 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
131 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
* * *
96944524 AAAATGGAAATAGTGGAAATCGTAAGAATGGTGGTAATGAGAAATCACATAATGGAAAGTGGAAG
196 AAAATGAAAATAGTGGAAATAGTAAGAATGGTGGTAATGAGAAACCACATAATGGAAAGTGGAAG
* *
96944589 TCTAACAACAAACTGAAGGGTTTAGGGTTTT-AGGATTTAAG-GTTTAGGGTTTTAGAGTTTTAG
261 TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAG-TTTAAGAATTTAGGG-TTTAGAGTTTTAG
96944652 AGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
324 AGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
96944687 T
1 T
96944688 AAGGAACTGT
Statistics
Matches: 341, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
357 9 0.03
358 332 0.97
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (358 bp):
TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
AAACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
AAAATGAAAATAGTGGAAATAGTAAGAATGGTGGTAATGAGAAACCACATAATGGAAAGTGGAAG
TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTAAGAATTTAGGGTTTAGAGTTTTAGAG
TTTTAGGCTTTCTTTATGACAATTCGCGTATAA
Found at i:96945982 original size:50 final size:50
Alignment explanation
Indices: 96945923--96946018 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
96945913 AATATGCTAG
* *
96945923 ATAGACTTTTCAAATAACTTGCCACAAAGGCTTTCCAGATTATACGTCAC
1 ATAGACTTTTCAAATAACTTGCCACAAAGACTTTCCAGATAATACGTCAC
* * * * * *
96945973 ATAGGCTTTTTACATAATTTGTCACAATGACTTTCCAGATAATACG
1 ATAGACTTTTCAAATAACTTGCCACAAAGACTTTCCAGATAATACG
96946019 CCATAATGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (50 bp):
ATAGACTTTTCAAATAACTTGCCACAAAGACTTTCCAGATAATACGTCAC
Found at i:96946030 original size:75 final size:75
Alignment explanation
Indices: 96945951--96946096 Score: 166
Period size: 75 Copynumber: 1.9 Consensus size: 75
96945941 TTGCCACAAA
* * * * * * * * *
96945951 GGCTTTCCAGATTATACGTCACATAGGCTTTTTACATAATTTGTCACAATGACTTTCCAGATAAT
1 GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
96946016 ACGCCATAAT
66 ACGCCATAAT
* * * *
96946026 GGCTTTTAAGATAATATGCCACATAGGATTTTCAAATAACTTGACACAAAGGCTTTCTAGATAAT
1 GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
*
96946091 ATGCCA
66 ACGCCA
96946097 CATAAACCTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (75 bp):
GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
ACGCCATAAT
Done.