Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 57 of 427
Found at i:13939755 original size:20 final size:21
Alignment explanation
Indices: 13939730--13939776 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13939720 CTTTTTCTTT
*
13939730 TTTTTTCATTGAATTATT-AA
1 TTTTTTCATTGAATAATTAAA
* *
13939750 TTTTTTTATTTAATAATTAAA
1 TTTTTTCATTGAATAATTAAA
13939771 TTTTTT
1 TTTTTT
13939777 GAAATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTTCATTGAATAATTAAA
Found at i:13946092 original size:22 final size:22
Alignment explanation
Indices: 13946066--13946113 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
13946056 TCAAAAATTG
13946066 TAAAGTATATTTAAAAAGAAAT
1 TAAAGTATATTTAAAAAGAAAT
13946088 TAAAGTATATTTAAAAAGAAAT
1 TAAAGTATATTTAAAAAGAAAT
13946110 TAAA
1 TAAA
13946114 ATCATCCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
TAAAGTATATTTAAAAAGAAAT
Found at i:13950647 original size:22 final size:20
Alignment explanation
Indices: 13950603--13950658 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
13950593 GTTATATTTT
13950603 TGTTATTTTTTTTATTAGCA
1 TGTTATTTTTTTTATTAGCA
* *
13950623 TGTTATTTTTATTATTTTAGTA
1 TGTTATTTTT-TT-TATTAGCA
13950645 TGTATATTTTTTTT
1 TGT-TATTTTTTTT
13950659 TATGTTGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.32
21 3 0.10
22 11 0.35
23 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.70
Consensus pattern (20 bp):
TGTTATTTTTTTTATTAGCA
Found at i:13953465 original size:47 final size:47
Alignment explanation
Indices: 13953356--13953466 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
13953346 CCGGGATAAG
*
13953356 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
13953403 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
13953450 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
13953467 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:13960718 original size:47 final size:47
Alignment explanation
Indices: 13960609--13960719 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
13960599 CCGGGATAAG
*
13960609 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
13960656 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
13960703 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
13960720 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:13962217 original size:6 final size:6
Alignment explanation
Indices: 13962202--13962253 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
13962192 TGGAGCATAT
* * * *
13962202 GAGCTA GAGCTC GAGCTA GAGCTC GAGCTA GAGGTCA -AGCTA GAGCCA
1 GAGCTA GAGCTA GAGCTA GAGCTA GAGCTA GAGCT-A GAGCTA GAGCTA
13962250 GAGC
1 GAGC
13962254 CCGGATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.35, T:0.13
Consensus pattern (6 bp):
GAGCTA
Found at i:13962219 original size:12 final size:12
Alignment explanation
Indices: 13962202--13962247 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
13962192 TGGAGCATAT
13962202 GAGCTAGAGCTC
1 GAGCTAGAGCTC
13962214 GAGCTAGAGCTC
1 GAGCTAGAGCTC
*
13962226 GAGCTAGAGGTC
1 GAGCTAGAGCTC
*
13962238 AAGCTAGAGC
1 GAGCTAGAGC
13962248 CAGAGCCCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.35, T:0.15
Consensus pattern (12 bp):
GAGCTAGAGCTC
Found at i:13965119 original size:39 final size:39
Alignment explanation
Indices: 13965063--13965257 Score: 338
Period size: 39 Copynumber: 5.0 Consensus size: 39
13965053 CAAGACACTA
13965063 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
13965102 GGAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
13965141 GAAATGTATCCGGGCTAAAGT-CTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
13965179 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
13965218 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
13965257 G
1 G
13965258 TAATATAATT
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 37 0.25
39 112 0.75
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:13965191 original size:77 final size:78
Alignment explanation
Indices: 13965063--13965257 Score: 338
Period size: 77 Copynumber: 2.5 Consensus size: 78
13965053 CAAGACACTA
*
13965063 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGGAATGTATCCGGGCTAAAGTCCCGC
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGC
13965128 AGGCTTCGTGCTG
66 AGGCTTCGTGCTG
* *
13965141 GAAATGTATCCGGGCTAAAGT-CTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCTGC
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGC
13965205 AGGCTTCGTGCTG
66 AGGCTTCGTGCTG
* *
13965218 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTGG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
13965258 TAATATAATT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 73 0.66
78 37 0.34
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (78 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGC
AGGCTTCGTGCTG
Found at i:13976092 original size:2 final size:2
Alignment explanation
Indices: 13976085--13976117 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13976075 AAGGAAAGCC
13976085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13976118 TTCTGGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13986962 original size:7 final size:7
Alignment explanation
Indices: 13986952--13986990 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
13986942 TTAGACTAAG
13986952 GATTCAA
1 GATTCAA
13986959 GATTCAA
1 GATTCAA
13986966 GATTCAA
1 GATTCAA
13986973 GATTCAA
1 GATTCAA
*
13986980 GGTTCAA
1 GATTCAA
13986987 GATT
1 GATT
13986991 TAAGTCCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (7 bp):
GATTCAA
Found at i:13997690 original size:14 final size:16
Alignment explanation
Indices: 13997660--13997691 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
13997650 TCTGGACATG
13997660 ATAAATAAATATTAAA
1 ATAAATAAATATTAAA
13997676 ATAAA-AAAT-TTAAA
1 ATAAATAAATATTAAA
13997690 AT
1 AT
13997692 TTTAAAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATAAATATTAAA
Found at i:14011759 original size:2 final size:2
Alignment explanation
Indices: 14011752--14011793 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14011742 TTGTTAAGCT
14011752 TA TA TA TA TA TA 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 TA TA TA TA TA TA
14011794 AAGTTCAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14015475 original size:41 final size:41
Alignment explanation
Indices: 14015411--14015495 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
14015401 AAAAAAAAAT
* *
14015411 AGTTCAGATCCTTTTGTTCTAGTTGTGTTGGTTGAAGGGAA
1 AGTTCAAATCCTTTTATTCTAGTTGTGTTGGTTGAAGGGAA
*
14015452 AGTTCAAATCCTTTTATTTTAGTTGTGTTGGTTGAAGGGAA
1 AGTTCAAATCCTTTTATTCTAGTTGTGTTGGTTGAAGGGAA
14015493 AGT
1 AGT
14015496 GGTTGCCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (41 bp):
AGTTCAAATCCTTTTATTCTAGTTGTGTTGGTTGAAGGGAA
Found at i:14016683 original size:9 final size:9
Alignment explanation
Indices: 14016665--14016719 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
14016655 TATAGTTTGA
*
14016665 TATTCAAAT
1 TATTCGAAT
14016674 TATTCGAAT
1 TATTCGAAT
*
14016683 TATTCGAGT
1 TATTCGAAT
14016692 TATTCGAAT
1 TATTCGAAT
*
14016701 TATTCGAGT
1 TATTCGAAT
*
14016710 CATTCGAAT
1 TATTCGAAT
14016719 T
1 T
14016720 CAAAAACTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14016694 original size:18 final size:18
Alignment explanation
Indices: 14016673--14016719 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
14016663 GATATTCAAA
14016673 TTATTCGAATTATTCGAG
1 TTATTCGAATTATTCGAG
14016691 TTATTCGAATTATTCGAG
1 TTATTCGAATTATTCGAG
*
14016709 TCATTCGAATT
1 TTATTCGAATT
14016720 CAAAAACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (18 bp):
TTATTCGAATTATTCGAG
Found at i:14020238 original size:25 final size:25
Alignment explanation
Indices: 14020206--14020260 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
14020196 GGAATTGAAG
*
14020206 CATGGGTATTCTTGGAGGAGCAGCA
1 CATGGGTATTCTTAGAGGAGCAGCA
14020231 CATGGGTATTCTTAGAGGAGCAGCA
1 CATGGGTATTCTTAGAGGAGCAGCA
14020256 CATGG
1 CATGG
14020261 TTATGCTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (25 bp):
CATGGGTATTCTTAGAGGAGCAGCA
Found at i:14021993 original size:22 final size:22
Alignment explanation
Indices: 14021960--14022003 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14021950 TGTATGTATG
* *
14021960 TATTTGTATTTAGTCTTTTAAT
1 TATTTGTATTTAATATTTTAAT
14021982 TATTT-TATTTTAATATTTTAAT
1 TATTTGTA-TTTAATATTTTAAT
14022004 GCTATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTTGTATTTAATATTTTAAT
Found at i:14022036 original size:3 final size:3
Alignment explanation
Indices: 14022028--14022093 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
14022018 TATATATCAA
14022028 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14022076 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
14022094 CATCATCATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14022327 original size:24 final size:24
Alignment explanation
Indices: 14022300--14022378 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 24
14022290 CATATGTGTA
14022300 TATATTATGTAAATGTTTTAATAT
1 TATATTATGTAAATGTTTTAATAT
* *
14022324 TATATTA--TATATGTTTTTCATA-
1 TATATTATGTAAATG-TTTTAATAT
* *
14022346 TATGTTATGTAAATAATTTTTTAATAT
1 TATATTATGT--A-AATGTTTTAATAT
14022373 TATATT
1 TATATT
14022379 TTATATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
22 11 0.27
