Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 10 of 27
Found at i:1367807 original size:14 final size:14
Alignment explanation
Indices: 1367788--1367815 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1367778 AACGTTTTCA
1367788 CGGGTTAAGAGCAC
1 CGGGTTAAGAGCAC
1367802 CGGGTTAAGAGCAC
1 CGGGTTAAGAGCAC
1367816 TCGACCCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.36, T:0.14
Consensus pattern (14 bp):
CGGGTTAAGAGCAC
Found at i:1382495 original size:3 final size:3
Alignment explanation
Indices: 1382489--1382540 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
1382479 CTCCTCCTCC
**
1382489 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TTT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1382537 TCA T
1 TCA T
1382541 TGATGGTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:1383484 original size:25 final size:26
Alignment explanation
Indices: 1383456--1383514 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
1383446 GTATCAATAC
1383456 TTTGAATAATT-TTACTTGAAAAACA
1 TTTGAATAATTATTACTTGAAAAACA
1383481 TTTG-AT--TTATTACTTGAAAAACA
1 TTTGAATAATTATTACTTGAAAAACA
1383504 -TT-AATAATTAT
1 TTTGAATAATTAT
1383515 CTCTAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 6 0.20
25 4 0.13
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTGAATAATTATTACTTGAAAAACA
Found at i:1386201 original size:52 final size:51
Alignment explanation
Indices: 1386131--1386484 Score: 347
Period size: 52 Copynumber: 7.0 Consensus size: 51
1386121 CTCTTATTAA
*
1386131 AAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAATTTT
1 AAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAA-ATT
** * *
1386183 AAAAATATTTTATATTAAATCTTGAACTATTATTTAAAAAATAAT-AAAATT
1 AAAAATATTTTATATTAAATCTCAAATTACTATTT-AAAAATAATAAAAATT
* *
1386234 AAAAA-A--TTATATTAAATC-CTTAATTACTATTT-AAATTAATAAAAAATT
1 AAAAATATTTTATATTAAATCTC-AAATTACTATTTAAAAATAAT-AAAAATT
* * * *
1386282 TAAAATATTTTATTTTAAATCTCGAATTACTATTTAAAAATAATAAAAAATA
1 AAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAAT-AAAAATT
* *
1386334 AAAAATATTTCATA-TATATCTCAAATTACTATTTAAAAAATAATAAAAATT
1 AAAAATATTTTATATTAAATCTCAAATTACTATTT-AAAAATAATAAAAATT
* * *
1386385 AAAAA-A--TT-TATTAAATCTCAAATTACTTTTTAAAAATTAAAAAAAAAACTA
1 AAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAA-T--AATAAAAA-TT
* *
1386436 AAAACATATTTTTATATTAAATCT--AACTAATATTTAAAAATAATAAAAA
1 AAAA-ATA-TTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAA
1386485 ATTATATTAA
Statistics
Matches: 251, Mismatches: 30, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
46 7 0.03
47 7 0.03
48 51 0.20
49 1 0.00
50 9 0.04
51 63 0.25
52 77 0.31
53 10 0.04
54 1 0.00
55 13 0.05
56 2 0.01
57 10 0.04
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.39
Consensus pattern (51 bp):
AAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAATT
Found at i:1386289 original size:151 final size:152
Alignment explanation
Indices: 1386130--1386486 Score: 447
Period size: 151 Copynumber: 2.3 Consensus size: 152
1386120 TCTCTTATTA
** * *
1386130 AAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAATTTTAAAAATATTTTA
1 AAAAAATATTTTATATTAAATCTC-AATTACTATTTAAAAATAATAAAAAATAAAAAATATTTCA
** * *
1386195 TATTAAATCTTGAACTATTATTTAAAAAATAAT-AAAATTAAAAAATTATATTAAATC-CTTAAT
65 TA-TAAATCTCAAACTACTATTTAAAAAATAATAAAAATTAAAAAATT-TATTAAATCTC-AAAT
*
1386258 TACTATTT-AAATT-AATAAAAAA-T
127 TACTATTTAAAATTAAAAAAAAAACT
** *
1386281 TTAAAATATTTTATTTTAAATCTCGAATTACTATTTAAAAATAATAAAAAATAAAAAATATTTCA
1 AAAAAATATTTTATATTAAATCTC-AATTACTATTTAAAAATAATAAAAAATAAAAAATATTTCA
* *
1386346 TATATATCTCAAATTACTATTTAAAAAATAATAAAAATTAAAAAATTTATTAAATCTCAAATTAC
65 TATAAATCTCAAACTACTATTTAAAAAATAATAAAAATTAAAAAATTTATTAAATCTCAAATTAC
*
1386411 TTTTTAAAAATTAAAAAAAAAACT
130 TATTT-AAAATTAAAAAAAAAACT
* *
1386435 AAAAACATATTTTTATATTAAATCT-AACTAATATTTAAAAATAATAAAAAAT
1 AAAAA-ATA-TTTTATATTAAATCTCAATTACTATTTAAAAATAATAAAAAAT
1386487 TATATTAAAT
Statistics
Matches: 177, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
150 44 0.25
151 74 0.42
152 5 0.03
153 8 0.05
154 29 0.16
155 3 0.02
156 14 0.08
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.39
Consensus pattern (152 bp):
AAAAAATATTTTATATTAAATCTCAATTACTATTTAAAAATAATAAAAAATAAAAAATATTTCAT
ATAAATCTCAAACTACTATTTAAAAAATAATAAAAATTAAAAAATTTATTAAATCTCAAATTACT
ATTTAAAATTAAAAAAAAAACT
Found at i:1386303 original size:99 final size:100
Alignment explanation
Indices: 1386140--1386483 Score: 316
Period size: 99 Copynumber: 3.4 Consensus size: 100
1386130 AAAAAATATT
1386140 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAATTTTAAAAATATTTTATATTAAATCT
1 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAATTTTAAAAATATTTTATATTAAATCT
* * *
1386205 TGAACTATTATTTAAAAAATAAT-AAAATTAAAAAA
66 CGAACTACTATTT-AAAAATAATAAAAAATAAAAAA
* *
1386240 TTATATTAAATC-CTTAATTACTATTTAAATTAATAA-AAAA-TTT-AAAATATTTTATTTTAAA
1 TTATATTAAATCTC-AAATTACTATTTAAA--AATAATAAAATTTTAAAAATATTTTATATTAAA
*
1386301 TCTCGAATTACTATTTAAAAATAATAAAAAATAAAAAA
63 TCTCGAACTACTATTTAAAAATAATAAAAAATAAAAAA
* * *
1386339 TATTTCATATATATCTCAAATTACTATTTAAAAAATAATAAAA-ATTAAAAA-A--TT-TATTAA
1 T-TAT-AT-TAAATCTCAAATTACTATTT-AAAAATAATAAAATTTTAAAAATATTTTATATTAA
* * * *
1386399 ATCTCAAATTACTTTTTAAAAATTAAAAAAAAAACTAAAAACATA
62 ATCTCGAACTACTATTTAAAAA-T-AATAAAAAA-T-AAAA-A-A
* *
1386444 TTTTTATATTAAATCT--AACTAATATTTAAAAATAATAAAA
1 ---TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAA
1386484 AATTATATTA
Statistics
Matches: 206, Mismatches: 18, Indels: 38
0.79 0.07 0.15
Matches are distributed among these distances:
98 9 0.04
99 68 0.33
100 34 0.17
101 19 0.09
102 42 0.20
103 21 0.10
104 1 0.00
105 7 0.03
106 2 0.01
107 2 0.01
108 1 0.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (100 bp):
TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAATTTTAAAAATATTTTATATTAAATCT
CGAACTACTATTTAAAAATAATAAAAAATAAAAAA
Found at i:1386310 original size:51 final size:51
Alignment explanation
Indices: 1386132--1386429 Score: 303
Period size: 48 Copynumber: 5.9 Consensus size: 51
1386122 TCTTATTAAA
1386132 AAAATATTTTATATTAAATCTCAAATTACTATTT-AAAAATAATAAAATTTT
1 AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAATAAAA-TTT
** * *
1386183 AAAAATATTTTATATTAAATCTTGAACTATTATTTAAAAAATAATAAAA-TT
1 -AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAATAAAATTT
* * *
1386234 AAAA-A-ATTATATTAAATC-CTTAATTACTATTTAAATTAATAA-AAAATTT
1 AAAATATTTTATATTAAATCTC-AAATTACTATTTAAA-AAATAATAAAATTT
* * **
1386283 AAAATATTTTATTTTAAATCTCGAATTACTATTT-AAAAATAATAAAAAATAA
1 AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAAT--AAAATTT
* * *
1386335 AAAATATTTCATA-TATATCTCAAATTACTATTTAAAAAATAATAAAAATT
1 AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAATAAAATTT
* * * *
1386385 AAAA-A-ATT-TATTAAATCTCAAATTACTTTTTAAAAATTAAAAAAA
1 AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAATAAAA
1386430 AAACTAAAAA
Statistics
Matches: 205, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
47 2 0.01
48 59 0.29
49 18 0.09
50 15 0.07
51 42 0.20
52 56 0.27
53 13 0.06
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.40
Consensus pattern (51 bp):
AAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAATAATAAAATTT
Found at i:1386712 original size:22 final size:22
Alignment explanation
Indices: 1386684--1386725 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1386674 AAGTCATATA
* *
1386684 TATATATATATTTAGTTATAGT
1 TATATATACATTCAGTTATAGT
1386706 TATATATACATTCAGTTATA
1 TATATATACATTCAGTTATA
1386726 AACATATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
TATATATACATTCAGTTATAGT
Found at i:1386925 original size:22 final size:23
Alignment explanation
Indices: 1386870--1386926 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
1386860 ATATCATTTT
*
1386870 ATATGTATAT-TTAGTTATAGTC
1 ATATGTAAATATTAGTTATAGTC
* *
1386892 GTATTTAAATATTA-TTATAGTC
1 ATATGTAAATATTAGTTATAGTC
*
1386914 ATATGTACATATT
1 ATATGTAAATATT
1386927 CTTTTAATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (23 bp):
ATATGTAAATATTAGTTATAGTC
Found at i:1387065 original size:22 final size:22
Alignment explanation
Indices: 1387036--1387111 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
1387026 CATTTTCGCT
1387036 ATATGTACATTTAGTTAAAGTC
1 ATATGTACATTTAGTTAAAGTC
* *
1387058 GTATGTACATGTTA-TTATAGTC
1 ATATGTACAT-TTAGTTAAAGTC
* *
1387080 ATATGTATATTCAGTTATAA-TC
1 ATATGTACATTTAGTTA-AAGTC
1387102 ATATGTACAT
1 ATATGTACAT
1387112 ATTCTTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.05
22 38 0.86
23 4 0.09
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (22 bp):
ATATGTACATTTAGTTAAAGTC
Found at i:1388147 original size:22 final size:23
Alignment explanation
Indices: 1388121--1388164 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1388111 GTACATGCTG
1388121 TTATAATC-ATGTATATATTTAA
1 TTATAATCAATGTATATATTTAA
*
1388143 TTATATTCATATGTATATATTT
1 TTATAATCA-ATGTATATATTT
1388165 TTTATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATAATCAATGTATATATTTAA
Found at i:1388316 original size:19 final size:18
Alignment explanation
Indices: 1388292--1388327 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1388282 ATTATTTTTA
*
1388292 CTATATGTATATAATTATG
1 CTATATGCATAT-ATTATG
1388311 CTATATGCATATATTAT
1 CTATATGCATATATTAT
1388328 TTTTACGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
CTATATGCATATATTATG
Found at i:1390604 original size:153 final size:148
Alignment explanation
Indices: 1390410--1390869 Score: 471
Period size: 152 Copynumber: 3.0 Consensus size: 148
1390400 TCTTTCATAT
* * * * * * *
1390410 TTTTCCTGTTTTCAAAATGCAGAGCATTT-GACTTTGTAAATTTCTCTGGTAGTAGTTTTTAAGT
1 TTTTCCTGTTATCAAAATACAGAG-TTTTCAACTCTGTAAATTTTTC-GGTAGGA-TTTTTAAGT
* *
1390474 TCATAATTTTTAAAATTCTTCAAATATTATTTTTTATTTTATAGTAAATTAGTTTTAAAAAATTT
63 TCATAATTTTTAAAATTCTTCAAATATT-TTTTTTAATTCATA-TAAATTAGTTTTAAAAAATTT
*
1390539 AGTTTATTTTATGAGTTTTAGAA
126 AATTTATTTTATGAGTTTTAGAA
* *
1390562 TATTTCCTGTTATCAAAATACAGAGTTTTCTACTCTGGAAATTTATTCGGTAGGATTTTTCTAAG
1 T-TTTCCTGTTATCAAAATACAGAGTTTTCAACTCTGTAAATTT-TTCGGTAGGA-TTTT-TAAG
* * * * **
1390627 TTTATAATTTTTAAAATTCTTAAAATA-TTTTTTTAATTCATATAAATTACTTTTGAAATTTTTA
62 TTCATAATTTTTAAAATTCTTCAAATATTTTTTTTAATTCATATAAATTAGTTTTAAAAAATTTA
1390691 ATTTATTTTATGAGTTTTAGAA
127 ATTTATTTTATGAGTTTTAGAA
* * * * * *
1390713 TTTT-TTTTTATTTCAAAAATACGGAGTTTTCAACTCCGTAAATTTTTTCAGTTGGATTTTTATT
1 TTTTCCTGTTA--TC-AAAATACAGAGTTTTCAACTCTGTAAA-TTTTTCGGTAGGATTTTTA--
* * * * *
1390777 AGTTCAAAATTTTTAAAATT-TATCAAATATTTTATTAAATTCATATTAAATCAGTTTTTAAAAA
60 AGTTCATAATTTTTAAAATTCT-TCAAATATTTTTTTTAATTCATA-TAAATTAGTTTTAAAAAA
1390841 TTTAATTTATTTTATGAGTTTT-GAA
123 TTTAATTTATTTTATGAGTTTTAGAA
1390866 TTTT
1 TTTT
1390870 TTTGCATATA
Statistics
Matches: 259, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
149 4 0.02
150 5 0.02
151 47 0.18
152 71 0.27
153 66 0.25
154 66 0.25
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.51
Consensus pattern (148 bp):
TTTTCCTGTTATCAAAATACAGAGTTTTCAACTCTGTAAATTTTTCGGTAGGATTTTTAAGTTCA
TAATTTTTAAAATTCTTCAAATATTTTTTTTAATTCATATAAATTAGTTTTAAAAAATTTAATTT
ATTTTATGAGTTTTAGAA
Found at i:1390790 original size:152 final size:150
Alignment explanation
Indices: 1390465--1390872 Score: 482
Period size: 152 Copynumber: 2.7 Consensus size: 150
1390455 CTGGTAGTAG
* *
1390465 TTTT-TAAGTTCATAATTTTTAAAATTCTTCAAATATTATTTTTTATTTTATAGTAAATTAGTTT
1 TTTTATAAGTTCATAATTTTTAAAATTCTTCAAATA-T-TTTTTTAATTCATAGTAAATTAGTTT
* * * *
1390529 TAAAAAATTTAGTTTATTTTATGAGTTTTAGAATATTTCCTGTTATCAAAATACAGAGTTTTCTA
64 TAAAAAATTTAATTTATTTTATGAGTTTTAGAAT-TTT-TTTTTATCAAAATACAGAGTTTTCAA
* *
1390594 CTCTGGAAATTTATTCGGTAGGAT
