Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_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: 2853300
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 7 of 14
Found at i:1170523 original size:20 final size:20
Alignment explanation
Indices: 1170498--1170553 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1170488 GAAATTTATT
1170498 GTTGCAAATTTGA-TTATCGC
1 GTTGCAAATTTGACTTAT-GC
*
1170518 GTTGCAAATTTGACTTATGT
1 GTTGCAAATTTGACTTATGC
*
1170538 GTTGCGAATTTGACTT
1 GTTGCAAATTTGACTT
1170554 CTGTGTTGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.43
Consensus pattern (20 bp):
GTTGCAAATTTGACTTATGC
Found at i:1170549 original size:40 final size:39
Alignment explanation
Indices: 1170477--1170670 Score: 148
Period size: 40 Copynumber: 4.8 Consensus size: 39
1170467 TCGAAAATCA
* * *
1170477 GTTGCGAATTTGAAATTTAT-TGTTGCAAATTTGATTATCGC
1 GTTGCGAATTTG--ACTTATGTGTTGCGAATTTGACT-TCGC
* *
1170518 GTTGCAAATTTGACTTATGTGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTGACTTC-GC
** * *
1170558 GTTGCG-ATTT-ACAAATTCGCGTTACG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGACTTA-T-GTGTTGCGAATTTGAC---TTCGC
1170598 GTTGCGAATTTGACTTCA-GTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTT-ATGTGTTGCGAATTTGACT-TCGC
* *
1170638 TTTGCGAATTTGACTTCTGTGTTGCGAATTTGA
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTGA
1170671 ATTCTGTGAT
Statistics
Matches: 122, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
38 5 0.04
39 17 0.14
40 73 0.60
41 22 0.18
42 4 0.03
43 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (39 bp):
GTTGCGAATTTGACTTATGTGTTGCGAATTTGACTTCGC
Found at i:1170558 original size:20 final size:20
Alignment explanation
Indices: 1170518--1170684 Score: 134
Period size: 20 Copynumber: 8.3 Consensus size: 20
1170508 TGATTATCGC
* *
1170518 GTTGCAAATTTGACTTATGT
1 GTTGCGAATTTGACTTCTGT
1170538 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
*
1170558 GTTGCG-ATTT-ACAAATTC-GC
1 GTTGCGAATTTGAC---TTCTGT
* *
1170578 GTTACG-ATTT-ACAGATTC-GC
1 GTTGCGAATTTGAC---TTCTGT
*
1170598 GTTGCGAATTTGACTTCAGT
1 GTTGCGAATTTGACTTCTGT
1170618 GTTGCGAATTTGACTATC-GCT
1 GTTGCGAATTTGACT-TCTG-T
1170639 -TTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
*
1170658 GTTGCGAATTTGAATTCTGT
1 GTTGCGAATTTGACTTCTGT
*
1170678 GATGCGA
1 GTTGCGA
1170685 TTTACAAATT
Statistics
Matches: 128, Mismatches: 9, Indels: 20
0.82 0.06 0.13
Matches are distributed among these distances:
18 2 0.02
19 10 0.08
20 104 0.81
21 10 0.08
22 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:1170580 original size:60 final size:60
Alignment explanation
Indices: 1170514--1170709 Score: 229
Period size: 60 Copynumber: 3.3 Consensus size: 60
1170504 AATTTGATTA
*
1170514 TCGCGTTGCAAATTTGACTTATGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAAT
* ** * * *
1170574 TCGCGTTACG-ATTT-ACAGATTCGCGTTGCGAATTTGACTTCAGTGTTGCGAATTTGAC-TA-
1 TCGCGTTGCGAATTTGACTTA-T-GTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAAAT
* * * *
1170634 TCGCTTTGCGAATTTGACTTCTGTGTTGCGAATTTGAATTCTGTGATGCGATTTACAAAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAAT
1170694 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
1170710 GAAAATTGCA
Statistics
Matches: 110, Mismatches: 18, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
58 5 0.05
59 10 0.09
60 81 0.74
61 10 0.09
62 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (60 bp):
TCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAAT
Found at i:1170636 original size:120 final size:121
Alignment explanation
Indices: 1170477--1170700 Score: 351
Period size: 120 Copynumber: 1.9 Consensus size: 121
1170467 TCGAAAATCA
* * *
1170477 GTTGCGAATTTGAAATTTATTGTTGCAAATTTGATTATCGCGTTGCAAATTTGACTTATGTGTTG
1 GTTGCGAATTTGAAATTCAGTGTTGCAAATTTGACTATCGCGTTGCAAATTTGACTTATGTGTTG
* *
1170542 CGAATTTGACTTCTGTGTTGCGATTTACAAATTCGCGTTACGATTTACAGATTCGC
66 CGAATTTGAATTCTGTGATGCGATTTACAAATTCGCGTTACGATTTACAGATTCGC
* * * * *
1170598 GTTGCGAATTTG-ACTTCAGTGTTGCGAATTTGACTATCGCTTTGCGAATTTGACTTCTGTGTTG
1 GTTGCGAATTTGAAATTCAGTGTTGCAAATTTGACTATCGCGTTGCAAATTTGACTTATGTGTTG
1170662 CGAATTTGAATTCTGTGATGCGATTTACAAATTCGCGTT
66 CGAATTTGAATTCTGTGATGCGATTTACAAATTCGCGTT
1170701 GCGAATTTGG
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
120 81 0.87
121 12 0.13
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (121 bp):
GTTGCGAATTTGAAATTCAGTGTTGCAAATTTGACTATCGCGTTGCAAATTTGACTTATGTGTTG
CGAATTTGAATTCTGTGATGCGATTTACAAATTCGCGTTACGATTTACAGATTCGC
Found at i:1170703 original size:20 final size:20
Alignment explanation
Indices: 1170680--1170745 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
1170670 AATTCTGTGA
1170680 TGCGATTTACAAATTCGCGT
1 TGCGATTTACAAATTCGCGT
**
1170700 TGCGAATTTGGA-AAATT-GCAA
1 TGCG-ATTT--ACAAATTCGCGT
* *
1170721 TGCCATTTACATATTCGCGT
1 TGCGATTTACAAATTCGCGT
1170741 TGCGA
1 TGCGA
1170746 ATTTGGAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 14 0.41
21 9 0.26
22 5 0.15
23 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (20 bp):
TGCGATTTACAAATTCGCGT
Found at i:1172946 original size:24 final size:23
Alignment explanation
Indices: 1172882--1172946 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
1172872 ATTATTTAAT
1172882 TAAATAATTATAAAAATATACAAAA
1 TAAATAA--ATAAAAATATACAAAA
* * *
1172907 TAAATAAATAACAATATTATAATA
1 TAAATAAATAAAAATA-TACAAAA
1172931 TAAA-AAATTAAAAATA
1 TAAATAAA-TAAAAATA
1172947 AATTCGCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.32
24 16 0.47
25 7 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAATAAATAAAAATATACAAAA
Found at i:1174909 original size:31 final size:32
Alignment explanation
Indices: 1174838--1174919 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
1174828 TCCCCCTTCC
*
1174838 ATGAAGAAGACACCGAGTACTCCACCCCAAAT
1 ATGAAGAAGACGCCGAGTACTCCACCCCAAAT
* * *
1174870 GTGAAGAAGACGCCGAGTACTCCAGCTC-AAT
1 ATGAAGAAGACGCCGAGTACTCCACCCCAAAT
*
1174901 ATGAAGAAGACGCCAAGTA
1 ATGAAGAAGACGCCGAGTA
1174920 TTCCTCTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 20 0.45
32 24 0.55
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (32 bp):
ATGAAGAAGACGCCGAGTACTCCACCCCAAAT
Found at i:1175713 original size:20 final size:21
Alignment explanation
Indices: 1175680--1175744 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
1175670 TAATTATGTG
1175680 ATTTTATGTTTTAATTTCAATT
1 ATTTTA-GTTTTAATTTCAATT
* * *
1175702 ATTTTA-TTTTAATCTCTATA
1 ATTTTAGTTTTAATTTCAATT
*
1175722 ATTTTAGTTTTTACTTTCAATT
1 ATTTTAG-TTTTAATTTCAATT
1175744 A
1 A
1175745 ATATGCTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 17 0.50
22 17 0.50
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTAGTTTTAATTTCAATT
Found at i:1186392 original size:34 final size:35
Alignment explanation
Indices: 1186335--1186403 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
1186325 AGGCGAGTAC
*
1186335 TCTTACGTCGGATACTCATAAAATTAGGGTATCCA
1 TCTTAAGTCGGATACTCATAAAATTAGGGTATCCA
* *
1186370 TCTTAAGTCGG-TGCTCATAAAATTGGGGTATCCA
1 TCTTAAGTCGGATACTCATAAAATTAGGGTATCCA
1186404 CAATTTTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 21 0.68
35 10 0.32
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (35 bp):
TCTTAAGTCGGATACTCATAAAATTAGGGTATCCA
Found at i:1186743 original size:21 final size:21
Alignment explanation
Indices: 1186713--1186787 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
1186703 GATTTACATA
*
1186713 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
* *
1186734 TTCACATTGCGATAGTTGAAG
1 TTCGCATTGCGATAGTCGAAG
1186755 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
1186776 TTCGCGTTGCGA
1 TTCGCATTGCGA
1186788 ATCTGGAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:1187086 original size:22 final size:23
Alignment explanation
Indices: 1187028--1187086 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
1187018 ATAACTTGGA
1187028 TCTCTGCAACGG-TTCCAATTTT
1 TCTCTGCAACGGTTTCCAATTTT
* *
1187050 TCTCTGCAGCGGTTTCC-TTTTT
1 TCTCTGCAACGGTTTCCAATTTT
1187072 TCTCTGCAACGGTTT
1 TCTCTGCAACGGTTT
1187087 TCTTCCTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (23 bp):
TCTCTGCAACGGTTTCCAATTTT
Found at i:1187449 original size:20 final size:20
Alignment explanation
Indices: 1187426--1187493 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
1187416 AATCTGTAAG
*
1187426 TCGCAACATAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
1187446 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
1187466 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1187486 TCGCAACA
1 TCGCAACA
1187494 GGTTTTAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 39 0.93
21 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:1187684 original size:16 final size:15
Alignment explanation
Indices: 1187649--1187687 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1187639 TCCCCATTTC
*
1187649 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
1187664 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
1187680 TAATTTTT
1 TAATTTTT
1187688 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:1188450 original size:24 final size:24
Alignment explanation
Indices: 1188423--1188476 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1188413 GTACTCAAAA