23 7 0.17
24 8 0.20
26 8 0.20
27 7 0.17
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (24 bp):
TATATTATGTAAATGTTTTAATAT
Found at i:14022400 original size:23 final size:24
Alignment explanation
Indices: 14022373--14022447 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 24
14022363 TTTTTAATAT
14022373 TATATTTTATATA-TATTAGTATA
1 TATATTTTATATACTATTAGTATA
*
14022396 TATATTTTA-ATATTATTAGT-TA
1 TATATTTTATATACTATTAGTATA
* *
14022418 TATATTTTTTATACTATTA-TATG
1 TATATTTTATATACTATTAGTATA
14022441 TATATTT
1 TATATTT
14022448 CTAATATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 14 0.30
23 32 0.70
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (24 bp):
TATATTTTATATACTATTAGTATA
Found at i:14022410 original size:20 final size:21
Alignment explanation
Indices: 14022373--14022499 Score: 82
Period size: 21 Copynumber: 5.8 Consensus size: 21
14022363 TTTTTAATAT
*
14022373 TATAT-TTTATATATATTAGTA
1 TATATATTTCTATATATTA-TA
14022394 TATATATTT-TA-ATATTATTA
1 TATATATTTCTATATATTA-TA
*
14022414 GTTATATATTTTTTATACTATTATA
1 --TATATA-TTTCTATA-TATTATA
*
14022439 TGTATATTTCTA-ATATTATA
1 TATATATTTCTATATATTATA
* *
14022459 TTGTATATTTCTAATACTATTATT
1 -TATATATTTCT-ATA-TATTATA
* *
14022483 TATATATATATATATAT
1 TATATATTTCTATATAT
14022500 ATGTGTGTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
20 15 0.17
21 22 0.25
22 18 0.20
23 17 0.19
24 8 0.09
25 3 0.03
26 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TATATATTTCTATATATTATA
Found at i:14024044 original size:19 final size:20
Alignment explanation
Indices: 14024020--14024064 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
14024010 AATTTATAAA
14024020 TATTTTTAA-TTTTAAAAAT
1 TATTTTTAATTTTTAAAAAT
*
14024039 TATTTTTAATTTTTGAAAAT
1 TATTTTTAATTTTTAAAAAT
14024059 TATTTT
1 TATTTT
14024065 GTTTTTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTAATTTTTAAAAAT
Found at i:14029318 original size:30 final size:31
Alignment explanation
Indices: 14029284--14029351 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
14029274 TATTATATAT
*
14029284 ATACATATAATATAGTTATTAAGAA-A-ATAC-
1 ATACATAT-ATATA-ATATTAAGAATATATACA
14029314 ATACA-ATATATAATATTAAGAATATATACA
1 ATACATATATATAATATTAAGAATATATACA
14029344 ATACATAT
1 ATACATAT
14029352 GGTATTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 9 0.27
28 6 0.18
29 6 0.18
30 10 0.30
31 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (31 bp):
ATACATATATATAATATTAAGAATATATACA
Found at i:14029351 original size:27 final size:26
Alignment explanation
Indices: 14029280--14029366 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
14029270 TACATATTAT
*
14029280 ATATATACATATAATATAGTTATTAAGAAA
1 ATATATACA-ATAATATA-ATATTAAG--A
*
14029310 ATACATACAAT-ATATAATATTAAGA
1 ATATATACAATAATATAATATTAAGA
** *
14029335 ATATATACAATACATATGGTATTAAAA
1 ATATATACAATA-ATATAATATTAAGA
14029362 ATATA
1 ATATA
14029367 GTATTGTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 11 0.22
27 23 0.47
28 5 0.10
29 2 0.04
30 8 0.16
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (26 bp):
ATATATACAATAATATAATATTAAGA
Found at i:14029473 original size:18 final size:17
Alignment explanation
Indices: 14029433--14029475 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
14029423 CTAACAATAG
*
14029433 TAATAGTAAAATACTAA
1 TAATAATAAAATACTAA
*
14029450 TAAATAATAAATATAGTAA
1 T-AATAATAAA-ATACTAA
14029469 TAATAAT
1 TAATAAT
14029476 CTTTTTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
TAATAATAAAATACTAA
Found at i:14029828 original size:3 final size:3
Alignment explanation
Indices: 14029820--14029871 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14029810 ATAACAACCC
14029820 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14029868 ATA A
1 ATA A
14029872 GATAAATAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14031811 original size:87 final size:86
Alignment explanation
Indices: 14031627--14032012 Score: 372
Period size: 87 Copynumber: 4.4 Consensus size: 86
14031617 TGTGATCCTG
** * * *
14031627 AGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT-AAAAACAGAAATT
1 AGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATA-A-ATTGAAAAACAGAAATT
* * *
14031690 GAAAATAGCTCAGCACGTGAGCC-A
63 GAAAATACCTCAGC-TGTGACCCGA
* * * * **
14031714 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAACTTAATTTGAAAAGCAGATTTTGA
1 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTGA
14031779 AAATACCTC-GACATGTGACCCGA
65 AAATACCTCAG-C-TGTGACCCGA
* * * *
14031802 AGCTCAACTCACCTCTCGCAATATGAATTGATTTTTAAAAAAATAAATTGAAAAAAAGAAATTGA
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAACATAAATTGAAAAACAGAAATTGA
*
14031867 AAATACCTCAGC-GTG--TCGTA
65 AAATACCTCAGCTGTGACCCG-A
** **
14031887 AGGCTCAACTCACCTCTTACAATATGAGTTGATTTTTGAAAAGCGGAAATTGAAAAACAGAAATT
1 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CATAAATTGAAAAACAGAAATT
* *
14031952 GAAAACACCTCAGCGTGAGACCCGA
63 GAAAATACCTCAGC-TGTGACCCGA
*
14031977 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
14032013 TTGAAAAACA
Statistics
Matches: 246, Mismatches: 38, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
84 2 0.01
85 2 0.01
86 41 0.17
87 102 0.41
88 60 0.24
89 36 0.15
90 1 0.00
91 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (86 bp):
AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTGAA
AATACCTCAGCTGTGACCCGA
Found at i:14031857 original size:14 final size:14
Alignment explanation
Indices: 14031838--14031869 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14031828 ATTGATTTTT
*
14031838 AAAAAAATAAATTG
1 AAAAAAAGAAATTG
14031852 AAAAAAAGAAATTG
1 AAAAAAAGAAATTG
14031866 AAAA
1 AAAA
14031870 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (14 bp):
AAAAAAAGAAATTG
Found at i:14031941 original size:14 final size:14
Alignment explanation
Indices: 14031922--14031956 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14031912 GAGTTGATTT
* *
14031922 TTGAAAAGCGGAAA
1 TTGAAAAACAGAAA
14031936 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
14031950 TTGAAAA
1 TTGAAAA
14031957 CACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14031942 original size:175 final size:171
Alignment explanation
Indices: 14031627--14032095 Score: 494
Period size: 175 Copynumber: 2.7 Consensus size: 171
14031617 TGTGATCCTG
** * *
14031627 AGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACATT-AAAAACAGAAATTG
1 AGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTAAAA--ATA-ATTGAAAAACAGAAATTG
* * * *
14031691 AAAATAGCTCAGCACGTG-AGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-AA
62 AAAATACCTCAG--CGTGTCG-TAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
** * * ** * *
14031754 ACTTAATTTGAAAAGCAGATTTTGAAAATACCTC-GACATGTGACCCGA
124 ACGGAAATTGAAAAACAGAAATTGAAAACACCTCAG-CATGAGACCCGA
*
14031802 AGCTCAACTCACCTCTCGCAATATGAATTGATTTTTAAAAAAATAAATTGAAAAAAAGAAATTGA
1 AGCTCAACTCACCTCTCGCAATATGAATTGATTTTT--AAAAAT-AATTGAAAAACAGAAATTGA
**
14031867 AAATACCTCAGCGTGTCGTAAGGCTCAACTCACCTCTTACAATATGAGTTGATTTTTGAAAAGCG
63 AAATACCTCAGCGTGTCGTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CG
*
14031932 GAAATTGAAAAACAGAAATTGAAAACACCTCAGCGTGAGACCCGA
127 GAAATTGAAAAACAGAAATTGAAAACACCTCAGCATGAGACCCGA
* * *
14031977 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-----T--TTGAAAAACAGGAATTGAAAA
1 AGCTCAACTCACCTCTCGCAATATGAATTGATTTTTAAAAATAATTGAAAAACAGAAATTGAAAA
* * *
14032034 TACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAC
66 TACCTCAGCGTGT--CGTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
14032096 AAAAATAAAA
Statistics
Matches: 255, Mismatches: 29, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
164 32 0.13
165 1 0.00
166 41 0.16
167 1 0.00
173 40 0.16
174 16 0.06
175 119 0.47
176 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (171 bp):
AGCTCAACTCACCTCTCGCAATATGAATTGATTTTTAAAAATAATTGAAAAACAGAAATTGAAAA
TACCTCAGCGTGTCGTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACGGAAA
TTGAAAAACAGAAATTGAAAACACCTCAGCATGAGACCCGA
Found at i:14032063 original size:77 final size:77
Alignment explanation
Indices: 14031936--14032089 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
14031926 AAAGCGGAAA
14031936 TTGAAAAACAGAAATTGAAAACACCTCAGCGTGAGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCAGCGTGAGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
14032001 GAGTTGATTTTT
66 GAGTCGATTTTT
* * * *
14032013 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCAGCGTGAGACCCGAGGCTCAACTCACCTCTCGCAATAT
14032078 GAGTCGATTTTT
66 GAGTCGATTTTT
14032090 GAAAACAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (77 bp):
TTGAAAAACAGAAATTGAAAACACCTCAGCGTGAGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTTT
Found at i:14032965 original size:44 final size:44
Alignment explanation
Indices: 14032882--14033005 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 44
14032872 TCATTAGAAT
* * *
14032882 GCCCTTTT-AGGTTTTCATC-CTAATC-TTTTGTGTTAATCAAGAC
1 GCCCTTTTCAGGTTTTCA-CATTGATCATTTT-TGTTTATCAAGAC
*
14032925 GTCCTTTTC-GAGTTTTCACATTGATCATTTTTGTTTATCAAGAC
1 GCCCTTTTCAG-GTTTTCACATTGATCATTTTTGTTTATCAAGAC
* * *
14032969 GCCCTTTTCAGGTTTTCACCTTGATCTTTTTTTTTTA
1 GCCCTTTTCAGGTTTTCACATTGATCATTTTTGTTTA
14033006 GGCATAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
43 9 0.13
44 54 0.79
45 5 0.07
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (44 bp):