127 CTCCGGAAATTTATTCAGTAGGAT
* * * * *
1390618 TTTTCTAAGTTTATAATTTTTAAAATTCTTAAAATATTTTTTTAATTCATA-TAAATTACTTTTG
1 TTTTATAAGTTCATAATTTTTAAAATTCTTCAAATATTTTTTTAATTCATAGTAAATTAGTTTTA
** *
1390682 AAATTTTTAATTTATTTTATGAGTTTTAGAATTTTTTTTTATTTCAAAAATACGGAGTTTTCAAC
66 AAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTTTTA--TC-AAAATACAGAGTTTTCAAC
* * *
1390747 TCCGTAAATTTTTTCAGTTGGAT
128 TCCGGAAATTTATTCAGTAGGAT
* * * * *
1390770 TTTTATTAGTTCAAAATTTTTAAAATT-TATCAAATATTTTATTAAATTCATATTAAATCAGTTT
1 TTTTATAAGTTCATAATTTTTAAAATTCT-TCAAATATTTT-TTTAATTCATAGTAAATTAGTTT
*
1390834 TTAAAAATTTAATTTATTTTATGAGTTTT-GAATTTTTTT
64 TAAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTT
1390873 GCATATATCA
Statistics
Matches: 219, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
149 4 0.02
150 3 0.01
151 43 0.20
152 80 0.37
153 25 0.11
154 64 0.29
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (150 bp):
TTTTATAAGTTCATAATTTTTAAAATTCTTCAAATATTTTTTTAATTCATAGTAAATTAGTTTTA
AAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTTTTATCAAAATACAGAGTTTTCAACTCC
GGAAATTTATTCAGTAGGAT
Found at i:1392525 original size:166 final size:166
Alignment explanation
Indices: 1392231--1392591 Score: 424
Period size: 166 Copynumber: 2.2 Consensus size: 166
1392221 TGCAAGGACT
* * *
1392231 AAAATGAAAATTTTTAAAAGTTTAAGGACTAAATAGCAAATTTGGTTTTTAAAAGAAAAATAGCT
1 AAAATG-AAATTTTTAAAAATTTAAAGACTAAATAGCAAATTTGGATTTTAAAAGAAAAATAGCT
* * * * * * *
1392296 ATCTTAGTCATTTTTTTAAAATTTCTATTATTCATATAGTCTTCTGTAGGGGTATAAAAATTTTT
65 ATCATAGTCATTTCTTTAAAATTTCTATCATCCATATAGCCTTCTATAGGGATATAAAAATTTTT
* * *
1392361 AAAACTTTGCAAATCCTCTCGGTTTTTCA-TCGAGTAT
130 AAAACTTTGCAAATCCTCTCAGTTATTCATTCG-GTAC
* * * *
1392398 GAAATGAAATTTTTAAAAATTTAAAGCCTAAATAGTAAATTTGGATTTTAAAAGAAAAATCATC-
1 AAAATGAAATTTTTAAAAATTTAAAGACTAAATAGCAAATTTGGATTTTAAAAGAAAAAT-AGCT
* * * * *
1392462 ATCATAGTCATCTTCTTT-AGATTTCTATCATCCCTATGGCCTTCTATTGGGATATAGAAATTTT
65 ATCATAGTCAT-TTCTTTAAAATTTCTATCATCCATATAGCCTTCTATAGGGATATAAAAATTTT
* * *
1392526 TAAAACTTTTCATATCCTCTCAGTTATTCATTTGGTAC
129 TAAAACTTTGCAAATCCTCTCAGTTATTCATTCGGTAC
*
1392564 AAAATGTAA-TTTTAAAAATTTAAAGACT
1 AAAATGAAATTTTTAAAAATTTAAAGACT
1392592 TACTTATAAT
Statistics
Matches: 163, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
165 18 0.11
166 131 0.80
167 14 0.09
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (166 bp):
AAAATGAAATTTTTAAAAATTTAAAGACTAAATAGCAAATTTGGATTTTAAAAGAAAAATAGCTA
TCATAGTCATTTCTTTAAAATTTCTATCATCCATATAGCCTTCTATAGGGATATAAAAATTTTTA
AAACTTTGCAAATCCTCTCAGTTATTCATTCGGTAC
Found at i:1392976 original size:157 final size:157
Alignment explanation
Indices: 1392680--1392978 Score: 354
Period size: 157 Copynumber: 1.9 Consensus size: 157
1392670 GTTTTTATCA
* * * * * *
1392680 TTTAGGGTTATCGAGATACTTTCATGTCGAAGGTATTCCTATAGAGTATTTTCAGTAATTTTCTT
1 TTTAAGGTTACCGAGATACTTTCATGTCAAAGATATACCCATAGAGTATTTTCAGTAATTTTCTT
* * * * * *
1392745 AGAACTGAGTCATAGGTTGTCACTAGGATACTTTTATTCCACAAGTGGGTATTTAGAATAGGTTC
66 AGAACCGACTCATAGGTTGTCACTAGGAGACTTTTATGCCAAAAATGGGTATTTAGAATAGGTTC
1392810 ATCCCATTTATGATCCTTTTTAAGTCT
131 ATCCCATTTATGATCCTTTTTAAGTCT
* *
1392837 TTTAAGGTTACCGAGATACTTTCATGTCAAAGATATACCCAT-GAAGTTATTTTCA-TAGTTTTT
1 TTTAAGGTTACCGAGATACTTTCATGTCAAAGATATACCCATAG-AG-TATTTTCAGTAATTTTC
* * * * *
1392900 TTAGAACCGACTCCTAGGTTG-CGATTAGGAGGCTTTTATGCCAAAAATGTGTATTTAGGATAGG
64 TTAGAACCGACTCATAGGTTGTC-ACTAGGAGACTTTTATGCCAAAAATGGGTATTTAGAATAGG
*
1392964 TTTA-CCCAATTTATG
128 TTCATCCC-ATTTATG
1392979 GTTGTGTATT
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
156 5 0.04
157 105 0.89
158 8 0.07
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (157 bp):
TTTAAGGTTACCGAGATACTTTCATGTCAAAGATATACCCATAGAGTATTTTCAGTAATTTTCTT
AGAACCGACTCATAGGTTGTCACTAGGAGACTTTTATGCCAAAAATGGGTATTTAGAATAGGTTC
ATCCCATTTATGATCCTTTTTAAGTCT
Found at i:1392986 original size:34 final size:34
Alignment explanation
Indices: 1392947--1393017 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
1392937 ATGCCAAAAA
1392947 TGTGTATTTAGGATAGGTTTACCCAATTTATGGT
1 TGTGTATTTAGGATAGGTTTACCCAATTTATGGT
*
1392981 TGTGTATTTAGGATAGGTTTACCTAATTTATGGT
1 TGTGTATTTAGGATAGGTTTACCCAATTTATGGT
1393015 TGT
1 TGT
1393018 TTTAAGGTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (34 bp):
TGTGTATTTAGGATAGGTTTACCCAATTTATGGT
Found at i:1393221 original size:16 final size:16
Alignment explanation
Indices: 1393200--1393231 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1393190 TTATTTATAT
*
1393200 TTTTAATAAAATTAAA
1 TTTTAAAAAAATTAAA
1393216 TTTTAAAAAAATTAAA
1 TTTTAAAAAAATTAAA
1393232 ACAATATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTTAAAAAAATTAAA
Found at i:1394091 original size:22 final size:22
Alignment explanation
Indices: 1394061--1394140 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
1394051 GGTCACGTTG
*
1394061 TGACAATAACTAAATGTACATA
1 TGACTATAACTAAATGTACATA
*
1394083 TGACTATAACTATATGTACATA
1 TGACTATAACTAAATGTACATA
* *
1394105 TGACCT-TAATTGAATGTACATA
1 TGA-CTATAACTAAATGTACATA
*
1394127 TGACTTTAACTAAA
1 TGACTATAACTAAA
1394141 GAGGCCCTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
21 2 0.04
22 45 0.92
23 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (22 bp):
TGACTATAACTAAATGTACATA
Found at i:1394333 original size:14 final size:14
Alignment explanation
Indices: 1394316--1394345 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1394306 AAATTAAATT
*
1394316 TAACAAATAAAGCA
1 TAACAAACAAAGCA
1394330 TAACAAACAAAGCA
1 TAACAAACAAAGCA
1394344 TA
1 TA
1394346 TAAAGTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.13
Consensus pattern (14 bp):
TAACAAACAAAGCA
Found at i:1394735 original size:15 final size:15
Alignment explanation
Indices: 1394696--1394727 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1394686 ATCGATACAT
1394696 TACAATATGTATCAA
1 TACAATATGTATCAA
*
1394711 TACAACATGTATCAA
1 TACAATATGTATCAA
1394726 TA
1 TA
1394728 TATTATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (15 bp):
TACAATATGTATCAA
Found at i:1397056 original size:16 final size:16
Alignment explanation
Indices: 1397037--1397142 Score: 108
Period size: 16 Copynumber: 6.6 Consensus size: 16
1397027 CAAGTTTGGG
1397037 TTCAGGTTCAGGCTCA
1 TTCAGGTTCAGGCTCA
1397053 TTCAGGTTCAGGCTCA
1 TTCAGGTTCAGGCTCA
**
1397069 TTC-GAGTTTGGGCTCA
1 TTCAG-GTTCAGGCTCA
*
1397085 TTCAGATTCAGGGCTCA
1 TTCAGGTTCA-GGCTCA
*
1397102 TTC-GAGTTCAGGCTCG
1 TTCAG-GTTCAGGCTCA
* * *
1397118 TTTAGGTTTAGGCTCT
1 TTCAGGTTCAGGCTCA
1397134 TTCAGGTTC
1 TTCAGGTTC
1397143 GAGCTTATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
15 1 0.01
16 57 0.78
17 15 0.21
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (16 bp):
TTCAGGTTCAGGCTCA
Found at i:1397116 original size:33 final size:32
Alignment explanation
Indices: 1397042--1397116 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 32
1397032 TTGGGTTCAG
*
1397042 GTTCAGGCTCATTCAGGTTCAGGCTCATTCGA
1 GTTCAGGCTCATTCAGATTCAGGCTCATTCGA
**
1397074 GTTTGGGCTCATTCAGATTCAGGGCTCATTCGA
1 GTTCAGGCTCATTCAGATTCA-GGCTCATTCGA
1397107 GTTCAGGCTC
1 GTTCAGGCTC
1397117 GTTTAGGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 18 0.49
33 19 0.51
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (32 bp):
GTTCAGGCTCATTCAGATTCAGGCTCATTCGA
Found at i:1397162 original size:22 final size:22
Alignment explanation
Indices: 1397134--1397183 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1397124 TTTAGGCTCT
* *
1397134 TTCAGGTTCGAGCTTATTTGAG
1 TTCAGGTTCGAGCATATTCGAG
1397156 TTCAGGTTCGAGCATATTCGAG
1 TTCAGGTTCGAGCATATTCGAG
1397178 TTCAGG
1 TTCAGG
1397184 CTTTCTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (22 bp):
TTCAGGTTCGAGCATATTCGAG
Found at i:1397266 original size:16 final size:16
Alignment explanation
Indices: 1397224--1397279 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
1397214 GGTTTATTTA
*
1397224 GGTTTGGGCATTTTCG
1 GGTTTGGGCTTTTTCG
* ***
1397240 AGTTCAAGCTTTTTCG
1 GGTTTGGGCTTTTTCG
1397256 GGTTTGGGCTTTTTCG
1 GGTTTGGGCTTTTTCG
*
1397272 GATTTGGG
1 GGTTTGGG
1397280 TTCGGGTTCG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.09, C:0.12, G:0.34, T:0.45
Consensus pattern (16 bp):
GGTTTGGGCTTTTTCG
Found at i:1398188 original size:16 final size:15
Alignment explanation
Indices: 1398163--1398192 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1398153 ATGTTAACTT
1398163 TATATGCTATTCTAC
1 TATATGCTATTCTAC
1398178 TATATTGCTATTCTA
1 TATA-TGCTATTCTA
1398193 AATGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (15 bp):
TATATGCTATTCTAC
Found at i:1401085 original size:89 final size:89
Alignment explanation
Indices: 1400923--1401139 Score: 245
Period size: 89 Copynumber: 2.4 Consensus size: 89
1400913 AGCGTAATTA
* * * * ** * * *
1400923 ACTCTCAAAGCCAACTTACTTTCTTTGCTTTTTAACACAGACTTTAGAATCCATCTTTTTAAAAT
1 ACTCCCAAACCCAACTCACTTTCTTTGGTTTTTAATGCAGACTTTAAAATCCATATTTTTAAAAA
* * *
1400988 TAATTTCAAAAGCACATATAATCG
66 AAAATTCAAAAGCACACATAATCG
* * * *
1401012 ACTCCTAAACCCAACTCACATTCTTTGGTTTTTAATGTAGACTTTAAAATTCATATTTTTAAAAA
1 ACTCCCAAACCCAACTCACTTTCTTTGGTTTTTAATGCAGACTTTAAAATCCATATTTTTAAAAA
* *
1401077 AAAATTCAAAATCACACGTAATCG
66 AAAATTCAAAAGCACACATAATCG
* * *
1401101 ACTCCCAAACCAAACTCACTTTCTTTTGTTTTCAATGCA
1 ACTCCCAAACCCAACTCACTTTCTTTGGTTTTTAATGCA
1401140 AATTTTAGAA
Statistics
Matches: 104, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 104 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.36
Consensus pattern (89 bp):
ACTCCCAAACCCAACTCACTTTCTTTGGTTTTTAATGCAGACTTTAAAATCCATATTTTTAAAAA
AAAATTCAAAAGCACACATAATCG
Found at i:1401165 original size:89 final size:89
Alignment explanation
Indices: 1400992--1401165 Score: 204
Period size: 89 Copynumber: 2.0 Consensus size: 89
1400982 TAAAATTAAT
* * * * * *
1400992 TTCAAAAGCACATATAATCGACTCCTAAACCCAACTCACATTCTTTGGTTTTTAATGTAGACTTT
1 TTCAAAAGCACACATAATCGACTCCCAAACCAAACTCACATTCTTTGGTTTTCAATGCAAACTTT
*
1401057 AAAATTCATATTTTTAAAAAAAAA
66 AAAATTCATATTTTCAAAAAAAAA
* * * * *
1401081 TTCAAAATCACACGTAATCGACTCCCAAACCAAACTCACTTTCTTTTGTTTTCAATGCAAATTTT
1 TTCAAAAGCACACATAATCGACTCCCAAACCAAACTCACATTCTTTGGTTTTCAATGCAAACTTT
* ** *
1401146 AGAATTTTTCTTTTCAAAAA
66 AAAATTCATATTTTCAAAAA
1401166 TTTTAAAGGA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.36
Consensus pattern (89 bp):
TTCAAAAGCACACATAATCGACTCCCAAACCAAACTCACATTCTTTGGTTTTCAATGCAAACTTT
AAAATTCATATTTTCAAAAAAAAA
Found at i:1402278 original size:21 final size:20
Alignment explanation
Indices: 1402229--1402306 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1402219 GCTAACTTTC
*
1402229 AATTGTATTGATACAACTCTAT-
1 AATTGTATCGATAC-A-T-TATG
*
1402251 AATTGTATCGATACATGT-TT
1 AATTGTATCGATACAT-TATG
1402271 AGATTGTATCGATACATTATG
1 A-ATTGTATCGATACATTATG
1402292 AATTGTATCGATACA
1 AATTGTATCGATACA
1402307 ATTGGCCCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.02
20 18 0.36
21 18 0.36
22 13 0.26
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
AATTGTATCGATACATTATG
Found at i:1402822 original size:34 final size:35
Alignment explanation
Indices: 1402744--1402827 Score: 102
Period size: 34 Copynumber: 2.4 Consensus size: 35
1402734 GAAGTGATTG
*
1402744 AAAGGTTCTATCTTAACTTTTGAAAAAGATAAGGA
1 AAAGGTTCTATCTTAACTTGTGAAAAAGATAAGGA
*
1402779 AAAGATTCTATCTTAA-TCTGT-AAAAAGAT-AGAGA
1 AAAGGTTCTATCTTAACT-TGTGAAAAAGATAAG-GA
*
1402813 AGAGGTTCTATCTTA
1 AAAGGTTCTATCTTA
1402828 GCCTTCAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 2 0.05
34 24 0.56
35 17 0.40
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (35 bp):
AAAGGTTCTATCTTAACTTGTGAAAAAGATAAGGA
Found at i:1402838 original size:34 final size:34
Alignment explanation
