Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 72 of 352
Found at i:22441989 original size:45 final size:45
Alignment explanation
Indices: 22441838--22441963 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
22441828 GATCGGAGGG
* * * *
22441838 TGCCATGGTGTCTTTCAATCATGGTCTTATTCATTCTCGACT-TGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-TTGTGA
* * *
22441883 TGCCACAGTGCCTTTCAACCATGGTCTTATTCATTTTCGTTGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGTTGTGA
*
22441928 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
22441964 GATTCGTGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 69 0.99
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGTTGTGA
Found at i:22442016 original size:45 final size:45
Alignment explanation
Indices: 22441928--22442140 Score: 205
Period size: 45 Copynumber: 4.7 Consensus size: 45
22441918 TTCGTTGTGT
** * * * *
22441928 TGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTGATTCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGA-TAGAATCGTGA
* * *
22441973 TGTCATATCGTCTTTCAG-TGATGGTCTTACTCGATAAAATCGTGA
1 TGCCATAACGTCTTTCAGCT-ATGGTCTTACTCGATAGAATCGTGA
* * * * *
22442018 TGCCATAAAGTATTTCCGCTATGGTTTTACTCGATAGAATCATGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGA
* * * * *
22442063 TGCCATAACGCCTTTTAGCTATCGTCTTACTTGATAGAATAGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGA
* *
22442108 TGCCATAACGTCTTTCAACTATGATCTTACTCG
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCG
22442141 TTTCTAGTAT
Statistics
Matches: 133, Mismatches: 32, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
44 1 0.01
45 130 0.98
46 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGA
Found at i:22442568 original size:16 final size:16
Alignment explanation
Indices: 22442530--22442562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22442520 CCATTTTGCC
*
22442530 ATTAAA-ATAACATAT
1 ATTAAATATAAAATAT
22442545 ATTAAATATAAAATAT
1 ATTAAATATAAAATAT
22442561 AT
1 AT
22442563 GTAATAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAATATAAAATAT
Found at i:22451170 original size:26 final size:26
Alignment explanation
Indices: 22451141--22451248 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22451131 TGGTACAAAT
*
22451141 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
22451167 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22451193 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22451219 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22451245 TGAT
1 TGAT
22451249 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22454644 original size:23 final size:23
Alignment explanation
Indices: 22454594--22454670 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 23
22454584 TCATAAATAT
*
22454594 TATATTATTAATAAACT-TAT-AA
1 TATATTA-AAATAAACTATATAAA
* *
22454616 TATATTAGATTAAACTATATAAA
1 TATATTAAAATAAACTATATAAA
*
22454639 TATATTTGAAAAAAAACTATATAAA
1 TATA-TT-AAAATAAACTATATAAA
22454664 TATATTA
1 TATATTA
22454671 TTTATAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.15
22 10 0.22
23 7 0.15
24 4 0.09
25 18 0.39
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (23 bp):
TATATTAAAATAAACTATATAAA
Found at i:22454679 original size:25 final size:25
Alignment explanation
Indices: 22454594--22454679 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
22454584 TCATAAATAT
22454594 TATATTATTAAT-AAACT-TAT-AA
1 TATATTATTAATAAAACTATATAAA
* *
22454616 TATATTA--GATTAAACTATATAAA
1 TATATTATTAATAAAACTATATAAA
* *
22454639 TATATT-TGAAAAAAAACTATATAAA
1 TATATTAT-TAATAAAACTATATAAA
*
22454664 TATATTATTTATAAAA
1 TATATTATTAATAAAA
22454680 TTTTATGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 2 0.04
21 5 0.10
22 10 0.20
23 8 0.16
25 24 0.48
26 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (25 bp):
TATATTATTAATAAAACTATATAAA
Found at i:22455621 original size:15 final size:16
Alignment explanation
Indices: 22455588--22455625 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
22455578 TATATTTTAA
*
22455588 ATAAATATTAATTACT
1 ATAAAAATTAATTACT
*
22455604 ATAAAAATT-ATTAGT
1 ATAAAAATTAATTACT
22455619 ATAAAAA
1 ATAAAAA
22455626 AATAATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAAAAATTAATTACT
Found at i:22460471 original size:180 final size:180
Alignment explanation
Indices: 22460169--22460524 Score: 493
Period size: 180 Copynumber: 2.0 Consensus size: 180
22460159 ATGTGAATAG
* * *
22460169 TATAGTTTAAATAATAATAGTGAACTTAGGTTGTAAATAAGAACACTCATGTCAAGAAACTGGCA
1 TATAGTTTAAATAATAATAATGAACTTAGGTAGTAAACAAGAACACTCATGTCAAGAAACTGGCA
* * * ** *
22460234 ATGGATACTCAGAGGGAGGCATTCTTAAATTTAGAATGCCTTTCTATTTCACTTCTAATTACCTG
66 ATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTACCTG
*
22460299 CACTGCAACTTACTTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
131 CACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
* *
22460349 TATAGTTTAAGCT-ATAATAATGAACTTAGGTAGTAACCAAGAA-A-TCCTATGTCAAGAAACTG
1 TATAGTTTAA-ATAATAATAATGAACTTAGGTAGTAAACAAGAACACT-C-ATGTCAAGAAACTG
* ** *
22460411 GCAATAGATATTCAGAGGAAAGCATTCTTAAAGATAGTGTACCTTTCTTTTTCACTTCTAATTAC
63 GCAATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTAC
* * *
22460476 CTGCACTGCAACTTACCTGAGATTGTGATGAATTCCTTCTTTTCTTTTT
128 CTGCACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTT
22460525 GGTTTATGCT
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
178 1 0.01
179 2 0.01
180 150 0.97
181 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (180 bp):
TATAGTTTAAATAATAATAATGAACTTAGGTAGTAAACAAGAACACTCATGTCAAGAAACTGGCA
ATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTACCTG
CACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
Found at i:22463585 original size:5 final size:5
Alignment explanation
Indices: 22463575--22463601 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22463565 CACCACCACC
22463575 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
22463602 ACAACTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:22474666 original size:17 final size:17
Alignment explanation
Indices: 22474644--22474678 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22474634 TTCATTATAT
22474644 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
22474661 TTACATTTTATTATATA
1 TTACATTTTATTACATA
22474678 T
1 T
22474679 ATATTTTTAT
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:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:22474709 original size:21 final size:19
Alignment explanation
Indices: 22474669--22474721 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
22474659 TATTACATTT
*
22474669 TATTATATATATAT-TTTTA
1 TATTAT-TATATATGGTTTA
22474688 TATTACTTATTATATGGTTTA
1 TATTA-TTA-TATATGGTTTA
22474709 TATTATTATATAT
1 TATTATTATATAT
22474722 TTTGGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.40
20 9 0.30
21 9 0.30
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TATTATTATATATGGTTTA
Found at i:22486463 original size:87 final size:86
Alignment explanation
Indices: 22486355--22486676 Score: 248
Period size: 87 Copynumber: 3.7 Consensus size: 86
22486345 GAGAGTAGAT
* * * *
22486355 ACATAGTAGATCTAACCTTCAGATGTTTTTATTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGT
22486420 GTTTACAAGGAGAAAATCTAAG
66 GTTTACAAGGAGAAAATC-AAG
* * *
22486442 ACATAACAGATCTAACTTTCAGATGTTT-TCACGTCAAAGCAGATCCAAGATAACAGATCTGGC-
1 ACATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-AAAGCAGATCCAAGAT----GATTTGGCA
* ** * * * *
22486505 GTCTCCAT-ATT-CGACGGAG---AGCAGAC
59 TTCT-TGTGTTTAC-AAGGAGAAAATCA-AG
*
22486531 ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCTGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGT
22486596 GTTTACAAGGA-ACAAATCGAAG
66 GTTTACAAGGAGA-AAATC-AAG
* ** * * * * *
22486618 ACATAGCAGATTTGGCTTTCACG-TGTTTATGCTGAAGCAAATCTAAGATGATTTGGCAT
1 ACATAGCAGATCTAACCTTCA-GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCAT
22486677 CTCTGTATTG
Statistics
Matches: 182, Mismatches: 33, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
83 8 0.04
84 9 0.05
85 1 0.01
86 1 0.01
87 92 0.51
88 5 0.03
89 46 0.25
90 1 0.01
91 1 0.01
92 10 0.05
93 8 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (86 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGAAAATCAAG
Found at i:22486542 original size:89 final size:89
Alignment explanation
Indices: 22486205--22486579 Score: 252
Period size: 89 Copynumber: 4.2 Consensus size: 89
22486195 GTTTACACTG
* * * *
22486205 AAGCAGATCCAAGATAACAAGATTTGGCTTCTCTATTTTCGACGGAGAGCAAATCGAAGACATAG
1 AAGCAGATCCAAGATAAC-AGATCTGGCATCTCCATATTCGACGGAGAGC-AA--G-AGACATAG
* * * * ** *
22486270 ATATATCTGACTTTTGGATGTTCTCACATCA
61 -CAGATCTAACCTTCAGATGTTTTCAC-TCA
* * * *
22486301 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATATTCAAACGGAGAG-TAGATACATAGTAGA
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATATTC-GACGGAGAGCAAGAGACATAGCAGA
* **
22486365 TCTAACCTTCAGATGTTTTTA-TTG
65 TCTAACCTTCAGATGTTTTCACTCA
* ** * * * *
22486389 AAGCAGATCCAAGAT----GATTTGGCAT-TCTTGTGTTTAC-AAGGAGA-AAATCTAAGACATA
1 AAGCAGATCCAAGATAACAGATCTGGCATCTC-CAT-ATT-CGACGGAGAGCAA---GAGACATA
* *
22486447 ACAGATCTAACTTTCAGATGTTTTCACGTCA
60 GCAGATCTAACCTTCAGATGTTTTCAC-TCA
* *
22486478 AAGCAGATCCAAGATAACAGATCTGGCGTCTCCATATTCGACGGAGAGC-AGACACATAGCAGAT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATATTCGACGGAGAGCAAGAGACATAGCAGAT
22486542 CTAACCTTCAGATGTTTAT-ACT-A
66 CTAACCTTCAGATGTTT-TCACTCA
*
22486565 AAGCTGATCCAAGAT
1 AAGCAGATCCAAGAT
22486580 GATTTGGCAT
Statistics
Matches: 219, Mismatches: 42, Indels: 45
0.72 0.14 0.15
Matches are distributed among these distances:
83 2 0.01
84 17 0.08
85 2 0.01
86 1 0.00