GCCCTTTTCAGGTTTTCACATTGATCATTTTTGTTTATCAAGAC
Found at i:14044036 original size:15 final size:16
Alignment explanation
Indices: 14044001--14044038 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14043991 AAAAGTTAAG
*
14044001 AATATATGAAACAAAT
1 AATATATAAAACAAAT
*
14044017 AATATATAAAAC-ATT
1 AATATATAAAACAAAT
14044032 AATATAT
1 AATATAT
14044039 GCGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
AATATATAAAACAAAT
Found at i:14044669 original size:30 final size:31
Alignment explanation
Indices: 14044635--14044702 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
14044625 TATTATATAT
*
14044635 ATACATATAATATAGTTATTAAGAA-A-ATAC-
1 ATACATAT-ATATA-ATATTAAGAATATATACA
14044665 ATACA-ATATATAATATTAAGAATATATACA
1 ATACATATATATAATATTAAGAATATATACA
14044695 ATACATAT
1 ATACATAT
14044703 GGTATTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 9 0.27
28 6 0.18
29 6 0.18
30 10 0.30
31 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (31 bp):
ATACATATATATAATATTAAGAATATATACA
Found at i:14044798 original size:14 final size:15
Alignment explanation
Indices: 14044769--14044802 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
14044759 TTTTTAAAAA
14044769 TAATACTAACAATAG
1 TAATACTAACAATAG
*
14044784 TAATAGTAA-AATAG
1 TAATACTAACAATAG
14044798 TAATA
1 TAATA
14044803 AATAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (15 bp):
TAATACTAACAATAG
Found at i:14045443 original size:3 final size:3
Alignment explanation
Indices: 14045435--14045531 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
14045425 ATAACAACCC
14045435 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14045483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14045531 A
1 A
14045532 GATAAATAAC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14046692 original size:27 final size:27
Alignment explanation
Indices: 14046662--14046721 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
14046652 AAATTACTGC
*
14046662 AATACCCCTA-TAGGATAGAATTACCAA
1 AATACCCCTAGTAGG-TAAAATTACCAA
* **
14046689 AATACCCTTAGTTTGTAAAATTACCAA
1 AATACCCCTAGTAGGTAAAATTACCAA
14046716 AATACC
1 AATACC
14046722 ACTGATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (27 bp):
AATACCCCTAGTAGGTAAAATTACCAA
Found at i:14046730 original size:27 final size:26
Alignment explanation
Indices: 14046680--14046887 Score: 141
Period size: 27 Copynumber: 7.7 Consensus size: 26
14046670 TATAGGATAG
*
14046680 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTGA-TTTGTAA
*
14046707 AATTACCAAAATACCACTGATTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
** *
14046734 AATTACTGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-GATTTGTAA
**
14046761 AATTACCAAAATACTCCTGATTTACAA
1 AATTACCAAAATAC-CCTGATTTGTAA
*
14046788 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCC-TGA-TTTGT-AA
* * * *
14046817 AATTA-TAGAAATACCATTGGTTTATAA
1 AATTACCA-AAATACC-CTGATTTGTAA
** * *
14046844 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCC-TGATTTGTAA
* *
14046871 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
14046888 TGTAAGATGA
Statistics
Matches: 146, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
26 7 0.05
27 107 0.73
28 14 0.10
29 18 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Found at i:14046781 original size:54 final size:54
Alignment explanation
Indices: 14046680--14046860 Score: 170
Period size: 54 Copynumber: 3.3 Consensus size: 54
14046670 TATAGGATAG
* * ***
14046680 AATTACCA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGATTTGTGA
1 AATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
14046734 AATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACTC-CTGATTTACAA
1 AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATAC-CACTGATTTACAA
* * * * * * *
14046788 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTATAA
1 AATTACAGAAATACCC-TCAATTTGT-AAAATTACCA-AAATACCACTGATTTACAA
*
14046844 AATTACTGAAATACCCT
1 AATTACAGAAATACCCT
14046861 TGGTTTGTAG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
53 1 0.01
54 59 0.56
55 10 0.09
56 36 0.34
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (54 bp):
AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:14046790 original size:81 final size:81
Alignment explanation
Indices: 14046647--14046802 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
14046637 TTACCTTCGA
* * * * **
14046647 TTGTGAAATTACTGCAATACCCCTATAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTA
1 TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCTGAGTTTACAAAATTA
14046712 CCA-AAATACCACTGAT
66 -CAGAAATACCACTGAT
**
14046728 TTGTGAAATTACTGAAATACCCTCAATTTG-TAAAATTACCAAAATACTCCTGA-TTTACAAAAT
1 TTGTGAAATTACTGAAATACCC-CAATAGGATAAAATTACCAAAATAC-CCTGAGTTTACAAAAT
14046791 TACAGAAATACC
64 TACAGAAATACC
14046803 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 2 0.03
81 54 0.84
82 8 0.12
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCTGAGTTTACAAAATTA
CAGAAATACCACTGAT
Found at i:14046950 original size:27 final size:28
Alignment explanation
Indices: 14046907--14046984 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
14046897 AAATGACTAA
*
14046907 AATACCCCTAATA-GGTAAAAAT-ACCGT
1 AATACCCCT-GTAGGGTAAAAATGACCGT
*
14046934 AA-AGCCCCTGTAGGGT-AAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAATGACCGT
*
14046961 AATACCCCTGTATGGT-AAAATGAC
1 AATACCCCTGTAGGGTAAAAATGAC
14046985 GAATATGCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 7 0.16
27 35 0.81
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (28 bp):
AATACCCCTGTAGGGTAAAAATGACCGT
Found at i:14047865 original size:24 final size:24
Alignment explanation
Indices: 14047794--14047876 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
14047784 AGGAAGTGCT
* *
14047794 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
14047818 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
14047843 AAAATGGGCTTTGCCCTAG-TTATT
1 AAAA-GGGCTTTGCCCCAGTTTATC
14047867 AAAAGAGGCT
1 AAAAG-GGCT
14047877 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 1 0.02
24 16 0.31
25 35 0.67
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:14048132 original size:31 final size:31
Alignment explanation
Indices: 14048083--14048165 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
14048073 CGCTTACAGT
14048083 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
14048113 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
14048144 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
14048166 TCGAGAGTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:14048228 original size:28 final size:27
Alignment explanation
Indices: 14048179--14048231 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
14048169 AGAGTGAATT
*
14048179 AGGGCTAGGCCATACTGCTACTGTTTA
1 AGGGCTAGGCCAGACTGCTACTGTTTA
14048206 AGGGCTAAGGCCCAGACTG-TACTGTT
1 AGGGCT-AGG-CCAGACTGCTACTGTT
14048232 ACTGAATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 10 0.43
29 7 0.30
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (27 bp):
AGGGCTAGGCCAGACTGCTACTGTTTA
Found at i:14049288 original size:11 final size:11
Alignment explanation
Indices: 14049272--14049318 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
14049262 AAGAAAAAAA
14049272 AAGAGGGAGAG
1 AAGAGGGAGAG
*
14049283 AAGAGGAAGAG
1 AAGAGGGAGAG
14049294 AAGAGGGAGAGG
1 AAGAGGGAGA-G
*
14049306 GAGAGGGAAGAG
1 AAGAGGG-AGAG
14049318 A
1 A
14049319 TTCTGGCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 19 0.63
12 8 0.27
13 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (11 bp):
AAGAGGGAGAG
Found at i:14049297 original size:22 final size:24
Alignment explanation
Indices: 14049272--14049318 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
14049262 AAGAAAAAAA
14049272 AAGAGGGAGA-GAAGA-GGAAGAG
1 AAGAGGGAGAGGAAGAGGGAAGAG
*
14049294 AAGAGGGAGAGGGAGAGGGAAGAG
1 AAGAGGGAGAGGAAGAGGGAAGAG
14049318 A
1 A
14049319 TTCTGGCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 4 0.18
24 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (24 bp):
AAGAGGGAGAGGAAGAGGGAAGAG
Found at i:14051309 original size:43 final size:43
Alignment explanation
Indices: 14051242--14051355 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
14051232 AGCTCGTACA
* * * ** * *
14051242 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCTCATATCG
1 ATGCCAATAGCCCAGATATGATCTTACACGAAATCACATAACG
*
14051284 ATGCCAATAGCCCAGCTATGATCTTACACGAAATCACATAACG
1 ATGCCAATAGCCCAGATATGATCTTACACGAAATCACATAACG
* *
14051327 ATGCCAAT-GTCCCAGACATGGTCTTACAC
1 ATGCCAATAG-CCCAGATATGATCTTACAC
14051356 ATAATTAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.10
43 53 0.90
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATAGCCCAGATATGATCTTACACGAAATCACATAACG
Found at i:14052871 original size:35 final size:35
Alignment explanation
Indices: 14052821--14053143 Score: 326
Period size: 35 Copynumber: 9.3 Consensus size: 35
14052811 CATTGAAATG
* *
14052821 CCATACCTACGTTTCACAACTCAGTATGGAAAACA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* ** * *
14052856 CCATACCTACTTTTCA-TGCTCGGTATGGAAAATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
** * * * *
14052890 CCATACCTATATTTCATAATTCAGTATGGACAATG
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* * * ** *
14052925 CCATACCTACGTATCATAGCTCAGTATGGACGACA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* * *