Indices: 1402744--1402843 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
1402734 GAAGTGATTG
*
1402744 AAAGGTTCTATCTTAACTTTTGAAAAAGATA-AGGA
1 AAAGGTTCTATCTTAAC-CTT-AAAAAGATAGAGGA
* *
1402779 AAAGATTCTATCTTAATCTGTAAAAAGATAGA-GA
1 AAAGGTTCTATCTTAACCT-TAAAAAGATAGAGGA
* * *
1402813 AGAGGTTCTATCTTAGCCTTCAAAAAAATAG
1 AAAGGTTCTATCTTAACCTT-AAAAAGATAG
1402844 GGTTGTAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
33 1 0.02
34 36 0.67
35 17 0.31
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (34 bp):
AAAGGTTCTATCTTAACCTTAAAAAGATAGAGGA
Found at i:1402963 original size:28 final size:28
Alignment explanation
Indices: 1402923--1402981 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1402913 AAGAAATGCC
1402923 AAGAAGAGAAGACATAAGTGCTGAGTTT
1 AAGAAGAGAAGACATAAGTGCTGAGTTT
* *
1402951 AAGAAGAGAAGACGTAGGTGCTGAGTTT
1 AAGAAGAGAAGACATAAGTGCTGAGTTT
1402979 AAG
1 AAG
1402982 GACCGAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (28 bp):
AAGAAGAGAAGACATAAGTGCTGAGTTT
Found at i:1403493 original size:5 final size:5
Alignment explanation
Indices: 1403483--1403511 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1403473 ATATCACTTA
1403483 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1403512 AACTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1413810 original size:7 final size:7
Alignment explanation
Indices: 1413798--1413833 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
1413788 CCCTTTGGAA
1413798 TTAATTT
1 TTAATTT
1413805 TTAATTT
1 TTAATTT
1413812 TTAA-TT
1 TTAATTT
1413818 TTAA-TT
1 TTAATTT
1413824 TTAATTT
1 TTAATTT
1413831 TTA
1 TTA
1413834 TTTAGAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:1413819 original size:6 final size:6
Alignment explanation
Indices: 1413798--1413836 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
1413788 CCCTTTGGAA
*
1413798 TTAATTT TTAATTT TTAATT TTAATT TTAATT TTTATT T
1 TTAA-TT TTAA-TT TTAATT TTAATT TTAATT TTAATT T
1413837 AGAAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTAATT
Found at i:1413821 original size:13 final size:14
Alignment explanation
Indices: 1413798--1413833 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
1413788 CCCTTTGGAA
1413798 TTAATTTTTAATTT
1 TTAATTTTTAATTT
1413812 TTAA-TTTTAA-TT
1 TTAATTTTTAATTT
1413824 TTAATTTTTA
1 TTAATTTTTA
1413834 TTTAGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 11 0.52
14 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTAATTTTTAATTT
Found at i:1413827 original size:19 final size:19
Alignment explanation
Indices: 1413798--1413855 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
1413788 CCCTTTGGAA
1413798 TTAATTTTTAATTTTTAATT
1 TTAA-TTTTAATTTTTAATT
1413818 TTAATTTTAATTTTT-ATT
1 TTAATTTTAATTTTTAATT
* * *
1413836 TAGAAATATAATTTTTAATT
1 T-TAATTTTAATTTTTAATT
1413856 CCAAGTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 22 0.67
20 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTAATTTTAATTTTTAATT
Found at i:1414821 original size:25 final size:25
Alignment explanation
Indices: 1414793--1414840 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1414783 TTTTAATTAA
*
1414793 ATTTAAATTTGATAGT-TTATATTGT
1 ATTTAAATTTAATA-TATTATATTGT
*
1414818 ATTTATATTTAATATATTATATT
1 ATTTAAATTTAATATATTATATT
1414841 TTTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
ATTTAAATTTAATATATTATATTGT
Found at i:1416357 original size:18 final size:19
Alignment explanation
Indices: 1416334--1416372 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1416324 AAAAAAACTT
1416334 TTAAGAGAAGAGC-TTCTC
1 TTAAGAGAAGAGCTTTCTC
*
1416352 TTAAGAGAGGAGCTTTCTC
1 TTAAGAGAAGAGCTTTCTC
1416371 TT
1 TT
1416373 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (19 bp):
TTAAGAGAAGAGCTTTCTC
Found at i:1417166 original size:90 final size:92
Alignment explanation
Indices: 1416986--1417193 Score: 264
Period size: 90 Copynumber: 2.3 Consensus size: 92
1416976 AAACAGTACT
* * *
1416986 ATTACATTAATACATGGATTATTTTTGAAAATTAGATTTTTTCTAATAAAAAAAAAAATAAGTTG
1 ATTAAATTAATACATGGATTATTTTTGAAAATGAGATTTTTTCTAATAAAAAAAAAAATAAGTTA
*
1417051 ATTGATTATAAATATCATACTACAAAA
66 ATTGATTATAAATATCAGACTACAAAA
* * * *
1417078 ATTAAATTAATACATGGATTATTTTTTAGAATCGA-ATTCTTTT-T-ATAGAAAAAATAAT-AGT
1 ATTAAATTAATACATGGATTATTTTTGAAAAT-GAGATT-TTTTCTAATAAAAAAAAAAATAAGT
*
1417139 TAATTGATTATAAATGTCAGACTACAAAA
64 TAATTGATTATAAATATCAGACTACAAAA
**
1417168 ATTAAA-TAATACACAGATTATTTTTG
1 ATTAAATTAATACATGGATTATTTTTG
1417194 GGTATCATAT
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
89 17 0.17
90 35 0.34
91 12 0.12
92 33 0.32
93 5 0.05
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (92 bp):
ATTAAATTAATACATGGATTATTTTTGAAAATGAGATTTTTTCTAATAAAAAAAAAAATAAGTTA
ATTGATTATAAATATCAGACTACAAAA
Found at i:1417208 original size:90 final size:90
Alignment explanation
Indices: 1416986--1417248 Score: 255
Period size: 90 Copynumber: 2.9 Consensus size: 90
1416976 AAACAGTACT
* ** * * * * *
1416986 ATTACATTAATACATGGATTATTTTTGAAAAT-TAGATTTTTTCTAATAAAAAAAAAAATAAGTT
1 ATTAAATTAATACACAGATTATTTTTGAGAATCGA-ATTCTTT-TGATAGAAAAAAAAAT-AGTT
* *
1417050 GATTGATTATAAATATCATACTACAAAA
63 AATTGATTATAAATATCAGACTACAAAA
** * * *
1417078 ATTAAATTAATACATGGATTATTTTTTAGAATCGAATTCTTTTTATAGAAAAAATAATAGTTAAT
1 ATTAAATTAATACACAGATTATTTTTGAGAATCGAATTCTTTTGATAGAAAAAAAAATAGTTAAT
*
1417143 TGATTATAAATGTCAGACTACAAAA
66 TGATTATAAATATCAGACTACAAAA
* * *
1417168 ATTAAA-TAATACACAGATTATTTTTGGGTATC-ATATTTCTTTTGATAGAAAAAGAAAAAAGTT
1 ATTAAATTAATACACAGATTATTTTTGAGAATCGA-A-TTCTTTTGATAGAAAAA-AAAATAGTT
*
1417231 AATT-ACTTTTAAATATCA
63 AATTGA-TTATAAATATCA
1417249 CACTTTAAGC
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
88 1 0.01
89 22 0.15
90 52 0.36
91 34 0.23
92 35 0.24
93 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (90 bp):
ATTAAATTAATACACAGATTATTTTTGAGAATCGAATTCTTTTGATAGAAAAAAAAATAGTTAAT
TGATTATAAATATCAGACTACAAAA
Found at i:1418244 original size:23 final size:23
Alignment explanation
Indices: 1418166--1418246 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 23
1418156 ATATCTAACT
*
1418166 ATTTATTTGATATAAAAATTTAAA
1 ATTTA-TTGATATAAAAATATAAA
**
1418190 ATTTAAATAT-ATATTAAAAATAATACT
1 ATTT--AT-TGATA-TAAAAAT-ATAAA
*
1418217 TTTTATTGATATAAAAATATAAA
1 ATTTATTGATATAAAAATATAAA
1418240 ATTTATT
1 ATTTATT
1418247 TAAAATGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
23 9 0.20
24 12 0.27
25 9 0.20
26 9 0.20
27 5 0.11
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTATTGATATAAAAATATAAA
Found at i:1418453 original size:18 final size:18
Alignment explanation
Indices: 1418410--1418446 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1418400 TAATCTAATG
1418410 TATTA-TAAATATAAATA
1 TATTATTAAATATAAATA
*
1418427 TATTATTAAATTTAAATA
1 TATTATTAAATATAAATA
1418445 TA
1 TA
1418447 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTATTAAATATAAATA
Found at i:1420808 original size:92 final size:98
Alignment explanation
Indices: 1420704--1420911 Score: 236
Period size: 100 Copynumber: 2.2 Consensus size: 98
1420694 TTAATGCATG
* * *
1420704 AATTATAAATGTCAAATCGC-ATGAATTACATTAATGCATGG-A-TT-A-T-TTTTT-AAAATC-
1 AATTATAAATGTCAAATCACAAAG-ATTACATTAATACATGGTATTTAATTATTTTTAAAAATCG
*
1420761 AGATTTCTTCTAGTA-AAAAAGAAGACAATTTGATT
65 A-ATTTCTTCTAGTAGAAAAA-AAGACAAGTTGATT
* * * *
1420796 GATTATAAATGTCACATTACAAAGATTAGATTAATACATGGATTATTTAATTATTTTTAAAAATC
1 AATTATAAATGTCAAATCACAAAGATTACATTAATACATGG--TATTTAATTATTTTTAAAAATC
1420861 GAATTTCTTCTAGTAGAAAAAAAGACAAGTTGATT
64 GAATTTCTTCTAGTAGAAAAAAAGACAAGTTGATT
1420896 AATTATAAATGTCAAA
1 AATTATAAATGTCAAA
1420912 ATACAAATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
92 31 0.33
93 2 0.02
95 1 0.01
96 2 0.02
97 1 0.01
98 1 0.01
99 5 0.05
100 46 0.48
101 6 0.06
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.37
Consensus pattern (98 bp):
AATTATAAATGTCAAATCACAAAGATTACATTAATACATGGTATTTAATTATTTTTAAAAATCGA
ATTTCTTCTAGTAGAAAAAAAGACAAGTTGATT
Found at i:1420943 original size:100 final size:100
Alignment explanation
Indices: 1420745--1420930 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 100
1420735 TAATGCATGG
* * *
1420745 ATTATTTTTTAAAATCAGATTTCTTCTAGTAAAAAAGAAGACAATTTGATTGATTATAAATGTCA
1 ATTATTTTTAAAAATCAGATTTCTTCTAGTAAAAAAGAAGACAAGTTGATTAATTATAAATGTCA
* *
1420810 CATTACAAAGATTAGATTAATACATGGATTATTTA
66 AAATACAAAGATTAGATTAATACATGGATTATTTA
1420845 ATTATTTTTAAAAATC-GAATTTCTTCTAGTAGAAAAA-AAGACAAGTTGATTAATTATAAATGT
1 ATTATTTTTAAAAATCAG-ATTTCTTCTAGTA-AAAAAGAAGACAAGTTGATTAATTATAAATGT
* *
1420908 CAAAATACAAATATTTGATTAAT
64 CAAAATACAAAGATTAGATTAAT
1420931 GTATTGATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
99 1 0.01
100 71 0.92
101 5 0.06
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (100 bp):
ATTATTTTTAAAAATCAGATTTCTTCTAGTAAAAAAGAAGACAAGTTGATTAATTATAAATGTCA
AAATACAAAGATTAGATTAATACATGGATTATTTA
Found at i:1422121 original size:25 final size:24
Alignment explanation
Indices: 1422068--1422125 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 24
1422058 AAAAATTTTT
1422068 TATTTAAAT-TTAATTATAAAATA
1 TATTTAAATATTAATTATAAAATA
1422091 TA--TAAATATTAA-TATAAAAATAA
1 TATTTAAATATTAATTAT-AAAAT-A
1422114 TATTTAAATATT
1 TATTTAAATATT
1422126 TTTAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 8 0.27
22 9 0.30
23 5 0.17
25 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTTAAATATTAATTATAAAATA
Found at i:1423254 original size:22 final size:23
Alignment explanation
Indices: 1423211--1423255 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1423201 TTGGGAGAAA
**
1423211 TTTTAAAAAAATTATTTTATGAT
1 TTTTAAAAAAATTATTAAATGAT
*
1423234 TTTTTAAAAAATT-TTAAATGAT
1 TTTTAAAAAAATTATTAAATGAT
1423256 CTAGTTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTTAAAAAAATTATTAAATGAT
Found at i:1423443 original size:13 final size:13
Alignment explanation
Indices: 1423425--1423471 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
1423415 TTAGAAAAAA
1423425 ATTTTAAAAATTT
1 ATTTTAAAAATTT
*
1423438 ATTTTAATAA-TT
1 ATTTTAAAAATTT
* **
1423450 ATTTTTAATTTTT
1 ATTTTAAAAATTT
1423463 ATTTTAAAA
1 ATTTTAAAA
1423472 TATATATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTAAAAATTT
Found at i:1423463 original size:25 final size:25
Alignment explanation
Indices: 1423435--1423482 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1423425 ATTTTAAAAA
*
1423435 TTTATTTTAATAAT-TATTTTTAATT
1 TTTATTTTAA-AATATATATTTAATT
1423460 TTTATTTTAAAATATATATTTAA
1 TTTATTTTAAAATATATATTTAA
1423483 GGGGTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTTTAAAATATATATTTAATT
Found at i:1424321 original size:38 final size:38
Alignment explanation
Indices: 1424276--1424434 Score: 128
Period size: 38 Copynumber: 4.2 Consensus size: 38
1424266 TGGCATTGGT
* *
1424276 TAAGAATAGTAATTTTTGTTTCGAAC-CATACTACTAGT
1 TAAGAATAGTAATTTTTGTTTCGAACTCATACCA-TAGA
* * * *
1424314 TTAGAATAGTAGTTTTTGTTTCG-ACTCGTACCATCGA
1 TAAGAATAGTAATTTTTGTTTCGAACTCATACCATAGA
* * **
1424351 TAAGAATAGTAATTTTTGTTTTGAACT-GTACCACCGA
1 TAAGAATAGTAATTTTTGTTTCGAACTCATACCATAGA
** * *
1424388 GTAAGAATAGTTGTTTTTGTTTCAAACT-ATACAAGTAGA
1 -TAAGAATAGTAATTTTTGTTTCGAACTCATACCA-TAGA
*
1424427 TTAGAATA
1 TAAGAATA
1424435 ATGGTTTTTG
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
37 33 0.34
38 63 0.64
39 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (38 bp):
TAAGAATAGTAATTTTTGTTTCGAACTCATACCATAGA
Found at i:1424367 original size:37 final size:38
Alignment explanation
Indices: 1424276--1424415 Score: 142
Period size: 38 Copynumber: 3.7 Consensus size: 38
1424266 TGGCATTGGT
* * * *
1424276 TAAGAATAGTAATTTTTGTTTCGAAC-CATACTACTAGT
1 TAAGAATAGTAATTTTTGTTTCGAACTCGTACCA-TCGA
* *
