Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
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: 2211860
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1258459 original size:27 final size:27
Alignment explanation
Indices: 1258415--1258466 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1258405 ATTTTATCTA
* **
1258415 AAAAAATATTGTTGAGTCGGATAGACT
1 AAAAAATATAGTCCAGTCGGATAGACT
*
1258442 AAAAAATATAGTCCAGTCGTATAGA
1 AAAAAATATAGTCCAGTCGGATAGA
1258467 GTCAAAGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (27 bp):
AAAAAATATAGTCCAGTCGGATAGACT
Found at i:1275425 original size:14 final size:14
Alignment explanation
Indices: 1275406--1275452 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1275396 AAATGGCTTC
1275406 ATGCACACTGGCTA
1 ATGCACACTGGCTA
1275420 ATGCACAC---CTA
1 ATGCACACTGGCTA
1275431 ATAG-ACACTGGCTA
1 AT-GCACACTGGCTA
1275445 ATGCACAC
1 ATGCACAC
1275453 CTAATAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 1 0.04
14 17 0.61
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (14 bp):
ATGCACACTGGCTA
Found at i:1275438 original size:25 final size:25
Alignment explanation
Indices: 1275410--1275463 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
1275400 GGCTTCATGC
1275410 ACACTGGCTAATGCACACCTAATAG
1 ACACTGGCTAATGCACACCTAATAG
1275435 ACACTGGCTAATGCACACCTAATAG
1 ACACTGGCTAATGCACACCTAATAG
1275460 ACAC
1 ACAC
1275464 GTACGTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (25 bp):
ACACTGGCTAATGCACACCTAATAG
Found at i:1280681 original size:12 final size:12
Alignment explanation
Indices: 1280666--1280697 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
1280656 ATATATTTTT
1280666 ATAAATATTTAA
1 ATAAATATTTAA
1280678 ATAAAATATTTAA
1 AT-AAATATTTAA
1280691 ATAAATA
1 ATAAATA
1280698 AATGATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATATTTAA
Found at i:1280686 original size:13 final size:13
Alignment explanation
Indices: 1280668--1280695 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1280658 ATATTTTTAT
1280668 AAATATTTAAATA
1 AAATATTTAAATA
1280681 AAATATTTAAATA
1 AAATATTTAAATA
1280694 AA
1 AA
1280696 TAAATGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTTAAATA
Found at i:1282827 original size:27 final size:26
Alignment explanation
Indices: 1282740--1282828 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 26
1282730 TTCATTTTTA
1282740 AAATTATAAATGTATTTTTTAAAAATTAT
1 AAATTAT-AAT-TATTTTTTAAAAA-TAT
* * **
1282769 AACTTTATAATTAATCTTTTAATTCATA-
1 AA-ATTATAATT-ATTTTTTAA-AAATAT
1282797 AAATTATAATTATTTTTTTAAAAATAT
1 AAATTATAATTA-TTTTTTAAAAATAT
1282824 AAATT
1 AAATT
1282829 TATTAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
26 4 0.09
27 20 0.43
28 3 0.06
29 15 0.32
30 5 0.11
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
AAATTATAATTATTTTTTAAAAATAT
Found at i:1283970 original size:22 final size:23
Alignment explanation
Indices: 1283933--1283979 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1283923 AAAATATATT
1283933 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
1283956 TATTATTATTT-TAATATTATAA
1 TATTAATATTTCTAATAATATAA
1283978 TA
1 TA
1283980 AAATACTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:1284097 original size:27 final size:26
Alignment explanation
Indices: 1284067--1284132 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
1284057 ATTTCATAGA
1284067 AATAATATTATTAAATTATTAATAATC
1 AATAATATTATTAAATTATTAAT-ATC
* * * *
1284094 AATAATATTATTTATTTTTTAATATT
1 AATAATATTATTAAATTATTAATATC
1284120 AATAATATT-TTAA
1 AATAATATTATTAA
1284133 TAAAATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.09
26 11 0.32
27 20 0.59
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AATAATATTATTAAATTATTAATATC
Found at i:1284118 original size:17 final size:17
Alignment explanation
Indices: 1284096--1284134 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1284086 TAATAATCAA
* * *
1284096 TAATATTATTTATTTTT
1 TAATATTAATAATATTT
1284113 TAATATTAATAATATTT
1 TAATATTAATAATATTT
1284130 TAATA
1 TAATA
1284135 AAATATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATATTAATAATATTT
Found at i:1284148 original size:22 final size:24
Alignment explanation
Indices: 1284113--1284174 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
1284103 ATTTATTTTT
*
1284113 TAATA-TTAATAATATTTTAA-TAA
1 TAATATTTAA-AATATATTAATTAA
1284136 -AATATTTAAAATATATTAATTAA
1 TAATATTTAAAATATATTAATTAA
* *
1284159 TACTTTTTAAAATATA
1 TAATATTTAAAATATA
1284175 ATATAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 13 0.39
23 7 0.21
24 13 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATATTTAAAATATATTAATTAA
Found at i:1284325 original size:22 final size:25
Alignment explanation
Indices: 1284300--1284351 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1284290 ATAAATAAAT
1284300 TATT-CTAA-TATT-TTAAAAATAA
1 TATTACTAAGTATTATTAAAAATAA
* *
1284322 TATTATTAAGTTTTATTAAAAATAA
1 TATTACTAAGTATTATTAAAAATAA
1284347 TATTA
1 TATTA
1284352 TTTATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 3 0.12
24 3 0.12
25 15 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTACTAAGTATTATTAAAAATAA
Found at i:1284365 original size:25 final size:26
Alignment explanation
Indices: 1284311--1284365 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
1284301 ATTCTAATAT
*
1284311 TTTAAAAATAATATTATTAAGTTTTA
1 TTTAAAAATAATATTATTAAGTTGTA
*
1284337 -TTAAAAATAATATTATTTA-TTGTA
1 TTTAAAAATAATATTATTAAGTTGTA
1284361 TTTAA
1 TTTAA
1284366 TATTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAAAAATAATATTATTAAGTTGTA
Found at i:1293805 original size:31 final size:31
Alignment explanation
Indices: 1293734--1293793 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1293724 TGGAGTGATC
*
1293734 ATTTTGTTACAAATAGATAATGTTAGTGACA
1 ATTTTGTTACAAATAGATAACGTTAGTGACA
* *
1293765 ATTTTGTTACAATTTGATAACGTTAGTGA
1 ATTTTGTTACAAATAGATAACGTTAGTGA
1293794 GTAATTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
ATTTTGTTACAAATAGATAACGTTAGTGACA
Found at i:1298111 original size:18 final size:18
Alignment explanation
Indices: 1298088--1298123 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1298078 CTTTGTCATA
1298088 TTTAGTTGCAAAAGTTTT
1 TTTAGTTGCAAAAGTTTT
1298106 TTTAGTTGCAAAAGTTTT
1 TTTAGTTGCAAAAGTTTT
1298124 GTCATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
TTTAGTTGCAAAAGTTTT
Found at i:1299097 original size:15 final size:16
Alignment explanation
Indices: 1299077--1299106 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1299067 TGTTCAACCA
1299077 TTATATAAAT-TTTTT
1 TTATATAAATATTTTT
1299092 TTATATAAATATTTT
1 TTATATAAATATTTT
1299107 GAGGTCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATAAATATTTTT
Found at i:1300302 original size:47 final size:47
Alignment explanation
Indices: 1300233--1300335 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
1300223 CGACCAATCA
*
1300233 AGTACCCGAAAATCTGGGTACCCAAAACTTCGAGTAACAACAAACCC
1 AGTACCCGAAAATCTGGGTACCCAAAACTTCGAGTAACAAAAAACCC
*
1300280 AGTACCCGAAAATCTGGGTACCCAAAACTTCGAGTAGCAAAAAACCC
1 AGTACCCGAAAATCTGGGTACCCAAAACTTCGAGTAACAAAAAACCC
1300327 AGGTACCCG
1 A-GTACCCG
1300336 GATTTGAACC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 46 0.87
48 7 0.13
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.15
Consensus pattern (47 bp):
AGTACCCGAAAATCTGGGTACCCAAAACTTCGAGTAACAAAAAACCC
Found at i:1300902 original size:67 final size:67
Alignment explanation
Indices: 1300794--1300922 Score: 249
Period size: 67 Copynumber: 1.9 Consensus size: 67
1300784 TTGATTCATT
1300794 TTAGTACCTAAACTTTTAATTTTTAAAAATCATACCTAAAGTTCAATTTTTGTTTCATATTAACA
1 TTAGTACCTAAACTTTTAATTTTTAAAAATCATACCTAAAGTTCAATTTTTGTTTCATATTAACA
1300859 CC
66 CC
*
1300861 TTAGTACCTAAACTTTTAATTTTTAAAAATCATACCTAAAGTTTAATTTTTGTTTCATATTA
1 TTAGTACCTAAACTTTTAATTTTTAAAAATCATACCTAAAGTTCAATTTTTGTTTCATATTA
1300923 GCACTACACC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.46
Consensus pattern (67 bp):
TTAGTACCTAAACTTTTAATTTTTAAAAATCATACCTAAAGTTCAATTTTTGTTTCATATTAACA
CC
Found at i:1304247 original size:12 final size:12
Alignment explanation
Indices: 1304232--1304269 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
1304222 GTTATTTAAA
1304232 CGGGTATTGGGC
1 CGGGTATTGGGC
*
1304244 CGGGTATTGGGT
1 CGGGTATTGGGC
1304256 CGGGTATTGGGC
1 CGGGTATTGGGC
1304268 CG
1 CG
1304270 AGAATCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.16, G:0.50, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:1304259 original size:24 final size:24
Alignment explanation
Indices: 1304232--1304286 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
1304222 GTTATTTAAA
* * *
1304232 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
1304256 CGGGTATTGGGCCGAGAATCGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
1304280 CGGGTAT
1 CGGGTAT
1304287 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGT
Found at i:1317013 original size:16 final size:17
Alignment explanation
Indices: 1316992--1317025 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1316982 ATTTATTATT
*
1316992 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
1317008 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
1317025 A
1 A
1317026 AAACAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:1325601 original size:16 final size:16
Alignment explanation
Indices: 1325577--1325610 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1325567 TATCGCCGAC
*
1325577 CGAATTTTACTATTCA
1 CGAAATTTACTATTCA
1325593 CGAAATTTACTATTCA
1 CGAAATTTACTATTCA
1325609 CG
1 CG
1325611 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (16 bp):
CGAAATTTACTATTCA
Found at i:1327463 original size:14 final size:14
Alignment explanation
Indices: 1327441--1327497 Score: 96
Period size: 14 Copynumber: 4.1 Consensus size: 14
1327431 TCGATTATAT
*
1327441 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
1327455 GTTCATTTATGTTC
1 GTTCATTTATGTTC
1327469 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