87 43 0.20
88 17 0.08
89 45 0.21
90 19 0.09
91 8 0.04
92 10 0.05
93 9 0.04
94 3 0.01
95 17 0.08
96 26 0.12
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (89 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATATTCGACGGAGAGCAAGAGACATAGCAGAT
CTAACCTTCAGATGTTTTCACTCA
Found at i:22486581 original size:176 final size:177
Alignment explanation
Indices: 22486254--22486628 Score: 556
Period size: 176 Copynumber: 2.1 Consensus size: 177
22486244 CGACGGAGAG
* * * **
22486254 CAAATCGAAGACATAGATATATCTGACTTTTGGATGTTCTCACATCAAAGCAGATCCAAGATAAC
1 CAAATCGAAGACATA-ACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAAC
* * * *
22486319 AGATCTGGCATCTCCATATTCAAACGGAGAGTAGATACATAGTAGATCTAACCTTCAGATGTTTT
65 AGATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTA
* *
22486384 TATTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGA
130 TACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA-A
* * *
22486433 -AAATCTAAGACATAACAGATCTAACTTTCAGATGTTTTCACGTCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAACA
* *
22486497 GATCTGGCGTCTCCATATTC-GACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
66 GATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
*
22486561 ACTAAAGCTGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
131 ACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
*
22486608 CAAATCGAAGACATAGCAGAT
1 CAAATCGAAGACATAACAGAT
22486629 TTGGCTTTCA
Statistics
Matches: 176, Mismatches: 19, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
175 1 0.01
176 100 0.57
177 62 0.35
178 13 0.07
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (177 bp):
CAAATCGAAGACATAACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
ACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
Found at i:22488081 original size:46 final size:46
Alignment explanation
Indices: 22487994--22488261 Score: 351
Period size: 46 Copynumber: 5.8 Consensus size: 46
22487984 TTTGACATGA
* * * * * *
22487994 TGCCATAGTGTCTTTCAA-TATGATCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCAGGT
* * *
22488039 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
** ** *
22488085 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
** *
22488131 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
*
22488177 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
22488223 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
22488262 ATTAGAGAGC
Statistics
Matches: 200, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
45 19 0.09
46 181 0.90
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
Found at i:22491991 original size:12 final size:12
Alignment explanation
Indices: 22491974--22492057 Score: 72
Period size: 12 Copynumber: 7.2 Consensus size: 12
22491964 AAAAAAATAG
22491974 TATATATTATTT
1 TATATATTATTT
22491986 TATATATTA-TT
1 TATATATTATTT
22491997 TATTATATTATTT
1 TA-TATATTATTT
**
22492010 T-TACT-TATAAAT
1 TATA-TAT-TATTT
22492022 TATAT-TTA-TT
1 TATATATTATTT
*
22492032 TATATATT-TTA
1 TATATATTATTT
22492043 TATATATTATTT
1 TATATATTATTT
22492055 TAT
1 TAT
22492058 CACTCATTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
10 6 0.10
11 20 0.34
12 28 0.47
13 5 0.08
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATATTATTT
Found at i:22492002 original size:19 final size:19
Alignment explanation
Indices: 22491978--22492047 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
22491968 AAATAGTATA
*
22491978 TATTATTTTATATATTATT
1 TATTATATTATATATTATT
* *
22491997 TATTATATTAT-TTTTACT
1 TATTATATTATATATTATT
*
22492015 TA-TAAATTATAT-TTATT
1 TATTATATTATATATTATT
*
22492032 TATATATTTTATATAT
1 TAT-TATATTATATAT
22492048 ATTATTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.32
18 8 0.20
19 18 0.45
20 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATATTATATATTATT
Found at i:22495495 original size:26 final size:26
Alignment explanation
Indices: 22495466--22495530 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 26
22495456 AGATCAACAT
*
22495466 AAATTGTCCATCAAAATACAACCATC
1 AAATTGTCCATCAAAATAAAACCATC
* * *
22495492 AAATTGATCTAACAAAATAAAACTATC
1 AAATTG-TCCATCAAAATAAAACCATC
* *
22495519 AAACTATCCATC
1 AAATTGTCCATC
22495531 GTATGTTAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATTGTCCATCAAAATAAAACCATC
Found at i:22498439 original size:2 final size:2
Alignment explanation
Indices: 22498432--22498459 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22498422 AGGAGGAGGA
22498432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22498460 GAATATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22501483 original size:19 final size:18
Alignment explanation
Indices: 22501456--22501494 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22501446 AGCCCCACCA
22501456 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
* *
22501475 TTAATTCTTCATTATAAT
1 TTAACTCTTCATTACAAT
22501493 TT
1 TT
22501495 GGTTCCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:22508337 original size:22 final size:22
Alignment explanation
Indices: 22508310--22508354 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22508300 TAGTCCATTT
22508310 TTTGACTAATGTTAAAAAATTA
1 TTTGACTAATGTTAAAAAATTA
22508332 TTTGACTAATGTTAAAAAATTA
1 TTTGACTAATGTTAAAAAATTA
22508354 T
1 T
22508355 CTTATAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
TTTGACTAATGTTAAAAAATTA
Found at i:22508873 original size:19 final size:19
Alignment explanation
Indices: 22508849--22508896 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
22508839 CACCAACAAT
22508849 TTTTTTAAAGGTA-AATTTA
1 TTTTTTAAA-GTATAATTTA
*
22508868 TTTTTTATAATTATAATTTA
1 TTTTTTA-AAGTATAATTTA
22508888 TTTGTTTAA
1 TTT-TTTAA
22508897 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 12 0.48
21 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTTAAAGTATAATTTA
Found at i:22513767 original size:18 final size:19
Alignment explanation
Indices: 22513744--22513783 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
22513734 CTTTTTTAAA
22513744 TTACAATTTTT-TATAATT
1 TTACAATTTTTATATAATT
*
22513762 TTACAATTTTTATATATTT
1 TTACAATTTTTATATAATT
22513781 TTA
1 TTA
22513784 ATAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTACAATTTTTATATAATT
Found at i:22514825 original size:26 final size:26
Alignment explanation
Indices: 22514796--22514851 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
22514786 TGATACAAAT
22514796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22514822 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22514848 TGAT
1 TGAT
22514852 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22516043 original size:8 final size:8
Alignment explanation
Indices: 22516030--22516059 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
22516020 AGATTGGCAC
22516030 AAGCCGAA
1 AAGCCGAA
22516038 AAGCCGAA
1 AAGCCGAA
*
22516046 ATGCCGAA
1 AAGCCGAA
22516054 AAGCCG
1 AAGCCG
22516060 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:22516537 original size:54 final size:54
Alignment explanation
Indices: 22516449--22516589 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
22516439 GGAAGCGTCG
*
22516449 TGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
* *
22516504 TGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
*
22516558 TGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
22516590 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 6 0.08
54 58 0.73
55 16 0.20
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
Found at i:22516585 original size:32 final size:27
Alignment explanation
Indices: 22516449--22516589 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
22516439 GGAAGCGTCG
* * *
22516449 TGGTGGCTATGCCACAATTTATCTAATC
1 TGGTGGCTCTGCCAC-ATATATCTGATC
22516477 TGGTGGCTCTGCCACATATATCTG-TCC
1 TGGTGGCTCTGCCACATATATCTGAT-C
* *
22516504 TGGTAGCTATGCCACA-ATTATCTGATC
1 TGGTGGCTCTGCCACATA-TATCTGATC
*
22516531 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACATATATCTGATC
22516558 TGGTGGCTCTGCCACA-ATATCTGTATC
1 TGGTGGCTCTGCCACATATATCTG-ATC
22516585 TGGTG
1 TGGTG
22516590 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.09
27 74 0.75
28 16 0.16
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATATCTGATC
Found at i:22516586 original size:27 final size:27
Alignment explanation
Indices: 22516449--22516607 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
22516439 GGAAGCGTCG
* *
22516449 TGGTGGCTATGCCACAATTTATCT-AATC
1 TGGTGGCTCTGCCACAA--TATCTGTATC
*
22516477 TGGTGGCTCTGCCACATATATCTGT-CC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
* *
22516504 TGGTAGCTATGCCACAATTATCTG-ATC
1 TGGTGGCTCTGCCACAA-TATCTGTATC
22516531 TGGTGGCTCTGCCACATATATCTGT-TC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
22516558 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGTATC
* *
22516585 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
22516608 GCAGCCTTGC
Statistics
Matches: 113, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 86 0.76
28 16 0.14
29 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATC
Found at i:22518438 original size:35 final size:35
Alignment explanation
Indices: 22518354--22518438 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 35
22518344 GTTTGGCAAA
* * *
22518354 ATAAATTA-TCTACAGTCTTTACGGAGTGACACCGT
1 ATAAA-TAGTCTACAGACTTTACGGAGCGACACCAT
* *
22518389 ATAATTAGTATACAGACTTTACGGAGCGACACCAT
1 ATAAATAGTCTACAGACTTTACGGAGCGACACCAT
*
22518424 GA-AAATGGTCTACAG
1 -ATAAATAGTCTACAG
22518439 GCTCTACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
34 2 0.05
35 37 0.93
36 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (35 bp):