1424314 TTAGAATAGTAGTTTTTGTTTCG-ACTCGTACCATCGA
1 TAAGAATAGTAATTTTTGTTTCGAACTCGTACCATCGA
* *
1424351 TAAGAATAGTAATTTTTGTTTTGAACT-GTACCACCGA
1 TAAGAATAGTAATTTTTGTTTCGAACTCGTACCATCGA
** *
1424388 GTAAGAATAGTTGTTTTTGTTTCAAACT
1 -TAAGAATAGTAATTTTTGTTTCGAACT
1424416 ATACAAGTAG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
37 33 0.39
38 52 0.61
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (38 bp):
TAAGAATAGTAATTTTTGTTTCGAACTCGTACCATCGA
Found at i:1429768 original size:21 final size:21
Alignment explanation
Indices: 1429744--1429785 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1429734 GTATCGATAC
1429744 AATGCATCGATACATTTCCTT
1 AATGCATCGATACATTTCCTT
*
1429765 AATGTATCGATACATTTCCTT
1 AATGCATCGATACATTTCCTT
1429786 GGCAATAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGCATCGATACATTTCCTT
Found at i:1429820 original size:13 final size:13
Alignment explanation
Indices: 1429802--1429885 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
1429792 AGCTTCGTAG
1429802 CGATACATTGTAT
1 CGATACATTGTAT
1429815 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
*
1429834 CGATACATTGTGT
1 CGATACATTGTAT
1429847 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
1429866 CGATACATTGTAT
1 CGATACATTGTAT
1429879 CGATACA
1 CGATACA
1429886 ACACTTATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 27 0.47
14 1 0.02
15 2 0.04
16 4 0.07
17 2 0.04
18 1 0.02
19 20 0.35
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1429834 original size:19 final size:18
Alignment explanation
Indices: 1429810--1429904 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
1429800 AGCGATACAT
1429810 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1429829 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
1429842 TGTGTCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1429861 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1429874 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1429893 TGTATCGATACA
1 TGTATCGATACA
1429905 TTTTCTGTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 33 0.53
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1429843 original size:32 final size:32
Alignment explanation
Indices: 1429802--1429906 Score: 192
Period size: 32 Copynumber: 3.3 Consensus size: 32
1429792 AGCTTCGTAG
1429802 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1429834 CGATACATTGTGTCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1429866 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1429898 CGATACATT
1 CGATACATT
1429907 TTCTGTTTGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1429933 original size:19 final size:19
Alignment explanation
Indices: 1429873--1429934 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1429863 TATCGATACA
1429873 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* **
1429892 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
1429913 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
1429932 TTG
1 TTG
1429935 CAATTCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:1429992 original size:21 final size:21
Alignment explanation
Indices: 1429966--1430019 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1429956 TGGGACCTTG
1429966 TATCGATACATTCTACAAATA
1 TATCGATACATTCTACAAATA
* *
1429987 TATCGATACACTCTACAAATG
1 TATCGATACATTCTACAAATA
1430008 TATCGATACATT
1 TATCGATACATT
1430020 TGGATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (21 bp):
TATCGATACATTCTACAAATA
Found at i:1430814 original size:55 final size:55
Alignment explanation
Indices: 1430727--1431470 Score: 716
Period size: 55 Copynumber: 13.0 Consensus size: 55
1430717 ATGAAGTGCA
* * * *
1430727 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAAATCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1430782 TCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
1430837 TCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACATTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC-TTGTGTGGGCTTTGAAAGGCG
* * * *
1430893 TCCTGTTCTTTGGGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
1430954 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1431009 TGCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
** *
1431070 TCCTGCTCTTTGAGGGTTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
1431131 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
1431190 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * **
1431251 TTCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * **
1431310 TCCTGCTCTTTAAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGATG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
***
1431364 TCCCATTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1431418 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1431471 AGAAGGCGTC
Statistics
Matches: 592, Mismatches: 57, Indels: 80
0.81 0.08 0.11
Matches are distributed among these distances:
54 69 0.12
55 169 0.29
56 60 0.10
57 2 0.00
59 77 0.13
60 77 0.13
61 124 0.21
62 4 0.01
64 5 0.01
65 1 0.00
66 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1430971 original size:61 final size:61
Alignment explanation
Indices: 1430779--1431501 Score: 749
Period size: 61 Copynumber: 12.4 Consensus size: 61
1430769 GCTTTGAAAG
* *
1430779 GCGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---AAG---AG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * *
1430834 GTGTCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACATTGTGTGGGCTTTG-AAAG-----
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC-TTGTGTGGGCTTTGAAAAGAAAAA
* * * *
1430890 GTGTCCTGTTCTTTGGGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* *
1430951 GCATCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * *
1431006 GCATGCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* ** * * *
1431067 GCATCCTGCTCTTTGAGGGTTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
*
1431128 GCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
*
1431187 GCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * *
1431248 GCATTCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* *
1431307 ACGTCCTGCTCTTTAAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG----A
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* ***
1431362 -TGTCCCATTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTG-AAAG-----
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * *
1431415 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
* *
1431476 GCGTCCTACTCTTTGAGAACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
1431502 GCAAAAGGAG
Statistics
Matches: 582, Mismatches: 52, Indels: 63
0.84 0.07 0.09
Matches are distributed among these distances:
54 63 0.11
55 124 0.21
56 53 0.09
58 3 0.01
59 93 0.16
60 81 0.14
61 161 0.28
62 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
Found at i:1431004 original size:28 final size:28
Alignment explanation
Indices: 1430973--1431060 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
1430963 TTGAGGACTA
1430973 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* * * * *
1431001 GAAAGGCATGCTA-C-TCTT-TGAGGAC-TG
1 GAAA---ATGCCACCAACTTGTGTGGGCTTT
1431028 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
1431056 GAAAA
1 GAAAA
1431061 GAAAAAGCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 5 0.12
25 1 0.02
26 3 0.07
27 10 0.23
28 15 0.35
29 3 0.07
30 1 0.02
31 5 0.12
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1431214 original size:120 final size:116
Alignment explanation
Indices: 1430727--1431501 Score: 842
Period size: 120 Copynumber: 6.7 Consensus size: 116
1430717 ATGAAGTGCA
* * * * *
1430727 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAAATCGTGTGGGCTTT---GAAAGGCGTCATGCT
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTACT
* *
1430789 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
65 CTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
* * **
1430837 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACATTGTGTGGGCTTT---GAAAGGTGTCCTGT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAAC-TTGTGTGGGCTTTAAAGAAAGGCGTCCTAC
* * *
1430899 TCTTTGGGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
64 TCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCG
* *
1430954 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT---GAAAGGCATGCTACT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTACT
** *
1431016 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
65 CTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCG
**
1431070 TCCTGCTCTTTGAGGGTTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT--AAAGA-AAGGCGTCCT
* *
1431135 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
62 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
* * *
1431190 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATTCT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT--AAAG-AAAGGCGTCCT
*
1431255 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACG
62 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
* ** ** * *
1431310 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--A-AAAGATGTCCCATTC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTACTC
*
1431372 TTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTT----G-AAAGGCG
66 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
1431418 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-AAA-GA-AAGGCGTCC
* *
1431482 TACTCTTTGAGAACTAAAGG
61 TACTCTTTGAGGACTGAAGG
1431502 GCAAAAGGAG
Statistics
Matches: 578, Mismatches: 62, Indels: 46
0.84 0.09 0.07
Matches are distributed among these distances:
107 2 0.00
108 22 0.04
109 24 0.04
110 26 0.04
111 66 0.11
112 1 0.00
113 25 0.04
114 28 0.05
115 20 0.03
116 115 0.20
117 35 0.06
119 26 0.04
120 138 0.24
121 29 0.05
122 21 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTACTC
TTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
Found at i:1431588 original size:100 final size:100
Alignment explanation
Indices: 1431415--1431599 Score: 291
Period size: 100 Copynumber: 1.9 Consensus size: 100
1431405 GCTTTGAAAG
* * *
1431415 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1431480 CCTACTCTTTGAGAACTAAAGGGCAAAAGGAGAGA
66 CCTACTCTTTGAGAACTAAAGGGCAAAAGGAGAGA
** *
1431515 GCGTCCTGCTCTTTGAAGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
1 GCGTCCTGCTCTTTGAAGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
1431579 TCCTACTCTTTGAGGACTAAA
65 TCCTACTCTTTGAGAACTAAA
1431600 AAGCGGAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 75 0.97
101 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (100 bp):
GCGTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTACTCTTTGAGAACTAAAGGGCAAAAGGAGAGA
Found at i:1432575 original size:1 final size:1
Alignment explanation
Indices: 1432569--1432649 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
1432559 CAGATTCTTC
* * * * * ** * ** *
1432569 TTTTTTTCTTTTTTATTTGTTTTTTTTTGTTCTTTTTTTTTTGGTTGTTTTTTTTTTGCTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1432634 TTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
1432650 AGAAAAGAAG
Statistics
Matches: 59, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:1432596 original size:14 final size:14
Alignment explanation
Indices: 1432577--1432624 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
1432567 TCTTTTTTTC
*
1432577 TTTTTTATTTGTTT
1 TTTTTTGTTTGTTT
1432591 TTTTTTGTTCT-TTT
1 TTTTTTGTT-TGTTT
*
1432605 TTTTTTGGTTGTTT
1 TTTTTTGTTTGTTT
1432619 TTTTTT
1 TTTTTT
1432625 TGCTTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTTGTTT
Found at i:1432596 original size:24 final size:23
Alignment explanation