1188423 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1188447 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1188471 TTTGAT
1 TTTGAT
1188477 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1190758 original size:18 final size:18
Alignment explanation
Indices: 1190735--1190771 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1190725 CAAGCAAAAG
*
1190735 AAAATCAAAATCGCAATC
1 AAAATCAAAATCCCAATC
1190753 AAAATCAAAATCCCAATC
1 AAAATCAAAATCCCAATC
1190771 A
1 A
1190772 CAACCGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.24, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAATCAAAATCCCAATC
Found at i:1191013 original size:127 final size:127
Alignment explanation
Indices: 1190787--1191042 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
1190777 GGCTTCCCCT
1190787 TTTGAGACTTATTAGCTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATTTTATGTGTG
1 TTTGAGACTTATTAGCTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATTTTATGTGTG
1190852 ACTGCATACATTTTCAGTTAGAAATTCATTAGTAACTTGAGTTTGAACATTGCTATGATCTG
66 ACTGCATACATTTTCAGTTAGAAATTCATTAGTAACTTGAGTTTGAACATTGCTATGATCTG
1190914 TTTGAGACTTATTAGCTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATTTTATGTGTG
1 TTTGAGACTTATTAGCTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATTTTATGTGTG
1190979 ACTGCATACATTTTCAGTTAGAAATTCATTAGTAACTTGAGTTTGAACATTGCTATGATCTG
66 ACTGCATACATTTTCAGTTAGAAATTCATTAGTAACTTGAGTTTGAACATTGCTATGATCTG
1191041 TT
1 TT
1191043 CAGTTGTTAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (127 bp):
TTTGAGACTTATTAGCTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATTTTATGTGTG
ACTGCATACATTTTCAGTTAGAAATTCATTAGTAACTTGAGTTTGAACATTGCTATGATCTG
Found at i:1191213 original size:20 final size:20
Alignment explanation
Indices: 1191185--1191233 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1191175 TGTTGCGATA
1191185 AACGCGAAAGTCAAATTCGC
1 AACGCGAAAGTCAAATTCGC
*
1191205 AACGTGAAAGTCAAATTCGC
1 AACGCGAAAGTCAAATTCGC
1191225 AACGCGAAA
1 AACGCGAAA
1191234 TAAGCGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.14
Consensus pattern (20 bp):
AACGCGAAAGTCAAATTCGC
Found at i:1191296 original size:20 final size:20
Alignment explanation
Indices: 1191267--1191317 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1191257 GCAACGCTTA
1191267 TTTCGCGTTGCGAATTT-ACC
1 TTTCGCGTTGCGAATTTGA-C
*
1191287 TTTCGAGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
1191307 TTTCGCGTTGC
1 TTTCGCGTTGC
1191318 AAAAGTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:1191411 original size:14 final size:13
Alignment explanation
Indices: 1191392--1191441 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
1191382 AATCAATTAA
1191392 ACATTATTGTGGGT
1 ACATTATT-TGGGT
*
1191406 ACATTATTT--GA
1 ACATTATTTGGGT
*
1191417 ACATTGTTATGGGT
1 ACATTATT-TGGGT
1191431 ACATTATTTGG
1 ACATTATTTGG
1191442 AAAATAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.28
12 1 0.03
13 4 0.14
14 16 0.55
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (13 bp):
ACATTATTTGGGT
Found at i:1191419 original size:25 final size:25
Alignment explanation
Indices: 1191391--1191440 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1191381 AAATCAATTA
*
1191391 AACATTATTGTGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
*
1191416 AACATTGTTATGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
1191441 GAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTATTATGGGTACATTATTTG
Found at i:1191869 original size:24 final size:24
Alignment explanation
Indices: 1191818--1191870 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1191808 TTTCATATGT
* * *
1191818 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1191842 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTAAATATA
1191866 AATTT
1 AATTT
1191871 CGGTTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1193011 original size:66 final size:64
Alignment explanation
Indices: 1192940--1193083 Score: 243
Period size: 66 Copynumber: 2.2 Consensus size: 64
1192930 AATTTAAAAC
1192940 AACAAATCAACTTTTACAAATCAATTAAACAAGTAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAG-AAAAAAATAATTCTTATTTACACATC-AATT
1193005 A
64 A
* * *
1193006 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATCAATTA
1193070 AACAAATCAACTTT
1 AACAAATCAACTTT
1193084 CAATGTAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 19 0.25
65 23 0.31
66 33 0.44
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATCAATTA
Found at i:1193234 original size:24 final size:24
Alignment explanation
Indices: 1193207--1193259 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
1193197 TTTGCTCAAA
1193207 CAACACTTTCTACACATCTAAAAC
1 CAACACTTTCTACACATCTAAAAC
1193231 CAACACTTTCTACACATCTAAAAC
1 CAACACTTTCTACACATCTAAAAC
1193255 CAACA
1 CAACA
1193260 AACAACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (24 bp):
CAACACTTTCTACACATCTAAAAC
Found at i:1194510 original size:21 final size:21
Alignment explanation
Indices: 1194486--1194584 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
1194476 GCGAGCGAGA
*
1194486 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
1194507 CCTCTTGAACGGTGGGA-GGG
1 CCTCTTGAACGATGAGAGGGG
*
1194527 CCTTCTTCG-ATGATGAGAGGGG
1 CC-TCTT-GAACGATGAGAGGGG
* ***
1194549 CCTCTTGAACGATAAGAGTCA
1 CCTCTTGAACGATGAGAGGGG
*
1194570 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
1194585 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
20 6 0.10
21 49 0.80
22 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:1194582 original size:42 final size:43
Alignment explanation
Indices: 1194485--1194584 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
1194475 GGCGAGCGAG
* * **
1194485 ACCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGC
1 ACCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAGAGGGC
* * *
1194528 -CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAAGA-GTC
1 ACCTCTT-GAATGATGACAGGGGCCTCTTGAACGATAAGAGGGC
1194569 ACCTCTTGAATGATGA
1 ACCTCTTGAATGATGA
1194585 TAGGTGCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
41 3 0.07
42 42 0.91
43 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
ACCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAGAGGGC
Found at i:1195038 original size:42 final size:42
Alignment explanation
Indices: 1194944--1195041 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
1194934 TAAAAAATCC
* *
1194944 ACCTCACCACGTAAAGACCGAACCTCATCACGCCATACACCA
1 ACCTCATCACGTAAAGACCGAACCTCATCACGCCAAACACCA
*** * *
1194986 TTATCTTCACGTAAAGTACCG-ACCTCATGACG-CAAAGCACCA
1 ACCTCATCACGTAAAG-ACCGAACCTCATCACGCCAAA-CACCA
1195028 ACCTCATCACGTAA
1 ACCTCATCACGTAA
1195042 CTCCCCTAAC
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
41 3 0.07
42 36 0.84
43 4 0.09
ACGTcount: A:0.35, C:0.37, G:0.11, T:0.17
Consensus pattern (42 bp):
ACCTCATCACGTAAAGACCGAACCTCATCACGCCAAACACCA
Found at i:1199067 original size:18 final size:19
Alignment explanation
Indices: 1199031--1199070 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1199021 TAATAATCAG
*
1199031 ATATTCCAAATGCATAACAT
1 ATATTCCAAAT-CACAACAT
1199051 ATATTCCAAAT-ACAACAT
1 ATATTCCAAATCACAACAT
1199069 AT
1 AT
1199071 CAACATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (19 bp):
ATATTCCAAATCACAACAT
Found at i:1202122 original size:15 final size:14
Alignment explanation
Indices: 1202102--1202142 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
1202092 ATACTATGAT
1202102 ATATAAAATATATCA
1 ATATAAAATATAT-A
1202117 ATAT-AAAT-TATA
1 ATATAAAATATATA
1202129 ATA-AAAATATATA
1 ATATAAAATATATA
1202142 A
1 A
1202143 AAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 4 0.17
15 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAAAATATATA
Found at i:1202530 original size:24 final size:24
Alignment explanation
Indices: 1202482--1202528 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
1202472 TATGAATTTA
1202482 AATTATAATAAAAAATAAAAATAT
1 AATTATAATAAAAAATAAAAATAT
1202506 AATTAT-A-AAAAAATAAAAATAT
1 AATTATAATAAAAAATAAAAATAT
1202528 A
1 A
1202529 TATTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
AATTATAATAAAAAATAAAAATAT
Found at i:1205044 original size:6 final size:6
Alignment explanation
Indices: 1205033--1205231 Score: 272
Period size: 6 Copynumber: 33.2 Consensus size: 6
1205023 TCGTCTCGGC
* * * * **
1205033 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGAGG TCAAGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
* * * * * * *
1205081 TCGAGG TCGAGG TCGAGG TCGAGG TCGAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
1205129 TCGTGG TCGTGG TCGTGG TCGAGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1205177 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1205225 TCGTGG T
1 TCGTGG T
1205232 AATACGTGTC
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 187 1.00
ACGTcount: A:0.07, C:0.17, G:0.49, T:0.27
Consensus pattern (6 bp):
TCGTGG
Found at i:1205623 original size:13 final size:13
Alignment explanation
Indices: 1205605--1205636 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1205595 TTCTGAGTCA
1205605 GGTTCATCTAGAC
1 GGTTCATCTAGAC
1205618 GGTTCATCTAGAC
1 GGTTCATCTAGAC
*
1205631 GTTTCA
1 GGTTCA