ATAAATAGTCTACAGACTTTACGGAGCGACACCAT
Found at i:22520431 original size:26 final size:26
Alignment explanation
Indices: 22520402--22520452 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
22520392 ATAGGGAAAA
22520402 ATCATTTTATCTTTTTAATTTCATTT
1 ATCATTTTATCTTTTTAATTTCATTT
22520428 ATCATTTTATCTTTTTAATTTCATT
1 ATCATTTTATCTTTTTAATTTCATT
22520453 CTTTCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (26 bp):
ATCATTTTATCTTTTTAATTTCATTT
Found at i:22521913 original size:25 final size:26
Alignment explanation
Indices: 22521885--22521935 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
22521875 ATATTAACAT
22521885 TTATATTTATATTAAA-AAAATAAAA
1 TTATATTTATATTAAACAAAATAAAA
22521910 TTATATTTATATTAAACAAAATAAAA
1 TTATATTTATATTAAACAAAATAAAA
22521936 ATCCCCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTATATTTATATTAAACAAAATAAAA
Found at i:22522181 original size:10 final size:10
Alignment explanation
Indices: 22522166--22522195 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
22522156 AAAGGAAGTG
22522166 AAAAAAGAAA
1 AAAAAAGAAA
22522176 AAAAAAGAAA
1 AAAAAAGAAA
22522186 AGAAAAAGAA
1 A-AAAAAGAA
22522196 GAAAGGCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:22522342 original size:33 final size:34
Alignment explanation
Indices: 22522295--22522362 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
22522285 ATAGTACTTG
*
22522295 TCTGAAAACTCAAAGGGAGAACA-TTTTGGCTCA
1 TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
*
22522328 TCTGAAAACCCAAAGGGAGGACATTTTTGGCTCA
1 TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
22522362 T
1 T
22522363 ACTTTGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (34 bp):
TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
Found at i:22524001 original size:63 final size:63
Alignment explanation
Indices: 22523924--22524072 Score: 183
Period size: 63 Copynumber: 2.4 Consensus size: 63
22523914 TCGTGTGCCT
* * * *
22523924 CAAAATAGTGAGTTACACGGTCTGGACACACACTCATGTCTCTGGCCCATGTGTCC-CTAGTTC
1 CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTG-CCTCTAATTC
* * * *** *
22523987 CAAAACAGTGAGTTACACTGCCTGGACACACGCCCATGTCTCTATTTCGTGTGCCTCTAATTC
1 CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTGCCTCTAATTC
22524050 CAAAATAGTGAGTTACACGGCCT
1 CAAAATAGTGAGTTACACGGCCT
22524073 ACCACACGGC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 2 0.03
63 70 0.97
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (63 bp):
CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTGCCTCTAATTC
Found at i:22530073 original size:30 final size:30
Alignment explanation
Indices: 22529998--22530073 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
22529988 TGATTGATGA
* *
22529998 TATTTTATAATTATTTAATTAGAAAAATAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
* * **
22530028 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
22530058 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
22530074 TATTTAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAAATAT
Found at i:22533561 original size:10 final size:10
Alignment explanation
Indices: 22533540--22533583 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
22533530 AAATTTTAAC
22533540 TTTTATATATT
1 TTTTATA-ATT
22533551 TTTTATAATT
1 TTTTATAATT
*
22533561 TTTCATAA--
1 TTTTATAATT
22533569 TTTTATAATT
1 TTTTATAATT
22533579 TTTTA
1 TTTTA
22533584 AAAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
10 15 0.52
11 7 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:22533581 original size:9 final size:9
Alignment explanation
Indices: 22533522--22533581 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
22533512 TATTTTAGAA
22533522 AATTTTTA-
1 AATTTTTAT
*
22533530 AAATTTTA-
1 AATTTTTAT
*
22533538 ACTTTTATAT
1 AATTTT-TAT
*
22533548 ATTTTTTAT
1 AATTTTTAT
22533557 AATTTTTCAT
1 AATTTTT-AT
22533567 AA-TTTTAT
1 AATTTTTAT
22533575 AATTTTT
1 AATTTTT
22533582 TAAAAATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 15 0.35
9 19 0.44
10 9 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
AATTTTTAT
Found at i:22533972 original size:48 final size:48
Alignment explanation
Indices: 22533894--22533985 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
22533884 ACAATAATTT
* * * *
22533894 TATCTCAAGCTTATTATGATTAGATTCACCT-GAAGTTGCAAGATCTTC
1 TATCTAAAGCTTATTATGATCAAATGCACCTAG-AGTTGCAAGATCTTC
*
22533942 TATCTAAAGCTTTTTATGATCAAATGCACCTAGAGTTGCAAGAT
1 TATCTAAAGCTTATTATGATCAAATGCACCTAGAGTTGCAAGAT
22533986 TTTGAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (48 bp):
TATCTAAAGCTTATTATGATCAAATGCACCTAGAGTTGCAAGATCTTC
Found at i:22536570 original size:48 final size:48
Alignment explanation
Indices: 22536514--22536609 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
22536504 TGGTCACAGT
*
22536514 ACTGATAGCATAAGTGGCAATGAAAAACCACGAGATGCGAAGCGGGGA
1 ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATGCGAAGCGGGGA
* *
22536562 ACTGATAGCACAAGTGGCAATGAGAGACCACGAGATGCGAAGCGGGGA
1 ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATGCGAAGCGGGGA
22536610 TCCAACAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.11
Consensus pattern (48 bp):
ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATGCGAAGCGGGGA
Found at i:22542971 original size:21 final size:21
Alignment explanation
Indices: 22542921--22542987 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
22542911 GACTGCGGGT
*
22542921 TGTAACTTGGAGAGGTAGGG-C
1 TGTAACTTGGTGAGGT-GGGAC
* * *
22542942 TATAGCTTGGTGATGTGGGAC
1 TGTAACTTGGTGAGGTGGGAC
*
22542963 TGTAACTTGGTGAGGTTGGAC
1 TGTAACTTGGTGAGGTGGGAC
22542984 TGTA
1 TGTA
22542988 CCCAGGAGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.21, C:0.09, G:0.39, T:0.31
Consensus pattern (21 bp):
TGTAACTTGGTGAGGTGGGAC
Found at i:22543017 original size:42 final size:42
Alignment explanation
Indices: 22542971--22543089 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
22542961 ACTGTAACTT
* * * *
22542971 GGTGAGGTTGGACTGTACCCAGGAGATGTGGGGCTATAAGCA
1 GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
* ** *
22543013 GGTGAAGTAGGGCTATATGAAGGAGATGTGGGGCTAT-AGGA
1 GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
* * * *
22543054 CGGTGAAGTAGGGCTGTACGAAGGAGATGTCGGGCT
1 -GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCT
22543090 GTACGATGGA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.05
42 62 0.95
ACGTcount: A:0.25, C:0.11, G:0.43, T:0.21
Consensus pattern (42 bp):
GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
Found at i:22543025 original size:21 final size:21
Alignment explanation
Indices: 22543001--22543194 Score: 106
Period size: 21 Copynumber: 9.2 Consensus size: 21
22542991 AGGAGATGTG
*
22543001 GGGCTATAAGCAGGTGAAGTA
1 GGGCTATATGCAGGTGAAGTA
* * * *
22543022 GGGCTATATGAAGGAGATGTG
1 GGGCTATATGCAGGTGAAGTA
*
22543043 GGGCTATA-GGACGGTGAAGTA
1 GGGCTATATGCA-GGTGAAGTA
* * * * * *
22543064 GGGCTGTACGAAGGAGATGTC
1 GGGCTATATGCAGGTGAAGTA
* * * *
22543085 GGGCTGTACG-ATGGAGATGTA
1 GGGCTATATGCA-GGTGAAGTA
* * *
22543106 GGGCTGTATG-ATGGAGAAGTG
1 GGGCTATATGCA-GGTGAAGTA
* *
22543127 GGGCTGTATGCAGGTGAAGTG
1 GGGCTATATGCAGGTGAAGTA
* *
22543148 GGGCTATATGCTGGTGAGGTA
1 GGGCTATATGCAGGTGAAGTA
* * *
22543169 GGGCTATATACGGGTGAAGTG
1 GGGCTATATGCAGGTGAAGTA
22543190 GGGCT
1 GGGCT
22543195 GTAGCTGGGT
Statistics
Matches: 142, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
20 3 0.02
21 136 0.96
22 3 0.02
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.23
Consensus pattern (21 bp):
GGGCTATATGCAGGTGAAGTA
Found at i:22543059 original size:84 final size:84
Alignment explanation
Indices: 22542971--22543131 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 84
22542961 ACTGTAACTT
* * * * *
22542971 GGTGAGGTTGGACTGTACCCAGGAGATGTGGGGCTATAAGCA-GGTGAAGTAGGGCTATATGAAG
1 GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAG-ATGGAGAAGTAGGGCTATATGAAG
*
22543035 GAGATGTGGGGCTATAGGAC
65 GAGAAGTGGGGCTATAGGAC
* * * * * * *
22543055 GGTGAAGTAGGGCTGTACGAAGGAGATGTCGGGCTGTACGATGGAGATGTAGGGCTGTATGATGG
1 GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAGATGGAGAAGTAGGGCTATATGAAGG
22543120 AGAAGTGGGGCT
66 AGAAGTGGGGCT
22543132 GTATGCAGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.25, C:0.10, G:0.43, T:0.22
Consensus pattern (84 bp):
GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAGATGGAGAAGTAGGGCTATATGAAGG
AGAAGTGGGGCTATAGGAC
Found at i:22543110 original size:63 final size:62
Alignment explanation
Indices: 22542998--22543197 Score: 166
Period size: 63 Copynumber: 3.2 Consensus size: 62
22542988 CCCAGGAGAT
* * * * * * * *
22542998 GTGGGGCTATAAGCAGGTGAAGTAGGGCTATATGAAGGAGATGTGGGGCTATAGGACGGTGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATA-GACGGTGAA
* * * * * *
22543061 GTAGGGCTGTACGAAGGAGATGTCGGGCTGTACGATGGAGATGTAGGGCTGTATGATGGAGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATA-GACGGTGAA
* * * * * * * * *
22543124 GTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGCTGGTGAGGTAGGGCTATATACGGGTGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATAGAC-GGTGAA
22543187 GTGGGGCTGTA
1 GTGGGGCTGTA
22543198 GCTGGGTGAA
Statistics
Matches: 106, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
62 1 0.01
63 105 0.99
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.23
Consensus pattern (62 bp):
GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATAGACGGTGAA
Found at i:22543152 original size:42 final size:42
Alignment explanation
Indices: 22542991--22543197 Score: 184
Period size: 42 Copynumber: 4.9 Consensus size: 42
22542981 GACTGTACCC
* *
22542991 AGGAGATGTGGGGCTATAAGCAGGTGAAGTAGGGCTATATGA
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