Indices: 1432569--1432649 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 23
1432559 CAGATTCTTC
1432569 TTTTTTTCTTTTTTATTTGTTTTT
1 TTTTTTTCTTTTTT-TTTGTTTTT
*
1432593 TTTTGTTCTTTTTTTTTTGGTTGTTT
1 TTTTTTTC-TTTTTTTTT-GTT-TTT
*
1432619 TTTTTTTGCTTTTGTTTTTCTTTTT
1 TTTTTTT-CTTTT-TTTTTGTTTTT
1432644 TTTTTT
1 TTTTTT
1432650 AGAAAAGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 10 0.20
25 18 0.37
26 15 0.31
27 6 0.12
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.85
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTTTGTTTTT
Found at i:1432616 original size:28 final size:26
Alignment explanation
Indices: 1432585--1432649 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 26
1432575 TCTTTTTTAT
* * *
1432585 TTGTTTTTTTTTGTTCTTTTTTTTTTGG
1 TTGTTTTTTTTT-TGCTTTTGTTTTT-C
1432613 TTGTTTTTTTTTTGCTTTTGTTTTTC
1 TTGTTTTTTTTTTGCTTTTGTTTTTC
1432639 TT-TTTTTTTTT
1 TTGTTTTTTTTT
1432650 AGAAAAGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.26
26 2 0.06
27 11 0.32
28 12 0.35
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.85
Consensus pattern (26 bp):
TTGTTTTTTTTTTGCTTTTGTTTTTC
Found at i:1432636 original size:15 final size:14
Alignment explanation
Indices: 1432588--1432649 Score: 67
Period size: 15 Copynumber: 4.6 Consensus size: 14
1432578 TTTTTATTTG
1432588 TTTTTTTTTGTTCT
1 TTTTTTTTTGTTCT
*
1432602 TTTTTTTTTGGTTGT
1 TTTTTTTTT-GTTCT
1432617 TTTTTTTTTG--CT
1 TTTTTTTTTGTTCT
* *
1432629 TTTGTTTTTCTT-T
1 TTTTTTTTTGTTCT
1432642 TTTTTTTT
1 TTTTTTTT
1432650 AGAAAAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 9 0.22
13 8 0.20
14 10 0.25
15 13 0.32
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTGTTCT
Found at i:1432648 original size:11 final size:11
Alignment explanation
Indices: 1432563--1432648 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1432553 CTTAAGCAGA
*
1432563 TTCTTCTTTTT
1 TTCTTTTTTTT
1432574 TTCTTTTTTATT
1 TTCTTTTTT-TT
1432586 TGT-TTTTTTTT
1 T-TCTTTTTTTT
1432597 GTTCTTTTTTTTTT
1 -TTC--TTTTTTTT
*
1432611 GGTTGTTTTTTTT
1 --TTCTTTTTTTT
*
1432624 TTGCTTTTGTTT
1 TT-CTTTTTTTT
1432636 TTCTTTTTTTT
1 TTCTTTTTTTT
1432647 TT
1 TT
1432649 TAGAAAAGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
11 23 0.37
12 19 0.31
13 9 0.15
14 8 0.13
15 3 0.05
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.84
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:1444688 original size:79 final size:79
Alignment explanation
Indices: 1444555--1444750 Score: 198
Period size: 79 Copynumber: 2.5 Consensus size: 79
1444545 AATAACGGGG
* * * ** ** *
1444555 TTGGAGTATCCCCTTGAAAATAACAGAGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTACGAAAAATCAAT-ATTTAG
*
1444619 GAAATAAA-ATCAGGA
65 GAAATAAAGCT-AGGA
* * * *
1444634 TTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTACGAAAAATCAATATTTAGG
* *
1444699 AAATAAAGCTGGGG
66 AAATAAAGCTAGGA
** *
1444713 TTGGAGTATCCCCTCGGAGGTAATAGGGTTGGAGTATC
1 TTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATC
1444751 TCCGATGAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 1 0.01
79 93 0.98
80 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTACGAAAAATCAATATTTAGG
AAATAAAGCTAGGA
Found at i:1444837 original size:52 final size:51
Alignment explanation
Indices: 1444768--1445418 Score: 361
Period size: 51 Copynumber: 12.5 Consensus size: 51
1444758 AAATAACGAG
*
1444768 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
** * * * *
1444820 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATTGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
1444872 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAACGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *** * **
1444923 GTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGCG-
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCG-GA
* *** * * *
1444974 GTTGGAGTATCCCTTCGGA-GGT-AACGGGGTTGGAGTATCCTCGACAA-AATAAT--GA
1 GTTGGAGTATCCC--C-GATTGTGAA--AAATTGGTGT-T-TTGGA-AATAA-AATCGGA
* *
1445029 GGTTGGAGTATCCTCGATTGTGAAAAATTCGTGCTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
** * * *
1445082 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAA-TCGGA
** * * * *
1445134 GTTGGAGTATCTTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAACGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *** * ** *
1445185 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *** * * ***** *
1445236 GTTGGAGTATCCCCTCGGA-GGT-AACGGGGTTGGAGTATCCCCGATGAAATAAC-GA
1 GTTGGAGTAT-CCC-C-GATTGTGAA--AAATTGGTGTTTTGGAAAT-AAA-ATCGGA
*
1445291 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* ** * * *
1445344 GTTGGAGTATCCACGATTAAAGGAAAATTGGTGTTTTCGAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *
1445395 GGTTGGAGTATCCTCGATTATGAA
1 -GTTGGAGTATCCCCGATTGTGAA
1445419 CAACTGAGAA
Statistics
Matches: 449, Mismatches: 114, Indels: 73
0.71 0.18 0.11
Matches are distributed among these distances:
50 2 0.00
51 163 0.36
52 157 0.35
53 62 0.14
54 23 0.05
55 11 0.02
56 28 0.06
57 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1445120 original size:262 final size:262
Alignment explanation
Indices: 1444655--1445418 Score: 1280
Period size: 262 Copynumber: 2.9 Consensus size: 262
1444645 TCTCGGAAAT
* ** *
1444655 AACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
**
1444720 ATCCCCTCGGAGGTAATAGGGTTGGAGTAT-CTCCGATGAAATAACGAGGTTGGAGTATCCTCGA
66 ATCCCCTCGGAGGTAACGGGGTTGGAGTATCCT-CGATGAAATAACGAGGTTGGAGTATCCTCGA
1444784 TTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
130 TTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
* * *
1444849 GGTGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAT
195 GGTGTTTTGAAAATAAAACTGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAAT
1444914 AAA
260 AAA
* *
1444917 AACGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGCGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
* ** *
1444982 ATCCCTTCGGAGGTAACGGGGTTGGAGTATCCTCGACAAAATAATGAGGTTGGAGTATCCTCGAT
66 ATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGAT
* *
1445047 TGTGAAAAATTCGTGCTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
131 TGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
* *
1445112 GTGTTTTGAAAATAAAACTAGGGTTGGAGTATCTTCGATTGTGAAAAATTAGTGTTTTAGAAATA
196 GTGTTTTGAAAATAAAACTGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATA
1445177 AA
261 AA
1445179 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
*
1445244 ATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGAT
66 ATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGAT
*
1445309 TGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCACGATTAAAGGAAAATTG
131 TGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
* * *
1445374 GTGTTTTCG-AAATAAAACCGAGGTTGGAGTATCCTCGATTATGAA
196 GTGTTTT-GAAAATAAAACTGGGGTTGGAGTATCCTCGATTGTGAA
1445419 CAACTGAGAA
Statistics
Matches: 466, Mismatches: 34, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
262 463 0.99
263 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (262 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
ATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGAT
TGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
GTGTTTTGAAAATAAAACTGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATA
AA
Found at i:1445288 original size:28 final size:28
Alignment explanation
Indices: 1445232--1445308 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1445222 GAAATAAAGC
*** **
1445232 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1445260 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1445288 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1445309 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1445373 original size:53 final size:52
Alignment explanation
Indices: 1445288--1445414 Score: 168
Period size: 52 Copynumber: 2.4 Consensus size: 52
1445278 GATGAAATAA
** * *
1445288 CGAGGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCTCGATTAAAGAAAAATTGGTG-TTTTCGAAATAAAAC
* *
1445340 CG-GAGTTGGAGTATCCACGATTAAAGGAAAATTGGTGTTTTCGAAATAAAAC
1 CGAG-GTTGGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTCGAAATAAAAC
1445392 CGAGGTTGGAGTATCCTCGATTA
1 CGAGGTTGGAGTATCCTCGATTA
1445415 TGAACAACTG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 1 0.02
52 52 0.80
53 12 0.18
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
CGAGGTTGGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTCGAAATAAAAC
Found at i:1447906 original size:19 final size:19
Alignment explanation
Indices: 1447860--1447909 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1447850 AGCGATACAT
*
1447860 TGTATCGAGACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1447879 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1447898 TGTATCGATACA
1 TGTATCGATACA
1447910 TTTTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1448794 original size:55 final size:55
Alignment explanation
Indices: 1448710--1449451 Score: 748
Period size: 55 Copynumber: 13.0 Consensus size: 55
1448700 ATAAAGTGCA
* * *
1448710 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1448765 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
** *
1448820 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1448875 TCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
1448936 T-CTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTATGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1448990 TCCGGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
1449051 TCTTGCTCTTTGAGGGCTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
*
1449112 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * *
1449171 TTCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG------AAAGGCG
* *
1449232 TCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * *
1449291 TCATGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTTAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1449345 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-AGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1449399 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1449452 AGAAGGCATC
Statistics
Matches: 596, Mismatches: 53, Indels: 76
0.82 0.07 0.10
Matches are distributed among these distances:
54 76 0.13
55 214 0.36
56 11 0.02
59 85 0.14
60 111 0.19
61 93 0.16
64 1 0.00
65 1 0.00
66 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1448969 original size:60 final size:59
Alignment explanation
Indices: 1448877--1449470 Score: 613
Period size: 60 Copynumber: 10.2 Consensus size: 59
1448867 GAAAGGTGTC
* *
1448877 CTGCTCTTTGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
1 CTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* *
1448937 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGCTTTG-AAAG-----GCAT
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* *
1448991 CCGGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
1 -CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* * * * * *
1449052 CTTGCTCTTTGAGGGCTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGT
1 C-TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* *
1449113 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGACGTT
1 -CTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG-C-AT
* *
1449173 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCAT
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* * *
1449233 CATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAATGCGT
1 C-TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* * *
1449292 CATGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAG----A-CGT
1 C-TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* * *