1205637 GCTGTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (13 bp):
GGTTCATCTAGAC
Found at i:1211128 original size:5 final size:5
Alignment explanation
Indices: 1211109--1211152 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
1211099 GTCCGTCCGT
* * *
1211109 CTCGT CTCGG CTCGG CTCGG CACGG CTCGG TTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
1211153 TGGTCGAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.02, C:0.39, G:0.36, T:0.23
Consensus pattern (5 bp):
CTCGG
Found at i:1211165 original size:6 final size:6
Alignment explanation
Indices: 1211150--1211222 Score: 110
Period size: 6 Copynumber: 12.2 Consensus size: 6
1211140 TCGGCTCGGC
* * * *
1211150 TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1211198 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
1211223 AATACGTGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.29
Consensus pattern (6 bp):
TCGTGG
Found at i:1211186 original size:30 final size:30
Alignment explanation
Indices: 1211150--1211218 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
1211140 TCGGCTCGGC
1211150 TCGTGGTCGAGGTCGAGGTCGTGGTCGTGG
1 TCGTGGTCGAGGTCGAGGTCGTGGTCGTGG
1211180 TCGTGGTCGAGGTCGAGGTCGTGGTCGTGG
1 TCGTGGTCGAGGTCGAGGTCGTGGTCGTGG
1211210 TCGTGGTCG
1 TCGTGGTCG
1211219 TGGTAATACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.06, C:0.17, G:0.49, T:0.28
Consensus pattern (30 bp):
TCGTGGTCGAGGTCGAGGTCGTGGTCGTGG
Found at i:1215363 original size:3 final size:3
Alignment explanation
Indices: 1215357--1215442 Score: 82
Period size: 3 Copynumber: 28.0 Consensus size: 3
1215347 CATTTTAATG
* * * * * *
1215357 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TAA TTA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1215405 TTA TTA TTA TTA TTA ATA TATA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
1215443 CAAAACCCGG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1215436 original size:17 final size:16
Alignment explanation
Indices: 1215364--1215440 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
1215354 ATGTTATTAT
*
1215364 TATTATTATTATTATA
1 TATTATTATTAATATA
1215380 -ATTATTA-TAAT-TA
1 TATTATTATTAATATA
* * *
1215393 TAATAATAATAAT-TA
1 TATTATTATTAATATA
1215408 TTATTATTATTAATATA
1 -TATTATTATTAATATA
1215425 TATTATTTATTAATAT
1 TATTA-TTATTAATAT
1215441 TACAAAACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.04
14 8 0.16
15 13 0.26
16 15 0.30
17 12 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTATTAATATA
Found at i:1220887 original size:15 final size:15
Alignment explanation
Indices: 1220867--1220898 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1220857 ATCAATACCT
1220867 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
1220882 TTTTGCATACATTCA
1 TTTTGCATACATGCA
1220897 TT
1 TT
1220899 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:1227682 original size:10 final size:10
Alignment explanation
Indices: 1227663--1227744 Score: 77
Period size: 9 Copynumber: 8.5 Consensus size: 10
1227653 ATGTTTGAAG
1227663 AAAA-AAAGA
1 AAAAGAAAGA
1227672 AAAAGAAAGA
1 AAAAGAAAGA
* *
1227682 AAAGGAAAAA
1 AAAAGAAAGA
1227692 GAAAAGAAA-A
1 -AAAAGAAAGA
1227702 AAAAGAAA-A
1 AAAAGAAAGA
1227711 AAAAGAAA-A
1 AAAAGAAAGA
1227720 AAAA-AAGAGA
1 AAAAGAA-AGA
1227730 AAAA-AGAAGA
1 AAAAGA-AAGA
1227740 AAAAG
1 AAAAG
1227745 GGGGGGGGTC
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
8 2 0.03
9 27 0.42
10 27 0.42
11 8 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:1227691 original size:7 final size:6
Alignment explanation
Indices: 1227665--1227744 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
1227655 GTTTGAAGAA
* *
1227665 AAAAAG AAAAAG --AAAG AAAAGG AAAAAG -AAAAG AAAAA- AAAGAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG
*
1227710 AAAAAG AAAAA- AAAAAG AGAAAA- AAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG
1227745 GGGGGGGGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.07
5 16 0.26
6 34 0.56
7 7 0.11
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1227693 original size:22 final size:21
Alignment explanation
Indices: 1227665--1227733 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
1227655 GTTTGAAGAA
1227665 AAAAAGAAAAAGAAAGAAAAGG
1 AAAAAGAAAAAGAAA-AAAAGG
*
1227687 AAAAAG-AAAAGAAAAAAAAG
1 AAAAAGAAAAAGAAAAAAAGG
*
1227707 AAAAA-AAAGAAAAAAAAAAGAG
1 AAAAAGAAA-AAGAAAAAAAG-G
1227729 AAAAA
1 AAAAA
1227734 AGAAGAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.29
21 17 0.41
22 12 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAAAAGG
Found at i:1227713 original size:29 final size:29
Alignment explanation
Indices: 1227660--1227745 Score: 111
Period size: 29 Copynumber: 2.9 Consensus size: 29
1227650 ATTATGTTTG
1227660 AAGAAAA-AAAGAAAAAGAAAGAAAAGGAAA
1 AAGAAAAGAAA-AAAAAGAAA-AAAAGGAAA
*
1227690 AAGAAAAGAAAAAAAAGAAAAAAAAGAAA
1 AAGAAAAGAAAAAAAAGAAAAAAAGGAAA
* *
1227719 AAAAAAAGAGAAAAAAGAAGAAAAAGG
1 AAGAAAAGAAAAAAAAGAA-AAAAAGG
1227746 GGGGGGGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 25 0.50
30 22 0.44
31 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (29 bp):
AAGAAAAGAAAAAAAAGAAAAAAAGGAAA
Found at i:1229090 original size:83 final size:84
Alignment explanation
Indices: 1228894--1229456 Score: 907
Period size: 83 Copynumber: 6.6 Consensus size: 84
1228884 GAACAAATGT
*
1228894 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
*
1228959 TTATTGAATTTGGAAGAGG
66 TTATTGAATTTGAAAGAGG
1228978 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
*
1229042 TTATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGAGG
*
1229061 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
* *
1229126 TCATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGAGG
1229145 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
1229209 TTATTGAATTTGAAAGAGG
66 TTATTGAATTTGAAAGAGG
1229228 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
* *
1229292 TCATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGAGG
* ** *
1229311 AATTTTATAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T--A--A-
*
1229376 AGAACCAGTTATTGAATTTGGAAGAGG
59 A-AACCAGTTATTGAATTTGAAAGAGG
*
1229403 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1229457 ATATGAAACC
Statistics
Matches: 447, Mismatches: 22, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
83 236 0.53
84 137 0.31
85 1 0.00
90 1 0.00
91 1 0.00
92 71 0.16
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (84 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
TTATTGAATTTGAAAGAGG
Found at i:1229170 original size:167 final size:167
Alignment explanation
Indices: 1228894--1229456 Score: 939
Period size: 167 Copynumber: 3.3 Consensus size: 167
1228884 GAACAAATGT
1228894 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* * *
1228959 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
1229024 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
1229061 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1229126 TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1229191 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
*
1229228 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* ** *
1229292 TCATTGAATTTGAAAGATGAATTTTATAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
1229357 CTGGTTTGGTATGAACCACAGAACCAGTTATTGAATTTGGAAGAGG
131 CTGGTTTGG--T-----A-A-AACCAGTTATTGAATTTGAAAGAGG
*
1229403 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1229457 ATATGAAACC
Statistics
Matches: 376, Mismatches: 11, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
166 77 0.20
167 219 0.58
168 1 0.00
173 1 0.00
174 1 0.00
175 77 0.20
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (167 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
Found at i:1229336 original size:250 final size:256
Alignment explanation
Indices: 1228894--1229456 Score: 949
Period size: 250 Copynumber: 2.2 Consensus size: 256
1228884 GAACAAATGT
1228894 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
1228959 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* * *
1229024 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTG
131 CTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATGAATGTGATAATAGCATCTTCTGGAAGTG
*
1229089 TTCTTTGAGTTATCTGATCTGGTTTGG-T-A-A-A-AACCAATCATTGAATTTGAAAGATG
196 TTCTTTGAGTTATCTGATCTGGTTTGGATAACACAGAACCAATCATTGAATTTGAAAGAGG
*
1229145 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1229209 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* *
1229274 CTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATGAATTTTATAATAGCATCTTCTGGAAGTG
131 CTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATGAATGTGATAATAGCATCTTCTGGAAGTG
* * *
1229339 TTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAGTTATTGAATTTGGAAGAGG
196 TTCTTTGAGTTATCTGATCTGGTTTGG-AT-AA-CACAGAACCAATCATTGAATTTGAAAGAGG
*
1229403 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1229457 ATATGAAACC
Statistics
Matches: 292, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
250 158 0.54
251 56 0.19
252 1 0.00
254 1 0.00
256 1 0.00
257 1 0.00
258 74 0.25
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (256 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATGAATGTGATAATAGCATCTTCTGGAAGTG