* *
22543033 AGGAGATGTGGGGCTATA-GGACGGTGAAGTAGGGCTGTACGA
1 AGGAGATGTGGGGCTATATGCA-GGTGAAGTAGGGCTGTATGA
* * * * *
22543075 AGGAGATGTCGGGCTGTACG-ATGGAGATGTAGGGCTGTATGA
1 AGGAGATGTGGGGCTATATGCA-GGTGAAGTAGGGCTGTATGA
* * * * * *
22543117 TGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGC
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
* * * * * * *
22543159 TGGTGAGGTAGGGCTATATACGGGTGAAGTGGGGCTGTA
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTA
22543198 GCTGGGTGAA
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
41 2 0.01
42 133 0.97
43 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.44, T:0.23
Consensus pattern (42 bp):
AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
Found at i:22543204 original size:21 final size:22
Alignment explanation
Indices: 22543121--22543233 Score: 110
Period size: 21 Copynumber: 5.4 Consensus size: 22
22543111 GTATGATGGA
* *
22543121 GAAGTGGGGCTGTATGC-AGGT
1 GAAGTGGGGCTATATGCTGGGT
22543142 GAAGTGGGGCTATATGCT-GGT
1 GAAGTGGGGCTATATGCTGGGT
* * *
22543163 GAGGTAGGGCTATATAC-GGGT
1 GAAGTGGGGCTATATGCTGGGT
*
22543184 GAAGTGGGGCTGTA-GCTGGGT
1 GAAGTGGGGCTATATGCTGGGT
* *
22543205 GAAGTGGGACTATA-GCTGGGG
1 GAAGTGGGGCTATATGCTGGGT
*
22543226 GATGTGGG
1 GAAGTGGG
22543234 ACTGTAACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.01
21 76 0.99
ACGTcount: A:0.19, C:0.09, G:0.48, T:0.24
Consensus pattern (22 bp):
GAAGTGGGGCTATATGCTGGGT
Found at i:22543218 original size:42 final size:41
Alignment explanation
Indices: 22543106--22543218 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
22543096 TGGAGATGTA
* * * * *
22543106 GGGCTGTATGATGGAGAAGTGGGGCTGTATGCAGGTGAAGTG
1 GGGCTATATGCTGGTGAAGT-GGGCTATATACAGGTGAAGTG
* *
22543148 GGGCTATATGCTGGTGAGGTAGGGCTATATACGGGTGAAGTG
1 GGGCTATATGCTGGTGAAGT-GGGCTATATACAGGTGAAGTG
*
22543190 GGGCTGTA-GCTGGGTGAAGTGGGACTATA
1 GGGCTATATGCT-GGTGAAGTGGG-CTATA
22543219 GCTGGGGGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 6 0.10
42 53 0.90
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.25
Consensus pattern (41 bp):
GGGCTATATGCTGGTGAAGTGGGCTATATACAGGTGAAGTG
Found at i:22543251 original size:63 final size:63
Alignment explanation
Indices: 22543103--22543225 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
22543093 CGATGGAGAT
* * *
22543103 GTAGGGCTGTATGA-TGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGCTGGTGAG
1 GTAGGGCTATAT-ACTGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGACTATATGCTGGGGAG
* * *
22543166 GTAGGGCTATATACGGGTGAAGTGGGGCTGTA-GCTGGGTGAAGTGGGACTATA-GCTGGGG
1 GTAGGGCTATATACTGGAGAAGTGGGGCTGTATGC-AGGTGAAGTGGGACTATATGCTGGGG
22543226 GATGTGGGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 9 0.17
63 43 0.83
ACGTcount: A:0.20, C:0.09, G:0.46, T:0.24
Consensus pattern (63 bp):
GTAGGGCTATATACTGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGACTATATGCTGGGGAG
Found at i:22543297 original size:21 final size:21
Alignment explanation
Indices: 22543235--22543314 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
22543225 GGATGTGGGA
* *
22543235 CTGTAACTTGGAGAAGTAGGA
1 CTGTAACTTGGAGAGGTAGGG
*
22543256 CTGTAACTTGGAGATGTAGGG
1 CTGTAACTTGGAGAGGTAGGG
22543277 CTGTAACTTGGAGAGGTAGGG
1 CTGTAACTTGGAGAGGTAGGG
* * *
22543298 CTATAGCTTGGTGAGGT
1 CTGTAACTTGGAGAGGT
22543315 TGGAGAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.25, C:0.10, G:0.38, T:0.28
Consensus pattern (21 bp):
CTGTAACTTGGAGAGGTAGGG
Found at i:22543308 original size:42 final size:42
Alignment explanation
Indices: 22543187--22543308 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
22543177 TACGGGTGAA
* * * * * * *
22543187 GTGGGGCTGTAGCTGGGTGAAGTGGGACTATAGCTGGGGGAT
1 GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
* *
22543229 GTGGGACTGTAACTTGGAGAAGTAGGACTGTAACTTGGAGAT
1 GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
* *
22543271 GTAGGG-CTGTAACTTGGAGAGGTAGGGCTATAGCTTGG
1 GT-GGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGG
22543309 TGAGGTTGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.22, C:0.10, G:0.43, T:0.25
Consensus pattern (42 bp):
GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
Found at i:22543421 original size:21 final size:21
Alignment explanation
Indices: 22543358--22543518 Score: 128
Period size: 21 Copynumber: 7.7 Consensus size: 21
22543348 TGGACTTGTC
* * * *
22543358 GGACTGTATCCTGGTGAGCTA
1 GGACTGTAACCAGGAGAGGTA
** * * *
22543379 GGACTGTAAGTAGGTGATGTG
1 GGACTGTAACCAGGAGAGGTA
* *
22543400 GGGCTGTAACCAGGAGAGGTG
1 GGACTGTAACCAGGAGAGGTA
* *
22543421 GGACTGTACCCAGGAGATGTA
1 GGACTGTAACCAGGAGAGGTA
22543442 GGACTGTAACCAGGAGAGGTA
1 GGACTGTAACCAGGAGAGGTA
* *
22543463 GGACTGTAACCAGGTGATG-A
1 GGACTGTAACCAGGAGAGGTA
* *
22543483 CGGACTGTATCCAGGAGATG-A
1 -GGACTGTAACCAGGAGAGGTA
*
22543504 TGGGCTGTAACCAGG
1 -GGACTGTAACCAGG
22543519 GGATGACGTA
Statistics
Matches: 114, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
20 1 0.01
21 113 0.99
ACGTcount: A:0.26, C:0.16, G:0.38, T:0.20
Consensus pattern (21 bp):
GGACTGTAACCAGGAGAGGTA
Found at i:22543425 original size:42 final size:42
Alignment explanation
Indices: 22543379--22543523 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 42
22543369 TGGTGAGCTA
** * *
22543379 GGACTGTAAGTAGGTGATGTGGGGCTGTAACCAGGAGAGGTG
1 GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
* * *
22543421 GGACTGTACCCAGGAGATGTAGGACTGTAACCAGGAGAGGTA
1 GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
* *
22543463 GGACTGTAACCAGGTGATG-ACGGACTGTATCCAGGAGATGATG
1 GGACTGTAACCAGGTGATGTA-GGACTGTAACCAGGAGA-GGTG
*
22543506 GG-CTGTAACCAGGGGATG
1 GGACTGTAACCAGGTGATG
22543524 ACGTAGGAGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.94
43 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.39, T:0.19
Consensus pattern (42 bp):
GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
Found at i:22548442 original size:14 final size:14
Alignment explanation
Indices: 22548396--22548431 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
22548386 AAAAAAAAAG
*
22548396 ATTAACAAAGCCAA
1 ATTAACAAAACCAA
22548410 ATTAACAAAACCAA
1 ATTAACAAAACCAA
22548424 ATTAACAA
1 ATTAACAA
22548432 CACAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (14 bp):
ATTAACAAAACCAA
Found at i:22549746 original size:15 final size:16
Alignment explanation
Indices: 22549728--22549760 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22549718 AAAAGACTGC
22549728 AAGAAAAA-TGGAGAA
1 AAGAAAAAGTGGAGAA
22549743 AAGAAAAAGTTGGAGAA
1 AAGAAAAAG-TGGAGAA
22549760 A
1 A
22549761 TTGAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (16 bp):
AAGAAAAAGTGGAGAA
Found at i:22555823 original size:35 final size:35
Alignment explanation
Indices: 22555784--22555858 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
22555774 TGTCGCCCCT
*
22555784 AAGGAATCGTATACCATTTACACAATGTCACCTCA
1 AAGGAATCATATACCATTTACACAATGTCACCTCA
* * * ** *
22555819 AAGGACTTATATACCATTTAGACGGTGTTACCTCA
1 AAGGAATCATATACCATTTACACAATGTCACCTCA
22555854 AAGGA
1 AAGGA
22555859 CCAATAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (35 bp):
AAGGAATCATATACCATTTACACAATGTCACCTCA
Found at i:22555859 original size:35 final size:35
Alignment explanation
Indices: 22555793--22555859 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
22555783 TAAGGAATCG
22555793 TATACCATTTACACAATGTCACCTCAAAGGACTTA
1 TATACCATTTACACAATGTCACCTCAAAGGACTTA
* ** *
22555828 TATACCATTTAGACGGTGTTACCTCAAAGGAC
1 TATACCATTTACACAATGTCACCTCAAAGGAC
22555860 CAATAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (35 bp):
TATACCATTTACACAATGTCACCTCAAAGGACTTA
Found at i:22559288 original size:21 final size:21
Alignment explanation
Indices: 22559263--22559320 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
22559253 TACACGACCT
22559263 AACCACACGGGCGTGTCCCTA
1 AACCACACGGGCGTGTCCCTA
22559284 AACCACACGGGCGTGTCCCTA
1 AACCACACGGGCGTGTCCCTA
22559305 AACCACACGGGCGTGT
1 AACCACACGGGCGTGT
22559321 GAGCCCTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (21 bp):
AACCACACGGGCGTGTCCCTA
Found at i:22559510 original size:22 final size:22
Alignment explanation
Indices: 22559476--22559519 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
22559466 TTTTGATTCG
22559476 ATTTTTCTATAATTAATCTGTAA
1 ATTTTTCTATAA-TAATCTGTAA
* *
22559499 ATTTTT-TGTAATACTCTGTAA
1 ATTTTTCTATAATAATCTGTAA
22559520 CCCTATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTTTCTATAATAATCTGTAA
Found at i:22562080 original size:5 final size:5
Alignment explanation
Indices: 22562070--22562094 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22562060 GAAGCCAACG
22562070 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
22562095 TCTAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:22569163 original size:2 final size:2
Alignment explanation
Indices: 22569154--22569193 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
22569144 TTATTAAGTA
22569154 AT AT -T 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 AT AT A
22569194 AGAGAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22573312 original size:20 final size:20
Alignment explanation
Indices: 22573284--22573322 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22573274 CCCTTACAAT
*
22573284 TTTGCAAGAGTTTTAGTAAA
1 TTTGCAAGAATTTTAGTAAA
*
22573304 TTTGTAAGAATTTTAGTAA
1 TTTGCAAGAATTTTAGTAA
22573323 TATCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTGCAAGAATTTTAGTAAA
Found at i:22574441 original size:22 final size:22
Alignment explanation
Indices: 22574416--22574487 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
22574406 TGCACCATGA
*