1327483 ATTCATTTATGTTC
1 GTTCATTTATGTTC
1327497 G
1 G
1327498 AACAGAGGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:1327891 original size:16 final size:16
Alignment explanation
Indices: 1327870--1327902 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1327860 AAAAAAAAAT
1327870 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
1327886 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
1327902 T
1 T
1327903 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATATTCG
Found at i:1330868 original size:2 final size:2
Alignment explanation
Indices: 1330861--1330906 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1330851 AGTAGCGATA
1330861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1330903 AT AT
1 AT AT
1330907 TATGTAGTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1332272 original size:2 final size:2
Alignment explanation
Indices: 1332265--1332309 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1332255 TAAATTCATA
1332265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1332307 AT A
1 AT A
1332310 ACCACCAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1332578 original size:26 final size:27
Alignment explanation
Indices: 1332495--1332590 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 27
1332485 ATATATATTA
* *
1332495 AATTTAAGAAATA-TTTGTTATATAACTT
1 AATTTAA-ATATATTTTATTAT-TAACTT
1332523 -A-TTAAATATATTTTATTATTAACTT
1 AATTTAAATATATTTTATTATTAACTT
* *
1332548 GATTTAAAT-TATTTTATT-TTAAATTT
1 AATTTAAATATATTTTATTATT-AACTT
1332574 AATTTAAAATATATTTT
1 AATTT-AAATATATTTT
1332591 TATATTTGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 12 0.21
26 29 0.50
27 11 0.19
28 6 0.10
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (27 bp):
AATTTAAATATATTTTATTATTAACTT
Found at i:1332726 original size:30 final size:29
Alignment explanation
Indices: 1332517--1332739 Score: 107
Period size: 30 Copynumber: 7.7 Consensus size: 29
1332507 ATTTGTTATA
* *
1332517 TAACTTATTAAATATATTTTATTATTAACT
1 TAACTT-TTAAATATATTTTATTCTTATCT
*
1332547 TGA--TTTAAAT-TATTTTATT-TTAAAT-T
1 TAACTTTTAAATATATTTTATTCTT--ATCT
* * *
1332573 TAA-TTTAAAATATATTTTTATATTTGTAT-A
1 TAACTTTTAAATATA-TTTTAT-TCT-TATCT
* * *
1332603 TAACTTTTGAAAATATATTGTATTATTATTT
1 TAACTTTT--AAATATATTTTATTCTTATCT
1332634 TAACTTTTCAAA-A-ATTATATATT-TTATCT
1 TAACTTTT-AAATATATT-T-TATTCTTATCT
*
1332663 TAA-TTTACTAAATATATTATA-TCTT-TACTT
1 TAACTTT--TAAATATATTTTATTCTTAT-C-T
1332693 TAACTTGTTAAATATATTTTATTCTTATCT
1 TAACTT-TTAAATATATTTTATTCTTATCT
1332723 TAAC-TTTAAA-ATATTTT
1 TAACTTTTAAATATATTTT
1332740 CACATAAAAT
Statistics
Matches: 154, Mismatches: 14, Indels: 53
0.70 0.06 0.24
Matches are distributed among these distances:
25 2 0.01
26 12 0.08
27 20 0.13
28 16 0.10
29 24 0.16
30 41 0.27
31 24 0.16
32 8 0.05
33 7 0.05
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (29 bp):
TAACTTTTAAATATATTTTATTCTTATCT
Found at i:1343826 original size:157 final size:157
Alignment explanation
Indices: 1343540--1343834 Score: 590
Period size: 157 Copynumber: 1.9 Consensus size: 157
1343530 AAACATACAT
1343540 TAGACTAATTTAAAGAACAAAATTGCTTGCTAGACACCATAAAAATATTTATGAAAATATTATAT
1 TAGACTAATTTAAAGAACAAAATTGCTTGCTAGACACCATAAAAATATTTATGAAAATATTATAT
1343605 ATCTCAATCACCCTGTAACGAATTTATAAATATTTTTTATGGTAGGTACACGTATATTAACGGCA
66 ATCTCAATCACCCTGTAACGAATTTATAAATATTTTTTATGGTAGGTACACGTATATTAACGGCA
1343670 TAAAATTTACTCTGCATGCTTTTATGG
131 TAAAATTTACTCTGCATGCTTTTATGG
1343697 TAGACTAATTTAAAGAACAAAATTGCTTGCTAGACACCATAAAAATATTTATGAAAATATTATAT
1 TAGACTAATTTAAAGAACAAAATTGCTTGCTAGACACCATAAAAATATTTATGAAAATATTATAT
1343762 ATCTCAATCACCCTGTAACGAATTTATAAATATTTTTTATGGTAGGTACACGTATATTAACGGCA
66 ATCTCAATCACCCTGTAACGAATTTATAAATATTTTTTATGGTAGGTACACGTATATTAACGGCA
1343827 TAAAATTT
131 TAAAATTT
1343835 TTAAATAGGG
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (157 bp):
TAGACTAATTTAAAGAACAAAATTGCTTGCTAGACACCATAAAAATATTTATGAAAATATTATAT
ATCTCAATCACCCTGTAACGAATTTATAAATATTTTTTATGGTAGGTACACGTATATTAACGGCA
TAAAATTTACTCTGCATGCTTTTATGG
Found at i:1355046 original size:131 final size:131
Alignment explanation
Indices: 1354812--1355071 Score: 502
Period size: 131 Copynumber: 2.0 Consensus size: 131
1354802 AACTTACCTC
* *
1354812 CCCCTTACCCCTTTACATATGAGAATAAGGGACATTCATTTTTTTTATTACATGAACCAAACGAT
1 CCCCTTACCCCTTTACATATGAGAATAAGGGACAGTCATTTTTTTCATTACATGAACCAAACGAT
1354877 CTCAGTGGTAAAGTAATTGTTGTTATTTCTTGAAGTATTAGATTTGAGTATAAGAAATAAATGTT
66 CTCAGTGGTAAAGTAATTGTTGTTATTTCTTGAAGTATTAGATTTGAGTATAAGAAATAAATGTT
1354942 T
131 T
1354943 CCCCTTACCCCTTTACATATGAGAATAAGGGACAGTCATTTTTTTCATTACATGAACCAAACGAT
1 CCCCTTACCCCTTTACATATGAGAATAAGGGACAGTCATTTTTTTCATTACATGAACCAAACGAT
1355008 CTCAGTGGTAAAGTAATTGTTGTTATTTCTTGAAGTATTAGATTTGAGTATAAGAAATAAATGT
66 CTCAGTGGTAAAGTAATTGTTGTTATTTCTTGAAGTATTAGATTTGAGTATAAGAAATAAATGT
1355072 GTGAGTGTTC
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (131 bp):
CCCCTTACCCCTTTACATATGAGAATAAGGGACAGTCATTTTTTTCATTACATGAACCAAACGAT
CTCAGTGGTAAAGTAATTGTTGTTATTTCTTGAAGTATTAGATTTGAGTATAAGAAATAAATGTT
T
Found at i:1358893 original size:18 final size:18
Alignment explanation
Indices: 1358872--1358906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1358862 TTCCTAATAT
1358872 AATAAATTTTAATAAAAA
1 AATAAATTTTAATAAAAA
* *
1358890 AATATATTTTATTAAAA
1 AATAAATTTTAATAAAA
1358907 CTCATCACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTTTAATAAAAA
Found at i:1358963 original size:50 final size:52
Alignment explanation
Indices: 1358870--1358982 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 52
1358860 TTTTCCTAAT
* * * * *
1358870 ATAATAAATTTTAATAAAAAAATATATTTTATTAAAACTCATCACTTCGA-G
1 ATAATAAATTTAAATAAAAAAATATATTTAAATAAAACCCATCACGTCGATG
*
1358921 ATAATAAATTTAAAT-AAAAAATATTATTTAAAT-AGACCCATCACGTCGATG
1 ATAATAAATTTAAATAAAAAAATA-TATTTAAATAAAACCCATCACGTCGATG
*
1358972 A-GATAAATTTA
1 ATAATAAATTTA
1358983 TCATGTACTG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 30 0.57
51 23 0.43
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (52 bp):
ATAATAAATTTAAATAAAAAAATATATTTAAATAAAACCCATCACGTCGATG
Found at i:1361531 original size:2 final size:2
Alignment explanation
Indices: 1361524--1361554 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1361514 AAAAGACATA
*
1361524 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1361555 AACCAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1362845 original size:37 final size:37
Alignment explanation
Indices: 1362765--1362845 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
1362755 AACAAGTTAA
*
1362765 AAAATATTTATATATTTTTTTAAAAAAAATTAAATTCAT
1 AAAA-ATTTATATATTTTTTT-AAAAAAATTAAAATCAT
*
1362804 -AAAATTTATATAATTTTTTT-ACAAAATTGAAAAT-AT
1 AAAAATTTATAT-ATTTTTTTAAAAAAATT-AAAATCAT
1362840 AAAAAT
1 AAAAAT
1362846 GTTTAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 9 0.24
37 17 0.46
38 11 0.30
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (37 bp):
AAAAATTTATATATTTTTTTAAAAAAATTAAAATCAT
Found at i:1364168 original size:27 final size:29
Alignment explanation
Indices: 1364138--1364202 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 29
1364128 ATCAATTATA
*
1364138 AGAAAATGTTGTAGCAAAGA-T-TAAA-TG
1 AGAAAATGTTGTAACAAA-ACTGTAAATTG
*
1364165 AG-AAATGATGTAACAAAACTGTAAATTG
1 AGAAAATGTTGTAACAAAACTGTAAATTG
1364193 AGAAAA-GTTG
1 AGAAAATGTTG
1364203 CACAAATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 14 0.45
27 6 0.19
28 7 0.23
29 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.25
Consensus pattern (29 bp):
AGAAAATGTTGTAACAAAACTGTAAATTG
Found at i:1366588 original size:6 final size:7
Alignment explanation
Indices: 1366572--1366600 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1366562 TAATTTTTTC
1366572 AAAAGGA
1 AAAAGGA
1366579 AAAAGGA
1 AAAAGGA
1366586 AAAAGG-
1 AAAAGGA
1366592 AAAAGGA
1 AAAAGGA
1366599 AA
1 AA
1366601 CCCTTCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:1366595 original size:13 final size:14
Alignment explanation
Indices: 1366572--1366600 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1366562 TAATTTTTTC
1366572 AAAAGGAAAAAGGA
1 AAAAGGAAAAAGGA
1366586 AAAAGG-AAAAGGA
1 AAAAGGAAAAAGGA
1366599 AA
1 AA
1366601 CCCTTCCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAAAGGA
Found at i:1368305 original size:21 final size:21
Alignment explanation
Indices: 1368276--1368329 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1368266 ATTTACATAT
*
1368276 TCGCATTGCGATAGTCCAAGC
1 TCGCGTTGCGATAGTCCAAGC
* *
1368297 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGC
1368318 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1368330 TTATTCCAAA
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:0.19, C:0.24, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGC
Found at i:1368367 original size:42 final size:41
Alignment explanation
Indices: 1368347--1368546 Score: 292
Period size: 42 Copynumber: 4.8 Consensus size: 41
1368337 AAATTCATTA
1368347 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTG
1 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTG
* * *
1368389 TGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
1 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTG
* *
1368431 CGATTTATTTCAAATTCGTTGCGATAGTCTAAGTTCGCGTTG
1 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTG
* *
1368473 CGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTG
1 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTG
*
1368515 CGATTTATTCCAAATTCGTTGCAATAGTCCAA
1 CGATTTATTCCAAATTCGTTGCGATAGTCCAA
1368547 AATCACAACG
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 146 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (41 bp):
CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCCGTTG
Found at i:1368371 original size:21 final size:21
Alignment explanation
Indices: 1368321--1368536 Score: 160
Period size: 21 Copynumber: 10.3 Consensus size: 21
1368311 TCGAAGTTCG
1368321 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