14052960 CCATACCTACGTTTCATAGCTCGGTATGGA-AATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* ** *
14052994 CCATACCTACGTTTAACAGTTCAGTATGGTTAATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* * *
14053029 CCATACCTATGTTTCACAACTCGGTATGGTTAATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* * *
14053064 CTATACCTACGTTTCACAACTCAGTATAGATGATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
* *
14053099 CCATACCTACGTTTCACAACTCGGTATGGATGATA
1 CCATACCTACGTTTCACAACTCAGTATGGATAATA
14053134 CCATACCTAC
1 CCATACCTAC
14053144 ATTTTACACT
Statistics
Matches: 242, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
34 55 0.23
35 187 0.77
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (35 bp):
CCATACCTACGTTTCACAACTCAGTATGGATAATA
Found at i:14053017 original size:104 final size:104
Alignment explanation
Indices: 14052817--14053143 Score: 350
Period size: 104 Copynumber: 3.1 Consensus size: 104
14052807 TCCTCATTGA
*
14052817 AATGCCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACTTTTCAT-GCTCGGTA
1 AATGCCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACGTTTCATAGCTCGGTA
** * *
14052881 TGGAAAATACCATACCTATATTTCATAATTCAGTATGGAC
66 TGG-AAATACCATACCTACGTTTAACAATTCAGTATGGAC
* * * **
14052921 AATGCCATACCTACGTATCATAGCTCAGTATGGACGACACCATACCTACGTTTCATAGCTCGGTA
1 AATGCCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACGTTTCATAGCTCGGTA
* **
14052986 TGGAAATACCATACCTACGTTTAACAGTTCAGTATGGTT
66 TGGAAATACCATACCTACGTTTAACAATTCAGTATGGAC
* * * ** * * * * *
14053025 AATACCATACCTATGTTTCACAACTCGGTATGGTTAATACTATACCTACGTTTCACAACTCAGTA
1 AATGCCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACGTTTCATAGCTCGGTA
* * * * * *
14053090 TAGATGATACCATACCTACGTTTCACAACTCGGTATGGAT
66 TGGA-AATACCATACCTACGTTTAACAATTCAGTATGGAC
* *
14053130 GATACCATACCTAC
1 AATGCCATACCTAC
14053144 ATTTTACACT
Statistics
Matches: 185, Mismatches: 36, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
104 133 0.72
105 52 0.28
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (104 bp):
AATGCCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACGTTTCATAGCTCGGTA
TGGAAATACCATACCTACGTTTAACAATTCAGTATGGAC
Found at i:14053071 original size:139 final size:138
Alignment explanation
Indices: 14052821--14053143 Score: 387
Period size: 139 Copynumber: 2.3 Consensus size: 138
14052811 CATTGAAATG
* * * *
14052821 CCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACTTTTCATGCTCGGTATGGAA
1 CCATACCTACGTTTCACAACTCGGTATGG-AAATACCATACCTACTTTACATGCTCAGTATGGAA
* * * * *
14052886 AATACCATACCTATATTTCATAATTCAGTATGGACAATGCCATACCTACGTATCATAGCTCAGTA
65 AATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAGTA
*
14052951 TGGACGACA
130 TAGACGACA
* * * *
14052960 CCATACCTACGTTTCATAGCTCGGTATGGAAATACCATACCTACGTTTAACA-GTTCAGTATGGT
1 CCATACCTACGTTTCACAACTCGGTATGGAAATACCATACCTAC-TTT-ACATGCTCAGTATGGA
* * * ** * *
14053024 TAATACCATACCTATGTTTCACAACTCGGTATGGTTAATACTATACCTACGTTTCACAACTCAGT
64 AAATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAGT
* *
14053089 ATAGATGATA
129 ATAGACGACA
*
14053099 CCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTAC
1 CCATACCTACGTTTCACAACTCGGTATGGA-AATACCATACCTAC
14053144 ATTTTACACT
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
138 14 0.09
139 126 0.81
140 15 0.10
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (138 bp):
CCATACCTACGTTTCACAACTCGGTATGGAAATACCATACCTACTTTACATGCTCAGTATGGAAA
ATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAGTAT
AGACGACA
Found at i:14053453 original size:35 final size:35
Alignment explanation
Indices: 14053414--14053486 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
14053404 AACATTATAT
*
14053414 CATTTCTAATTCAACACTTATTGATTATAATCTGG
1 CATTTCTAATTCAACACTTATTGATTATAATCGGG
14053449 CATTTCTAATTCAACACTTATTGATTATAATCGGG
1 CATTTCTAATTCAACACTTATTGATTATAATCGGG
14053484 CAT
1 CAT
14053487 GTGATTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (35 bp):
CATTTCTAATTCAACACTTATTGATTATAATCGGG
Found at i:14055307 original size:24 final size:23
Alignment explanation
Indices: 14055263--14055311 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14055253 TATAATTTAA
*
14055263 AACATAATAATAATGATATAATAT
1 AACATAATAATAATAATATAA-AT
14055287 AACATAATAATAA-AATAATAAAT
1 AACATAATAATAATAAT-ATAAAT
14055310 AA
1 AA
14055312 AAAGGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AACATAATAATAATAATATAAAT
Found at i:14056910 original size:13 final size:13
Alignment explanation
Indices: 14056892--14056940 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
14056882 AGATCTACCT
14056892 ACGGCCTGGCCCC
1 ACGGCCTGGCCCC
14056905 ACGGCCATGGGAACCCC
1 ACGGCC-T-GG--CCCC
*
14056922 ACGGCCTGGCCAC
1 ACGGCCTGGCCCC
14056935 ACGGCC
1 ACGGCC
14056941 ATGTCCTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 15 0.48
14 1 0.03
15 4 0.13
16 1 0.03
17 10 0.32
ACGTcount: A:0.16, C:0.47, G:0.31, T:0.06
Consensus pattern (13 bp):
ACGGCCTGGCCCC
Found at i:14062442 original size:23 final size:23
Alignment explanation
Indices: 14062389--14062442 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
14062379 GACGAAACAG
*
14062389 AATAGGGAAAGAAAGAAAGGAAA
1 AATAGGGTAAGAAAGAAAGGAAA
14062412 AATAGGGTAAGAAAGAAAGGAAA
1 AATAGGGTAAGAAAGAAAGGAAA
14062435 AATAGGGT
1 AATAGGGT
14062443 TTTAAGGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.09
Consensus pattern (23 bp):
AATAGGGTAAGAAAGAAAGGAAA
Found at i:14066234 original size:758 final size:758
Alignment explanation
Indices: 14064779--14067043 Score: 4503
Period size: 758 Copynumber: 3.0 Consensus size: 758
14064769 GACAAGGAGA
14064779 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
1 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
14064844 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
66 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
14064909 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
131 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
14064974 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
196 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
14065039 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
261 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
14065104 TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
326 TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
14065169 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
391 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
14065234 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
456 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
14065299 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
521 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
14065364 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
586 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
14065429 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
651 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
14065494 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCGAAAAATGGG
716 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCGAAAAATGGG
14065537 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
1 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
14065602 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
66 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
14065667 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
131 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
14065732 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
196 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
14065797 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
261 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
14065862 TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
326 TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
14065927 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
391 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
14065992 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
456 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
*
14066057 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAATTAGACTAA
521 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
14066122 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
586 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
14066187 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
651 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
14066252 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCGAAAAATGGG
716 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCGAAAAATGGG
14066295 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
1 AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
14066360 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
66 GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
14066425 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
131 CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
14066490 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
196 CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
14066555 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
261 GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
*
14066620 TTTTATCAGGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