TTCTTTGAGTTATCTGATCTGGTTTGGATAACACAGAACCAATCATTGAATTTGAAAGAGG
Found at i:1230494 original size:112 final size:112
Alignment explanation
Indices: 1230292--1230849 Score: 754
Period size: 112 Copynumber: 5.0 Consensus size: 112
1230282 GCAAAGATTT
* * *
1230292 AAATTCATCACTTGATGGATCAGTTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGGTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
1230357 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1230404 AAATCCATCACTTGATGGGTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGGTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
1230469 AGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * ***
1230516 AAATCTATCACTTGATGGATTAAAATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACTT
1 AAATCCATCACTTGATGGGTCAGCTTTTCCAGAG-A-AGTTCATAATGAGAAGAACTCA-T-C-T
* * *
1230580 GAAGAAGGATGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGTTC
61 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * *
1230632 AAATCTATCACTTGAT-GGACTATCTTTTCCAGTTTG-AGTTCATAATGAGAAGAACTCATCTGA
1 AAATCCATCACTTGATGGGTC-AGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGA
* *
1230695 AGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTC
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1230745 AAATCCATCACTTGATGGGTCAG-TTTTCCCAGAGAAGTTCATAATGAGAAGAACTCATC---AG
1 AAATCCATCACTTGATGGGTCAGCTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** *
1230806 GA-GAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
1230850 AATGACTCTA
Statistics
Matches: 400, Mismatches: 34, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
108 37 0.09
109 3 0.01
111 2 0.00
112 162 0.41
113 90 0.22
114 5 0.01
115 3 0.01
116 97 0.24
119 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (112 bp):
AAATCCATCACTTGATGGGTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:1230814 original size:228 final size:224
Alignment explanation
Indices: 1230292--1230849 Score: 756
Period size: 228 Copynumber: 2.5 Consensus size: 224
1230282 GCAAAGATTT
*
1230292 AAATTCATCACTTGATGGATCAGTTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATC-TGAAG
1 AAATCCATCACTTGATGGATCAG-TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCATGAAG
* *
1230356 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATG
65 AAGGAAGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
* * *
1230421 GGTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCAT
130 GCTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1230486 AATGAGAAGAATTTGTTCAACCTTTTGCTC
195 AATGAGAAGAATTTGTTCAACCTTTTGCTC
* * ** *
1230516 AAATCTATCACTTGATGGATTAAAATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACTT
1 AAATCCATCACTTGATGGA-TCAGTTTTCCAGAG-A-AGTTCATAATGAGAAGAACTCA-T-CAT
* * *
1230580 GAAGAAGGATGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGTTCAAATCTATCACTT
61 GAAGAAGGAAGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT
* *
1230645 GATGGACT-ATCTTTTCCAGTTTG-AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
126 GATGG-CTCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
*
1230708 AGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTC
188 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
1230745 AAATCCATCACTTGATGGGTCAGTTTTCCCAGAGAAGTTCATAATGAGAAGAACTCATCA-G--G
1 AAATCCATCACTTGATGGATCAGTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCATGAAG
** ** *
1230807 -A-GAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
65 AAGGAAGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTG
1230850 AATGACTCTA
Statistics
Matches: 295, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
221 36 0.12
222 1 0.00
223 2 0.01
224 25 0.08
225 25 0.08
226 2 0.01
227 2 0.01
228 103 0.35
229 97 0.33
230 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (224 bp):
AAATCCATCACTTGATGGATCAGTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCATGAAGA
AGGAAGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
CTCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATA
ATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:1230831 original size:17 final size:17
Alignment explanation
Indices: 1230777--1230832 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1230767 GTTTTCCCAG
*
1230777 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATAAGA
* *
1230794 AGAA-CTCATCAGGAGAAGA
1 AGAAGTTCAT-A--ATAAGA
1230813 AGAAGTTCATAATAAGA
1 AGAAGTTCATAATAAGA
1230830 AGA
1 AGA
1230833 GCTTATTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 4 0.13
17 13 0.43
19 9 0.30
20 4 0.13
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (17 bp):
AGAAGTTCATAATAAGA
Found at i:1231079 original size:3 final size:3
Alignment explanation
Indices: 1231073--1231149 Score: 100
Period size: 3 Copynumber: 25.0 Consensus size: 3
1231063 CATTTTAATG
* *
1231073 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1231121 TTA TTA ATA TATA TTA TTTA TTA ATA TTA
1 TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
1231150 CAAAACCCGG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1232576 original size:13 final size:13
Alignment explanation
Indices: 1232528--1232581 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
1232518 ATATATAATA
*
1232528 AATAATTATTTAT
1 AATAATTATTTTT
1232541 -AT-A-TATTTTT
1 AATAATTATTTTT
1232551 AATAAGTTA-TTTT
1 AATAA-TTATTTTT
1232564 AATAATTATTTTT
1 AATAATTATTTTT
1232577 CAATA
1 -AATA
1232582 TCGAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 6 0.18
13 13 0.38
14 6 0.18
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
AATAATTATTTTT
Found at i:1235044 original size:65 final size:65
Alignment explanation
Indices: 1234920--1235153 Score: 194
Period size: 64 Copynumber: 3.6 Consensus size: 65
1234910 TTTATCAAAG
* * * * * ** *
1234920 TGATGCACCGATGCACCGAT-CCATGCATCGATGCACCATGAATTAAATTG-AACACCGAATGCA
1 TGATGCATCGATGCACC-ATACCATGCACCGATGCACTAAGGA-TATTTTGAAACATCGAATGCA
1234983 TT
64 TT
* *
1234985 TCATGCATTGATGCA-CATACCATGCACCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTAAGGATATTT-TG-AAACATCGAATGCA
1235048 TT
64 TT
* * ** * * *
1235050 TGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTGAAACATCAAATGCACT
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
* * *
1235114 TGATGCATCGATGCAGTCTTA--GTGCACCGATGCACTAAGG
1 TGATGCATCGATGCA-CCATACCATGCACCGATGCACTAAGG
1235154 GTTCAACGGT
Statistics
Matches: 135, Mismatches: 26, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 63 0.47
65 61 0.45
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (65 bp):
TGATGCATCGATGCACCATACCATGCACCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
Found at i:1235127 original size:64 final size:64
Alignment explanation
Indices: 1234920--1235128 Score: 201
Period size: 65 Copynumber: 3.2 Consensus size: 64
1234910 TTTATCAAAG
* * * ** *
1234920 TGATGCACCGATGCACCGATCCATGCATCGATGCAC-CATGAATTAAATTG-AACACCGAATGCA
1 TGATGCATCGATGCACC-AACCATGCATCGATGCACTC-TGGA-TATTTTGAAACATCGAATGCA
1234983 TT
63 TT
* * * **
1234985 TCATGCATTGATGCA-CATACCATGCACCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCA
1235048 TT
63 TT
* * * *
1235050 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCAAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
1235114 TGATGCATCGATGCA
1 TGATGCATCGATGCA
1235129 GTCTTAGTGC
Statistics
Matches: 117, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 47 0.40
65 60 0.51
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
Found at i:1248062 original size:24 final size:24
Alignment explanation
Indices: 1248035--1248082 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1248025 TGGGAGGAGA
1248035 AGGGCGAGAAAACGAGGAAGAATT
1 AGGGCGAGAAAACGAGGAAGAATT
* *
1248059 AGGGTGAGAACACGAGGAAGAATT
1 AGGGCGAGAAAACGAGGAAGAATT
1248083 GGGGGAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.38, T:0.10
Consensus pattern (24 bp):
AGGGCGAGAAAACGAGGAAGAATT
Found at i:1248092 original size:24 final size:24
Alignment explanation
Indices: 1248035--1248093 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1248025 TGGGAGGAGA
*
1248035 AGGGCGAGAAAACGAGGAAGAATT
1 AGGGGGAGAAAACGAGGAAGAATT
* *
1248059 AGGGTGAGAACACGAGGAAGAATT
1 AGGGGGAGAAAACGAGGAAGAATT
1248083 -GGGGGAAGAAA
1 AGGGGG-AGAAA
1248094 TGCGTATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.08
Consensus pattern (24 bp):
AGGGGGAGAAAACGAGGAAGAATT
Found at i:1253186 original size:24 final size:24
Alignment explanation
Indices: 1253129--1253176 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1253119 TGGGAGGAGA
1253129 AGGGCGAGAAAACGAGGAAGAATT
1 AGGGCGAGAAAACGAGGAAGAATT
*
1253153 AGGGCGAGAACACGAGGAAGAATT
1 AGGGCGAGAAAACGAGGAAGAATT
1253177 GGGGGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.38, T:0.08
Consensus pattern (24 bp):
AGGGCGAGAAAACGAGGAAGAATT
Found at i:1256673 original size:13 final size:13
Alignment explanation
Indices: 1256655--1256680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1256645 GAAAGAAGCG
1256655 GTGACATTTTTAA
1 GTGACATTTTTAA
1256668 GTGACATTTTTAA
1 GTGACATTTTTAA
1256681 AAGAGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTGACATTTTTAA
Found at i:1256872 original size:21 final size:21
Alignment explanation