1368342 CATTACGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
1368363 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* *
1368382 CGCGTTGTGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * *
1368405 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
*
1368424 CGCGTTGCGATTTATTTCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
1368447 CGTTGCGA--TAGTCTAAGTT
1 CGTTGCGATTTATTCCAAATT
1368466 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
1368489 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
1368508 CGCATTGCGATTTATTCCAAATT
1 CG--TTGCGATTTATTCCAAATT
1368531 CGTTGC
1 CGTTGC
1368537 AATAGTCCAA
Statistics
Matches: 151, Mismatches: 28, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
19 35 0.23
21 81 0.54
23 35 0.23
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:1368372 original size:63 final size:63
Alignment explanation
Indices: 1368300--1368536 Score: 236
Period size: 63 Copynumber: 3.8 Consensus size: 63
1368290 TCCAAGCTCG
* *
1368300 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCATTACGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* * * * * *
1368363 CGTTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCAAGTTCGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* * * * *
1368424 CGCGTTGCGATTTATTTC-AAATT--CGTTGCGA--TAGTCTAAGTTCGCGTTGCGATTTATTCC
1 --CGTTGCGA--TA-GTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCC
1368484 AAATT
59 AAATT
*
1368489 CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGC
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
1368537 AATAGTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
60 2 0.01
61 23 0.17
63 89 0.64
65 22 0.16
66 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (63 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
Found at i:1368378 original size:84 final size:82
Alignment explanation
Indices: 1368281--1368546 Score: 329
Period size: 84 Copynumber: 3.2 Consensus size: 82
1368271 CATATTCGCA
* * * * * *
1368281 TTGCGATAGTCCAAGCTCGCGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT-CA
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAGTT--CGTTGCGA--TAGTCGAAGTTCCA
*
1368344 TTACGATTTATTCCAAATTCG
62 TTGCGATTTATTCCAAATTCG
* *
1368365 TTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAGTTC-CATT
*
1368430 GCGATTTATTTCAAATTCG
64 GCGATTTATTCCAAATTCG
* *
1368449 TTGCGATAGTCTAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCATT
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAGTTC-CATT
1368514 GCGATTTATTCCAAATTCG
64 GCGATTTATTCCAAATTCG
*
1368533 TTGCAATAGTCCAA
1 TTGCGATAGTCCAA
1368547 AATCACAACG
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
82 8 0.05
84 144 0.89
86 9 0.06
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (82 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAGTTCCATTGC
GATTTATTCCAAATTCG
Found at i:1368432 original size:126 final size:124
Alignment explanation
Indices: 1368256--1368546 Score: 324
Period size: 126 Copynumber: 2.3 Consensus size: 124
1368246 ACTTCGACTA
*
1368256 TCGCATTGCGATTTA---CATATTCGCATTGCGATAGTCCAAGCTCGCGTTGCGA-TA-GTCGAA
1 TCGCATTGCGATTTATTCCAAATTCG--TTGCGATAGTCCAAGCTCGCGTTGCGATTATGTC-AA
* *
1368316 GTTCGCGTTGCGATTTATTCCAAATT-CATTACGATTTATTCCAAATTCGTTGCGATAGTCCAAG
63 ATT--CGTTGCGA--TAGTCCAAATTCCATTACGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1368380 T
124 T
* * * * * *
1368381 TCGCGTTGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAAT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGCTCGCGTTGCGA-TTATGTCAAAT
* * * * *
1368446 TCGTTGCGATAGTCTAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
65 TCGTTGCGATAGTCCAAATTC-CATTACGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
*
1368507 TCGCATTGCGATTTATTCCAAATTCGTTGCAATAGTCCAA
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1368547 AATCACAACG
Statistics
Matches: 139, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
124 8 0.06
125 13 0.09
126 104 0.75
128 12 0.09
129 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (124 bp):
TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGCTCGCGTTGCGATTATGTCAAATT
CGTTGCGATAGTCCAAATTCCATTACGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
Found at i:1368547 original size:19 final size:19
Alignment explanation
Indices: 1368481--1368547 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
1368471 TGCGATTTAT
*
1368481 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCAATAG
* * * *
1368500 TCGAAGTTCGCATTGCGATTTAT
1 TCCAAATTCG--TTGC-A-ATAG
1368523 TCCAAATTCGTTGCAATAG
1 TCCAAATTCGTTGCAATAG
1368542 TCCAAA
1 TCCAAA
1368548 ATCACAACGA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 16 0.46
20 1 0.03
21 8 0.23
23 10 0.29
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (19 bp):
TCCAAATTCGTTGCAATAG
Found at i:1369250 original size:42 final size:42
Alignment explanation
Indices: 1369191--1369285 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
1369181 TGCGATTTTG
*
1369191 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1369233 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1369275 GACTATCGCAA
1 GACTATCGCAA
1369286 TGCGAACTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:1369282 original size:21 final size:21
Alignment explanation
Indices: 1369188--1369312 Score: 105
Period size: 21 Copynumber: 6.0 Consensus size: 21
1369178 CGTTGCGATT
*
1369188 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1369207 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
1369230 TTTGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1369249 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
1369272 TTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1369293 TTGGACTATCACAATGCGAA
1 TTGGACTATCGCAACGCGAA
1369313 TATGTAAATC
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.18
21 52 0.61
23 18 0.21
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1369312 original size:42 final size:41
Alignment explanation
Indices: 1369191--1369312 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 41
1369181 TGCGATTTTG
* * *
1369191 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAACTTGGAAT-AATCACAACGCGAACTTC
* *
1369233 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAAT-AATCACAACGCGAACTTC
* *
1369275 GACTATCGCAATGCGAACTTGGACT-ATCACAATGCGAA
1 GACTATCGCAA--CGAACTTGGAATAATCACAACGCGAA
1369313 TATGTAAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 63 0.86
44 10 0.14
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
GACTATCGCAACGAACTTGGAATAATCACAACGCGAACTTC
Found at i:1369393 original size:21 final size:21
Alignment explanation
Indices: 1369369--1369443 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
1369359 AATTTGGAAA
*
1369369 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1369390 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
1369411 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1369432 ATCGCATTGCGA
1 ATCGCAATGCGA
1369444 TTTACATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:1369478 original size:21 final size:21
Alignment explanation
Indices: 1369452--1369525 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
1369442 GATTTACATA
1369452 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
1369473 TTCGCATTGCAATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
1369494 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
1369515 TTCGCGTTGCG
1 TTCGCATTGCG
1369526 TTTCTGGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:1370706 original size:2 final size:2
Alignment explanation
Indices: 1370699--1370723 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1370689 AATTTTGTAA
1370699 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1370724 AATTTTATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1371189 original size:28 final size:24
Alignment explanation
Indices: 1371131--1371194 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
1371121 CTGAGGCTAT
1371131 CTGTAACTAACCCAACCACATCAG
1 CTGTAACTAACCCAACCACATCAG
1371155 CTGTAACTAACCCAACCACATCAG
1 CTGTAACTAACCCAACCACATCAG
*
1371179 CTGTAACTAACTCAAC
1 CTGTAACTAACCCAAC
1371195 AAAATAGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.38, C:0.36, G:0.08, T:0.19
Consensus pattern (24 bp):
CTGTAACTAACCCAACCACATCAG
Found at i:1380782 original size:26 final size:25
Alignment explanation
Indices: 1380724--1380783 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
1380714 GGACGAAAAC
*
1380724 AAATTTTTAATATAAAATATATTTA
1 AAATTTTTAAAATAAAATATATTTA
* *
1380749 AAAATTTTAAAAT-AAATAGTAATTTT
1 AAATTTTTAAAATAAAATA-T-ATTTA
1380775 AAATTTTTA
1 AAATTTTTA
1380784 GTGGATGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 12 0.41
26 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATTTTTAAAATAAAATATATTTA
Found at i:1381337 original size:3 final size:3
Alignment explanation
Indices: 1381329--1381355 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1381319 TCCGTTCTTC
1381329 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1381356 CGACTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1387304 original size:21 final size:21
Alignment explanation
Indices: 1387270--1387350 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
1387260 GTTGCGATAA
*
1387270 TCCAAGTT-GTTGCGATAGTT
1 TCCAAATTCGTTGCGATAGTT
*
1387290 TCCAAATTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGTT
* * *
1387311 TACAATTGTCGTTGTGAT--TT
1 TCCAAAT-TCGTTGCGATAGTT
1387331 TCCAAATTCGTTGCGATAGT
1 TCCAAATTCGTTGCGATAGT
1387351 AAAATAAAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 9 0.19
20 13 0.27
21 17 0.35
22 9 0.19
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (21 bp):
TCCAAATTCGTTGCGATAGTT
Found at i:1387573 original size:22 final size:22
Alignment explanation
Indices: 1387546--1387661 Score: 96
Period size: 22 Copynumber: 5.4 Consensus size: 22
1387536 AATTTGGAAA
1387546 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* ** *