326 TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
14066685 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
391 GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
14066750 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
456 AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
14066815 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
521 ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
*
14066880 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAATC
586 CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
14066945 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
651 TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
14067010 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCG
716 ATGAATTTTGTGAGACAAGGTTAGAATGAATTCG
14067044 GGTTCCCCTG
Statistics
Matches: 1503, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
758 1503 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (758 bp):
AACAAGGGCAAAATGGGAAATTTTGCAAATTAAACATATAAAACAAGACAAATTTGAAAAATCTA
GAGATATCATCATTTTTCTTCAGCAAAAACGCCATGGGAGGTCTGAAAGCTGCTGGTTTTTCATA
CTTTGACATATGTGAGTTCAATTCTTACCCTTTTCTTTGAGATTTTTATGTTTTTGTGACTTTTA
CAATTAGGTCCAAGTGTTTAATTCATTAGTTTTTTATTTTATGAACAAAATTAAAAGATATCAAT
GATAAGTTTTGGCTGTTTATGATGAAATAAAATGAATTTGAAGCTTTGATTTTGTTGTTTGATGA
TTTTATCAAGTAATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAAGTTGTGAATTAAG
GTTTAGTGTTAAAATGATGATTTTCAAAGGTTGTGTAATAGTTTATAATGATGGAATAAAATGTT
AATTGAGAAAAATTAGCTTAATAGATGGGCTAATTGAGCAAGGACTGAATTATATGACCTTTGAA
ATTTAGAGGAAAATGGTAATAAACATCTTGAACTAAAACAATATTGGACAGCAGAAGTAGACTAA
CTTTGAAAAATCACCATAAATTTTATAAATCGAATTAGAAGATGAATAAAATATAAAATTAAAGC
TTATTGAGTCTAGTTTTTCATAGAAGAAACGGTGTAAGCAATGGATTTGTAAATTATGAGATATA
ATGAATTTTGTGAGACAAGGTTAGAATGAATTCGAAAAATGGG
Found at i:14068953 original size:21 final size:21
Alignment explanation
Indices: 14068905--14069012 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
14068895 GGCTATACTG
* *
14068905 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
14068926 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTGTGTGTCGT
*
14068949 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
14068970 TTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
14068991 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
14069011 AT
1 AT
14069013 ACTGATCAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
20 11 0.14
21 48 0.62
23 19 0.24
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:14069209 original size:19 final size:18
Alignment explanation
Indices: 14069167--14069209 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
14069157 CTATTGAAAG
14069167 TGTGAAAAAAAATGGAAT
1 TGTGAAAAAAAATGGAAT
* *
14069185 TATGAAAAGAAATGTGAAT
1 TGTGAAAAAAAATG-GAAT
14069204 TGTGAA
1 TGTGAA
14069210 TTGAAATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (18 bp):
TGTGAAAAAAAATGGAAT
Found at i:14070144 original size:46 final size:46
Alignment explanation
Indices: 14070094--14070280 Score: 133
Period size: 46 Copynumber: 3.8 Consensus size: 46
14070084 TGGTTGGACC
14070094 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * ** * * * *
14070140 ATGGCATCAGAGATATGTGACTACGTGCTTCCATATAAGACCATATCTAGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* *
14070193 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
*** * *
14070239 ATGGCTATGGTGTGTGATATGTGACTATGTGCAAGACCATAG
1 ATGGC-AT-CAATGTGATATGTGA-TCTGTGTAAGACCATAG
14070281 TTTTACTATG
Statistics
Matches: 107, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
46 29 0.27
47 7 0.07
48 18 0.17
49 14 0.13
50 2 0.02
51 6 0.06
52 5 0.05
53 26 0.24
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:14075192 original size:27 final size:27
Alignment explanation
Indices: 14075114--14075214 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
14075104 TATTTAGTGC
* * *
14075114 TTAAAAAGTATATGTTATATTTTTATAA
1 TTAAAAA-TATGTATTACATTTTTATAA
*
14075142 TTAAAAAAATTTATTTATTACATTTTTATAA
1 TT--AAAAA--TATGTATTACATTTTTATAA
* *
14075173 TTAAAAATGTGTATTGCATTTTTATAA
1 TTAAAAATATGTATTACATTTTTATAA
*
14075200 TTAAATATATGTATT
1 TTAAAAATATGTATT
14075215 TAAAAAATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 30 0.49
28 2 0.03
29 5 0.08
30 5 0.08
31 19 0.31
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (27 bp):
TTAAAAATATGTATTACATTTTTATAA
Found at i:14075782 original size:10 final size:9
Alignment explanation
Indices: 14075749--14075778 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
14075739 ATATAATAAA
14075749 TTTAAATAT
1 TTTAAATAT
14075758 TTTAAATAT
1 TTTAAATAT
14075767 TTTAAATAT
1 TTTAAATAT
14075776 TTT
1 TTT
14075779 TAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAAATAT
Found at i:14075790 original size:20 final size:19
Alignment explanation
Indices: 14075747--14075796 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
14075737 GGATATAATA
14075747 AATTTAAATA-TTTTAAAT
1 AATTTAAATATTTTTAAAT
*
14075765 ATTTTAAATATTTTTAAAAT
1 AATTTAAATATTTTT-AAAT
*
14075785 AATTTAATTATT
1 AATTTAAATATT
14075797 ATTTCTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTAAATATTTTTAAAT
Found at i:14079188 original size:27 final size:27
Alignment explanation
Indices: 14079155--14079214 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
14079145 TATTTAGTGC
* *
14079155 TTAAAAAGTATGTGTTATATTTTTATAA
1 TTAAAAA-TACGTGTTACATTTTTATAA
* *
14079183 TTAAAAATGCGTGTTGCATTTTTATAA
1 TTAAAAATACGTGTTACATTTTTATAA
14079210 TTAAA
1 TTAAA
14079215 TATATGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (27 bp):
TTAAAAATACGTGTTACATTTTTATAA
Found at i:14079913 original size:28 final size:28
Alignment explanation
Indices: 14079880--14079949 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
14079870 TATTTAATGC
*
14079880 TTAAAAAGTATGT-TTACATTTTTATAA
1 TTAAAAAGTATGTATTAAATTTTTATAA
* *
14079907 TTAAAAATTATGTATTAAATTTTTGTAA
1 TTAAAAAGTATGTATTAAATTTTTATAA
14079935 TTAAAAA-TATGTATT
1 TTAAAAAGTATGTATT
14079950 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (28 bp):
TTAAAAAGTATGTATTAAATTTTTATAA
Found at i:14079925 original size:14 final size:14
Alignment explanation
Indices: 14079906--14079955 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14079896 CATTTTTATA
14079906 ATTAAAAATTATGT
1 ATTAAAAATTATGT
* *
14079920 ATT-AAATTTTTGT
1 ATTAAAAATTATGT
14079933 AATTAAAAA-TATGT
1 -ATTAAAAATTATGT
14079947 ATTTAAAAA
1 A-TTAAAAA
14079956 AAAATAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 9 0.31
14 17 0.59
15 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATTAAAAATTATGT
Found at i:14079952 original size:28 final size:29
Alignment explanation
Indices: 14079880--14079953 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
14079870 TATTTAATGC
*
14079880 TTAAAAAGTATG--TTTACATTTTTATAA
1 TTAAAAAGTATGTATTTAAATTTTTATAA
* *
14079907 TTAAAAATTATGTA-TTAAATTTTTGTAA
1 TTAAAAAGTATGTATTTAAATTTTTATAA
14079935 TTAAAAA-TATGTATTTAAA
1 TTAAAAAGTATGTATTTAAA
14079954 AAAAAATAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (29 bp):
TTAAAAAGTATGTATTTAAATTTTTATAA
Found at i:14083372 original size:11 final size:11
Alignment explanation
Indices: 14083356--14083388 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
14083346 GGTTCAGTAA
14083356 AAAAAAAAAAG
1 AAAAAAAAAAG
14083367 AAAAAAAAAAG
1 AAAAAAAAAAG
14083378 AAAAAGAAAAA
1 AAAAA-AAAAA
14083389 CTCATGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:14083376 original size:17 final size:17
Alignment explanation
Indices: 14083354--14083388 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14083344 TTGGTTCAGT
14083354 AAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAGAAAA
*
14083371 AAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAGAAAA
14083388 A
1 A
14083389 CTCATGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAGAAAA
Found at i:14087335 original size:19 final size:18
Alignment explanation
Indices: 14087311--14087346 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14087301 TAGTTAATTA
*
14087311 TTTAATAGTACAATTTTAT
1 TTTAATAATA-AATTTTAT
14087330 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
14087347 ACAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:14088866 original size:48 final size:48
Alignment explanation
Indices: 14088795--14088888 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
14088785 TTGAGCAAAA
14088795 CGGTGCCGTATGTTTGTGAGCTCTTTTGAGGCATTAGCGGCGTTTTAC
1 CGGTGCCGTATGTTTGTGAGCTCTTTTGAGGCATTAGCGGCGTTTTAC
14088843 CGGTGCCGTATGTTTGTGAGCTCTTTTGAGGCATTAGCGGCGTTTT
1 CGGTGCCGTATGTTTGTGAGCTCTTTTGAGGCATTAGCGGCGTTTT
14088889 TGGTAAAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.38
Consensus pattern (48 bp):
CGGTGCCGTATGTTTGTGAGCTCTTTTGAGGCATTAGCGGCGTTTTAC
Found at i:14089096 original size:41 final size:40
Alignment explanation
Indices: 14089027--14089138 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
14089017 AGCTATTGAG
* *
14089027 GCATTAGCGGCGTTTCTCGTAAAACGCCGCAAAAAGTTAAA
1 GCATTAGCGGCGTTT-TTGTAAAACGCCGCAAAAAGGTAAA
** *
14089068 GCATTAGCGGCGTTTTTGTAAAAGCGCCGC-AATGGGTGAA
1 GCATTAGCGGCGTTTTTGTAAAA-CGCCGCAAAAAGGTAAA
*
14089108 GTATTAGCGGCG-TTTTGATAAAAACGCCGCA
1 GCATTAGCGGCGTTTTTG-T-AAAACGCCGCA
14089139 GAAGTGTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 5 0.08
40 31 0.51
41 25 0.41