Indices: 1256848--1256900 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1256838 ATTCTGACTA
1256848 TCGCATTGCGA-TTTCTCAAAT
1 TCGCATTGCGATTTTC-CAAAT
* *
1256869 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
1256890 TCGCAATGCGA
1 TCGCATTGCGA
1256901 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1256915 original size:20 final size:20
Alignment explanation
Indices: 1256890--1256976 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
1256880 TTTTCCTAAT
1256890 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1256910 TCGCAACGCGAATTTGAAAAA
1 TCGCAATGCGAATACG-TAAA
*
1256931 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1256951 TCGCAATGCGAAT-CTCTAAA
1 TCGCAATGCGAATAC-GTAAA
1256971 TCGCAA
1 TCGCAA
1256977 CGAGATTCTG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
19 1 0.02
20 38 0.70
21 15 0.28
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1257865 original size:24 final size:24
Alignment explanation
Indices: 1257838--1257891 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1257828 GTATTCGAAA
1257838 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1257862 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1257886 TTTGAT
1 TTTGAT
1257892 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1260343 original size:20 final size:20
Alignment explanation
Indices: 1260318--1260406 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
1260308 CAACGCGGAA
1260318 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
1260338 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
1260358 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
1260378 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
1260398 ATCGTAACG
1 ATCGCAACG
1260407 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:1260435 original size:19 final size:19
Alignment explanation
Indices: 1260411--1260498 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
1260401 GTAACGAGAG
1260411 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1260430 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1260449 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
1260463 AATCGCAATGCGAAAATAAA
1 AATCGCAATGCG-AAATGAA
*
1260483 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
1260499 TAGTTTCACG
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.14
16 5 0.08
17 2 0.03
18 2 0.03
19 31 0.53
20 11 0.19
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1260459 original size:52 final size:52
Alignment explanation
Indices: 1260358--1260498 Score: 174
Period size: 53 Copynumber: 2.7 Consensus size: 52
1260348 GGAAATGACT
* ** ** *
1260358 ATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGTAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAGA
* *
1260412 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
1260464 ATCGCAATGCGAAAATAAAAATCGCAACGCGAAAT
1 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAT
1260499 TAGTTTCACG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
52 30 0.39
53 36 0.47
54 10 0.13
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:1260690 original size:14 final size:14
Alignment explanation
Indices: 1260671--1260707 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1260661 CATCAATTAA
1260671 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1260685 ACAAATCATCTTTT
1 ACAAATCAACATTT
1260699 ACAAATCAA
1 ACAAATCAA
1260708 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1262328 original size:23 final size:23
Alignment explanation
Indices: 1262298--1262361 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1262288 CAGCTCATAT
1262298 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTAAGTGCCACGTAG
** *
1262321 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCTAAGTGCCACGTAG
1262344 AATTGCACCGTAA-TGCCA
1 AATTGCACC-TAAGTGCCA
1262362 TATAATAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
AATTGCACCTAAGTGCCACGTAG
Found at i:1262548 original size:103 final size:103
Alignment explanation
Indices: 1262377--1262594 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
1262367 TAATGTCCAT
*
1262377 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1262442 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1262480 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1262545 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
1262583 AAGGACCACATA
1 AAGGACCACATA
1262595 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1269253 original size:23 final size:22
Alignment explanation
Indices: 1269223--1269286 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
1269213 CAGCTCATAT
1269223 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
*
1269246 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACC-TAGTGCCACGTAG
1269269 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
1269287 TATAATAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:1269433 original size:103 final size:103
Alignment explanation
Indices: 1269302--1269519 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
1269292 TAATGTCCAT
* *
1269302 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1269367 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
1269405 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1269470 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
1269508 AAGGACCACATA
1 AAGGACCACATA
1269520 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1271266 original size:42 final size:42
Alignment explanation
Indices: 1271187--1271268 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
1271177 CCTCTTCAAC
* * *
1271187 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* *
1271229 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGA
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGA
1271269 ACGATGGCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1271782 original size:20 final size:20
Alignment explanation
Indices: 1271759--1271805 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
1271749 GAAACTTAAA
1271759 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
1271779 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
1271799 ATCGCAA
1 ATCGCAA
1271806 TGAGAGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1271871 original size:20 final size:20
Alignment explanation
Indices: 1271846--1271894 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1271836 CAACAACAAA
1271846 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1271866 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1271886 ATCGCAACG
1 ATCGCAACG
1271895 AGATAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1271967 original size:20 final size:20
Alignment explanation
Indices: 1271939--1272082 Score: 192
Period size: 20 Copynumber: 7.5 Consensus size: 20
1271929 GATTCTTTCG
**
1271939 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1271959 TTGCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1271979 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1271999 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1272019 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
1272033 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
1272053 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1272073 TTGCGATAGT
1 TTGCGATAGT
1272083 AAACTATTCT
Statistics
Matches: 112, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
18 6 0.05
20 93 0.83
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1274026 original size:20 final size:20
Alignment explanation
Indices: 1273968--1274037 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1273958 GAAACTTTAA
**
1273968 ATCGCAACAG-GAAAATGAAA
1 ATCGCAAC-GCGAAAATGACT
*
1273988 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1274008 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1274028 ATCGCAACGC
1 ATCGCAACGC
1274038 AAGAATCGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1274106 original size:20 final size:20
Alignment explanation
Indices: 1274081--1274127 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1274071 GATTCTCTCG
1274081 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
1274101 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
1274121 TTGCGAT
1 TTGCGAT
1274128 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1274553 original size:20 final size:20
Alignment explanation
Indices: 1274530--1274581 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1274520 AACGCGATCC
1274530 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1274550 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1274570 CCAAAATCGCAA
1 CCAGAATCGCAA
1274582 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1274598 original size:21 final size:20
Alignment explanation
Indices: 1274572--1274669 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 20
1274562 ATCAGTTTCC
1274572 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * * *
1274593 AAAATCGCGATGCGATAGTAG
1 AAAATCGCAACGCGAT-TTTG
* ** *
1274614 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-G
* * *
1274635 ATAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
1274655 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1274670 ACACATAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
20 15 0.26
21 42 0.74