1387568 ACCGCAACGA-ATTTTGTAAACT
1 ATCGCAACGACA-ACTGTAGACT
*
1387590 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
1387612 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
* *
1387631 ATCGCAACGACAAATGTAGGCT
1 ATCGCAACGACAACTGTAGACT
1387653 ATCGCAACG
1 ATCGCAACG
1387662 CGATTTTCAA
Statistics
Matches: 70, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
19 13 0.19
20 2 0.03
21 3 0.04
22 51 0.73
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1387596 original size:44 final size:43
Alignment explanation
Indices: 1387546--1387682 Score: 172
Period size: 44 Copynumber: 3.2 Consensus size: 43
1387536 AATTTGGAAA
*
1387546 ATCGCAACGACAACTGTAGACTACCGCAACGAATTTTGTAAACT
1 ATCGCAACGACAACTGTAGACTATCGCAACGAA-TTTGTAAACT
* *
1387590 ATCGCAACAACAACTGTAGACTATCGCAACGAATTTGGAAA--
1 ATCGCAACGACAACTGTAGACTATCGCAACGAATTTGTAAACT
* * * *
1387631 ATCGCAACGACAAATGTAGGCTATCGCAACGCGATTT-TCAACT
1 ATCGCAACGACAACTGTAGACTATCGCAACG-AATTTGTAAACT
1387674 ATCGCAACG
1 ATCGCAACG
1387683 CGAATTTGCG
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 30 0.37
42 4 0.05
43 16 0.20
44 31 0.38
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (43 bp):
ATCGCAACGACAACTGTAGACTATCGCAACGAATTTGTAAACT
Found at i:1396401 original size:16 final size:15
Alignment explanation
Indices: 1396364--1396403 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
1396354 TTCGACTTGT
1396364 TGCTCATTAAGCTCG
1 TGCTCATTAAGCTCG
*
1396379 TCACTCATTAAGCTCG
1 T-GCTCATTAAGCTCG
1396395 ATGCTCATT
1 -TGCTCATT
1396404 GCTCGTCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (15 bp):
TGCTCATTAAGCTCG
Found at i:1398084 original size:15 final size:15
Alignment explanation
Indices: 1398066--1398227 Score: 103
Period size: 15 Copynumber: 9.8 Consensus size: 15
1398056 GGTGCCGGAG
1398066 AAGAAGGAAGAGCCA
1 AAGAAGGAAGAGCCA
*
1398081 AAGAAGGAGGAGCCA
1 AAGAAGGAAGAGCCA
1398096 AAGAAGGAAGAGCCA
1 AAGAAGGAAGAGCCA
*
1398111 AAGAAAGAAGAGGAACCCA
1 AAGAAGGAAGA-G---CCA
1398130 AA-AAGGAAGAGGAGCCA
1 AAGAAGG-A-A-GAGCCA
*
1398147 AAGAAGGAAGAACCGA
1 AAGAAGGAAGAGCC-A
*
1398163 AA-AAGGAAGAAGAGCCG
1 AAGAA-G--GAAGAGCCA
*
1398180 AAGAAGGAAGAAGATCCG
1 AAGAAGGAAG-AG--CCA
*
1398198 AAGAAGGAAGAAGAGCCG
1 AAGAA-G--GAAGAGCCA
1398216 AAGAAGGAAGAG
1 AAGAAGGAAGAG
1398228 GAGCCTAAGA
Statistics
Matches: 121, Mismatches: 7, Indels: 38
0.73 0.04 0.23
Matches are distributed among these distances:
15 54 0.45
16 8 0.07
17 10 0.08
18 32 0.26
19 7 0.06
20 4 0.03
21 6 0.05
ACGTcount: A:0.53, C:0.12, G:0.35, T:0.01
Consensus pattern (15 bp):
AAGAAGGAAGAGCCA
Found at i:1398091 original size:18 final size:18
Alignment explanation
Indices: 1398072--1398271 Score: 170
Period size: 18 Copynumber: 11.6 Consensus size: 18
1398062 GGAGAAGAAG
1398072 GAAGAGCCAAAGAAGG-A
1 GAAGAGCCAAAGAAGGAA
1398089 G--GAGCCAAAGAA-G--
1 GAAGAGCCAAAGAAGGAA
*
1398102 GAAGAGCCAAAGAAAGAA
1 GAAGAGCCAAAGAAGGAA
* *
1398120 GAGGAACCCAAA-AAGGAA
1 GAAG-AGCCAAAGAAGGAA
*
1398138 GAGGAGCCAAAGAAGGAA
1 GAAGAGCCAAAGAAGGAA
1398156 G-A-A-CCGAAA-AAGGAA
1 GAAGAGCC-AAAGAAGGAA
*
1398171 GAAGAGCCGAAGAAGGAA
1 GAAGAGCCAAAGAAGGAA
* *
1398189 GAAGATCCGAAGAAGGAA
1 GAAGAGCCAAAGAAGGAA
*
1398207 GAAGAGCCGAAGAAGGAA
1 GAAGAGCCAAAGAAGGAA
* *
1398225 GAGGAGCCTAAGAAGGAA
1 GAAGAGCCAAAGAAGGAA
* * *
1398243 GAGGAGCCGAAGAAAGAA
1 GAAGAGCCAAAGAAGGAA
*
1398261 GGAGAAGCCAA
1 GAAG-AGCCAA
1398272 GAAAGAGGAG
Statistics
Matches: 155, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.01
14 1 0.01
15 31 0.20
16 6 0.04
17 10 0.06
18 95 0.61
19 11 0.07
ACGTcount: A:0.52, C:0.12, G:0.35, T:0.01
Consensus pattern (18 bp):
GAAGAGCCAAAGAAGGAA
Found at i:1398143 original size:51 final size:51
Alignment explanation
Indices: 1398087--1398261 Score: 190
Period size: 51 Copynumber: 3.4 Consensus size: 51
1398077 GCCAAAGAAG
* * *
1398087 GAGGAGCCAAAGAAGGAAGAGCCAAAGAAAGAAGAGGAACCCAAAAAGGAA
1 GAGGAGCCAAAGAAGGAAGAGCCAAAGAAGGAAGAGGAGCCCAAGAAGGAA
* * *
1398138 GAGGAGCCAAAGAAGGAAGAACCGAAA-AAGGAAGAAGAGCCGAAGAAGGAA
1 GAGGAGCCAAAGAAGGAAGAGCC-AAAGAAGGAAGAGGAGCCCAAGAAGGAA
* * * * *
1398189 GAAGATCCGAAGAAGGAAGAAGAGCCGAAGAAGGAAGAGGAGCCTAAGAAGGAA
1 GAGGAGCCAAAGAA-G--GAAGAGCCAAAGAAGGAAGAGGAGCCCAAGAAGGAA
* *
1398243 GAGGAGCCGAAGAAAGAAG
1 GAGGAGCCAAAGAAGGAAG
1398262 GAGAAGCCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
51 56 0.54
52 4 0.04
53 2 0.02
54 41 0.40
ACGTcount: A:0.51, C:0.12, G:0.35, T:0.01
Consensus pattern (51 bp):
GAGGAGCCAAAGAAGGAAGAGCCAAAGAAGGAAGAGGAGCCCAAGAAGGAA
Found at i:1405918 original size:2 final size:2
Alignment explanation
Indices: 1405911--1405943 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1405901 TATATTTTAA
1405911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1405944 ATAAATAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1408230 original size:15 final size:15
Alignment explanation
Indices: 1408210--1408291 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
1408200 TTCCAGAAAA
1408210 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1408225 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1408240 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
1408255 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1408270 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
1408284 TGAATTAC
1 TGAATTAC
1408292 ATTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1408244 original size:30 final size:30
Alignment explanation
Indices: 1408210--1408291 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
1408200 TTCCAGAAAA
**
1408210 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
1408240 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
1408270 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
1408292 ATTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:1408269 original size:45 final size:44
Alignment explanation
Indices: 1408205--1408291 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
1408195 TGGTTTTCCA
**
1408205 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
1408250 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1408292 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:1408297 original size:20 final size:20
Alignment explanation
Indices: 1408274--1408323 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1408264 GGAATTTGAA
1408274 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1408294 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1408314 TTCTGGAAAA
1 TTCTGGAAAA
1408324 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1408524 original size:28 final size:28
Alignment explanation
Indices: 1408483--1408559 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
1408473 CTTACTAAAA
*
1408483 TATTATTGAAATATATAAATAATA-TTAT
1 TATTATT-AAATATATAAATAAAATTTAT
1408511 TCATTATTAAATATATAAA-AAAATTTAT
1 T-ATTATTAAATATATAAATAAAATTTAT
* *
1408539 TATATATTAAAAATAAAAATA
1 TAT-TATTAAATATATAAATA
1408560 TATCTTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 30 0.71
29 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TATTATTAAATATATAAATAAAATTTAT
Found at i:1408567 original size:26 final size:28
Alignment explanation
Indices: 1408486--1408579 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
1408476 ACTAAAATAT
*
1408486 TATTGAAATATAT-AAATAATATTATTCAT-
1 TATT-AAATATATAAAAAAATA-TATT-ATA
*
1408515 TATTAAATATATAAAAAAATTTATTATA
1 TATTAAATATATAAAAAAATATATTATA
* *
1408543 TATTAAA-A-ATAAAAATATATCTTATA
1 TATTAAATATATAAAAAAATATATTATA
1408569 T-TTATAATATA
1 TATTA-AATATA
1408580 ATTGATTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
25 3 0.05
26 18 0.33
27 4 0.07
28 20 0.36
29 10 0.18
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (28 bp):
TATTAAATATATAAAAAAATATATTATA
Found at i:1408577 original size:24 final size:24
Alignment explanation
Indices: 1408524--1408577 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
1408514 TTATTAAATA
*
1408524 TATAA-AAAAATTTATTATATATT
1 TATAATAAAAATATATTATATATT
* *
1408547 AAAAATAAAAATATATCT-TATATT
1 TATAATAAAAATATAT-TATATATT
1408571 TATAATA
1 TATAATA
1408578 TAATTGATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATAATAAAAATATATTATATATT
Found at i:1408580 original size:26 final size:26
Alignment explanation
Indices: 1408486--1408580 Score: 68
Period size: 26 Copynumber: 3.5 Consensus size: 26
1408476 ACTAAAATAT
*
1408486 TATTGAAATATATAAATAATATTATTCAT-
1 TATT-AAATATA-AAAAAATA-TATT-ATA
*
1408515 TATTAAATATATAAAAAAATTTATTATA
1 TATT-AA-ATATAAAAAAATATATTATA
* * *
1408543 TATTAAAAATAAAAATATATCTTATA
1 TATTAAATATAAAAAAATATATTATA
1408569 T-TTATAATATAA
1 TATTA-AATATAA
1408581 TTGATTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
25 3 0.05
26 23 0.42
27 4 0.07
28 8 0.15
29 12 0.22
30 5 0.09
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (26 bp):
TATTAAATATAAAAAAATATATTATA
Found at i:1408880 original size:42 final size:42
Alignment explanation
Indices: 1408821--1408940 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
1408811 ATGAATTACA
*
1408821 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1408863 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1408905 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1408941 TTCGGAGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1409473 original size:2 final size:2
Alignment explanation
Indices: 1409466--1409496 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1409456 ACAATCCCAC
1409466 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1409497 AACTTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1417433 original size:18 final size:18
Alignment explanation
Indices: 1417410--1417470 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
1417400 TCTGCAATCG
1417410 ATTCATCCTCCTTCTGTC
1 ATTCATCCTCCTTCTGTC
* *
1417428 ATTCATCATTCTTCTGTC
1 ATTCATCCTCCTTCTGTC
* *
1417446 GTTCA-CCTCCTTCGGTC
1 ATTCATCCTCCTTCTGTC
1417463 GATTCATC
1 -ATTCATC
1417471 AACCATAGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 9 0.26
18 24 0.71