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
GCATTAGCGGCGTTTTTGTAAAACGCCGCAAAAAGGTAAA
Found at i:14093068 original size:135 final size:135
Alignment explanation
Indices: 14092826--14093108 Score: 532
Period size: 135 Copynumber: 2.1 Consensus size: 135
14092816 TATTGGGCCT
**
14092826 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
14092891 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
14092956 TATGC
131 TATGC
14092961 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
14093025 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
14093090 ATATGC
130 ATATGC
14093096 AAGCCCATTTGGG
1 AAGCCCATTTGGG
14093109 GAGACTACTC
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
134 14 0.10
135 131 0.90
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:14094923 original size:26 final size:26
Alignment explanation
Indices: 14094887--14094970 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14094877 ATGAATATTC
14094887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14094913 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14094939 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14094965 TTATCA
1 TTATCA
14094971 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14098956 original size:136 final size:135
Alignment explanation
Indices: 14098713--14098996 Score: 541
Period size: 136 Copynumber: 2.1 Consensus size: 135
14098703 TATTGGGCCT
**
14098713 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
14098778 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
14098843 TATGC
131 TATGC
14098848 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
14098913 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
14098978 ATATGC
130 ATATGC
14098984 AAGCCCATTTGGG
1 AAGCCCATTTGGG
14098997 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
135 42 0.29
136 104 0.71
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:14100815 original size:26 final size:26
Alignment explanation
Indices: 14100779--14100861 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14100769 CATGATATTC
14100779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14100805 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14100830 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14100856 TTATCA
1 TTATCA
14100862 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14101629 original size:14 final size:13
Alignment explanation
Indices: 14101606--14101635 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
14101596 ATTACTATAA
14101606 TAATTATATGAAG
1 TAATTATATGAAG
14101619 TAATATATATGAAG
1 TAAT-TATATGAAG
14101633 TAA
1 TAA
14101636 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:14102112 original size:15 final size:15
Alignment explanation
Indices: 14102092--14102120 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14102082 GGAGTAGACC
14102092 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
14102107 AGGTACGTTTTATT
1 AGGTACGTTTTATT
14102121 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:14102928 original size:272 final size:273
Alignment explanation
Indices: 14102394--14103051 Score: 1284
Period size: 272 Copynumber: 2.4 Consensus size: 273
14102384 GAAATAAATT
14102394 AAGATTCAAAGTATATAGGCT-GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
1 AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
14102458 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
66 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
*
14102523 AAGTTCTATCGAGCTCATTTACTATTCTTAATGTATTTCCAATTTACTTATAAAAATTAACCTAC
131 AAGTTCTATCGAGCTCATTTACTATTCTTAATGTATTTCCAATTTACTTATAAAAATTAAACTAC
14102588 GATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATA
196 GATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATA
14102653 TTTAAATATTTTA
261 TTTAAATATTTTA
14102666 AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
1 AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
14102731 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
66 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
14102796 AAGTTCTATCGAGCTCATTTACTATTCTTAATGTATTTCCAATTTACTTATAAAAATTAAACTAC
131 AAGTTCTATCGAGCTCATTTACTATTCTTAATGTATTTCCAATTTACTTATAAAAATTAAACTAC
14102861 GATTC-TTTTTATATTATTATATTTAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATA
196 GATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATA
14102925 TTTAAATATTTTA
261 TTTAAATATTTTA
14102938 AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
1 AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
*
14103003 GATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATT
66 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
14103052 TGTATGTTTC
Statistics
Matches: 383, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
272 206 0.54
273 177 0.46
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (273 bp):
AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATG
GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
AAGTTCTATCGAGCTCATTTACTATTCTTAATGTATTTCCAATTTACTTATAAAAATTAAACTAC
GATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATA
TTTAAATATTTTA
Found at i:14103170 original size:24 final size:24
Alignment explanation
Indices: 14103143--14103210 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
14103133 ATTATTATTG
*
14103143 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
14103167 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
* *
14103191 AATTATTATCGTCTGTTTTA
1 AAATATTATCGTCCGTTTTA
14103211 CCGTTTAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:14103543 original size:9 final size:9
Alignment explanation
Indices: 14103531--14103756 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
14103521 TATTTGATAT
*
14103531 CATAATTTA
1 CATAACTTA
14103540 CATAACTTA
1 CATAACTTA
* *
14103549 TATAACATA
1 CATAACTTA
*
14103558 TATAACTTA
1 CATAACTTA
14103567 CATAACTTA
1 CATAACTTA
* *
14103576 TATAACATA
1 CATAACTTA
14103585 CATAACTTA
1 CATAACTTA
*
14103594 TATAACTTA
1 CATAACTTA
*
14103603 TATAACTTA
1 CATAACTTA
* *
14103612 GATAA-ATA
1 CATAACTTA
*
14103620 TATAACTTA
1 CATAACTTA
14103629 CATAACTTA
1 CATAACTTA
14103638 CATAATACTTA
1 CAT-A-ACTTA
* *
14103649 AATATATTTTATA
1 CATA-A--CT-TA
*
14103662 TCATAATTTA
1 -CATAACTTA
14103672 CATAACTTA
1 CATAACTTA
14103681 CATAACTTA
1 CATAACTTA
*
14103690 TATAACTTA
1 CATAACTTA
* *
14103699 GATAA-ATA
1 CATAACTTA
* *
14103707 TATAATTTA
1 CATAACTTA
*
14103716 CATAA-ATA
1 CATAACTTA
* * *
14103724 TATATCATA
1 CATAACTTA
*
14103733 TCATAAATTA
1 -CATAACTTA
14103743 CATAACTTA
1 CATAACTTA
14103752 CATAA
1 CATAA
14103757 TACTTATATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:14103553 original size:18 final size:18
Alignment explanation
Indices: 14103531--14103766 Score: 163
Period size: 18 Copynumber: 12.7 Consensus size: 18
14103521 TATTTGATAT
* *
14103531 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
14103549 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
14103567 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
14103585 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14103603 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
14103620 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
14103638 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
14103662 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
14103681 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14103699 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
14103716 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
14103733 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
14103752 CATAATACTTATATA
1 CAT-A-ACTTATATA
14103767 TATATCATAT
Statistics
Matches: 170, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
17 38 0.22
18 90 0.53
19 12 0.07
20 12 0.07
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:14103744 original size:114 final size:114
Alignment explanation
Indices: 14103559--14103780 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
14103549 TATAACATAT
* * *
14103559 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
14103624 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
14103673 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
*
14103736 TAAATTACATAACTTACATAATACTTATATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
14103781 CATAACTAGT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 71 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:14109445 original size:21 final size:21
Alignment explanation
Indices: 14109412--14109462 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14109402 ACAACTTAGA
*
14109412 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
14109433 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
14109454 GCAGAGGCA
1 GCAGAGGCA
14109463 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:14109762 original size:31 final size:31
Alignment explanation
Indices: 14109716--14109782 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
14109706 TGGTTGTATT
* *
14109716 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
14109747 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
14109778 TTTTA
1 TTTTA
14109783 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:14109881 original size:43 final size:41
Alignment explanation
Indices: 14109862--14110148 Score: 376