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:1274711 original size:20 final size:20
Alignment explanation
Indices: 1274637--1274829 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
1274627 GATTTTCCAT
* ** *
1274637 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1274657 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1274677 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1274697 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* **
1274717 AATTGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1274737 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1274757 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
1274777 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
1274798 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1274818 AATCGCAACGCG
1 AATCGCAACGCG
1274830 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 123 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1274725 original size:60 final size:60
Alignment explanation
Indices: 1274637--1274829 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
1274627 GATTTTCCAT
* ** * *
1274637 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * * *** *
1274697 AATCGCAACGTGTATCCGTAAATTGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
1274757 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
1274818 AATCGCAACGCG
1 AATCGCAACGCG
1274830 ATATTTAAAG
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 78 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:1275250 original size:33 final size:33
Alignment explanation
Indices: 1275211--1275281 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1275201 TTCACTTAGA
*
1275211 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1275244 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1275277 TTTCA
1 TTTCA
1275282 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1275421 original size:14 final size:14
Alignment explanation
Indices: 1275402--1275456 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1275392 AGAATGACTG
1275402 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
1275416 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
1275435 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1275449 TCGCAACG
1 TCGCAACG
1275457 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:1275439 original size:33 final size:33
Alignment explanation
Indices: 1275402--1275472 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1275392 AGAATGACTG
**
1275402 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1275435 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1275468 TCGCA
1 TCGCA
1275473 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:1275490 original size:19 final size:19
Alignment explanation
Indices: 1275468--1275570 Score: 100
Period size: 19 Copynumber: 5.9 Consensus size: 19
1275458 GAAACCAAAA
* *
1275468 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
1275487 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
*
1275503 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
*
1275520 TCGCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATC
1275539 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
1275555 T--CGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
1275571 TTCAACCAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
14 16 0.23
16 11 0.16
17 8 0.11
19 35 0.50
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATC
Found at i:1275551 original size:52 final size:52
Alignment explanation
Indices: 1275468--1275573 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
1275458 GAAACCAAAA
* *
1275468 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
1275520 TCGCGTTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1275572 TC
1 TC
1275574 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1277502 original size:185 final size:186
Alignment explanation
Indices: 1277272--1277836 Score: 1098
Period size: 185 Copynumber: 3.0 Consensus size: 186
1277262 TAGATTGCTT
*
1277272 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277337 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1277402 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277457 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277521 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1277586 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277642 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277707 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
1277772 GTGTATTCTTTAACATTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277828 AGTAAATTT
1 AGTAAATTT
1277837 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
184 92 0.24
185 153 0.41
186 131 0.35
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1277678 original size:93 final size:93
Alignment explanation
Indices: 1277272--1277836 Score: 1098
Period size: 93 Copynumber: 6.1 Consensus size: 93
1277262 TAGATTGCTT
*
1277272 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277337 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277365 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277429 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277457 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277521 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277549 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277614 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277642 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277707 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1277735 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1277800 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1277828 AGTAAATTT
1 AGTAAATTT
1277837 ATCCATTCAA
Statistics
Matches: 469, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
92 184 0.39
93 285 0.61
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1277920 original size:19 final size:19
Alignment explanation
Indices: 1277880--1278008 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1277870 TAGTTTACTT
* *
1277880 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1277900 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1277919 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1277938 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1277952 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1277971 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1277985 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1278004 TCGCA
1 TCGCA
1278009 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1277959 original size:33 final size:32
Alignment explanation
Indices: 1277916--1278008 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1277906 CGCGAAACCA
**
1277916 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1277948 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1277981 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1278009 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1278006 original size:52 final size:52
Alignment explanation
Indices: 1277880--1278008 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1277870 TAGTTTACTT
**
1277880 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1277932 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1277985 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1278009 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1278026 original size:19 final size:19
Alignment explanation
Indices: 1278004--1278138 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1277994 GAAACCAAAA
*
1278004 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1278023 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1278039 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1278056 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
1278072 T--CGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
**
1278089 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1278108 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1278128 TCGTGTTGCGA
1 TCGCGTTGCGA
1278139 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
14 15 0.16
16 10 0.11
17 11 0.12
19 46 0.49
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1278045 original size:14 final size:14
Alignment explanation
Indices: 1278026--1278082 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1278016 TTTCATTTCG
1278026 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1278040 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1278057 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1278073 CGTTGCGATT
1 CGTTGCGATT
1278083 TTAATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1278051 original size:33 final size:33
Alignment explanation
Indices: 1278009--1278101 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1277999 CAAAATCGCA
*
1278009 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1278042 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1278075 TTGCGATTTTAATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1278102 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1280082 original size:14 final size:14
Alignment explanation