19 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.10, T:0.43
Consensus pattern (18 bp):
ATTCATCCTCCTTCTGTC
Found at i:1419461 original size:35 final size:37
Alignment explanation
Indices: 1419416--1419491 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 37
1419406 TATAATGTGT
*
1419416 TTTTTGGATTAGAAATA-TCTTTG-GATTATAAATAC
1 TTTTTGGATTAGAAATACTCTTTGAGATTAGAAATAC
*
1419451 TTTTTGGATTAGAAATACTTTTTGATGATTAGAAATAC
1 TTTTTGGATTAGAAATACTCTTTGA-GATTAGAAATAC
1419489 TTT
1 TTT
1419492 GTTATGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 17 0.47
36 5 0.14
38 14 0.39
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
TTTTTGGATTAGAAATACTCTTTGAGATTAGAAATAC
Found at i:1419482 original size:20 final size:18
Alignment explanation
Indices: 1419416--1419491 Score: 109
Period size: 18 Copynumber: 4.2 Consensus size: 18
1419406 TATAATGTGT
1419416 TTTTTGGATTAGAAATA-
1 TTTTTGGATTAGAAATAC
* *
1419433 TCTTTGGATTATAAATAC
1 TTTTTGGATTAGAAATAC
1419451 TTTTTGGATTAGAAATAC
1 TTTTTGGATTAGAAATAC
1419469 TTTTTGATGATTAGAAATAC
1 TTTTTG--GATTAGAAATAC
1419489 TTT
1 TTT
1419492 GTTATGTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
17 15 0.29
18 22 0.42
20 15 0.29
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (18 bp):
TTTTTGGATTAGAAATAC
Found at i:1419492 original size:18 final size:17
Alignment explanation
Indices: 1419418--1419493 Score: 75
Period size: 17 Copynumber: 4.3 Consensus size: 17
1419408 TAATGTGTTT
1419418 TTTG-GATTAGAAATATC
1 TTTGTGATTAGAAATA-C
*
1419435 TTTG-GATTATAAATAC
1 TTTGTGATTAGAAATAC
*
1419451 TTTTTGGATTAGAAATAC
1 TTTGT-GATTAGAAATAC
1419469 TTTTTGATGATTAGAAATAC
1 --TTTG-TGATTAGAAATAC
1419489 TTTGT
1 TTTGT
1419494 TATGTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.08
17 15 0.30
18 15 0.30
20 15 0.30
21 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (17 bp):
TTTGTGATTAGAAATAC
Found at i:1420474 original size:37 final size:36
Alignment explanation
Indices: 1420408--1420632 Score: 197
Period size: 37 Copynumber: 6.1 Consensus size: 36
1420398 ATATATGTTT
*
1420408 TTTTCGAAAACATTTTAAAAAATGTATATAATATATAG
1 TTTT-GAAAACATTTT-GAAAATGTATATAATATATAG
1420446 TCTTTGAAAACATTTTGAAAATGTATATAATATATA-
1 T-TTTGAAAACATTTTGAAAATGTATATAATATATAG
* * * *
1420482 TATAT-ATATATATTTTGAAAACGTATATAATATATAG
1 T-TTTGA-AAACATTTTGAAAATGTATATAATATATAG
* *
1420519 TTTTGAAAAACATTTTTGAAAATTTATATGATATATAG
1 TTTTG-AAAACA-TTTTGAAAATGTATATAATATATAG
* * * *
1420557 TTTTGAAAACATTTTTTAAAATATATATATTATATAA
1 TTTTGAAAACA-TTTTGAAAATGTATATAATATATAG
*** * *
1420594 TTAAAAAAAACATTTTGGAAAT-TATATATTATAT-G
1 TT-TTGAAAACATTTTGAAAATGTATATAATATATAG
1420629 TTTT
1 TTTT
1420633 TTTAAAATAT
Statistics
Matches: 155, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
35 3 0.02
36 43 0.28
37 60 0.39
38 46 0.30
39 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATTTTGAAAATGTATATAATATATAG
Found at i:1420529 original size:26 final size:25
Alignment explanation
Indices: 1420480--1420527 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
1420470 ATATAATATA
1420480 TATATATATATATATTTTGAAAACG
1 TATATATATATATATTTTGAAAACG
1420505 TATATA-ATATATAGTTTTGAAAA
1 TATATATATATATA-TTTTGAAAA
1420528 ACATTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TATATATATATATATTTTGAAAACG
Found at i:1420620 original size:111 final size:110
Alignment explanation
Indices: 1420392--1420632 Score: 256
Period size: 111 Copynumber: 2.2 Consensus size: 110
1420382 TATTATATGA
1420392 TATATAATATATGTTTTTTTCG-AAAACATTTTAAAAAATGTATATAATATATAGTCTTTGAAAA
1 TATATAATATATG---TTTT-GAAAAACATTTTAAAAAATGTATATAATATATAGTCTTTGAAAA
* * * * *
1420456 CATTTTGAAAATGTATATAATATATATATATATATATATTTTGAAAACG
62 CATTTTGAAAATATATATAATATATATATAAAAAAACATTTTGAAAACG
** * *
1420505 TATATAATATATAGTTTTGAAAAACATTTTTGAAAATTTATATGATATATAGT-TTTGAAAACAT
1 TATATAATATAT-GTTTTGAAAAACATTTTAAAAAATGTATATAATATATAGTCTTTGAAAACA-
* * * *
1420569 TTTTTAAAATATATATATTATATA-ATTAAAAAAAACATTTTGGAAA-T
64 TTTTGAAAATATATATAATATATATA-T-AAAAAAACATTTTGAAAACG
*
1420616 TATATATTATATGTTTT
1 TATATAATATATGTTTT
1420633 TTTAAAATAT
Statistics
Matches: 109, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
110 17 0.16
111 66 0.61
112 13 0.12
113 12 0.11
114 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (110 bp):
TATATAATATATGTTTTGAAAAACATTTTAAAAAATGTATATAATATATAGTCTTTGAAAACATT
TTGAAAATATATATAATATATATATAAAAAAACATTTTGAAAACG
Found at i:1420663 original size:3 final size:3
Alignment explanation
Indices: 1420650--1420725 Score: 77
Period size: 3 Copynumber: 25.3 Consensus size: 3
1420640 TATATATATA
*
1420650 TAT TA- TAT TAT TA- TAT TAT TAT TAT TATT TAT TAT CATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT
* *
1420695 TAT TGT AAT TAT T-T TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
1420726 TCTTATTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.10
3 47 0.77
4 8 0.13
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1420712 original size:37 final size:37
Alignment explanation
Indices: 1420655--1420732 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
1420645 ATATATATTA
1420655 TATTATTATATTATTATTA-TTATTTATTATCATTTAT
1 TATTATTATATTATTATTATTTA-TTATTATCATTTAT
* * *
1420692 TATTATTGTAATTATT-TTATTTATTATTATTATTTCT
1 TATTATTAT-ATTATTATTATTTATTATTATCATTTAT
1420729 TATT
1 TATT
1420733 TAATTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (37 bp):
TATTATTATATTATTATTATTTATTATTATCATTTAT
Found at i:1420731 original size:7 final size:7
Alignment explanation
Indices: 1420650--1420741 Score: 70
Period size: 7 Copynumber: 13.1 Consensus size: 7
1420640 TATATATATA
1420650 TATTATAT
1 TATTAT-T
1420658 TATTATAT
1 TATTAT-T
1420666 TATTA-T
1 TATTATT
1420672 TATTATT
1 TATTATT
1420679 TATTA-T
1 TATTATT
*
1420685 CATT-TAT
1 TATTAT-T
1420692 TATTATT
1 TATTATT
1420699 GTAATTA-T
1 -T-ATTATT
1420707 T-TTATT
1 TATTATT
1420713 TATTA-T
1 TATTATT
1420719 TATTATT
1 TATTATT
*
1420726 TCTTATT
1 TATTATT
1420733 TAATTATT
1 T-ATTATT
1420741 T
1 T
1420742 TGTTCTTGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
5 3 0.04
6 18 0.26
7 23 0.33
8 22 0.31
9 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (7 bp):
TATTATT
Found at i:1422179 original size:3 final size:3
Alignment explanation
Indices: 1422171--1422196 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1422161 GTTTTAATAT
1422171 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1422197 CTTTCATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1422429 original size:13 final size:13
Alignment explanation
Indices: 1422411--1422440 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1422401 GAATCGGATT
1422411 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1422424 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1422437 TTTT
1 TTTT
1422441 CGCAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:1426412 original size:84 final size:82
Alignment explanation
Indices: 1426219--1427340 Score: 924
Period size: 84 Copynumber: 13.7 Consensus size: 82
1426209 AAAACAAACT
* *
1426219 ATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTG-CCAAAGACCCCTGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
* *
1426283 AGCTTCGAGGGCACATC
66 AGCTTCAACGGCACATC
* * * * * * * **
1426300 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TGACC-AAAGACCCCTGAGTTCGACTAC-
*
1426365 A-TCAGC-TCAACGGCATATC
62 ACTCAGCTTCAACGGCACATC
* * *
1426384 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCT-ACCAAAGACCCCAGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
* *
1426448 AGCTTCGAGGGCACATC
66 AGCTTCAACGGCACATC
* * * **
1426465 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCCTGAGTTCGACTAC-
1426530 A-TCAGC-TCAACGGCACATC
62 ACTCAGCTTCAACGGCACATC
*
1426549 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCTGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
* *
1426613 AGCTTCGAGGGCACATC
66 AGCTTCAACGGCACATC
* * * * * * * **
1426630 ATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TGACC-AAAGACCCCTGAGTTCGACTAC-
*
1426695 A-TCAGC-TCAACGGCATATC
62 ACTCAGCTTCAACGGCACATC
*
1426714 ATTT---GC--AGC---A-T--AGAAGGGCTATCTG-CCAAAGACCCCTGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
* *
1426767 AGCTTCGAGGGCACATC
66 AGCTTCAACGGCACATC
* * *
1426784 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGACTAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCCT-GAGTTCGACTAC
* * *
1426848 GCTCAGCTCCAA-GGCATATC
62 ACTCAGCTTCAACGGCACATC
* * * * * * * **
1426868 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCCTGAGTTCGACTAC-
1426933 A-TCAGC-TCAACGGCACATC
62 ACTCAGCTTCAACGGCACATC
* *
1426952 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
* *
1427016 AGCTTCCAGGGCACATC
66 AGCTTCAACGGCACATC
* * *
1427033 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-CCAACCAGAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAA--AGA-CCCCT-GAGTTCGACTAC
* * *
1427097 GCTCAGCTCCAA-GGCATATC
62 ACTCAGCTTCAACGGCACATC
* * * * * * **
1427117 ATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTG-CCAATAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACC----AAAGACCCCTGAGTTCGACTAC
*
1427181 GCTCAGC-TCAACGGCACATC
62 ACTCAGCTTCAACGGCACATC
* * * * * * * *
1427201 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTCC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TGACC-AAAGACCCCT-GAGTTCGACTAC
* *
1427265 GCTCAGCTCCAA-GGCACATC
62 ACTCAGCTTCAACGGCACATC
* * * **
1427285 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTG-CTAAAGACCTTTGAGTTCGA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGA
1427341 TTATATTCAA
Statistics
Matches: 852, Mismatches: 132, Indels: 115
0.78 0.12 0.10
Matches are distributed among these distances:
68 1 0.00
69 24 0.03
70 16 0.02
71 2 0.00
73 13 0.02
75 2 0.00
76 1 0.00
78 1 0.00
79 6 0.01
80 85 0.10
81 177 0.21
82 3 0.00
83 16 0.02
84 364 0.43
85 129 0.15
86 8 0.01
87 2 0.00
88 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (82 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCCTGAGTTCGACTACACTC
AGCTTCAACGGCACATC
Found at i:1426496 original size:165 final size:165
Alignment explanation
Indices: 1426219--1427340 Score: 1182
Period size: 165 Copynumber: 6.9 Consensus size: 165
1426209 AAAACAAACT
* *
1426219 ATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCTGAGTTCGATTACACTCA
* * * * *
1426284 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAAGACC
*
1426349 TTTGAGTTCGACTACGATCAGCTCAACGGCATATC
131 TTTGAGTTCGACTACGATCAGCTCAACGGCACATC
* *
1426384 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCAGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCTGAGTTCGATTACACTCA
** *
1426449 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAAGACC
1426514 TTTGAGTTCGACTACGATCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGATCAGCTCAACGGCACATC
*
1426549 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCTGAGTTCGATTACACTCA
* * * * *
1426614 GCTTCGAGGGCACATCATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAAGACC
*
1426679 TTTGAGTTCGACTACGATCAGCTCAACGGCATATC
131 TTTGAGTTCGACTACGATCAGCTCAACGGCACATC
*
1426714 ATTT---GC--AGC---A-T--AGAAGGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCTGAGTTCGATTACACTCA
**
1426768 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAAGAC
* * *
1426832 CTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATC
130 CTTTGAGTTCGACTACGATCAGCT-CAACGGCACATC
* * * * * * * ** *
1426868 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT----ACCAAAGACCCCTGAGTTCGATTAC-
* * * *
1426933 A-TCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AA
61 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAA
*** * * *
1426992 AGACCCCCGAGTTCGATTAC-ACTCAGCTTCCAGGGCACATC
126 AGACCTTTGAGTTCGACTACGA-TCAGC-TCAACGGCACATC
* * * * * *
1427033 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAGAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAA--AGA-CCCCT-GAGTTCGATTACA
* * * * * * * ** **
1427098 CTCAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAA
*
1427162 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
127 GACCTTTGAGTTCGACTACGATCAGCTCAACGGCACATC
* * * * * * * * *
1427201 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTCC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--T-ACC-AAAGACCCCT-GAGTTCGATTAC
* * * * * *
1427265 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATC--TG--CTAA
61 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAA
1427325 AGACCTTTGAGTTCGA
126 AGACCTTTGAGTTCGA
1427341 TTATATTCAA
Statistics
Matches: 820, Mismatches: 102, Indels: 71
0.83 0.10 0.07
Matches are distributed among these distances:
154 130 0.16
155 6 0.01
156 1 0.00
157 3 0.00
159 2 0.00
160 3 0.00
161 3 0.00
162 3 0.00
163 4 0.00
164 49 0.06
165 412 0.50
168 147 0.18
169 48 0.06
170 5 0.01
171 2 0.00
172 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCTGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAAGACC
TTTGAGTTCGACTACGATCAGCTCAACGGCACATC
Found at i:1427054 original size:249 final size:249
Alignment explanation
Indices: 1426725--1427321 Score: 962
Period size: 249 Copynumber: 2.4 Consensus size: 249
1426715 TTTGCAGCAT
* *
1426725 AGAAGGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTGC
*
1426790 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
66 AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
*
1426855 TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTT
131 TCCAAGGCATATCATTTGCAACACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTT
* * * *
1426920 GAGTTCGACTACGATCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
196 GAGTTCGACTACGATCAGCTCAACGGCACATCATTTACAGCATAACTCAAGGCG
1426974 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTGC
*
1427039 AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAGAGACCTTCGAGTTCGACTACGCTCAGC
66 AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
1427104 TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTT
131 TCCAAGGCATATCATTTGCAACACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTT
* *
1427169 GAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGCATAACTCAAGGCT
196 GAGTTCGACTACGATCAGCTCAACGGCACATCATTTACAGCATAACTCAAGGCG
* ** * * * *
1427223 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGC-TCCAAGGCACATCAT
1 AGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCCAGGGCACATCAT
*
1427287 TTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGC
62 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGC
1427322 TAAAGACCTT
Statistics
Matches: 323, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
249 247 0.76
251 2 0.01
252 50 0.15
253 24 0.07
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (249 bp):
AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTGC
AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCATATCATTTGCAACACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTT
GAGTTCGACTACGATCAGCTCAACGGCACATCATTTACAGCATAACTCAAGGCG
Found at i:1428050 original size:37 final size:36
Alignment explanation
Indices: 1427984--1428202 Score: 184
Period size: 37 Copynumber: 6.1 Consensus size: 36
1427974 ATATATGTTT
*
1427984 TTTTCGAAAACATTTTAAAAAATGTATATAATATATAG
1 TTTT-GAAAACATTTT-GAAAATGTATATAATATATAG
1428022 TCTTTGAAAACATTTTGAAAATGTATATAATATATA-
1 T-TTTGAAAACATTTTGAAAATGTATATAATATATAG
* * *
1428058 ---T--ATATATTTTGAAAACGTATATAATATATAG
1 TTTTGAAAACATTTTGAAAATGTATATAATATATAG
* *
1428089 TTTTGAAAAACATTTTTGAAAATTTATATGATATATAG
1 TTTTG-AAAACA-TTTTGAAAATGTATATAATATATAG
* * * *
1428127 TTTTGAAAACATTTTTTAAAATATATATATTATATAA
1 TTTTGAAAACA-TTTTGAAAATGTATATAATATATAG
*** * *
1428164 TTAAAAAAAACATTTTGGAAAT-TATATATTATAT-G
1 TT-TTGAAAACATTTTGAAAATGTATATAATATATAG
1428199 TTTT
1 TTTT
1428203 TTTAAAATAT
Statistics
Matches: 149, Mismatches: 22, Indels: 24
0.76 0.11 0.12
Matches are distributed among these distances:
30 26 0.17
32 1 0.01
34 1 0.01
35 2 0.01
36 12 0.08
37 59 0.40
38 45 0.30
39 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATTTTGAAAATGTATATAATATATAG
Found at i:1428214 original size:2 final size:2
Alignment explanation
Indices: 1428209--1428252 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
1428199 TTTTTTTAAA
1428209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1428248 -T AT AT
1 AT AT AT
1428253 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:1428247 original size:3 final size:3
Alignment explanation
Indices: 1428234--1428309 Score: 77
Period size: 3 Copynumber: 25.3 Consensus size: 3
1428224 TATATATATA
*
1428234 TAT TA- TAT TAT TAT TA- TAT TAT TAT TATT TAT TAT CATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT
* *
1428279 TAT TGT AAT TAT T-T TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
1428310 TCTTATTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.10
3 47 0.77
4 8 0.13
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1428296 original size:37 final size:34
Alignment explanation
Indices: 1428239--1428316 Score: 86
Period size: 37 Copynumber: 2.2 Consensus size: 34
1428229 ATATATATTA
1428239 TATTATTATTATATTATTA-TTATTTATTATCATT
1 TATTATTATTATATTATTATTTA-TTATTATCATT
* *
1428273 TATTATTATTGTAATTATTTTATTTATTATTATTATT
1 TATTATTATTAT-ATTA--TTATTTATTATTATCATT
*
1428310 TCTTATT
1 TATTATT
1428317 TAATTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 11 0.30
35 4 0.11
37 19 0.51
38 3 0.08
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (34 bp):
TATTATTATTATATTATTATTTATTATTATCATT
Found at i:1428315 original size:7 final size:7
Alignment explanation
Indices: 1428234--1428325 Score: 70
Period size: 7 Copynumber: 13.1 Consensus size: 7
1428224 TATATATATA
1428234 TATTATAT
1 TATTAT-T
1428242 TATTATT
1 TATTATT
1428249 ATATTA-T
1 -TATTATT
1428256 TATTATT
1 TATTATT
1428263 TATTA-T
1 TATTATT
*
1428269 CATT-TAT
1 TATTAT-T
1428276 TATTATT
1 TATTATT
1428283 GTAATTA-T
1 -T-ATTATT
1428291 T-TTATT
1 TATTATT
1428297 TATTA-T
1 TATTATT
1428303 TATTATT
1 TATTATT
*
1428310 TCTTATT
1 TATTATT
1428317 TAATTATT
1 T-ATTATT
1428325 T
1 T
1428326 TGTTCTTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
5 3 0.04
6 17 0.25
7 25 0.36
8 20 0.29
9 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (7 bp):
TATTATT
Found at i:1429851 original size:4 final size:4
Alignment explanation
Indices: 1429842--1429871 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1429832 CATTTTTCCC
1429842 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1429872 TCTCCTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1430015 original size:6 final size:7
Alignment explanation
Indices: 1429999--1430041 Score: 65
Period size: 6 Copynumber: 6.6 Consensus size: 7
1429989 GAATCGGATT
1429999 TTTTAAA
1 TTTTAAA
1430006 TTTT-AA
1 TTTTAAA
1430012 TTTTAAA
1 TTTTAAA
1430019 TTTT-AA
1 TTTTAAA
1430025 TTTTAAA
1 TTTTAAA
1430032 TTTT-AA
1 TTTTAAA
1430038 TTTT
1 TTTT
1430042 CGCAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 18 0.53
7 16 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTTAAA
Found at i:1430017 original size:13 final size:13
Alignment explanation
Indices: 1429999--1430041 Score: 86
Period size: 13 Copynumber: 3.3 Consensus size: 13
1429989 GAATCGGATT
1429999 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1430012 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1430025 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1430038 TTTT
1 TTTT
1430042 CGCAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:1431667 original size:139 final size:138
Alignment explanation
Indices: 1431407--1431683 Score: 527
Period size: 139 Copynumber: 2.0 Consensus size: 138
1431397 CCTTGCAATT
1431407 GTAATACCTCAACAATCTTGCATGAGCTATAGGAAATAATTATGTGGCTGATTTGCTGGCTAAGA
1 GTAATACCTCAACAATCTTGCATGAGCTATAGGAAATAATTATGTGGCTGATTTGCTGGCTAAGA
*
1431472 GTGCTCGTGCTGAAATTGTGGAAAGCTTTTTCTTGATTGATCCTCCTCCATGAATTCTTCCGGTG
66 GTGCTCGTGCTGAAATTGTGGAAAGCTTTTTCTTGATCGATCCTCCTCCATGAATTCTTCCGGTG
1431537 CTACAAGA
131 CTACAAGA
1431545 GTAATACCTCAAACAATCTTGCATGAGCTATAGGAAATAATTATGTGGCTGATTTGCTGGCTAAG