Period size: 43 Copynumber: 6.7 Consensus size: 41
14109852 AAAAGCGACA
14109862 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TTTTA-CACAAACGCCG
**
14109905 CTAAAAGCCTTGATGTTTAGCGGCGCTTTTACCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TTTTA-CACAAACGCCG
* * *
14109948 CTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCAAAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TTTT-ACACAAACGCCG
*
14109991 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TTTTA-CACAAACGCCG
**
14110034 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TT-TTACACAAACGCCG
**
14110077 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCG-TT-TTACACAAACGCCG
14110120 CTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CTAAAAGCCTTGACCTTTAGCGGCGTTTT
14110149 TTTCCAATAA
Statistics
Matches: 228, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 225 0.99
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (41 bp):
CTAAAAGCCTTGACCTTTAGCGGCGTTTTACACAAACGCCG
Found at i:14109987 original size:86 final size:86
Alignment explanation
Indices: 14109862--14110163 Score: 487
Period size: 86 Copynumber: 3.5 Consensus size: 86
14109852 AAAAGCGACA
* * **
14109862 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGATGTTTAGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCG
*
14109927 GCGCTTTTACCACAAACGCCG
66 GCGCTTCTACCACAAACGCCG
*
14109948 CTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCG
14110013 GCGCTTCTACCACAAACGCCG
66 GCGCTTCTACCACAAACGCCG
* *
14110034 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCG
*
14110099 GCGCTTCTCCCACAAACGCCG
66 GCGCTTCTACCACAAACGCCG
* *
14110120 CTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCAATAAACGCC
1 CTAAAAGCCTTGACCTTTAGCGGCG-CTTTTCCCAA-AAACGCC
14110164 ACAAATTTTT
Statistics
Matches: 200, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 187 0.94
87 6 0.03
88 7 0.04
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (86 bp):
CTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCG
GCGCTTCTACCACAAACGCCG
Found at i:14110069 original size:129 final size:129
Alignment explanation
Indices: 14109862--14110144 Score: 494
Period size: 129 Copynumber: 2.2 Consensus size: 129
14109852 AAAAGCGACA
* **
14109862 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGATGTTTAGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
* * *
14109927 GCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCAAAAACGCCG
66 GCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCAAAAACGCCG
14109991 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
* *
14110056 GCGCTTCTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
66 GCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCAAAAACGCCG
14110120 CTAAAAGCCTTGACCTTTAGCGGCG
1 CTAAAAGCCTTGACCTTTAGCGGCG
14110145 TTTTTTTCCA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 146 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (129 bp):
CTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
GCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCAAAAACGCCG
Found at i:14112972 original size:2 final size:2
Alignment explanation
Indices: 14112965--14113003 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14112955 TTCTTGTTGC
14112965 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14113004 TATTTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14116167 original size:2 final size:2
Alignment explanation
Indices: 14116162--14116198 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14116152 TTTTAAGTGC
14116162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14116199 AAGGTGTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14120220 original size:2 final size:2
Alignment explanation
Indices: 14120213--14120241 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14120203 CATCTTCACC
14120213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14120242 TATTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14126672 original size:17 final size:18
Alignment explanation
Indices: 14126645--14126679 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
14126635 AAATAATTTT
14126645 TTAATTAAAAATTTTTAA
1 TTAATTAAAAATTTTTAA
14126663 TTAATT-AAAATTTTTAA
1 TTAATTAAAAATTTTTAA
14126680 ACCTAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAAAAATTTTTAA
Found at i:14129658 original size:105 final size:106
Alignment explanation
Indices: 14129476--14129669 Score: 255
Period size: 105 Copynumber: 1.8 Consensus size: 106
14129466 CTACTTCAAA
* * * * * *
14129476 ATTGCTACCACAAGAAAGAACTCTTTTCAATCAGATTTCTTTGTACATAAAAACATGTCCAACAC
1 ATTGCTACCACAAGAAAGAACTCTTTCCAATCAAACTCCTGTGTACATAAAAACACGTCCAACAC
*
14129541 GTACATTTGTTACTT-AATAAAAATATAAATAATCAATATT
66 ATACATTTGTTACTTGAATAAAAATATAAATAATCAATATT
* * * * **
14129581 ATTGCTAGCACGAGAAAGACCTCTTTCCAATCAAACTCCTGTGTACATAAAAACACGTCTAGTAC
1 ATTGCTACCACAAGAAAGAACTCTTTCCAATCAAACTCCTGTGTACATAAAAACACGTCCAACAC
*
14129646 ATACATTTGTTACTTGTATAAAAA
66 ATACATTTGTTACTTGAATAAAAA
14129670 CAATATAAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 67 0.91
106 7 0.09
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (106 bp):
ATTGCTACCACAAGAAAGAACTCTTTCCAATCAAACTCCTGTGTACATAAAAACACGTCCAACAC
ATACATTTGTTACTTGAATAAAAATATAAATAATCAATATT
Found at i:14130903 original size:96 final size:98
Alignment explanation
Indices: 14130779--14130987 Score: 282
Period size: 96 Copynumber: 2.2 Consensus size: 98
14130769 GTTCTTAAAT
* * * ** *
14130779 TTTACGGTTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTAC
1 TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-
*
14130844 T-AATTTT-AAAAAATTAGATTATG-GTTTAGTG
65 TAAATTTTAAAAAAATTAGATTATGAGTTTAGGG
* *
14130875 TTTATGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTA-GGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
14130939 TAAATTTTAAAAAAATTAGATTATGATTTTAGGG
65 TAAATTTTAAAAAAATTAGATTATGAGTTTAGGG
14130973 TTTAGGGTTTTAAGG
1 TTTAGGGTTTTAAGG
14130988 TATTTAAGAA
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
95 1 0.01
96 52 0.53
97 35 0.36
98 10 0.10
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.42
Consensus pattern (98 bp):
TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT
AAATTTTAAAAAAATTAGATTATGAGTTTAGGG
Found at i:14131289 original size:126 final size:126
Alignment explanation
Indices: 14131072--14131610 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
14131062 AAAAGCTTCT
* * *
14131072 ACGTAGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
14131137 ATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCGGTAAAAATACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
* *
14131198 ACGTGGACGCTCTTTTGCTACAGTAATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
14131263 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACCGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
* * *
14131324 ATGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTACGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
14131389 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
* * * * * **
14131450 ACATGGATGCTCTTTTGCAACAGTGGTATCTGAAAAAATAATTTTGAGAAGCCGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
14131515 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGTAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
* *
14131576 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAA
14131611 TAACTTAGGC
Statistics
Matches: 372, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 2 0.01
126 368 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
Found at i:14134387 original size:15 final size:15
Alignment explanation
Indices: 14134367--14134397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14134357 TTTTTATTTT
*
14134367 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
14134382 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
14134397 A
1 A
14134398 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:14134436 original size:22 final size:22
Alignment explanation
Indices: 14134424--14134473 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
14134414 TAACGAGAGT
14134424 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
14134446 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
14134466 TTTGAGAG
1 TTTGAGAG
14134474 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:14134447 original size:11 final size:11
Alignment explanation
Indices: 14134424--14134475 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
14134414 TAACGAGAGT
*
14134424 TTTGAGAGGAA
1 TTTGAGAGAAA
*
14134435 TTTAAGAGAAA
1 TTTGAGAGAAA
14134446 TTTGAGAG--A
1 TTTGAGAGAAA
14134455 TTTGAGAGAAA
1 TTTGAGAGAAA
14134466 TTTGAGAGAA
1 TTTGAGAGAA
14134476 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:14134487 original size:31 final size:31
Alignment explanation
Indices: 14134424--14134487 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
14134414 TAACGAGAGT
* *
14134424 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
14134455 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
14134486 TT
1 TT
14134488 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:14135488 original size:17 final size:17
Alignment explanation
Indices: 14135466--14135502 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14135456 ATTTAATTTT
14135466 AATTAAATTACTTAATA
1 AATTAAATTACTTAATA