1449346 CCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-AGCTTTG-AAAG-----GCGT
1 -CTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
* * *
1449400 CTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCAT
1 C-TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCAT
1449461 CCTGCTCTTT
1 -CTGCTCTTT
1449471 AAGAACTAAA
Statistics
Matches: 465, Mismatches: 39, Indels: 59
0.83 0.07 0.10
Matches are distributed among these distances:
53 1 0.00
54 71 0.15
55 68 0.15
56 5 0.01
58 3 0.01
59 85 0.18
60 120 0.26
61 105 0.23
62 7 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
CTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
Found at i:1449198 original size:120 final size:115
Alignment explanation
Indices: 1448712--1449470 Score: 816
Period size: 120 Copynumber: 6.6 Consensus size: 115
1448702 AAAGTGCATC
* *
1448712 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT---GAAAGGCGTCCTGCTCT
1 CTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCT
**
1448774 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGT
65 TTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGT
*
1448821 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT---GAAAGGTGTCCTGCTC
1 -CTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTC
* * *
1448883 TTTGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-AGCAT
64 TTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGA-CGT
* * *
1448937 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGCTTT---GAAAGGCATCCGGCTCT
1 CTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCT
** *
1448999 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-AGCAT
65 TTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGA-CGT
*
1449052 CTTGCTCTTTGAGGGCTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTG
1 C-TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAA-GA-AAGGCGTCCTG
1449117 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTT
61 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACG-T
* * * *
1449173 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCATGC
1 CTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT--AAA-GAAAGGCGTCCTGC
1449238 TCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATG-CGT
62 TCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-GACGT
** * * *
1449292 CATGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTT--A-AAAGACGTCCTACTCT
1 C-TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCT
* *
1449354 TTGAGGACTGAAAGGTGCCACCAACTTGTGT-AGCTTT----G-AAAGGCGT
65 TTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGT
*
1449400 CTTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCT
1 C-TGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-AAA-GA-AAGGCGTCCT
1449464 GCTCTTT
60 GCTCTTT
1449471 AAGAACTAAA
Statistics
Matches: 569, Mismatches: 48, Indels: 59
0.84 0.07 0.09
Matches are distributed among these distances:
107 3 0.01
108 22 0.04
109 23 0.04
110 89 0.16
111 4 0.01
112 1 0.00
113 29 0.05
114 21 0.04
115 120 0.21
116 44 0.08
119 27 0.05
120 128 0.22
121 36 0.06
122 22 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (115 bp):
CTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCTT
TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGT
Found at i:1450504 original size:91 final size:91
Alignment explanation
Indices: 1450331--1450535 Score: 288
Period size: 91 Copynumber: 2.3 Consensus size: 91
1450321 AACAACAATA
* * *
1450331 ATAAATGAATGTATCGATACATGTTTGAATTGTATCAATACTGGACCATGTTGAGCAAATTTTAC
1 ATAAGTGAATGTATCGATACATGTTTGAATTATATCAATACTGGACCATGTCGAGCAAATTTTAC
* *
1450396 ATTCTAGAAAGGAATTGTATTGATAC
66 ATTCTAGAAAAGAATTGTATCGATAC
* **
1450422 ATAAGTGAATGTATCGATACATTTTTGAATTATATTGATACTGGACCATGTCGAGGCAAATTTTA
1 ATAAGTGAATGTATCGATACATGTTTGAATTATATCAATACTGGACCATGTCGA-GCAAATTTTA
*
1450487 CATTCTCGAAAAG-ATTGTATCGATAC
65 CATTCTAGAAAAGAATTGTATCGATAC
*
1450513 ATAAGTAAATGTA-CTGATACATG
1 ATAAGTGAATGTATC-GATACATG
1450536 CTTGCAAAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
90 1 0.01
91 79 0.78
92 21 0.21
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (91 bp):
ATAAGTGAATGTATCGATACATGTTTGAATTATATCAATACTGGACCATGTCGAGCAAATTTTAC
ATTCTAGAAAAGAATTGTATCGATAC
Found at i:1450659 original size:51 final size:52
Alignment explanation
Indices: 1450540--1450676 Score: 161
Period size: 51 Copynumber: 2.6 Consensus size: 52
1450530 TACATGCTTG
* * * * *
1450540 CAAAAGTATCAATACATTTCCATTGTATCGATATATTTTGGGTTTTTGGACC
1 CAAATGTATCGATACATTTTCATTGTATCGATAGATTCTGGGTTTTTGGACC
*
1450592 CAAATGTATCGATACATTATTCATTATATCGATAGATTCTGGG-TTTT-GACC
1 CAAATGTATCGATACATT-TTCATTGTATCGATAGATTCTGGGTTTTTGGACC
* * *
1450643 CAAATGTATTGGTACATTCTTCAATGTATCGATA
1 CAAATGTATCGATACATT-TTCATTGTATCGATA
1450677 CATGTAGGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
51 33 0.45
52 20 0.27
53 20 0.27
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (52 bp):
CAAATGTATCGATACATTTTCATTGTATCGATAGATTCTGGGTTTTTGGACC
Found at i:1453412 original size:84 final size:83
Alignment explanation
Indices: 1453277--1453453 Score: 232
Period size: 84 Copynumber: 2.1 Consensus size: 83
1453267 TTTCGAAGGG
* * * * *
1453277 TTCAAAACATTGAATTTTTCCATATTAGGGATAACTCTAACCCTACTATTTTTGAGGGGATACTC
1 TTCAAAATATTGAATTTTTCCATATTAGGGATAACTCCAACCCCACCATTTTCGAGGGGATACTC
*
1453342 CAACCCCGTTTTCTTTCACT
66 CAACCCCCTTTT-TTT-ACT
* *
1453362 TTCAAAATATTGAATTTTT-TATCTTAGGGAT-ACTCCAATCCCCACCATTTTCGAGGGGATACT
1 TTCAAAATATTGAATTTTTCCATATTAGGGATAACTCCAA-CCCCACCATTTTCGAGGGGATACT
1453425 CCAACCCCCTTTTTTTACT
65 CCAACCCCCTTTTTTTACT
*
1453444 TCCAAAATAT
1 TTCAAAATAT
1453454 CAAAATTTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
82 12 0.15
83 9 0.11
84 43 0.52
85 18 0.22
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (83 bp):
TTCAAAATATTGAATTTTTCCATATTAGGGATAACTCCAACCCCACCATTTTCGAGGGGATACTC
CAACCCCCTTTTTTTACT
Found at i:1461031 original size:17 final size:18
Alignment explanation
Indices: 1460999--1461037 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1460989 ATTAAGAGAG
*
1460999 TAAAATAAATTTTAATAT
1 TAAAATAAATTATAATAT
*
1461017 TAAAA-AAATTATAATCT
1 TAAAATAAATTATAATAT
1461034 TAAA
1 TAAA
1461038 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATAAATTATAATAT
Found at i:1461149 original size:19 final size:19
Alignment explanation
Indices: 1461096--1461150 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1461086 ATTAATTTTA
*
1461096 ATTTATAATTTTAATTAATT
1 ATTT-TAATTTTAATAAATT
* ***
1461116 ATTTAAATAAAAATAAATT
1 ATTTTAATTTTAATAAATT
1461135 ATTTTAATTTTAATAA
1 ATTTTAATTTTAATAA
1461151 TTTAATAATA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAATTTTAATAAATT
Found at i:1463359 original size:18 final size:18
Alignment explanation
Indices: 1463303--1463381 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
1463293 TTCTCTCGTT
*
1463303 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTAGAG
* *
1463321 GATAAATTTGA---AGAT
1 GATACATTTGAGGTAGAG
*
1463336 GATACATTTGAGGTAGGG
1 GATACATTTGAGGTAGAG
*
1463354 GATACATTTGTGGTAGAG
1 GATACATTTGAGGTAGAG
*
1463372 GATATATTTG
1 GATACATTTG
1463382 GGGTTGATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 12 0.24
18 37 0.76
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTAGAG
Found at i:1463412 original size:21 final size:21
Alignment explanation
Indices: 1463370--1463412 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1463360 TTTGTGGTAG
* *
1463370 AGGATATATTTGGGGTTGATA
1 AGGATATATTTGGGGATAATA
1463391 AGGATA-ATTTGGTGGATAATA
1 AGGATATATTTGG-GGATAATA
1463412 A
1 A
1463413 CCATATGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (21 bp):
AGGATATATTTGGGGATAATA
Found at i:1466933 original size:3 final size:3
Alignment explanation
Indices: 1466927--1466981 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
1466917 TATGTATTAT
1466927 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
1466975 ATA ATA A
1 ATA ATA A
1466982 ATTGAATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1467320 original size:23 final size:24
Alignment explanation
Indices: 1467275--1467337 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
1467265 AATAAAAAAA
1467275 TATAAATATCAAAATAAACATTAT
1 TATAAATATCAAAATAAACATTAT
*
1467299 TATAAA-ATCCAAATATAA-ATTA-
1 TATAAATATCAAAATA-AACATTAT
1467321 TA-AAATAAT-AAAATAAA
1 TATAAAT-ATCAAAATAAA
1467338 TATATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
23 14 0.41
24 8 0.24
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
TATAAATATCAAAATAAACATTAT
Found at i:1467346 original size:19 final size:20
Alignment explanation
Indices: 1467313--1467353 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1467303 AAATCCAAAT
1467313 ATAAATTATAAAATAATAAA
1 ATAAATTATAAAATAATAAA
* *
1467333 ATAAA-TATATAATAATTAA
1 ATAAATTATAAAATAATAAA
1467352 AT
1 AT
1467354 TCATCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAATTATAAAATAATAAA
Found at i:1467484 original size:15 final size:14
Alignment explanation
Indices: 1467466--1467547 Score: 61
Period size: 14 Copynumber: 6.2 Consensus size: 14
1467456 TCCTATCACT
1467466 ATTATTTATAAAAAA
1 ATTATTTAT-AAAAA
1467481 ATTAATTTATAAAAA
1 ATT-ATTTATAAAAA
1467496 ATTA---AT--AAA
1 ATTATTTATAAAAA
1467505 ATTATTTATAAAAA
1 ATTATTTATAAAAA
** *
1467519 A--ATAAATAAAAT
1 ATTATTTATAAAAA
*
1467531 TTTATTTATAAAAA
1 ATTATTTATAAAAA
1467545 ATT
1 ATT
1467548 TAAAAATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 17
0.67 0.11 0.22
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 10 0.20
14 15 0.29
15 11 0.22
16 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTATTTATAAAAA
Found at i:1467490 original size:16 final size:15
Alignment explanation
Indices: 1467469--1467501 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
1467459 TATCACTATT
1467469 ATTTATAAAAAAATTA
1 ATTTAT-AAAAAATTA
1467485 ATTTATAAAAAATTA
1 ATTTATAAAAAATTA
1467500 AT
1 AT
1467502 AAAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTATAAAAAATTA
Found at i:1467514 original size:23 final size:24
Alignment explanation
Indices: 1467478--1467562 Score: 111
Period size: 24 Copynumber: 3.5 Consensus size: 24
1467468 TATTTATAAA
1467478 AAAATTAATTTATAAAAAATTAAT
1 AAAATTAATTTATAAAAAATTAAT
*
1467502 AAAATT-ATTTATAAAAAAATAAAT
1 AAAATTAATTTAT-AAAAAATTAAT
* *
1467526 AAAATTTTATTTATAAAAAATTTA-
1 AAAA-TTAATTTATAAAAAATTAAT
1467550 AAAATTAATTTAT
1 AAAATTAATTTAT
1467563 TCAGCCCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.26
24 24 0.44
25 10 0.19
26 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATTAATTTATAAAAAATTAAT
Found at i:1468411 original size:27 final size:27
Alignment explanation
Indices: 1468371--1468426 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
1468361 TGCTATAAGC
1468371 GTGATTTCCAATCACACCGCTGTTTCA
1 GTGATTTCCAATCACACCGCTGTTTCA
* *
1468398 GTGATTTCCGATCACATCGCTGTTTCA
1 GTGATTTCCAATCACACCGCTGTTTCA
1468425 GT
1 GT
1468427 AATTAGCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (27 bp):
GTGATTTCCAATCACACCGCTGTTTCA
Found at i:1469844 original size:59 final size:59
Alignment explanation
Indices: 1469750--1469865 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 59
1469740 TGCATGGAAA
*
1469750 GATGTAAATGAAGAGTGCATGAGACCAACAACCATCCCGAGAGATCTCCTCTTACGAAG
1 GATGTAAATGAAGAATGCATGAGACCAACAACCATCCCGAGAGATCTCCTCTTACGAAG
** * *
1469809 GATGTAAATGAAGAATGCATGAGACCAACTGCCATCCTGAGAGATCTCCTTTTACGA
1 GATGTAAATGAAGAATGCATGAGACCAACAACCATCCCGAGAGATCTCCTCTTACGA
1469866 CTTTTGAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (59 bp):
GATGTAAATGAAGAATGCATGAGACCAACAACCATCCCGAGAGATCTCCTCTTACGAAG
Found at i:1470510 original size:36 final size:36