22574416 TGCCTACTGATTTGCACTACAG
1 TGCCTACTAATTTGCACTACAG
** *
22574438 TGCCTACTAATTCACACTTC-G
1 TGCCTACTAATTTGCACTACAG
*
22574459 ATACCTAC-AATTTTGCACTACAG
1 -TGCCTACTAA-TTTGCACTACAG
22574482 TGCCTA
1 TGCCTA
22574488 TTGTTTTGCA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 3 0.08
22 34 0.89
23 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
TGCCTACTAATTTGCACTACAG
Found at i:22579767 original size:27 final size:27
Alignment explanation
Indices: 22579736--22579913 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22579726 TAAATTGTAC
22579736 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22579763 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22579789 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22579817 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22579845 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22579872 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22579899 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22579914 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22579850 original size:82 final size:81
Alignment explanation
Indices: 22579737--22579892 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22579727 AAATTGTACA
* *
22579737 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22579801 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22579818 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22579883 TGCGAGTTGA
65 TGCGAATTGA
22579893 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22579904 original size:82 final size:81
Alignment explanation
Indices: 22579733--22579913 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22579723 GATTAAATTG
* *
22579733 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22579798 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22579814 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22579878 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22579896 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22579914 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22587528 original size:39 final size:39
Alignment explanation
Indices: 22587485--22587611 Score: 218
Period size: 39 Copynumber: 3.3 Consensus size: 39
22587475 CCGGCAATTA
22587485 GCCTGCTAGATATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGATATAAACCTGAACTTATCACCGGCACGAG
* * *
22587524 GCCTGCTAGGTATAAACCTGAGCTTATCACCGGCACTAG
1 GCCTGCTAGATATAAACCTGAACTTATCACCGGCACGAG
*
22587563 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGATATAAACCTGAACTTATCACCGGCACGAG
22587602 GCCTGCTAGA
1 GCCTGCTAGA
22587612 CATTAAGTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGATATAAACCTGAACTTATCACCGGCACGAG
Found at i:22589783 original size:6 final size:6
Alignment explanation
Indices: 22589772--22589801 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
22589762 TATTTTACTA
*
22589772 TTATTT TTATTT TTATTT TTATTT TAATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
22589802 CAATTCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:22593000 original size:48 final size:47
Alignment explanation
Indices: 22592945--22593120 Score: 201
Period size: 48 Copynumber: 3.7 Consensus size: 47
22592935 AGGTGAATTT
* *
22592945 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATGTTGAGG
* * * * *
22592993 CCGATGCCATGTCCCAGTCATGGTCTTACACTAGCT-CTTGTCTCATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATGT-TGA-GG
* * * * *
22593041 CTGATGCCATATCCCAGACATGGCCTTACACTGGCTCTCATGATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATGTTGAGG
22593089 CCGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
22593121 AGTACACATA
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 4 0.04
47 2 0.02
48 94 0.90
49 1 0.01
50 3 0.03
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATGTTGAGG
Found at i:22593111 original size:96 final size:96
Alignment explanation
Indices: 22592947--22593122 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
22592937 GTGAATTTCC
* * * * *
22592947 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGTC
1 GATGCCATATCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
22593012 ATGGTCTTACACTAGCTCTTGTCTCATTGCT
66 ATGGTCTTACACTAGCTCTTGTCTCATTGCT
* * *
22593043 GATGCCATATCCCAGACATGGCCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCCAGAC
1 GATGCCATATCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
22593108 ATGGTCTTACACTAG
66 ATGGTCTTACACTAG
22593123 TACACATATC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (96 bp):
GATGCCATATCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTTGTCTCATTGCT
Found at i:22601050 original size:35 final size:35
Alignment explanation
Indices: 22601011--22601078 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
22601001 CCATGGTTGT
22601011 TCCATGGCAAAG-TGTGAAATGTAGGTATGGTATCA
1 TCCAT-GCAAAGTTGTGAAATGTAGGTATGGTATCA
**
22601046 TCCATGCTGAGTTGTGAAATGTAGGTATGGTAT
1 TCCATGCAAAGTTGTGAAATGTAGGTATGGTAT
22601079 TATCAAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.32
Consensus pattern (35 bp):
TCCATGCAAAGTTGTGAAATGTAGGTATGGTATCA
Found at i:22601089 original size:40 final size:35
Alignment explanation
Indices: 22601023--22601153 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 35
22601013 CATGGCAAAG
*
22601023 TGTGAAATGTAGGTATGGTATCATCCATGCTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
22601058 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** **** * *
22601098 TAAGAAATGTAGGTACAACAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
*
22601133 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
22601154 TTCAATGAGA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
34 1 0.01
35 42 0.57
37 2 0.03
38 4 0.05
40 25 0.34
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:22602986 original size:48 final size:47
Alignment explanation
Indices: 22602934--22603088 Score: 150
Period size: 48 Copynumber: 3.2 Consensus size: 47
22602924 ATGTCGAGGC
*
22602934 TGATGCCATGTCCCAGTCATGGTATTACACTAGCTCTCGTCTCATTGT
1 TGATGCCATGTCCCAGACATGGTATTACACTAGCTCTC-TCTCATTGT
* * * * * *
22602982 TGATGCCATGTCCCAAACATGGTCTTACACTAGCGTAC-ATATCAATGC
1 TGATGCCATGTCCCAGACATGGTATTACACTAGC-T-CTCTCTCATTGT
* * * * * *
22603030 CGATGTCATGTCTCAGACATGGTTTTACACTAGCTCTCACAACATTGT
1 TGATGCCATGTCCCAGACATGGTATTACACTAGCTCTCTC-TCATTGT
22603078 TGATGCCATGT
1 TGATGCCATGT
22603089 TCCAAACTGT
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 79 0.95
49 1 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (47 bp):
TGATGCCATGTCCCAGACATGGTATTACACTAGCTCTCTCTCATTGT
Found at i:22603051 original size:96 final size:96
Alignment explanation
Indices: 22602887--22603154 Score: 292
Period size: 96 Copynumber: 2.8 Consensus size: 96
22602877 GTGAATTACC
* * * * * * *
22602887 GATGCCATGTTCCAAAAATGGTCTTACATTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
* *
22602952 ATGGTATTACACTAGCTCTCGTC-TCATTGTT
66 ATGGTATTACACTAGCTCTC-ACAACATTGTT
* * * *
22602983 GATGCCATGTCCCAAACATGGTCTTACACTAGCGT-ACATATCAATGCCGATGTCATGTCTCAGA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-TCACATATCAAGGCCGATGCCATGTCCCAGA
*
22603047 CATGGTTTTACACTAGCTCTCACAACATTGTT
65 CATGGTATTACACTAGCTCTCACAACATTGTT
* * * ** *
22603079 GATGCCATGTTCCAAAC-T-GTCTTACATTGGCTCTCATATCGTGGCCGATTCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
* *
22603142 ATAGTCTTACACT
66 ATGGTATTACACT
22603155 GGCACATATT
Statistics
Matches: 143, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
93 1 0.01
94 45 0.31
95 2 0.01
96 94 0.66
97 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
ATGGTATTACACTAGCTCTCACAACATTGTT
Found at i:22610201 original size:30 final size:29
Alignment explanation
Indices: 22610158--22610217 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
22610148 AAGAATATTT
22610158 ACAGAATCCTTAACTGAAGGGATGACAAC
1 ACAGAATCCTTAACTGAAGGGATGACAAC
22610187 ACAGAATCCCTTAACTGAAGGGATGACAAC
1 ACAGAAT-CCTTAACTGAAGGGATGACAAC
22610217 A
1 A
22610218 GTTCATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.17
Consensus pattern (29 bp):
ACAGAATCCTTAACTGAAGGGATGACAAC
Found at i:22616112 original size:17 final size:17
Alignment explanation
Indices: 22616057--22616112 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
22616047 TAATTTTTAA
*
22616057 TAATTTATAAATTATAT
1 TAATTTAAAAATTATAT
22616074 TAATTT---AATTAT-T
1 TAATTTAAAAATTATAT
*
22616087 CACATTTAAAAATTATAT
1 TA-ATTTAAAAATTATAT
22616105 TAATTTAA
1 TAATTTAA
22616113 TCTTCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
17 18 0.56
18 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTTAAAAATTATAT
Found at i:22616880 original size:18 final size:18
Alignment explanation
Indices: 22616857--22616891 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22616847 AGCCCACCCA
*
22616857 TATTTATTTATTTTTTAT
1 TATTTATATATTTTTTAT
22616875 TATTTATATATTTTTTA
1 TATTTATATATTTTTTA
22616892 AAATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATATTTTTTAT
Found at i:22617149 original size:19 final size:19
Alignment explanation
Indices: 22617127--22617166 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22617117 ATAGTGAAAG
* *
22617127 AACAAGAAAATAGCAACAA
1 AACAAAAAAAAAGCAACAA
*
22617146 AACAAAAAAAAATCAACAA
1 AACAAAAAAAAAGCAACAA
22617165 AA
1 AA
22617167 TAGTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (19 bp):
AACAAAAAAAAAGCAACAA
Found at i:22631525 original size:9 final size:9
Alignment explanation
Indices: 22631497--22631533 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
22631487 TGATTAAAAC
22631497 AATATTTAA
1 AATATTTAA
22631506 AA-A-TTATA
1 AATATTTA-A
22631514 AATATTTAA
1 AATATTTAA