**
14135483 AATTAAATTTTTTAATA
1 AATTAAATTACTTAATA
14135500 AAT
1 AAT
14135503 AAACATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATTACTTAATA
Found at i:14149232 original size:3 final size:3
Alignment explanation
Indices: 14149224--14149254 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
14149214 AATTAAGACA
14149224 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14149255 TATCAAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14150257 original size:24 final size:26
Alignment explanation
Indices: 14150228--14150283 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
14150218 TAGAGTAGTG
14150228 AGAAAAT-AAATAATAA-AGAGAATAA
1 AGAAAATAAAATAATAAGAGAGAA-AA
14150253 A-AAAATAAAATAATAAGAGAGAAAA
1 AGAAAATAAAATAATAAGAGAGAAAA
14150278 AGAAAA
1 AGAAAA
14150284 CATATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.18
25 13 0.46
26 10 0.36
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (26 bp):
AGAAAATAAAATAATAAGAGAGAAAA
Found at i:14151009 original size:25 final size:25
Alignment explanation
Indices: 14150975--14151025 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14150965 CAATTTAATA
14150975 AATAAAATATTCAAAATATATACTT
1 AATAAAATATTCAAAATATATACTT
14151000 AATAAAATATTCAAAATATATACTT
1 AATAAAATATTCAAAATATATACTT
14151025 A
1 A
14151026 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAAAATATTCAAAATATATACTT
Found at i:14157785 original size:6 final size:6
Alignment explanation
Indices: 14157774--14157799 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14157764 TTGTAAGCAA
14157774 AGTGGC AGTGGC AGTGGC AGTGGC AG
1 AGTGGC AGTGGC AGTGGC AGTGGC AG
14157800 ACTGGCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.50, T:0.15
Consensus pattern (6 bp):
AGTGGC
Found at i:14158757 original size:31 final size:31
Alignment explanation
Indices: 14158722--14158780 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
14158712 TATTGAAGTC
* *
14158722 AAAATTATGTTAACAAATAATTATTTAAGCA
1 AAAATTATATTAACAAATAATTACTTAAGCA
14158753 AAAATTATATTAACAAATAATTACTTAA
1 AAAATTATATTAACAAATAATTACTTAA
14158781 CTAACTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAATTATATTAACAAATAATTACTTAAGCA
Found at i:14158758 original size:15 final size:16
Alignment explanation
Indices: 14158724--14158795 Score: 78
Period size: 16 Copynumber: 4.6 Consensus size: 16
14158714 TTGAAGTCAA
*
14158724 AATTATGTTAACAAAT
1 AATTATATTAACAAAT
14158740 AATTAT-TTAAGCAAA-
1 AATTATATTAA-CAAAT
14158755 AATTATATTAACAAAT
1 AATTATATTAACAAAT
* *
14158771 AATTA-CTTAACTAACT
1 AATTATATTAAC-AAAT
14158787 AATTATATT
1 AATTATATT
14158796 TCTAATGTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 19 0.40
16 27 0.56
17 2 0.04
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTATATTAACAAAT
Found at i:14162188 original size:60 final size:60
Alignment explanation
Indices: 14162095--14162216 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
14162085 GATTGGTTAG
*
14162095 ATTCAAAAGAATCAGGTTTTATCACCACATGGGACGAACGAGCTAGCAGAAAATTTTTAA
1 ATTCAAAAGAATCAGGTTTTATCACCACATGGGACAAACGAGCTAGCAGAAAATTTTTAA
* ** *
14162155 ATTCATAAGAATCAGGTTTTATCACCAGGTGGGACAAACGAGCTAGCGGAAAATTTTTAA
1 ATTCAAAAGAATCAGGTTTTATCACCACATGGGACAAACGAGCTAGCAGAAAATTTTTAA
14162215 AT
1 AT
14162217 AAGTTTTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (60 bp):
ATTCAAAAGAATCAGGTTTTATCACCACATGGGACAAACGAGCTAGCAGAAAATTTTTAA
Found at i:14183868 original size:9 final size:9
Alignment explanation
Indices: 14183854--14183887 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
14183844 TTATGTGTTC
14183854 TTTATTTAT
1 TTTATTTAT
14183863 TTTATTTAT
1 TTTATTTAT
14183872 TTTATTTAT
1 TTTATTTAT
14183881 TTTATTT
1 TTTATTT
14183888 TTCACAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTAT
Found at i:14188331 original size:5 final size:5
Alignment explanation
Indices: 14188311--14188348 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
14188301 TTATGTGTTC
14188311 TTTAT TTT-T ATTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14188349 TCACAGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14188398 original size:5 final size:5
Alignment explanation
Indices: 14188390--14188421 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14188380 ATATTTGTGA
14188390 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
14188422 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14188415 original size:9 final size:9
Alignment explanation
Indices: 14188391--14188421 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14188381 TATTTGTGAA
14188391 AAATAAAAT
1 AAATAAAAT
14188400 AAAATAAAAT
1 -AAATAAAAT
14188410 AAATAAAAT
1 AAATAAAAT
14188419 AAA
1 AAA
14188422 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:14192796 original size:5 final size:5
Alignment explanation
Indices: 14192786--14192818 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14192776 CAATTTGTGA
14192786 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
14192819 AACACACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14192811 original size:9 final size:9
Alignment explanation
Indices: 14192787--14192817 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14192777 AATTTGTGAA
14192787 AAATAAAAT
1 AAATAAAAT
14192796 AAAATAAAAT
1 -AAATAAAAT
14192806 AAATAAAAT
1 AAATAAAAT
14192815 AAA
1 AAA
14192818 AAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:14192811 original size:14 final size:15
Alignment explanation
Indices: 14192786--14192818 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14192776 CAATTTGTGA
14192786 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
14192801 AAAAT-AAATAAAAT
1 AAAATAAAATAAAAT
14192815 AAAA
1 AAAA
14192819 AACACACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:14205685 original size:24 final size:25
Alignment explanation
Indices: 14205644--14205699 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
14205634 AAAAAAGAGA
*
14205644 AAGAAAAAT-AAAGAAGAAATG-GAG
1 AAGAAGAATAAAAGAAG-AATGTGAG
14205668 AA-AAGAATAAAAGAAGAATGTGAG
1 AAGAAGAATAAAAGAAGAATGTGAG
14205692 AAGAAGAA
1 AAGAAGAA
14205700 GAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.32
24 14 0.50
25 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.25, T:0.09
Consensus pattern (25 bp):
AAGAAGAATAAAAGAAGAATGTGAG
Found at i:14206175 original size:18 final size:19
Alignment explanation
Indices: 14206138--14206175 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14206128 GAAGATAATG
*
14206138 AAATTGGAGAAATGAAGAAT
1 AAATAGGAGAAA-GAAGAAT
14206158 AAATAGGAGAAA-AAGAAT
1 AAATAGGAGAAAGAAGAAT
14206176 GAGAAGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.16
Consensus pattern (19 bp):
AAATAGGAGAAAGAAGAAT
Found at i:14206409 original size:24 final size:24
Alignment explanation
Indices: 14206373--14206435 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
14206363 AGATGAAGAG
*
14206373 AAAGATGAGAAAAAAAGAAAGACAT
1 AAAGAAGA-AAAAAAAGAAAGACAT
*
14206398 AGAGAAGAAAAAAAAGAAAGACAT
1 AAAGAAGAAAAAAAAGAAAGACAT
*
14206422 AAAGAAGGAAAAAA
1 AAAGAAGAAAAAAA
14206436 GCAAAACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 28 0.82
25 6 0.18
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.05
Consensus pattern (24 bp):
AAAGAAGAAAAAAAAGAAAGACAT
Found at i:14206640 original size:29 final size:32
Alignment explanation
Indices: 14206574--14206640 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
14206564 GAAATATTAA
14206574 TGAGTGATCGATTTGTCACTTTTCAATAATGT
1 TGAGTGATCGATTTGTCACTTTTCAATAATGT
* *
14206606 T-AGTGAT-GATTTGTTATTTTTCAA-AA-GT
1 TGAGTGATCGATTTGTCACTTTTCAATAATGT
14206634 TGAGTGA
1 TGAGTGA
14206641 CTTAATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.09
29 7 0.22
30 15 0.47
31 6 0.19
32 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.45
Consensus pattern (32 bp):
TGAGTGATCGATTTGTCACTTTTCAATAATGT
Found at i:14212117 original size:43 final size:43
Alignment explanation
Indices: 14212070--14212174 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
14212060 TTCAATGAAC
* * *
14212070 TCGCACACTTAGTGCCGATTAATTAGCTAAAGCTATAATTGTT
1 TCGCACACTTAGTGCCAATTAATTAGCCAAAGCTATAATTGTA
* *
14212113 TCGCACACTTAGTGCCAATTAATTAGCCAAGGTTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCAAAGCTATAATTGTA
14212156 TCGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
14212175 ACATTAAACC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCAAAGCTATAATTGTA
Found at i:14214184 original size:23 final size:23
Alignment explanation
Indices: 14214158--14214204 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14214148 TAAATACATA
14214158 AATACCATAATGATAATGCAACC
1 AATACCATAATGATAATGCAACC
14214181 AATACCATAATGATAATGCAACC
1 AATACCATAATGATAATGCAACC
14214204 A
1 A
14214205 TAATAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (23 bp):
AATACCATAATGATAATGCAACC
Found at i:14214213 original size:23 final size:22
Alignment explanation
Indices: 14214158--14214211 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
14214148 TAAATACATA
14214158 AATACCATAATGATAATGCAACC
1 AATA-CATAATGATAATGCAACC
14214181 AATACCATAATGATAATGCAACC
1 AATA-CATAATGATAATGCAACC
14214204 -ATA-ATAAT
1 AATACATAAT
14214212 AAATAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.16
22 3 0.10
23 23 0.74
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (22 bp):
AATACATAATGATAATGCAACC
Done.