Indices: 1280063--1280098 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1280053 ATTGTTTAAT
1280063 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1280077 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1280091 TGATTTGT
1 TGATTTGT
1280099 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1280221 original size:19 final size:19
Alignment explanation
Indices: 1280205--1280306 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1280195 AAAAATGACT
1280205 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1280224 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1280243 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1280257 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1280276 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1280296 ATCGCAATGCG
1 ATCGCAATGCG
1280307 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1280359 original size:19 final size:19
Alignment explanation
Indices: 1280335--1280641 Score: 376
Period size: 19 Copynumber: 17.4 Consensus size: 19
1280325 GATTATCTCG
1280335 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280354 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280373 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1280387 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280406 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280425 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1280444 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1280463 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
1280477 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280496 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1280515 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1280529 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1280548 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1280567 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1280581 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1280601 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1280615 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1280634 TTGCGATT
1 TTGCGATT
1280642 GTATTTTCCG
Statistics
Matches: 252, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 35 0.14
16 31 0.12
17 27 0.11
18 3 0.01
19 144 0.57
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1280410 original size:71 final size:71
Alignment explanation
Indices: 1280335--1280574 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
1280325 GATTATCTCG
1280335 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1280400 TTCGCA
66 TTCGCA
*
1280406 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
1280469 TTC-TGTCG--
61 TTCATTTCGCA
*
1280477 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1280542 TTCGCA
66 TTCGCA
1280548 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1280575 CTCTCGTTGC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 6 0.04
68 7 0.05
69 6 0.04
71 115 0.75
73 6 0.04
74 8 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:1280485 original size:142 final size:137
Alignment explanation
Indices: 1280297--1280641 Score: 516
Period size: 142 Copynumber: 2.5 Consensus size: 137
1280287 GAAATGAAAA
*
1280297 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGAT
*
1280361 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
63 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
*
1280426 TGCGATTTTCATT
128 TGCGA--TTC-TC
1280439 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGATT
1280504 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
64 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
1280569 GCGATTCTC
129 GCGATTCTC
* * *
1280578 TCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGAT
1 TCGCATTGCGATTTTAATTT-CGCATTGCGATTTTC--GTTGCGATTTTCATTTCGCATTGCGAT
1280641 T
63 T
1280642 GTATTTTCCG
Statistics
Matches: 191, Mismatches: 8, Indels: 12
0.91 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 15 0.08
138 38 0.20
139 4 0.02
140 3 0.02
142 126 0.66
143 3 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (137 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTTTCGTTGCGATTTTCATTTCGCATTGCGATTTT
CATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTC
Found at i:1280580 original size:52 final size:52
Alignment explanation
Indices: 1280335--1280613 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
1280325 GATTATCTCG
*
1280335 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
1280387 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
1280444 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1280496 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1280548 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
1280601 TTGCGATTTTCAT
1 TTGCGATTTTCAT
1280614 GTTGGGATTT
Statistics
Matches: 217, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
52 161 0.74
53 17 0.08
54 7 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:1283156 original size:24 final size:24
Alignment explanation
Indices: 1283122--1283168 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1283112 CAGAAACATC
1283122 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1283146 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1283169 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1283879 original size:20 final size:20
Alignment explanation
Indices: 1283851--1284199 Score: 454
Period size: 20 Copynumber: 17.4 Consensus size: 20
1283841 AAATTTCAGT
* * * *
1283851 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1283871 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1283891 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1283911 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1283931 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1283951 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1283971 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1283991 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1284011 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1284031 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
1284051 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1284071 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1284091 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1284111 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1284131 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1284151 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1284171 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
1284191 GTTGCGATT
1 GTTGCGATT
1284200 ATGGAAAATC
Statistics
Matches: 294, Mismatches: 28, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.02
20 284 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1284525 original size:22 final size:22
Alignment explanation
Indices: 1284464--1284525 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 22
1284454 TGACTGTGAA
* *
1284464 TGATTTCTTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
1284486 TGGTATCGTC---G-TGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1284504 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1284526 GGATGTCGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
18 14 0.47
19 1 0.03
21 1 0.03
22 14 0.47
ACGTcount: A:0.18, C:0.15, G:0.39, T:0.29
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1284761 original size:20 final size:20
Alignment explanation
Indices: 1284736--1284845 Score: 157
Period size: 20 Copynumber: 5.5 Consensus size: 20
1284726 CATTGCGATT
1284736 GCATTGCGATTTACGTAATC
1 GCATTGCGATTTACGTAATC
1284756 GCATTGCGATTTACGTAATC
1 GCATTGCGATTTACGTAATC
1284776 GCATTGCGATTTACGTAATC
1 GCATTGCGATTTACGTAATC
* * **
1284796 GCGTTGCGATTTTCCAAATTC
1 GCATTGCGATTTACGTAA-TC
* *
1284817 GCGTTGCGATTTACGTATTC
1 GCATTGCGATTTACGTAATC
1284837 GCATTGCGA
1 GCATTGCGA
1284846 ATTAGAAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
20 64 0.80
21 16 0.20
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (20 bp):
GCATTGCGATTTACGTAATC
Found at i:1284866 original size:21 final size:21
Alignment explanation
Indices: 1284842--1284887 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1284832 TATTCGCATT
1284842 GCGAATTAGAAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* ** *
1284863 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
1284884 GCGA
1 GCGA
1284888 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:1293748 original size:20 final size:20
Alignment explanation
Indices: 1293725--1293767 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1293715 ATTCCACCAC
1293725 ATGCAACTAAATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* * *
1293745 ATGCATCTACATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
1293765 ATG
1 ATG
1293768 AGCTCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:1300423 original size:18 final size:18
Alignment explanation
Indices: 1300400--1300446 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
1300390 TGAGCATGAA
1300400 TTCTTTGTTTCAATCTTG
1 TTCTTTGTTTCAATCTTG
1300418 TTCTTTGTTTCAATCTTG
1 TTCTTTGTTTCAATCTTG
1300436 TTCTTTGTTTC
1 TTCTTTGTTTC
1300447 CTTGAGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.64
Consensus pattern (18 bp):