22631523 AATATTTAA
1 AATATTTAA
22631532 AA
1 AA
22631534 AAAATAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
9 15 0.60
10 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AATATTTAA
Found at i:22634665 original size:19 final size:19
Alignment explanation
Indices: 22634638--22634677 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22634628 AACCACCTAA
22634638 TTCTCCTTT-TTTCTTTTCT
1 TTCTCCTTTCTTTC-TTTCT
*
22634657 TTCTTCTTTCTTTCTTTCT
1 TTCTCCTTTCTTTCTTTCT
22634676 TT
1 TT
22634678 GCATCCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTCCTTTCTTTCTTTCT
Found at i:22634670 original size:15 final size:16
Alignment explanation
Indices: 22634647--22634676 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22634637 ATTCTCCTTT
22634647 TTTCTTTTCTTTCTTC
1 TTTCTTTTCTTTCTTC
22634663 TTTC-TTTCTTTCTT
1 TTTCTTTTCTTTCTT
22634677 TGCATCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTC
Found at i:22634740 original size:14 final size:14
Alignment explanation
Indices: 22634708--22634749 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
22634698 GCCTATTCTG
22634708 TTTCTTTTATTTGTTC
1 TTTCTTTTA-TT-TTC
22634724 TTTAC-TTTATTTTC
1 TTT-CTTTTATTTTC
22634738 TTTCTTTTATTT
1 TTTCTTTTATTT
22634750 GTTTTAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 13 0.54
15 2 0.08
16 7 0.29
17 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTATTTTC
Found at i:22636372 original size:29 final size:31
Alignment explanation
Indices: 22636340--22636399 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
22636330 TTAAAAATTA
22636340 GAAATTTAGTC-TCTATATTTTC-ATTTCAT
1 GAAATTTAGTCTTCTATATTTTCAATTTCAT
*
22636369 GAAATTTAGTCTTTCTATTTTTTCAATTTCA
1 GAAATTTAGTC-TTCTATATTTTCAATTTCA
22636400 AAATTCAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.41
31 10 0.37
32 6 0.22
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (31 bp):
GAAATTTAGTCTTCTATATTTTCAATTTCAT
Found at i:22640882 original size:6 final size:6
Alignment explanation
Indices: 22640868--22640912 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
22640858 CACTAATCTC
*
22640868 TCTCCT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCT
22640913 TTGGCTGCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
TCTCTT
Found at i:22646734 original size:18 final size:18
Alignment explanation
Indices: 22646696--22646728 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22646686 ACTTGTAAGA
22646696 AATTGTAACCTATCTCAC
1 AATTGTAACCTATCTCAC
22646714 AATTGT-ACCT-TCTCA
1 AATTGTAACCTATCTCA
22646729 TCCAATCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTGTAACCTATCTCAC
Found at i:22658612 original size:30 final size:31
Alignment explanation
Indices: 22658540--22658618 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 31
22658530 TACTATTCAT
* * *
22658540 TTCAGGTTATTTATGTACATAATAAAAAAAA
1 TTCAAGTTATTTTTGTAAATAATAAAAAAAA
* * *
22658571 GT-GAGTCATTTTTGTAAATAAT-AAAAAAA
1 TTCAAGTTATTTTTGTAAATAATAAAAAAAA
*
22658600 TTCAAGTTATTTTTATAAA
1 TTCAAGTTATTTTTGTAAA
22658619 AAAAACACAT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
29 8 0.22
30 28 0.76
31 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (31 bp):
TTCAAGTTATTTTTGTAAATAATAAAAAAAA
Found at i:22666111 original size:19 final size:19
Alignment explanation
Indices: 22666075--22666112 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22666065 ATTCCATCAA
*
22666075 TTATAAAATTTTTATTAAT
1 TTATAAAATTATTATTAAT
22666094 TTATAAAAGTTATT-TTAAT
1 TTATAAAA-TTATTATTAAT
22666113 ATCTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTATAAAATTATTATTAAT
Found at i:22667411 original size:30 final size:30
Alignment explanation
Indices: 22667372--22667428 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22667362 TTTTATAAGT
22667372 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
22667402 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
22667429 AACGACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:22667616 original size:13 final size:13
Alignment explanation
Indices: 22667600--22667629 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22667590 TAAACTAAAT
*
22667600 TTTTTAAAAACAC
1 TTTTGAAAAACAC
22667613 TTTTGAAAAACAC
1 TTTTGAAAAACAC
22667626 TTTT
1 TTTT
22667630 CTACCACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAACAC
Found at i:22676777 original size:18 final size:18
Alignment explanation
Indices: 22676748--22676821 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
22676738 ACAATTCTTA
*
22676748 TAATAATTTTAATAGTTTT
1 TAATATTTTTAATA-TTTT
22676767 T-ATATTTTTAATATTTT
1 TAATATTTTTAATATTTT
* *
22676784 TGCAAT-TTTATATTATTTT
1 T--AATATTTTTAATATTTT
*
22676803 TAATATATTTAATATTTT
1 TAATATTTTTAATATTTT
22676821 T
1 T
22676822 TATAACTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.18
18 22 0.49
19 13 0.29
20 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (18 bp):
TAATATTTTTAATATTTT
Found at i:22676804 original size:46 final size:46
Alignment explanation
Indices: 22676729--22676821 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
22676719 TAAATTTATA
*
22676729 TAATTTTTTACAATTCTTATAATAATTTTAATAGT-TTTTATATTTT
1 TAATTTTTTACAATTCTTATAATAATTTTAATA-TATTTAATATTTT
* * *
22676775 TAATATTTTTGCAATT-TTATATTATTTTTAATATATTTAATATTTT
1 TAAT-TTTTTACAATTCTTATAATAATTTTAATATATTTAATATTTT
22676821 T
1 T
22676822 TATAACTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.02
46 30 0.73
47 10 0.24
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (46 bp):
TAATTTTTTACAATTCTTATAATAATTTTAATATATTTAATATTTT
Found at i:22676901 original size:19 final size:21
Alignment explanation
Indices: 22676877--22676922 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
22676867 AAAGTTTAAG
*
22676877 TATTTTAAAT-ATTTTTTAT-
1 TATTTTAAATAAATTTTTATA
*
22676896 TATTTTTAATAAATTTTTATA
1 TATTTTAAATAAATTTTTATA
22676917 TATTTT
1 TATTTT
22676923 TCAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTAAATAAATTTTTATA
Found at i:22684032 original size:8 final size:8
Alignment explanation
Indices: 22684019--22684044 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22684009 TTGTTTTAGT
22684019 TATAATAA
1 TATAATAA
22684027 TATAATAA
1 TATAATAA
22684035 TATAATAA
1 TATAATAA
22684043 TA
1 TA
22684045 ATTTCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAATAA
Found at i:22685092 original size:50 final size:50
Alignment explanation
Indices: 22684830--22685089 Score: 292
Period size: 50 Copynumber: 5.2 Consensus size: 50
22684820 CCTAAATGAC
* * * * * *
22684830 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
22684880 CTTGAATATTCGACCATGAAAGTGT--GCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAG-GTAAGCACATATGTGATATTATATTTG-AT
* * * *
22684931 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
22684980 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGTT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
22685030 CTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTATATCTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
22685080 CTTGTATATT
1 CTTGTATATT
22685090 TGGTCAAATG
Statistics
Matches: 177, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 164 0.93
51 5 0.03
52 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:22688879 original size:48 final size:50
Alignment explanation
Indices: 22688790--22688885 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 50
22688780 AGTAAAAGAG
* *
22688790 TATTAATTAAAAAGATAAATTAAAAATAAATAATTTGAAAACAATATATT
1 TATTAATTAAAAAGATAAATTAAAAATAAAAAACTTGAAAACAATATATT
* *
22688840 TATTAATTAAAAA-A-CAGTTAAAAATAAAAAAGCTT-AAAACAATATA
1 TATTAATTAAAAAGATAAATTAAAAATAAAAAA-CTTGAAAACAATATA
22688886 AAATAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 25 0.61
49 3 0.07
50 13 0.32
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (50 bp):
TATTAATTAAAAAGATAAATTAAAAATAAAAAACTTGAAAACAATATATT
Found at i:22695418 original size:55 final size:54
Alignment explanation
Indices: 22695343--22695453 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 54
22695333 TTGAAAATAC
22695343 ATTTTATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
1 ATTTTATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
22695397 ATTTCTATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
1 ATTT-TATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
22695452 AT
1 AT
22695454 AATCATGAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 4 0.07
55 52 0.93
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (54 bp):
ATTTTATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
Found at i:22696090 original size:42 final size:43
Alignment explanation
Indices: 22696015--22696136 Score: 160
Period size: 41 Copynumber: 2.9 Consensus size: 43
22696005 AACAAACTCA
* *
22696015 AAATAAATAAGCAAAAAATTAAATTTATAATTATATTTTGGTAC
1 AAATAAATAA-TAAAAAATTAAATTTAAAATTATATTTTGGTAC
** *
22696059 AAATAAATAATAAAAAA-TATTTTTAAAATTAT-TTTTTGTAC
1 AAATAAATAATAAAAAATTAAATTTAAAATTATATTTTGGTAC
*
22696100 AAATATATAATAAAAAATTAAATTTAAAA-TATATTTT
1 AAATAAATAATAAAAAATTAAATTTAAAATTATATTTT
22696137 AAGATTAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 27 0.40
42 25 0.37
43 6 0.09
44 10 0.15
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (43 bp):
AAATAAATAATAAAAAATTAAATTTAAAATTATATTTTGGTAC
Found at i:22700919 original size:5 final size:5
Alignment explanation
Indices: 22700905--22700958 Score: 54
Period size: 6 Copynumber: 9.6 Consensus size: 5
22700895 CAATCTTTCT
22700905 TTTTA TTTTTA TTTTTA TTTATTA TTTTA TTTATTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA -TTTTA -TT-TTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