Alignment explanation
Indices: 1470463--1470531 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
1470453 TTCAATATCC
*
1470463 CATCTATCACAACTCCTAATACCACCACCTTAATCT
1 CATCTATCACAACTCCTAATACCACCAACTTAATCT
* *
1470499 CATCTATCACAACTCCTCATACTACCAACTTAA
1 CATCTATCACAACTCCTAATACCACCAACTTAA
1470532 GCAAAGACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.28
Consensus pattern (36 bp):
CATCTATCACAACTCCTAATACCACCAACTTAATCT
Found at i:1470645 original size:2 final size:2
Alignment explanation
Indices: 1470638--1470662 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1470628 TATTTTGTTT
1470638 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 T
1470663 TGATATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1470716 original size:22 final size:22
Alignment explanation
Indices: 1470685--1470729 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
1470675 AAATCTATAA
*
1470685 TATGTTCATGTTATTATTTATTT
1 TATGTTCATGTT-TTAATTATTT
1470708 TATG-TCATGTTTTAATTATTT
1 TATGTTCATGTTTTAATTATTT
1470729 T
1 T
1470730 TTATGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.64
Consensus pattern (22 bp):
TATGTTCATGTTTTAATTATTT
Found at i:1470730 original size:22 final size:23
Alignment explanation
Indices: 1470685--1470735 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1470675 AAATCTATAA
*
1470685 TATGTTCATGTTATTATTTA-TTT
1 TATG-TCATGTTATTAATTATTTT
1470708 TATGTCATGTT-TTAATTATTTTT
1 TATGTCATGTTATTAATTA-TTTT
1470731 TATGT
1 TATGT
1470736 AATTTTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.65
Consensus pattern (23 bp):
TATGTCATGTTATTAATTATTTT
Found at i:1471259 original size:24 final size:24
Alignment explanation
Indices: 1471232--1471277 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
1471222 TTTTTAGAAA
1471232 AAAAGAGAAAGAAAAAAG-GAAATG
1 AAAA-AGAAAGAAAAAAGAGAAATG
* *
1471256 AAAAAGGAATAAAAAAGAGAAA
1 AAAAAGAAAGAAAAAAGAGAAA
1471278 AATGTGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAGAAAAAAGAGAAATG
Found at i:1471270 original size:11 final size:12
Alignment explanation
Indices: 1471230--1471277 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
1471220 CTTTTTTAGA
*
1471230 AAAAAAGAGAAAG
1 AAAAAAG-GAAAT
1471243 AAAAAAGGAAAT
1 AAAAAAGGAAAT
*
1471255 GAAAAAGG-AAT
1 AAAAAAGGAAAT
1471266 AAAAAAGAGAAA
1 AAAAAAG-GAAA
1471278 AATGTGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 9 0.30
12 12 0.40
13 9 0.30
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (12 bp):
AAAAAAGGAAAT
Found at i:1475682 original size:13 final size:13
Alignment explanation
Indices: 1475664--1475689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1475654 CAATTTTTTG
1475664 TGTATCGATACAT
1 TGTATCGATACAT
1475677 TGTATCGATACAT
1 TGTATCGATACAT
1475690 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1475754 original size:21 final size:21
Alignment explanation
Indices: 1475728--1475803 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1475718 CTGCCAAGAA
*
1475728 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
* ****
1475749 ATGTATTGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1475769 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1475790 ATGTATCGATACAT
1 ATGTATCGATACAT
1475804 TGCAACATGT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1475774 original size:20 final size:20
Alignment explanation
Indices: 1475749--1475821 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
1475739 CATCTTTTTT
*
1475749 ATGTATTGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1475769 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1475790 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1475810 ATGTATCGATAC
1 ATGTATCGATAC
1475822 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1475785 original size:41 final size:41
Alignment explanation
Indices: 1475728--1475821 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1475718 CTGCCAAGAA
* *
1475728 ATGTATCGATACATCTTTTTTATGTATTGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1475769 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1475810 ATGTATCGATAC
1 ATGTATCGATAC
1475822 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1477240 original size:19 final size:19
Alignment explanation
Indices: 1477198--1477249 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1477188 CAGTTTCATG
* **
1477198 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAGCACA
1477218 TATCGATACAATGAGCACA
1 TATCGATACAATGAGCACA
*
1477237 TATCAATACAATG
1 TATCGATACAATG
1477250 TATCAGTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
TATCGATACAATGAGCACA
Found at i:1480900 original size:20 final size:20
Alignment explanation
Indices: 1480875--1480912 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1480865 ATTGGGCTCA
1480875 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
*
1480895 ATGTATCGATAGAATTCA
1 ATGTATCGATACAATTCA
1480913 ATCATGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1481730 original size:102 final size:102
Alignment explanation
Indices: 1481617--1481980 Score: 458
Period size: 102 Copynumber: 3.6 Consensus size: 102
1481607 AAAAAATATT
* *
1481617 TTATATTAAATCTCAAATTACTATTTAAAAATAATACAAAATTTAACAATATTTTATATTAAATC
1 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAATC
* *
1481682 CTGAACTATTATTTAAAAAATAATAAAATTTAAAAAA
66 CTGAATTACTATTTAAAAAATAATAAAATTTAAAAAA
* *
1481719 TTATATTAAATC-CTAAATTACTATTT-AAAATAATAAAAAATTAAAAAATATTTTATACTAAAT
1 TTATATTAAATCTC-AAATTACTATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAAT
* *
1481782 CCTAAATTACTATTTAAAAAAATAA-AAAA-TAAAAAATA
65 CCTGAATTACTATTT-AAAAAATAATAAAATTTAAAAA-A
* * * *
1481820 TTTCATATTAAATCTTAAATTACT-TTTTAACATAATAAAAAAATTAAAACATA-TTTATTATTA
1 -TT-ATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTTAAAA-ATATTTTA-TATTA
1481883 AAT-C-GAATTACTATTT-AAAAATAATAAAAAATTTAAAAAA
62 AATCCTGAATTACTATTTAAAAAATAAT--AAAATTTAAAAAA
*
1481923 TTATATTAAATCCCAAATTACTATTTAAAAATAATAAAAAATTTAGAAAATATTTTAT
1 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTTA-AAAATATTTTAT
1481981 GCATATATTG
Statistics
Matches: 226, Mismatches: 20, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
100 14 0.06
101 69 0.31
102 74 0.33
103 53 0.23
104 16 0.07
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (102 bp):
TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAATC
CTGAATTACTATTTAAAAAATAATAAAATTTAAAAAA
Found at i:1481796 original size:101 final size:102
Alignment explanation
Indices: 1481617--1481980 Score: 449
Period size: 101 Copynumber: 3.6 Consensus size: 102
1481607 AAAAAATATT
* * *
1481617 TTATATTAAAT-CTCAAATTACTATTTAAAAATAATACAAAATTTAACAATATTTTATATTAAAT
1 TTATATTAAATCCT-AAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTATATTAAAT
* *
1481681 CCTGAACTATTATTTAAAAAATAATAAAATTTAAAAAA
65 CCTGAATTACTATTTAAAAAATAATAAAATTTAAAAAA
*
1481719 TTATATTAAATCCTAAATTACTATTT-AAAATAATAAAAAATTAAAAAATATTTTATACTAAATC
1 TTATATTAAATCCTAAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTATATTAAATC
* *
1481783 CTAAATTACTATTTAAAAAAATAA-AAAA-TAAAAAATA
66 CTGAATTACTATTT-AAAAAATAATAAAATTTAAAAA-A
* * * *
1481820 TTTCATATTAAATCTTAAATTACT-TTTTAACATAATAAAAAAATTAAAACATA-TTTATTATTA
1 -TT-ATATTAAATCCTAAATTACTATTTAAAAATAAT-AAAAAATTAAAAAATATTTTA-TATTA
1481883 AAT-C-GAATTACTATTT-AAAAATAATAAAAAATTTAAAAAA
62 AATCCTGAATTACTATTTAAAAAATAAT--AAAATTTAAAAAA
* *
1481923 TTATATTAAATCCCAAATTACTATTTAAAAATAATAAAAAATTTAGAAAATATTTTAT
1 TTATATTAAATCCTAAATTACTATTTAAAAATAATAAAAAA-TTAAAAAATATTTTAT
1481981 GCATATATTG
Statistics
Matches: 227, Mismatches: 20, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
100 14 0.06
101 74 0.33
102 69 0.30
103 42 0.19
104 28 0.12
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (102 bp):
TTATATTAAATCCTAAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTATATTAAATC
CTGAATTACTATTTAAAAAATAATAAAATTTAAAAAA
Found at i:1481958 original size:205 final size:206
Alignment explanation
Indices: 1481606--1481980 Score: 564
Period size: 204 Copynumber: 1.8 Consensus size: 206
1481596 AATTCCTTAT
* * * *
1481606 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAATAATACAAAATTTAACAATATTT
1 TAAAAAATATTTCATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAATTAAAAATATTT
* *
1481671 TATATTAAATCCTGAACTATTATTTAAAAAATAATAAAATTTAAAAAATTATATTAAATCCTAAA
66 TATATTAAATCCTGAACTACTATTTAAAAAATAATAAAATTTAAAAAATTATATTAAATCCCAAA
1481736 TTACTATTTAAAATAATAAAAAA-TTAAAAAATATTTTATACTAAATCCTAAATTACTATTTAAA
131 TTACTATTTAAAATAATAAAAAATTTAAAAAATATTTTATACTAAATCCTAAATTACTATTTAAA
1481800 AAAATAAAAAA
196 AAAATAAAAAA
* * *
1481811 TAAAAAATATTTCATATTAAATCTTAAATTACT-TTTTAACATAATAAAAAAATTAAAACATA-T
1 TAAAAAATATTTCATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAATTAAAA-ATATT
*
1481874 TTATTATTAAAT-C-GAATTACTATTT-AAAAATAATAAAAAATTTAAAAAATTATATTAAATCC
65 TTA-TATTAAATCCTGAACTACTATTTAAAAAATAAT--AAAATTTAAAAAATTATATTAAATCC
*
1481936 CAAATTACTATTTAAAAATAATAAAAAATTTAGAAAATATTTTAT
127 CAAATTACTATTT-AAAATAATAAAAAATTTAAAAAATATTTTAT
1481981 GCATATATTG
Statistics
Matches: 153, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
202 9 0.06
203 10 0.07
204 63 0.41
205 56 0.37
206 15 0.10
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.38
Consensus pattern (206 bp):
TAAAAAATATTTCATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAATTAAAAATATTT
TATATTAAATCCTGAACTACTATTTAAAAAATAATAAAATTTAAAAAATTATATTAAATCCCAAA
TTACTATTTAAAATAATAAAAAATTTAAAAAATATTTTATACTAAATCCTAAATTACTATTTAAA
AAAATAAAAAA
Found at i:1482174 original size:22 final size:22
Alignment explanation
Indices: 1482141--1482204 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
1482131 ATACATATAT
1482141 AGTTA-AAGTCATATGTACATGC
1 AGTTATAA-TCATATGTACATGC
*
1482163 TA-TTATAATCATATGTACATTC
1 -AGTTATAATCATATGTACATGC
* *
1482185 AGTTATAGTCACATGTACAT
1 AGTTATAATCATATGTACAT
1482205 ATTCTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 32 0.89
23 3 0.08
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (22 bp):
AGTTATAATCATATGTACATGC
Found at i:1482366 original size:22 final size:22
Alignment explanation
Indices: 1482341--1482397 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1482331 CACTTTTACT
*
1482341 ATATGTATAT-TTAGTTATAGTC
1 ATATGTAAATATTA-TTATAGTC
*
1482363 ATATTTAAATATTATTATAGTC
1 ATATGTAAATATTATTATAGTC
*
1482385 ATATGTACATATT
1 ATATGTAAATATT
1482398 TTTTTGATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
ATATGTAAATATTATTATAGTC
Found at i:1483614 original size:22 final size:22
Alignment explanation
Indices: 1483588--1483638 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1483578 GTTAAAAAAA
* *
1483588 AGTTATATGTACATGCTGTTAT
1 AGTTATATATACATGCAGTTAT
*
1483610 AGTTATATATACATTCAGTTAT
1 AGTTATATATACATGCAGTTAT
1483632 AGTTATA
1 AGTTATA
1483639 GATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (22 bp):
AGTTATATATACATGCAGTTAT
Found at i:1484681 original size:21 final size:21
Alignment explanation
Indices: 1484652--1484692 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1484642 AAAATAAATA
* *
1484652 TTAATACTAAGTATATATCAC
1 TTAACACTAAGCATATATCAC
*
1484673 TTAACACTATGCATATATCA
1 TTAACACTAAGCATATATCA
1484693 AATCAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TTAACACTAAGCATATATCAC
Found at i:1484973 original size:21 final size:22
Alignment explanation
Indices: 1484946--1485005 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
1484936 TAAAATTAAC
1484946 TAAGAGAACCAACTCCTTTACA
1 TAAGAGAACCAACTCCTTTACA
* *
1484968 -AAGAGAACTAACT--TTTTCA
1 TAAGAGAACCAACTCCTTTACA
1484987 TTAAGAGAACCAAC-CCTTT
1 -TAAGAGAACCAACTCCTTT
1485006 CAAGAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 5 0.16