1 GTAATACCTC-AACAATCTTGCATGAGCTATAGGAAATAATTATGTGGCTGATTTGCTGGCTAAG
*
1431610 AGTGCTCGTGCTGAAATTGTGGAAAGCTTTTTCTTGATCGATCCTCTTCCATGAATTCTTCCGGT
65 AGTGCTCGTGCTGAAATTGTGGAAAGCTTTTTCTTGATCGATCCTCCTCCATGAATTCTTCCGGT
1431675 GCTACAAGA
130 GCTACAAGA
1431684 CGATATTGTT
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 10 0.07
139 126 0.93
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (138 bp):
GTAATACCTCAACAATCTTGCATGAGCTATAGGAAATAATTATGTGGCTGATTTGCTGGCTAAGA
GTGCTCGTGCTGAAATTGTGGAAAGCTTTTTCTTGATCGATCCTCCTCCATGAATTCTTCCGGTG
CTACAAGA
Found at i:1437181 original size:3 final size:3
Alignment explanation
Indices: 1437175--1437222 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
1437165 CCACCCACCT
*
1437175 TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1437223 CTCTCTCCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1446004 original size:103 final size:103
Alignment explanation
Indices: 1445833--1446021 Score: 272
Period size: 103 Copynumber: 1.8 Consensus size: 103
1445823 ATTAAGGGCC
* * * * * *
1445833 GTTTGGATGGGGGAATGTGAGATTCTCTGGGAATAGAATCCACTTTCCCTCGTTTGGTTTGGCCG
1 GTTTGGATGAGGGAATATGAGATTCCCTGGGAATAGAATCCACATTCCCTCGTGTGGTTAGGCCG
**
1445898 GGAATGTCATTCCCGGTAATGTTTTATTACTAAGGGGT
66 GGAATCCCATTCCCGGTAATGTTTTATTACTAAGGGGT
*
1445936 GTTTGGATGAGGGAATATGAGATTCCCATGGGAATGGAATCCACATTCCC-CGTGTGGTTAGGCC
1 GTTTGGATGAGGGAATATGAGATTCCC-TGGGAATAGAATCCACATTCCCTCGTGTGGTTAGGCC
*
1446000 GGGAATCCCATTTCCGGTAATG
65 GGGAATCCCATTCCCGGTAATG
1446022 AAAGATTATC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
103 55 0.73
104 20 0.27
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (103 bp):
GTTTGGATGAGGGAATATGAGATTCCCTGGGAATAGAATCCACATTCCCTCGTGTGGTTAGGCCG
GGAATCCCATTCCCGGTAATGTTTTATTACTAAGGGGT
Found at i:1446970 original size:558 final size:557
Alignment explanation
Indices: 1446034--1447137 Score: 1734
Period size: 558 Copynumber: 2.0 Consensus size: 557
1446024 AGATTATCAA
* * * ***
1446034 TAGTGGATTTTTTGGGTATATTACCTGGAATGTCATTACCTCCTTTTCCTTAGGTATTATTGGAT
1 TAGTAGATTTTTTGGGTATATTACCGGGAATGTCATTACCTCCTTTTCCTTAAGTATTATAACAT
* * * *
1446099 TACCAGCGTTTTGGACTAAAATGCCCTTAAATTATTATTTTTTTTCAAAAATATTCTTCTTCTGT
66 TACCAGCATTTTGGACTAAAATACCCTTAAAGTATTATTTTTCTTCAAAAATATTCTTCTTCTGT
* * * *
1446164 CATTGAATAATAAAAATTCTACGAATGTTAAATTATAAATTTATCCTTAAATTATTTTAGATTTA
131 CATTGAATAATAAAAATTATACGAAAGTTAAATTATAAAATTATCCTTAAACTATTTTAGATTTA
*
1446229 CAAAACAAATCTATAATTAAAATTTTATATGAAGTTAAGGGGTTAAAATAAAATTTTACCCTTTC
196 CAAAAAAAATCTATAATTAAAATTTTATATGAAGTTAAGGGGTTAAAATAAAATTTTACCCTTTC
*
1446294 ATTAAACCTTTTTTATATTTTAAATTTTGTAAAAAATTATATAAATATTATGAATTTAAATTTTT
261 ATTAAACCTTTTTTATATTTTAAATTTTCTAAAAAATTATATAAATATTATGAATTTAAATTTTT
*
1446359 TAAAGAAAATATATAAATATTTTTCAACTTGTAATATTATACAAATATATAATAAAGACAATTTG
326 TAAAGAAAATATATAAATATTTTCCAACTTGTAATATTATACAAATATATAATAAAGACAATTTG
* *
1446424 GTCAAATATACATTCTAATAATCTTTTATTCCTTTAACCAAACGCGGTAATCTTACATTCCTGCT
391 GTCAAATATACATTCTAATAATCTTTTATTCCTTTAACCAAACACAGTAATCTTACATTCCTGCT
** *
1446489 AAGTCAAACAAACACAAAATACAACATTATCAGTAACCTTATTCCCTGGTAATCTTACATTCTCA
456 AAACCAAACAAACACAAAATACAACATTACCAGTAACCTTATTCCCTGGTAATCTTACATTC-CA
*
1446554 CTGGTAATCTTACATTCCGTGAACCAATCGCACTCTAT
520 CTGGTAATCTTACATTCCGTAAACCAATCGCACTCTAT
*
1446592 TAGTAGATTTTTTGGGGTATATTACCGGGAATGTCATTACCTCC-TTTCTCTTAAGTATTGTAAC
1 TAGTAGATTTTTT-GGGTATATTACCGGGAATGTCATTACCTCCTTTTC-CTTAAGTATTATAAC
**
1446656 ATTA-TTGACATTTTGGACTAAAATACCCTT-AAGT-TT-TTTTTCTTCAAAAATA-TCATTCTT
64 ATTACCAG-CATTTTGGACTAAAATACCCTTAAAGTATTATTTTTCTTCAAAAATATTC-TTCTT
1446716 CTGTCATTGAATAATAAAAATTATACGAAAGTTAAATTATAAAATTATCCTTAAACTATTTTAGA
127 CTGTCATTGAATAATAAAAATTATACGAAAGTTAAATTATAAAATTATCCTTAAACTATTTTAGA
* *
1446781 TTTACAAAAAAAAGTCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAATAAAATTTTACT
192 TTTACAAAAAAAA-TCTATAATTAAAATTTTATATGAAGTTAAGGGGTTAAAATAAAATTTTACC
* *
1446846 CTTTCATTAAACCTTTTTTATATTTTTAATTTTCTAAAAAATATATATAAATTTTATGAATTTAA
256 CTTTCATTAAACCTTTTTTATATTTTAAATTTTCTAAAAAAT-TATATAAATATTATGAATTTAA
* *
1446911 ATTTTTTAAAGCAAATATATAAATATTTTCCAACTTGTAATATTATACAAATATATAATAAGGAC
320 ATTTTTTAAAGAAAATATATAAATATTTTCCAACTTGTAATATTATACAAATATATAATAAAGAC
*
1446976 AATTTGGTTAAATATACATTCTAATAATCTTTTATTCCTTTAACCAAACACAGTAATCTTACATT
385 AATTTGGTCAAATATACATTCTAATAATCTTTTATTCCTTTAACCAAACACAGTAATCTTACATT
* * * * * **
1447041 CTTGCTAAACCAATCAAACACAAAATACAACATTCCCAGTAATCTTATTCTCTGGTAATCTTTTA
450 CCTGCTAAACCAAACAAACACAAAATACAACATTACCAGTAACCTTATTCCCTGGTAATCTTACA
*
1447106 TTCCGCTGGTAATCTTACATTCCGTAAACCAA
515 TTCCACTGGTAATCTTACATTCCGTAAACCAA
1447138 ACACACACTA
Statistics
Matches: 499, Mismatches: 41, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
555 2 0.00
556 93 0.19
557 118 0.24
558 223 0.45
559 63 0.13
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (557 bp):
TAGTAGATTTTTTGGGTATATTACCGGGAATGTCATTACCTCCTTTTCCTTAAGTATTATAACAT
TACCAGCATTTTGGACTAAAATACCCTTAAAGTATTATTTTTCTTCAAAAATATTCTTCTTCTGT
CATTGAATAATAAAAATTATACGAAAGTTAAATTATAAAATTATCCTTAAACTATTTTAGATTTA
CAAAAAAAATCTATAATTAAAATTTTATATGAAGTTAAGGGGTTAAAATAAAATTTTACCCTTTC
ATTAAACCTTTTTTATATTTTAAATTTTCTAAAAAATTATATAAATATTATGAATTTAAATTTTT
TAAAGAAAATATATAAATATTTTCCAACTTGTAATATTATACAAATATATAATAAAGACAATTTG
GTCAAATATACATTCTAATAATCTTTTATTCCTTTAACCAAACACAGTAATCTTACATTCCTGCT
AAACCAAACAAACACAAAATACAACATTACCAGTAACCTTATTCCCTGGTAATCTTACATTCCAC
TGGTAATCTTACATTCCGTAAACCAATCGCACTCTAT
Found at i:1447100 original size:16 final size:17
Alignment explanation
Indices: 1447079--1447122 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1447069 AACATTCCCA
*
1447079 GTAATCTTATT-CTCTG
1 GTAATCTTATTCCGCTG
1447095 GTAATCTTTTATTCCGCTG
1 GTAATC--TTATTCCGCTG
1447114 GTAATCTTA
1 GTAATCTTA
1447123 CATTCCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 3 0.12
18 5 0.21
19 10 0.42
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (17 bp):
GTAATCTTATTCCGCTG
Found at i:1447127 original size:19 final size:19
Alignment explanation
Indices: 1447092--1447129 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1447082 ATCTTATTCT
**
1447092 CTGGTAATCTTTTATTCCG
1 CTGGTAATCTTACATTCCG
1447111 CTGGTAATCTTACATTCCG
1 CTGGTAATCTTACATTCCG
1447130 TAAACCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (19 bp):
CTGGTAATCTTACATTCCG
Found at i:1449928 original size:32 final size:33
Alignment explanation
Indices: 1449862--1449928 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
1449852 TCATGAGTAA
* *
1449862 TTTAAAAATATAATATATTAAAATTTTATTTAT
1 TTTAAAAATATAATATATTAAAATGTTATATAT
1449895 TTTAATAAATA-AAT-TATTAATAATGTTA-ATAT
1 TTTAA-AAATATAATATATTAA-AATGTTATATAT
1449927 TT
1 TT
1449929 ATGTGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
32 11 0.37
33 14 0.47
34 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
TTTAAAAATATAATATATTAAAATGTTATATAT
Found at i:1453669 original size:22 final size:23
Alignment explanation
Indices: 1453644--1453689 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
1453634 GTCCTTCAAA
1453644 TTTTATAT-ATTGTTAAAT-TAAT
1 TTTTATATAATT-TTAAATATAAT
*
1453666 TTTTATTTAATTTTAAATATAAT
1 TTTTATATAATTTTAAATATAAT
1453689 T
1 T
1453690 AAAAAATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTATATAATTTTAAATATAAT
Found at i:1456572 original size:12 final size:13
Alignment explanation
Indices: 1456555--1456583 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1456545 TATTCTTATT
1456555 AAAAAACAAA-AG
1 AAAAAACAAAGAG
1456567 AAAAAACAAAGAG
1 AAAAAACAAAGAG
1456580 AAAA
1 AAAA
1456584 GAGAATCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAGAG
Found at i:1462050 original size:223 final size:221
Alignment explanation
Indices: 1461629--1462072 Score: 838
Period size: 223 Copynumber: 2.0 Consensus size: 221
1461619 TCTAGCTCCT
1461629 TACTGAACTAAATCTTTTCAATAGATATAAAAGTTATTTGTGGATTTTTGAAGTAATTCATATAC
1 TACTGAACTAAATCTTTTCAATAGATATAAAAGTTATTTGTGGATTTTTGAAGTAATTCATATAC
1461694 GTCCTTCATCTTCTGGTCCTTTTAGTTACCTTTAGCGTTTTCTTTTTCTTGGATCTATTGAGTTC
66 GTCCTTCATCTTCTGGTCCTTTTAGTTACCTTTAGCGTTTTCTTTTTCTTGGATCTATTGAGTTC
1461759 GTCGTAATTTACGATAAGAAACTTCGAATCTGCATGACTATTTTGCCCGGAATATTTAGAATAAC
131 GTCGTAATTTACGATAAGAAACTTCGAATCTGCATGACTATTTTGCCCGGAATATTTAGAATAAC
1461824 TTTC-AGGAGAA-TGACGAAGCAAAG
196 TTTCAAGGAGAATTGACGAAGCAAAG
1461848 TACTGAACTAAATCTTTTCAATAGATATAAAAGTTATTTTGTTGGATTTATTGAAGTAATTCATA
1 TACTGAACTAAATCTTTTCAATAGATATAAAAGTTA-TTTG-TGGATTT-TTGAAGTAATTCATA
1461913 TACGTCCTTCATCTTCTGGTCCTTTTAGTTACCTTTAGCGTTTTCTTTTTCTTGGATCTATTTGA
63 TACGTCCTTCATCTTCTGGTCCTTTTAGTTACCTTTAGCGTTTTCTTTTTCTTGGATCTA-TTGA
1461978 GTTCGTCGTAATTTACGATAAGAAACTTCGAATCTGCATGACTATTTTGCCCGGAATATTTAGAA
127 GTTCGTCGTAATTTACGATAAGAAACTTCGAATCTGCATGACTATTTTGCCCGGAATATTTAGAA
1462043 TAACTTTCAAGGAGAATTGACGAAGCAAAG
192 TAACTTTCAAGGAGAATTGACGAAGCAAAG
1462073 AAATTGAGAT
Statistics
Matches: 219, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
219 36 0.16
220 4 0.02
221 7 0.03
222 75 0.34
223 77 0.35
224 7 0.03
225 13 0.06
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (221 bp):
TACTGAACTAAATCTTTTCAATAGATATAAAAGTTATTTGTGGATTTTTGAAGTAATTCATATAC
GTCCTTCATCTTCTGGTCCTTTTAGTTACCTTTAGCGTTTTCTTTTTCTTGGATCTATTGAGTTC
GTCGTAATTTACGATAAGAAACTTCGAATCTGCATGACTATTTTGCCCGGAATATTTAGAATAAC
TTTCAAGGAGAATTGACGAAGCAAAG
Found at i:1470128 original size:19 final size:20
Alignment explanation
Indices: 1470099--1470136 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1470089 GAAAAAAATG
*
1470099 TATTATAAAATAAAGATTCT
1 TATTATAAAATAAAAATTCT
1470119 TATT-TAAAATAAAAATTC
1 TATTATAAAATAAAAATTC
1470137 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
TATTATAAAATAAAAATTCT
Found at i:1470589 original size:13 final size:14
Alignment explanation
Indices: 1470560--1470589 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1470550 AATTTTTAAA
1470560 TTAAATTTAATTAT
1 TTAAATTTAATTAT
1470574 TTAAATTTAA-TAT
1 TTAAATTTAATTAT
1470587 TTA
1 TTA
1470590 TTTTACGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATTTAATTAT
Found at i:1476412 original size:2 final size:2
Alignment explanation
Indices: 1476405--1476436 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1476395 ATTCTGCCTT
1476405 TA TA TA TA TA TA T- TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1476437 GCATACGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1476422 original size:13 final size:13
Alignment explanation
Indices: 1476404--1476436 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1476394 CATTCTGCCT
1476404 TTATATATATATA
1 TTATATATATATA
1476417 TTATATATATATA
1 TTATATATATATA
1476430 TTATATA
1 TTATATA
1476437 GCATACGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATATATATA
Found at i:1476423 original size:11 final size:10
Alignment explanation
Indices: 1476405--1476436 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
1476395 ATTCTGCCTT
1476405 TATATATATA
1 TATATATATA
1476415 TAT-TATATA
1 TATATATATA
1476424 TATATAT-TA
1 TATATATATA
1476433 TATA
1 TATA
1476437 GCATACGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATATATATA
Found at i:1476924 original size:2 final size:2
Alignment explanation
Indices: 1476917--1476949 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1476907 ATTCTGCCTT
1476917 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1476950 GTACGAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1477133 original size:517 final size:509
Alignment explanation
Indices: 1476270--1477299 Score: 1767
Period size: 517 Copynumber: 2.0 Consensus size: 509
1476260 CCAGGTGTAC
1476270 GACGCGATCGATCCAAATTAATTAGGTGAAACCTTAGAATGAGAGGACAAAAAAATATTTTCTAA
1 GACGCGATCGATCCAAATTAATTAGGTGAAACCTTAGAATGAGAGGACAAAAAAATATTTTCTAA
1476335 AGTACATATAATAATTTGTAAAATTCAGGTATCAAAAGATATTTAACCCTTAATTTTGTCATTCT
66 AGTACATATAATAATTTGTAAAATTCAGGTATCAAAAGATATTTAACCCTTAATTTTGTCATTCT
1476400 GCCTTTATATATATATATTATATATATATATTATATAGCATACGAATGATTTATGTAAAACATTA
131 GCCTTTATATATATATATTATATATATATATTATATAG-ATACGAATGATTTATGTAAAACATTA
1476465 TCTTACTTGATATTATATCATATATAAGTTATAAAAGATGAATCATCATTATGTTTTTTGAATTT
195 TCTTACTTGATATTATATCATATATAAGTTATAAAAGATGAATCATCATTATGTTTTTTGAATTT
1476530 GAGATAGAAAGTTTAGTTAATTTTTTTTATATAATGTTTATATTTAGATTCTCTCAAACATATAA
260 GAGATAGAAAGTTTAGTTAATTTTTTTTATATAATGTTTATATTTAGATTCTCTCAAACA-ATAA
1476595 ATTACACATATATTCTTAAGTATATTTAAACTTTTATTCTTTGAAATATTGTAATAACAGTTCAG
324 ATTACACA-ATATTCTTAAGTATATTTAAACTTTTATTCTTTGAAATATTGTAATAACAGTTCAG
1476660 CCAAAATCAAGTCGGTAGCTCAGTTAAATTTATATATC-TTAAT-AA-AATA-ATATA-TT-ATC
388 CCAAAATCAAGTCGGTAGCTCAGTTAAATTTATATATCTTTAATAAATAATATATATATTTAATC
1476719 TAGTCGGTATATCTCGTCTGTAATCTAAATTATTATTAAATAAACAATGTACACGTA
453 TAGTCGGTATATCTCGTCTGTAATCTAAATTATTATTAAATAAACAATGTACACGTA
1476776 GACGCGGATCGATCCAAATTAATTAAGGTGAAACCTTAGAATTGAGAGGACAAAAAAATATTTTC
1 GACGC-GATCGATCCAAATTAATT-AGGTGAAACCTTAGAA-TGAGAGGACAAAAAAATATTTTC
1476841 TAAAAGTACATATAATAAATTTGTAAAATTCAGGTATCAAAAGAATATTTAACCCTTAATTTTGT
63 T-AAAGTACATATAAT-AATTTGTAAAATTCAGGTATCAAAAG-ATATTTAACCCTTAATTTTGT
1476906 CATTCTGCCTTTATATATATATA-TATATATATATATATATTATAG-TACGAATGATTTATGTAA
125 CATTCTGCCTTTATATATATATATTATATATATATAT-TA-TATAGATACGAATGATTTATGTAA
1476969 AACATTTATCTTTACTTGATTAATTATATTCATATATAAGTTATAAAAGATGAATCATCATTTAT
188 AACA-TTATC-TTACTTGA-T-ATTATA-TCATATATAAGTTATAAAAGATGAATCATCA-TTAT
*
1477034 GTTTTTTGAATTTGATATAGAAAAGTTTAGTTAATTTTTTTTTATATAATGTTTATATTATTTAG
247 GTTTTTTGAATTTGAGATAG-AAAGTTTAGTTAA-TTTTTTTTATATAATG-TT-TA-TATTTAG
1477099 A-TCTCTCAAAC-ATAAATTACAC-ATATTCTTAAGTATATTTAAACTTTTATTCTTTGAAATAT
307 ATTCTCTCAAACAATAAATTACACAATATTCTTAAGTATATTTAAACTTTTATTCTTTGAAATAT
1477161 TGTAATAACAGTTCAGCCAAAATCAAGTCGGTAGCTCAGTTAAATTTATATATCTTTAATAAAAT
372 TGTAATAACAGTTCAGCCAAAATCAAGTCGGTAGCTCAGTTAAATTTATATATCTTTAAT-AAAT
1477226 AATATATATATTTAATCTAGTCGGTATATCTCGTCTGTAATCTAAATTATTATTAAATAAACAAT
436 AATATATATATTTAATCTAGTCGGTATATCTCGTCTGTAATCTAAATTATTATTAAATAAACAAT
1477291 GTACACGTA
501 GTACACGTA
1477300 ACACTTTAAC
Statistics
Matches: 497, Mismatches: 1, Indels: 34
0.93 0.00 0.06
Matches are distributed among these distances:
506 5 0.01
507 18 0.04
508 16 0.03
509 24 0.05
510 14 0.03
511 61 0.12
512 51 0.10
513 13 0.03
514 1 0.00
515 6 0.01
516 31 0.06
517 117 0.24
518 18 0.04
519 27 0.05
520 4 0.01
521 16 0.03
522 13 0.03
523 2 0.00
524 60 0.12
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (509 bp):
GACGCGATCGATCCAAATTAATTAGGTGAAACCTTAGAATGAGAGGACAAAAAAATATTTTCTAA
AGTACATATAATAATTTGTAAAATTCAGGTATCAAAAGATATTTAACCCTTAATTTTGTCATTCT
GCCTTTATATATATATATTATATATATATATTATATAGATACGAATGATTTATGTAAAACATTAT
CTTACTTGATATTATATCATATATAAGTTATAAAAGATGAATCATCATTATGTTTTTTGAATTTG
AGATAGAAAGTTTAGTTAATTTTTTTTATATAATGTTTATATTTAGATTCTCTCAAACAATAAAT
TACACAATATTCTTAAGTATATTTAAACTTTTATTCTTTGAAATATTGTAATAACAGTTCAGCCA
AAATCAAGTCGGTAGCTCAGTTAAATTTATATATCTTTAATAAATAATATATATATTTAATCTAG
TCGGTATATCTCGTCTGTAATCTAAATTATTATTAAATAAACAATGTACACGTA
Found at i:1478850 original size:31 final size:29
Alignment explanation
Indices: 1478782--1478863 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
1478772 ATACTTTAGG
**
1478782 TACTTATTTTGACTAAAAAAAATTTTGGA
1 TACTTATTTTGACTAAAAAAAATTTTAAA
*
1478811 TACCTATTTTGACTAAAAAGATAATTTTAAA
1 TACTTATTTTGACTAAAAA-A-AATTTTAAA
1478842 TACTTATTTTGA-TAAAAAAAAT
1 TACTTATTTTGACTAAAAAAAAT
1478864 ACTATAAGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.06
29 19 0.40
30 7 0.15
31 18 0.38
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (29 bp):
TACTTATTTTGACTAAAAAAAATTTTAAA
Found at i:1486103 original size:20 final size:20
Alignment explanation
Indices: 1486078--1486117 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1486068 GCACTCTTTT
*
1486078 CCCCTATTTAAGCTTAGAGG
1 CCCCTAATTAAGCTTAGAGG
1486098 CCCCTAATTAAGCTTAGAGG
1 CCCCTAATTAAGCTTAGAGG
1486118 GAGGTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
CCCCTAATTAAGCTTAGAGG
Found at i:1488142 original size:12 final size:12
Alignment explanation
Indices: 1488121--1488150 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1488111 CCCACTTCCA
*
1488121 TCAGAAGCAGAC
1 TCAGACGCAGAC
1488133 TCAGACGCAGAC
1 TCAGACGCAGAC
1488145 TCAGAC
1 TCAGAC
1488151 TTATAGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.30, G:0.23, T:0.10
Consensus pattern (12 bp):
TCAGACGCAGAC
Found at i:1490079 original size:30 final size:30
Alignment explanation
Indices: 1489780--1490062 Score: 557
Period size: 30 Copynumber: 9.4 Consensus size: 30
1489770 TCCGAAGGAC
1489780 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489810 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489840 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489870 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489900 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489930 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489960 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1489990 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1490020 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1490050 CTATCCATAGGTC
1 CTATCCAGAGGTC
1490063 CCGAAGAACC
Statistics
Matches: 252, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 252 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1490102 original size:31 final size:31
Alignment explanation
Indices: 1490048--1490140 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
1490038 GATCCTCGGT
* *
1490048 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
1490079 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
1490110 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
1490141 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:1490322 original size:4 final size:4
Alignment explanation
Indices: 1490313--1490337 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1490303 ATATAACCAT
1490313 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
1490338 GTCATCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:1490504 original size:2 final size:2
Alignment explanation
Indices: 1490497--1490534 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1490487 ACAACTCATA
1490497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1490535 GTAACATGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1491045 original size:22 final size:22
Alignment explanation
Indices: 1491013--1491055 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1491003 TTTTTCATTA
*
1491013 TGGGGGAATCGGTCCCCCCCCT
1 TGGGGGAATCGATCCCCCCCCT
* *
1491035 TGGGGGTATCGATTCCCCCCC
1 TGGGGGAATCGATCCCCCCCC
1491056 AGCATTCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.40, G:0.30, T:0.21
Consensus pattern (22 bp):
TGGGGGAATCGATCCCCCCCCT
Found at i:1494438 original size:30 final size:30
Alignment explanation
Indices: 1494402--1494709 Score: 553
Period size: 30 Copynumber: 10.2 Consensus size: 30
1494392 TCCGAATGAT
1494402 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494432 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494462 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1494492 CTATCCAGAGGTCATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494522 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494552 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494582 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494612 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1494642 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * *
1494672 CTATCCATAGGTCCTGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
1494703 CTATCCA
1 CTATCCA
1494710 TATGTTCCTT
Statistics
Matches: 270, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
30 261 0.97
31 9 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1494945 original size:4 final size:4
Alignment explanation
Indices: 1494936--1494960 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1494926 ATATAACCAT
1494936 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
1494961 GTCATCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Done.