22700956 TTT
1 TTT
22700959 AAATATTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
5 19 0.42
6 20 0.44
7 6 0.13
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:22700921 original size:12 final size:12
Alignment explanation
Indices: 22700905--22700959 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
22700895 CAATCTTTCT
22700905 TTTTATTT-TTA
1 TTTTATTTATTA
22700916 TTTTTATTTATTA
1 -TTTTATTTATTA
22700929 TTTTATTTATTA
1 TTTTATTTATTA
22700941 TTTTA-TT-TTA
1 TTTTATTTATTA
22700951 TTTTATTTA
1 TTTTATTTA
22700960 AATATTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.20
11 4 0.10
12 25 0.62
13 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:22701139 original size:42 final size:42
Alignment explanation
Indices: 22701026--22701141 Score: 162
Period size: 42 Copynumber: 2.8 Consensus size: 42
22701016 AAAACAACCC
* * *
22701026 TATCCATGGTACCAAACAGTTCTATTCCAACCCAAAATGCCA
1 TATCCCTGCTACCAAACAGTTCTATTCCAGCCCAAAATGCCA
*
22701068 TATCCCTGCTACCAAACAGTTCTATTCCAGCCCAGAATGCCA
1 TATCCCTGCTACCAAACAGTTCTATTCCAGCCCAAAATGCCA
* *
22701110 TATCTCTGC-AGCCAAACAGTCCTATTCCAGCC
1 TATCCCTGCTA-CCAAACAGTTCTATTCCAGCC
22701142 TTAGAATCCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.24
Consensus pattern (42 bp):
TATCCCTGCTACCAAACAGTTCTATTCCAGCCCAAAATGCCA
Found at i:22701163 original size:43 final size:42
Alignment explanation
Indices: 22701037--22701175 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 42
22701027 ATCCATGGTA
* * * * * * *
22701037 CCAAACAGTTCTATTCCAACCCAAAATGCCATATCCCTGCTA-
1 CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGC-AG
* * * *
22701079 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
*
22701121 CCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCAG
1 CCAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCAG
*
22701164 CCAAACACTCCT
1 CCAAACAGTCCT
22701176 TTTCAGCAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 57 0.67
43 22 0.26
44 5 0.06
ACGTcount: A:0.32, C:0.37, G:0.10, T:0.22
Consensus pattern (42 bp):
CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
Found at i:22705652 original size:41 final size:40
Alignment explanation
Indices: 22705597--22705714 Score: 96
Period size: 41 Copynumber: 2.9 Consensus size: 40
22705587 AAGCCTTGTG
* *
22705597 CTGGTGAATTAAATCGGGCTTTATGCCTAGCAGGCTTATTA
1 CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTTA-TA
* * * * *
22705638 CTGGTGTATAAAATCAGACTTTGA-GTCTAGCAGGCCTCATG
1 CTGGTGTATAAAATCGGGCTTT-ATGCCTAGCAGG-CTTATA
* * * *
22705679 CCGGTGTGTGATA-CGGGCTTTATGCCTAGCAGGCTT
1 CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTT
22705715 TATGCCGGTG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
39 3 0.05
40 15 0.25
41 37 0.63
42 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTTATA
Found at i:22708433 original size:33 final size:33
Alignment explanation
Indices: 22708390--22708558 Score: 196
Period size: 33 Copynumber: 5.1 Consensus size: 33
22708380 TGTACGTTTC
* *
22708390 TTTCTGAGTGGTACATACAAAGTATACCTTTCCT
1 TTTCT-AGTGGTATACACAAAGTATACCTTTCCT
**
22708424 TTTCTAGTGGTATACACAAAGTATACCTAACCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
* * * * * **
22708457 TTCCAAGT-GTACACACAAAGTGTACATAACCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
* *
22708489 TTTCAAATGGTATACACAAAGTATACCTTTCCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
*
22708522 TTTCTAGTGGTATGCACAAAGTATACCTTTCCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
22708555 TTTC
1 TTTC
22708559 ACATTTGATA
Statistics
Matches: 115, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
32 27 0.23
33 83 0.72
34 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTCTAGTGGTATACACAAAGTATACCTTTCCT
Found at i:22708469 original size:65 final size:66
Alignment explanation
Indices: 22708396--22708559 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 66
22708386 TTTCTTTCTG
* * *
22708396 AGTGGTACATACAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCC
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
22708461 A
66 A
* * ** ** *
22708462 AGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTTTCCTTTTC
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
*
22708526 T
66 A
**
22708527 AGTGGTATGCACAAAGTATACCTTTCCTTTTCA
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCA
22708560 CATTTGATAA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 54 0.68
66 26 0.32
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (66 bp):
AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
A
Found at i:22708597 original size:29 final size:29
Alignment explanation
Indices: 22708552--22708766 Score: 322
Period size: 29 Copynumber: 7.4 Consensus size: 29
22708542 GTATACCTTT
* * *
22708552 CCTTTTCACATTTGATAACCGAAACTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
22708581 CCTTTTCACATTCGATAACCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
22708610 CCTTTTCACATTCGATAGCTGAAGGTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
22708639 CCTTTTCACATTCAATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * *
22708668 CCTTTTTATATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
22708697 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
22708726 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
22708755 CCTTTTCACATT
1 CCTTTTCACATT
22708767 GTACACACAA
Statistics
Matches: 168, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 168 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:22717115 original size:10 final size:10
Alignment explanation
Indices: 22717097--22717127 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22717087 AATTTGCTTG
*
22717097 CTTTAAAAAT
1 CTTTGAAAAT
22717107 CTTTGAAAAT
1 CTTTGAAAAT
22717117 CTTTGAAAAT
1 CTTTGAAAAT
22717127 C
1 C
22717128 AGGGTGGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (10 bp):
CTTTGAAAAT
Found at i:22718950 original size:33 final size:33
Alignment explanation
Indices: 22718922--22719182 Score: 276
Period size: 33 Copynumber: 8.0 Consensus size: 33
22718912 TTTCTTTCCG
* *
22718922 AGTGGTACACACAAAGTATACCTTTTCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* ** *
22718955 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* * * **
22718988 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* *
22719020 AATGGTATAC-CAAAGTATACCTTTCCTTTTCT
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
** *
22719052 AGTGGTATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* * * ** *
22719085 AGT-GTACACACAAAGTGTACATAACCTTTGCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* * *
22719117 AATGGTATATACAAAGTATACCTTTCCTTTTCT
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
22719150 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
22719183 CATTCGATAG
Statistics
Matches: 186, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
32 80 0.43
33 106 0.57
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (33 bp):
AGTGGTATACACAAAGTATACCTTTCCTTTTCA
Found at i:22718995 original size:65 final size:66
Alignment explanation
Indices: 22718915--22719172 Score: 279
Period size: 65 Copynumber: 4.0 Consensus size: 66
22718905 GTGTACGTTT
* ***
22718915 CTTTCCGAGTGGTACACACAAAGTATACCTTTTCTTTTCAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGTGGTACACACAAAGTATACCTAACCTTTTCAAATGGTATACACAAAGTATACCTAA
22718980 C
66 C
* * **
22718981 CTTTCCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATAC-CAAAGTATACCTTT
1 CTTTCCAAGTGGTACACACAAAGTATACCTAACCTTTTCAAATGGTATACACAAAGTATACCTAA
22719044 C
66 C
* * * * * * * *
22719045 CTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CTTTCCAAGTGGTACACACAAAGTATACCTAACCTTTTCAAATGGTATACACAAAGTATACCTAA
22719109 C
66 C
* * * * ** * *
22719110 CTTTGCAAATGGTATATACAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCT
1 CTTTCCAAGTGGTACACACAAAGTATACCTAACCTTTTCAAATGGTATACACAAAGTATACCT
22719173 TTCCTTTTCA
Statistics
Matches: 158, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
64 26 0.16
65 107 0.68
66 25 0.16
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (66 bp):
CTTTCCAAGTGGTACACACAAAGTATACCTAACCTTTTCAAATGGTATACACAAAGTATACCTAA
C
Found at i:22719058 original size:97 final size:97
Alignment explanation
Indices: 22718924--22719172 Score: 426
Period size: 97 Copynumber: 2.5 Consensus size: 97
22718914 TCTTTCCGAG
* * * *
22718924 TGGTACACACAAAGTATACCTTTTCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAA
1 TGGTATAC-CAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCCAA
*
22718989 GTGTACACACAAAGTGTACATAACCTTTTCAAA
65 GTGTACACACAAAGTGTACATAACCTTTGCAAA
22719022 TGGTATACCAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCCAAG
1 TGGTATACCAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCCAAG
22719087 TGTACACACAAAGTGTACATAACCTTTGCAAA
66 TGTACACACAAAGTGTACATAACCTTTGCAAA
*
22719119 TGGTATATACAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCT
1 TGGTATA-CCAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCT
22719173 TTCCTTTTCA
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 92 0.64
98 52 0.36
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (97 bp):
TGGTATACCAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCCAAG
TGTACACACAAAGTGTACATAACCTTTGCAAA
Found at i:22719221 original size:29 final size:29
Alignment explanation
Indices: 22719175--22719331 Score: 242
Period size: 29 Copynumber: 5.4 Consensus size: 29
22719165 GTATACCTTT
* *
22719175 CCTTTTCACATTCGATAGCTGAAGGTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
22719204 CCTTTTCACATTCAATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * **
22719233 CCTTTTTATATTCGATAGCTAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
22719262 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
22719291 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
22719320 CCTTTTCACATT
1 CCTTTTCACATT
22719332 GTACACACAA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:22722267 original size:40 final size:40
Alignment explanation
Indices: 22722212--22722417 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
22722202 GGACTAATAT
* *
22722212 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
22722252 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
22722292 CTGAACGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
22722332 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
22722372 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
22722411 CCGAAGG
1 CCGAAGG
22722418 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:22724458 original size:179 final size:179
Alignment explanation
Indices: 22724153--22724515 Score: 672
Period size: 179 Copynumber: 2.0 Consensus size: 179
22724143 TTTTATACCC
*
22724153 TTTTTGTGAATGCCTATGAGATTTAGGGTTTTGTTTACAAGTTTTCTCTTTGGGATTTTGAGCTT
1 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTTTTCTCTTTGGGATTTTGAGCTT
* *
22724218 CGTATTCGAGGTTTTGGGTAATGTACATTTGGTACATTTATGTTAATTTTCTCCATATTTTACTC
66 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
*
22724283 TCATTTGTTTGCTCATTTAGTTAAAAGCTGAAGCCTCCTTTACCTATGG
131 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
*
22724332 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACCAGTTTTCTCTTTGGGATTTTGAGCTT
1 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTTTTCTCTTTGGGATTTTGAGCTT
*
22724397 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCTTATTTTACTC
66 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
22724462 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
131 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
22724511 TTTTT
1 TTTTT
22724516 CCTTCTTTGA
Statistics
Matches: 178, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (179 bp):
TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTTTTCTCTTTGGGATTTTGAGCTT
CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
Found at i:22730732 original size:20 final size:20
Alignment explanation
Indices: 22730707--22730758 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
22730697 CACCATTGTT
* *
22730707 TCTAATATCACTCTACAGTA
1 TCTAATCTCACGCTACAGTA
22730727 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCA-CGCTACAGTA
*
22730748 ACTAATCTCAC
1 TCTAATCTCAC
22730759 CGCCACCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31
Consensus pattern (20 bp):
TCTAATCTCACGCTACAGTA
Found at i:22730745 original size:21 final size:21
Alignment explanation
Indices: 22730719--22730761 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22730709 TAATATCACT
*
22730719 CTACAGTATCTAATCTCACCG
1 CTACAGTAACTAATCTCACCG
22730740 CTACAGTAACTAATCTCACCG
1 CTACAGTAACTAATCTCACCG
22730761 C
1 C
22730762 CACCGCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (21 bp):
CTACAGTAACTAATCTCACCG
Found at i:22731596 original size:35 final size:35
Alignment explanation
Indices: 22731538--22731611 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
22731528 CATTTTAACC
22731538 TACTAAATTACATAGTATATATTATAAATTATTTA
1 TACTAAATTACATAGTATATATTATAAATTATTTA
* * *
22731573 TACTAAATTAGATCA-TATTTATTATTAATTATTTA
1 TACTAAATTACAT-AGTATATATTATAAATTATTTA
22731608 TACT
1 TACT
22731612 TAATCAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.49
Consensus pattern (35 bp):
TACTAAATTACATAGTATATATTATAAATTATTTA
Found at i:22734083 original size:15 final size:15
Alignment explanation
Indices: 22734063--22734092 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22734053 AGGACTATAA
22734063 GTATGTTATAACCAT
1 GTATGTTATAACCAT
22734078 GTATGTTATAACCAT
1 GTATGTTATAACCAT
22734093 ATTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
GTATGTTATAACCAT
Found at i:22737894 original size:589 final size:589
Alignment explanation
Indices: 22736778--22737959 Score: 2247
Period size: 589 Copynumber: 2.0 Consensus size: 589
22736768 GGGATTTGCA
22736778 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
1 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
* *
22736843 GTGTGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATGTAC
66 GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
* *
22736908 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCATGTATAGTATATGTCCTAGCCGATGTT
131 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGATGTT
*
22736973 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCGACTACCACTGACATTTCCAGGATA
196 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
22737038 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
261 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
22737103 TCATTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
326 TCATTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
* *
22737168 AAATAGCATTCCCTAAAATAAAATTTATTATAGTGTTTACACCTCAATTTGGGGTTACCGACACT
391 AAACAGCATTCCCCAAAATAAAATTTATTATAGTGTTTACACCTCAATTTGGGGTTACCGACACT
*
22737233 TCCCATACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
456 TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
22737298 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
521 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
22737363 TGTG
586 TGTG
22737367 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
1 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
22737432 GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
66 GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
*
22737497 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGGTGTT
131 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGATGTT
22737562 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
196 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
22737627 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
261 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
*
22737692 TCCTTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
326 TCATTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
*
22737757 AAACAGCATTCCCCAAAATAAAATTTATTGTAGTGTTTACACCTCAATTTGGGGTTACCGACACT
391 AAACAGCATTCCCCAAAATAAAATTTATTATAGTGTTTACACCTCAATTTGGGGTTACCGACACT
* *
22737822 TCCCACACTTGTTACAAATGGAGACGAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
456 TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
22737887 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
521 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
22737952 TGTG
586 TGTG
22737956 ACTT
1 ACTT
22737960 ATCCATAAAT
Statistics
Matches: 580, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
589 580 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (589 bp):
ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGATGTT
CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
TCATTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
AAACAGCATTCCCCAAAATAAAATTTATTATAGTGTTTACACCTCAATTTGGGGTTACCGACACT
TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
TGTG
Found at i:22748958 original size:57 final size:57
Alignment explanation
Indices: 22748802--22748939 Score: 159
Period size: 57 Copynumber: 2.4 Consensus size: 57
22748792 ATCAAATAAC
* * * ** * * *
22748802 AGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGGTTAATT
1 AGGATTACCAATCCAAGCTAAATCCTTTCTGTAACATATGCTCACAAAAGCTCAATT
* *
22748859 AGGATTACCAATCCAAGCTGAATCCTTTCTGTAACATATGCTCAGAAAAGCTCAATT
1 AGGATTACCAATCCAAGCTAAATCCTTTCTGTAACATATGCTCACAAAAGCTCAATT
* * *
22748916 AGGATTACTAGTCCAGGCTAAATC
1 AGGATTACCAATCCAAGCTAAATC
22748940 TTAATTGTAG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (57 bp):
AGGATTACCAATCCAAGCTAAATCCTTTCTGTAACATATGCTCACAAAAGCTCAATT
Found at i:22757033 original size:12 final size:14
Alignment explanation
Indices: 22757018--22757049 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22757008 GTGAGAACAC
22757018 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
22757030 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
22757044 ATGTGT
1 ATGTGT
22757050 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:22757100 original size:26 final size:25
Alignment explanation
Indices: 22757071--22757148 Score: 63
Period size: 26 Copynumber: 3.1 Consensus size: 25
22757061 GTAGTTCACG
22757071 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGT-CAGGCTACTA
** * *
22757097 TGTGTACCA-GATAGTTAGG-TCAC-A
1 TGTGTAGTACTA-AGTCAGGCT-ACTA
22757121 TGTGTAGTACTAAGTACAGGCTACTA
1 TGTGTAGTACTAAGT-CAGGCTACTA
22757147 TG
1 TG
22757149 CGTACCCAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
24 12 0.32
25 12 0.32
26 14 0.37
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (25 bp):
TGTGTAGTACTAAGTCAGGCTACTA
Found at i:22757134 original size:50 final size:50
Alignment explanation
Indices: 22757015--22757213 Score: 193
Period size: 50 Copynumber: 3.9 Consensus size: 50
22757005 ATTGTGAGAA
* * * *** * *
22757015 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTGTAGTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG-T-TAGAT
* * *
22757067 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGAT
* * * *
22757117 CACATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCA-ACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGA-TAGTTAGAT
* * *
22757168 TACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
22757214 TCGGTTACAA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 44 0.36
51 42 0.34
52 37 0.30
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGAT
Done.