21 23 0.74
22 3 0.10
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (22 bp):
TAAGAGAACCAACTCCTTTACA
Found at i:1485170 original size:22 final size:22
Alignment explanation
Indices: 1485107--1485185 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
1485097 ATTATATACG
* * *
1485107 TATATAACTATAATTGAGTATA
1 TATATAACTTTAATTGAATGTA
* * *
1485129 GATATGA-TTATAACTGAATGTA
1 TATATAACTT-TAATTGAATGTA
1485151 TATATAACTTTAATTGAATGTA
1 TATATAACTTTAATTGAATGTA
* *
1485173 AATATGACTTTAA
1 TATATAACTTTAA
1485186 CTAAACGACC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
21 1 0.02
22 41 0.93
23 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (22 bp):
TATATAACTTTAATTGAATGTA
Found at i:1485342 original size:30 final size:31
Alignment explanation
Indices: 1485295--1485363 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
1485285 TGATCAAATT
1485295 AAATTAAACCAAATACAAAACCAACACTTTC
1 AAATTAAACCAAATACAAAACCAACACTTTC
* ** *
1485326 AAATTAAAGC-AATACAAATTCAACATTTTC
1 AAATTAAACCAAATACAAAACCAACACTTTC
1485356 AAATTAAA
1 AAATTAAA
1485364 TTTAACTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.55, C:0.19, G:0.01, T:0.25
Consensus pattern (31 bp):
AAATTAAACCAAATACAAAACCAACACTTTC
Found at i:1489079 original size:88 final size:88
Alignment explanation
Indices: 1488955--1489150 Score: 227
Period size: 88 Copynumber: 2.2 Consensus size: 88
1488945 AGAATCCATC
* * * *
1488955 TTTTTAAAATAATTTCAGAAGCACATGCAACCGACTCCCTAACTCAACTCA-TATTCTT-TGGTT
1 TTTTTAAAATAATTTCAAAAGCACACGCAACCGACTCCCAAACCCAACTCACT-TT-TTATGGTT
* * *
1489018 TTTAATGTAGACTTTAGAATT-TGTA
64 TTCAATGCAAACTTTAGAATTCT-TA
* * **
1489043 TTTTTAAAATAATTTCAAAATCACACGTAATTGACTCCCAAACCCAACTCACTTTTTATGGTTTT
1 TTTTTAAAATAATTTCAAAAGCACACGCAACCGACTCCCAAACCCAACTCACTTTTTATGGTTTT
*
1489108 CAATGCAAACTTTAGAATTCTTC
66 CAATGCAAACTTTAGAATTCTTA
*
1489131 TTTTCAAAATAATTTCAAAA
1 TTTTTAAAATAATTTCAAAA
1489151 ATTTCAAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.02
88 88 0.96
89 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (88 bp):
TTTTTAAAATAATTTCAAAAGCACACGCAACCGACTCCCAAACCCAACTCACTTTTTATGGTTTT
CAATGCAAACTTTAGAATTCTTA
Found at i:1490960 original size:156 final size:156
Alignment explanation
Indices: 1490692--1491503 Score: 877
Period size: 155 Copynumber: 5.2 Consensus size: 156
1490682 TAATTTCAAG
* * * * * * *
1490692 AGAAAATTGTGAAAATACCCTTAAGGGATACCTTTGACATAAAAGTACTCG-TACCCTTAAAAGG
1 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCT-AAAGG
* ** * * * * **
1490756 GC-TCGAAGAAG-GTTTAA-AAGGGATGAACCTATCCTAAATATTTACCTTCGGCATAAAAGCGG
65 ACTTAAAAAAAGATTTTAACTA-GGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGCGG
* *
1490818 ACCCGGTGATGACGTAGGAGTTGGTTTT
129 ACCCGGTGATGACCTAGGAGTTGGTTCT
* * *
1490846 GGAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGA
1 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * *
1490911 ATTAAAAAAGGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCAGCATAAAAGTGAAC
66 CTTAAAAAAAGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGCGGAC
* * *
1490976 CCAGTGACGACCTAGGAGTTAGTTCT
131 CCGGTGATGACCTAGGAGTTGGTTCT
* ** ** * * * *
1491002 A-AAAAATACAAAAATATCCCTAAAGGATACCTTTGATGTAAAAGTACCCGATACCCATAAAGGA
1 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * *
1491066 CTTAAAAAAAG-TTTTAACTAGGATGAACCTATCCTGAATATCCACCTTTGACATAAAAGCAGAC
66 CTTAAAAAAAGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGCGGAC
* ** *
1491130 TCGGTGATGACCTAGGAGTTAATTTT
131 CCGGTGATGACCTAGGAGTTGGTTCT
* * * * * * *** * *
1491156 AGAAAATTACGAAAATACCTCTACGAGATACCTTTGACGTAAAAGTATTTGATACTCCTAAAAGA
1 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* *
1491221 CTTAAAAAAAGATTTTAACTAGGATGAACTTACCCTAAATATCCCCCTTCGGCATAAAAGCGGA-
66 CTTAAAAAAAGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGCGGAC
*
1491285 CCAGTGATGACCTAGGAGTTGGTTCT
131 CCGGTGATGACCTAGGAGTTGGTTCT
* * **
1491311 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCTGATATCTTTAAAGGA
1 AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * *
1491376 CTTAAAAAAGGATTTTAACTAGGATGAACTTACCCTAAATATCCACCTTCGGCATAAAA-CTGAA
66 CTTAAAAAAAGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGC-GGA
**
1491440 CTTGGTGATGACCTAGGAGTTGGTTCT
130 CCCGGTGATGACCTAGGAGTTGGTTCT
* *
1491467 AAAAAATTATGAAAATG-CCCTTAGGAGATACCTTCGA
1 AGAAAATTATGAAAATGCCCCTAAGG-GATACCTTCGA
1491504 TATAAAAATA
Statistics
Matches: 546, Mismatches: 103, Indels: 16
0.82 0.15 0.02
Matches are distributed among these distances:
154 115 0.21
155 271 0.50
156 159 0.29
157 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (156 bp):
AGAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
CTTAAAAAAAGATTTTAACTAGGATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGCGGAC
CCGGTGATGACCTAGGAGTTGGTTCT
Found at i:1492030 original size:28 final size:28
Alignment explanation
Indices: 1491992--1492049 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1491982 TTGTGGAGAA
1491992 ATATCTACAAACACATCAAAACTATCAT
1 ATATCTACAAACACATCAAAACTATCAT
1492020 ATATCTACAAACACATCAAAACTATCAT
1 ATATCTACAAACACATCAAAACTATCAT
1492048 AT
1 AT
1492050 GAAAAATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (28 bp):
ATATCTACAAACACATCAAAACTATCAT
Found at i:1492220 original size:103 final size:103
Alignment explanation
Indices: 1492041--1492254 Score: 401
Period size: 103 Copynumber: 2.1 Consensus size: 103
1492031 CACATCAAAA
* *
1492041 CTATCATATGAAAAATTAGGTCCAACACAAAGCACCTAAAATTACAAAATTACCATGTTTTGCAT
1 CTATCATATGAAAAAGTAGGTCCAACACAAAGCACCTAAAATTACAAAATTACCATGTTTTGCAA
1492106 ATTAGTCCACAAACTTTTATATGCTTGCATTTTAGTCC
66 ATTAGTCCACAAACTTTTATATGCTTGCATTTTAGTCC
1492144 CTATCATATGAAAAAGTAGGTCCAACACAAAGCACCTAAAATTACAAAATTACCATGTTTTGCAA
1 CTATCATATGAAAAAGTAGGTCCAACACAAAGCACCTAAAATTACAAAATTACCATGTTTTGCAA
1492209 ATTAGTCCACAAACTTTTATATGCTTGCATTTTAGTCC
66 ATTAGTCCACAAACTTTTATATGCTTGCATTTTAGTCC
1492247 CTAATCAT
1 CT-ATCAT
1492255 GGAAATAGCA
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 103 0.95
104 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (103 bp):
CTATCATATGAAAAAGTAGGTCCAACACAAAGCACCTAAAATTACAAAATTACCATGTTTTGCAA
ATTAGTCCACAAACTTTTATATGCTTGCATTTTAGTCC
Found at i:1495188 original size:85 final size:84
Alignment explanation
Indices: 1495078--1495973 Score: 710
Period size: 85 Copynumber: 10.6 Consensus size: 84
1495068 TCCGAGGGGA
* * * *
1495078 TAAGGGGTTTA-TCGAGGACTAAGCCGATAGGTAAACAATGAGGTGAAGGTTGACCGGAGACTGA
1 TAAGGGGTTTACTAG-GGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGA
* * *
1495142 GCTAAGAGGTTATCAAAAGGG
65 GCTGACAGGTCA-CAAAAGGG
* * * *
1495163 TAAGGGGTTTACTAGGGATTGAGCCG-CAAGGTAAACAATGAGGTGAAGGTTGACCAGAAACTGA
1 TAAGGGGTTTACTAGGGACTGAGCCGAC-AGGTAAACAATGAGATGAAGGTTGACCGGAGACTGA
*
1495227 GCTGACAGGTCACCAAAAAGG
65 GCTGACAGGTCA-CAAAAGGG
* ** * * * **
1495248 TAAAGGGTTTACCGGGGACTAAGCCGACAAGTAAACAATGAGATAAAGGTTGACTAGAGACTGAG
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
* *
1495313 CTGACAGGTCACCATAGGTG
66 CTGACAGGTCACAAAAGG-G
* * * * * * * *
1495333 TAAAGGGTTTACTAGGGACTGAGCTGATAGGTAAATAAAGAAATGAAGGTTGACCAGAGATTGAG
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
* * *
1495398 TTGACAGGTCACCATAGGGG
66 CTGACAGGTCA-CAAAAGGG
* * * * * * * *
1495418 TAAGGAGTTTACTAGGGACTGACCCGACATGTAAATAAAGAGATGAAGGTTGACTGGGGACTAAG
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
* * * *
1495483 CCGATAGGTCACCAAGGGG
66 CTGACAGGTCACAAAAGGG
* * * * * *
1495502 ATAAGGGGTTCAC-CGAAGACTGAGCCGACAGGTAAACAATGAGGTAAAGGTTGACCGGAGACTT
1 -TAAGGGGTTTACTAG-GGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTG
*
1495566 AGCTGATAGGTCACCAAAAGGG
64 AGCTGACAGGTCA-CAAAAGGG
* * * * **
1495588 TAAGGGGTTTA-TCGAGGACTGAGCTGACAAGCAAACAATGAGATGAAGGTTGACCAAAGACTGA
1 TAAGGGGTTTACTAG-GGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGA
* * *
1495652 GCTGACAGATCACCATAGGTG
65 GCTGACAGGTCACAAAAGG-G
* * * ** *
1495673 TAAGGGGTTTACCAGGGACTGAGCCGATAGGTAAACAATGAGATAAAGGTTGATTGGAGATTGAG
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
* * *
1495738 CTGGCAGGTCACCATAGGTG
66 CTGACAGGTCACAAAAGG-G
* * * * ** *
1495758 TAAGGGGTTTACTAGGGACTGAGCTGATAGGTAAACAAGGAAATGAAGGTTGATTGGAGACTAAG
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
*
1495823 CTGACAGGTCACCATAAGGG
66 CTGACAGGTCA-CAAAAGGG
* ** * * * * *
1495843 TAAGAGGTTTACCGGGGACT-AACCTGATAGGTAAAGAAGGAGATAAAGGTTGACCAAGGA-A-T
1 TAAGGGGTTTACTAGGGACTGAGCC-GACAGGTAAACAATGAGATGAAGGTTGACC--GGAGACT
* * * * * *
1495905 AAGTTAACAAGTCAC-ATAGATG
63 GAGCTGACAGGTCACAAAAG-GG
* * * * *
1495927 TAAGGGGTTTATTAAGGATTGAGCCGATAGGTAAACAAGGAGATGAA
1 TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAA
1495974 AAGCGATACT
Statistics
Matches: 656, Mismatches: 138, Indels: 35
0.79 0.17 0.04
Matches are distributed among these distances:
83 2 0.00
84 54 0.08
85 579 0.88
86 18 0.03
87 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (84 bp):
TAAGGGGTTTACTAGGGACTGAGCCGACAGGTAAACAATGAGATGAAGGTTGACCGGAGACTGAG
CTGACAGGTCACAAAAGGG
Found at i:1495367 original size:170 final size:169
Alignment explanation
Indices: 1495082--1495898 Score: 782
Period size: 170 Copynumber: 4.8 Consensus size: 169
1495072 AGGGGATAAG
* * * * * * * *
1495082 GGGTTTATCGAGGACTAAGCCGATAGGTAAACAATGAGGTGAAGGTTGACCGGAGACTGAGCTAA
1 GGGTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTGA
* * * * * * * *
1495147 GAGGTTATCAAAAGGGTAAGGGGTTTACTAGGGATTGAGCCGCA-AGGTAAACAATGAGGTGAAG
66 CAGGTCA-CCATAGGGTAAGGGGTTTACCAGGGACTGAGCCG-ATAGGTAAACAATGAGATAAAG
* *
1495211 GTTGACCAGAAACTGAGCTGACAGGTCACCAAAAAGGTAAA
129 GTTGACCAGAGACTGAGCTGACAGGTCACCAAAAGGGTAAA
* * *
1495252 GGGTTTACCGGGGACTAAGCCGACAAGTAAACAATGAGATAAAGGTTGACTAGAGACTGAGCTGA
1 GGGTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTGA
* * * * * * *
1495317 CAGGTCACCATAGGTGTAAAGGGTTTACTAGGGACTGAGCTGATAGGTAAATAAAGAAATGAAGG
66 CAGGTCACCATAGG-GTAAGGGGTTTACCAGGGACTGAGCCGATAGGTAAACAATGAGATAAAGG
* * * *
1495382 TTGACCAGAGATTGAGTTGACAGGTCACCATAGGGGT-AA
130 TTGACCAGAGACTGAGCTGACAGGTCACCAAAAGGGTAAA
** * * * * * * *
1495421 GGAGTTTACTAGGGACTGACCCGACATGTAAATAAAGAGATGAAGGTTGACTGGGGACTAAGCCG
1 GG-GTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTG
* * * * *
1495486 ATAGGTCACCA-AGGGGATAAGGGGTTCACC-GAAGACTGAGCCGACAGGTAAACAATGAGGTAA
65 ACAGGTCACCATA-GGG-TAAGGGGTTTACCAG-GGACTGAGCCGATAGGTAAACAATGAGATAA
* * * *
1495549 AGGTTGACCGGAGACTTAGCTGATAGGTCACCAAAAGGGTAAG
127 AGGTTGACCAGAGACTGAGCTGACAGGTCACCAAAAGGGTAAA
* * * * ***
1495592 GGGTTTATCGAGGACTGAGCTGACAAGCAAACAATGAGATGAAGGTTGACCAAAGACTGAGCTGA
1 GGGTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTGA
*
1495657 CAGATCACCATAGGTGTAAGGGGTTTACCAGGGACTGAGCCGATAGGTAAACAATGAGATAAAGG
66 CAGGTCACCATAGG-GTAAGGGGTTTACCAGGGACTGAGCCGATAGGTAAACAATGAGATAAAGG
*** * * * *
1495722 TTGATTGGAGATTGAGCTGGCAGGTCACC-ATAGGTGTAAG
130 TTGACCAGAGACTGAGCTGACAGGTCACCAAAAGG-GTAAA
** * * * * * * *
1495762 GGGTTTACTAGGGACTGAGCTGATAGGTAAACAAGGAAATGAAGGTTGATTGGAGACTAAGCTGA
1 GGGTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTGA
* * * * *
1495827 CAGGTCACCATAAGGGTAAGAGGTTTACCGGGGACT-AACCTGATAGGTAAAGAAGGAGATAAAG
66 CAGGTCACCAT-AGGGTAAGGGGTTTACCAGGGACTGAGCC-GATAGGTAAACAATGAGATAAAG
1495891 GTTGACCA
129 GTTGACCA
1495899 AGGAATAAGT
Statistics
Matches: 524, Mismatches: 110, Indels: 26
0.79 0.17 0.04
Matches are distributed among these distances:
169 20 0.04
170 495 0.94
171 9 0.02
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (169 bp):
GGGTTTACCGGGGACTGAGCCGACAAGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTGA
CAGGTCACCATAGGGTAAGGGGTTTACCAGGGACTGAGCCGATAGGTAAACAATGAGATAAAGGT
TGACCAGAGACTGAGCTGACAGGTCACCAAAAGGGTAAA
Done.