TTCTTTGTTTCAATCTTG
Found at i:1304658 original size:2 final size:2
Alignment explanation
Indices: 1304651--1304728 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1304641 TAGCGTGCGC
1304651 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
1304693 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
1304729 TATGAGAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1304903 original size:21 final size:21
Alignment explanation
Indices: 1304877--1304929 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1304867 GTTTCCAGAT
*
1304877 TCGCAACGCGAACATCGACTA
1 TCGCAATGCGAACATCGACTA
* *
1304898 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACATCGACTA
1304919 TCGCAATGCGA
1 TCGCAATGCGA
1304930 TTTACATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAACATCGACTA
Found at i:1304970 original size:21 final size:21
Alignment explanation
Indices: 1304944--1305055 Score: 115
Period size: 21 Copynumber: 5.5 Consensus size: 21
1304934 CATATTCACA
1304944 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
** * *
1304965 TTGCGATTTTCTAAATT--CG
1 TTGCGATAGTCGAAGTTCGCG
1304984 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
** * *
1305005 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCGAAGTTCGCG
*
1305024 TTTCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
1305045 TTGCGATAGTC
1 TTGCGATAGTC
1305056 CAAAATCGCA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
19 29 0.42
21 40 0.58
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTCGCG
Found at i:1304987 original size:19 final size:19
Alignment explanation
Indices: 1304963--1305030 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
1304953 TCGAAGTTCG
*
1304963 CGTTGCGATTTTCTAAATT
1 CGTTGCGATTTTCCAAATT
** * *
1304982 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
1305001 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
*
1305022 CGTTTCGAT
1 CGTTGCGAT
1305031 AGTCGAAGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
19 23 0.61
21 15 0.39
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:1305059 original size:40 final size:40
Alignment explanation
Indices: 1304944--1305051 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
1304934 CATATTCACA
*
1304944 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1304984 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
1305024 TTTCGATAGTCGAAGTTCGCGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGAT
1305052 AGTCCAAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:1305064 original size:21 final size:21
Alignment explanation
Indices: 1304982--1305064 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
1304972 TTTCTAAATT
* **
1304982 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
** *
1305003 CGTTGCGATTTTCC-AAAT-T
1 CGTTGCGATAGTCCAAAATCG
* * **
1305022 CGTTTCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
1305043 CGTTGCGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAAATCG
1305064 C
1 C
1305065 AACGACGGGT
Statistics
Matches: 43, Mismatches: 17, Indels: 4
0.67 0.27 0.06
Matches are distributed among these distances:
19 10 0.23
20 4 0.09
21 29 0.67
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAAATCG
Found at i:1305159 original size:6 final size:6
Alignment explanation
Indices: 1305148--1305186 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1305138 GACACGTATT
1305148 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1305187 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1305697 original size:6 final size:6
Alignment explanation
Indices: 1305686--1305725 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
1305676 TCGTCTCGTC
1305686 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGT
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGT
1305726 TGAGGTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.47, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1306436 original size:27 final size:27
Alignment explanation
Indices: 1306382--1306436 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
1306372 TTACCCTAAT
* *
1306382 CAAGTTGCTCGAACCATGCTCTGTTAC
1 CAAGTTGCTCAAACCATGCTCTGCTAC
1306409 CAAGTTGCTCAAACCATGC-CTTGCTAC
1 CAAGTTGCTCAAACCATGCTC-TGCTAC
1306436 C
1 C
1306437 CTGACACTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (27 bp):
CAAGTTGCTCAAACCATGCTCTGCTAC
Found at i:1306594 original size:27 final size:27
Alignment explanation
Indices: 1306563--1306668 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 27
1306553 AGGGAAGTAG
1306563 GGCATGGTTCGAGCAACTTGGTAGCAA
1 GGCATGGTTCGAGCAACTTGGTAGCAA
* *
1306590 GGCATGGTTCGAGCAACTTGATTAGAGTAACA
1 GGCATGGTTCGAGCAACTTG-GT--AG-CA-A
* *
1306622 GAGCATGGTTCGAG-AATTTTGGTAGCAG
1 G-GCATGGTTCGAGCAA-CTTGGTAGCAA
*
1306650 GGCATGATTCGAGCAACTT
1 GGCATGGTTCGAGCAACTT
1306669 TATCGGGTCC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
27 33 0.52
28 4 0.06
29 1 0.02
30 4 0.06
31 1 0.02
32 5 0.08
33 15 0.24
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
GGCATGGTTCGAGCAACTTGGTAGCAA
Found at i:1306853 original size:27 final size:27
Alignment explanation
Indices: 1306805--1306858 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1306795 TAGTGTCAGA
* ** *
1306805 GTAGCAGGGCATGGTTTGAGCACCTTG
1 GTAGCAAGGCATGGTTCAAGCAACTTG
1306832 GTAGCAAGGCATGGTTCAAGCAACTTG
1 GTAGCAAGGCATGGTTCAAGCAACTTG
1306859 ATCAAGGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (27 bp):
GTAGCAAGGCATGGTTCAAGCAACTTG
Found at i:1306879 original size:249 final size:249
Alignment explanation
Indices: 1306430--1306925 Score: 762
Period size: 249 Copynumber: 2.0 Consensus size: 249
1306420 AACCATGCCT
* ** **
1306430 TGCTACCCTGACACTGCAAGTTGTTCTTCTTGCTACCCCGGTAAAATTACTCAAATCATGTCCTG
1 TGCTACCCTGACACTACAAGTTGTTCTTCTTGCTACCCCAATAAAATTACTCAAATCATCCCCTG
* * *
1306495 CTACTAAGTTTCTCGAACCATGCCTTGTTACCCTAACACTTCAACAACTTGTAGTGTCAGGGAAG
66 CTACTAAGTTTCTCGAACAATGCCCTGTTACCCTAACACTTCAACAACTTGTAGTGTCAGAGAAG
* * *
1306560 TAGGGCATGGTTCGAGCAACTTGGTAGCAAGGCATGGTTCGAGCAACTTGATTAGAGTAACAGAG
131 CAGGGCATGGTTCGAGCAACTTGGTAGCAAGGCATGGTTCAAGCAACTTGATAAGAGTAACAGAG
* *
1306625 CATGGTTCGAGAATTTTGGTAGCAGGGCATGATTCGAGCAACTTTATCGGGTCC
196 CATGGTTCGAAAAATTTGGTAGCAGGGCATGATTCGAGCAACTTTATCGGGTCC
* * *
1306679 TGCTACCCTGACACTACAAGTTGTTCTTCTTTCTTCCCCAATAAAATTGCTCAAATCATCCCCTG
1 TGCTACCCTGACACTACAAGTTGTTCTTCTTGCTACCCCAATAAAATTACTCAAATCATCCCCTG
* * *
1306744 CTATTAAGTTTCTCGAACAATGCCCTGTTACCCTGACACTTCAACAACTTGTAGTGTCAGAGTAG
66 CTACTAAGTTTCTCGAACAATGCCCTGTTACCCTAACACTTCAACAACTTGTAGTGTCAGAGAAG
* *
1306809 CAGGGCATGGTTTGAGCACCTTGGTAGCAAGGCATGGTTCAAGCAACTTGATCAAG-GTAACA-A
131 CAGGGCATGGTTCGAGCAACTTGGTAGCAAGGCATGGTTCAAGCAACTTGAT-AAGAGTAACAGA
*
1306872 GGCATGGTTCGAAAAATTTGGTAGCAGGGCATGATTCGAGCAACTTTATTGGGT
195 -GCATGGTTCGAAAAATTTGGTAGCAGGGCATGATTCGAGCAACTTTATCGGGT
1306926 AGCAGGAAGG
Statistics
Matches: 223, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
248 1 0.00
249 220 0.99
250 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (249 bp):
TGCTACCCTGACACTACAAGTTGTTCTTCTTGCTACCCCAATAAAATTACTCAAATCATCCCCTG
CTACTAAGTTTCTCGAACAATGCCCTGTTACCCTAACACTTCAACAACTTGTAGTGTCAGAGAAG
CAGGGCATGGTTCGAGCAACTTGGTAGCAAGGCATGGTTCAAGCAACTTGATAAGAGTAACAGAG
CATGGTTCGAAAAATTTGGTAGCAGGGCATGATTCGAGCAACTTTATCGGGTCC
Found at i:1307005 original size:27 final size:27
Alignment explanation
Indices: 1306961--1307069 Score: 119
Period size: 27 Copynumber: 3.8 Consensus size: 27
1306951 AGGGTAACAT
* * *
1306961 GGCATGGTTCGAGGAACTTGATATCAG
1 GGCATGATTCGAGCAACTTGATAGCAG
* *
1306988 GGCATGATTCAAGCAACTTGATAGAAG
1 GGCATGATTCGAGCAACTTGATAGCAG
1307015 GGCATGATTCGAGCAACTTTATTAGGATAGCAG
1 GGCATGATTCGAGCAAC----TT--GATAGCAG
1307048 GGCATGATTCGAGCAACTTGAT
1 GGCATGATTCGAGCAACTTGAT
1307070 TAGGGTAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
27 41 0.59
29 2 0.03
31 2 0.03
33 24 0.35
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (27 bp):
GGCATGATTCGAGCAACTTGATAGCAG
Found at i:1307050 original size:33 final size:33
Alignment explanation
Indices: 1306980--1307100 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 33
1306970 CGAGGAACTT
* *
1306980 GATATCAGGGCATGATTCAAGCAACTTGA-TA-
1 GATAGCAGGGCATGATTCGAGCAACTTGATTAG
*
1307011 G--A--AGGGCATGATTCGAGCAACTTTATTAG
1 GATAGCAGGGCATGATTCGAGCAACTTGATTAG
1307040 GATAGCAGGGCATGATTCGAGCAACTTGATTAG
1 GATAGCAGGGCATGATTCGAGCAACTTGATTAG
* * * * *
1307073 GGTAACATGGTATGATTCTAGCAACTTG
1 GATAGCAGGGCATGATTCGAGCAACTTG
1307101 TAGTGTACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
27 21 0.28
28 2 0.03
29 2 0.03
31 2 0.03
33 49 0.64
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (33 bp):
GATAGCAGGGCATGATTCGAGCAACTTGATTAG
Found at i:1307539 original size:87 final size:88
Alignment explanation
Indices: 1307440--1307610 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 88
1307430 TTCAAAGTAC
* *
1307440 TTGACATTTTAAGTCTGTAGATT-AAGATAACGTCTGAATCTTTCATACTCAAAATTTAATATTG
1 TTGACATTTTAAGTCTGTAGATTAAAGATAACGCCTAAATCTTTCATACTCAAAATTTAATATTG
*
1307504 ACTCTTTAGATTAACATAATACT
66 ACTCTTTAGATCAACATAATACT
* *
1307527 TTGACATTTTAAGTCTTTAGATTAAAGATAACGCCTAAATCTTTCATATTCAAAATTTAATATTG
1 TTGACATTTTAAGTCTGTAGATTAAAGATAACGCCTAAATCTTTCATACTCAAAATTTAATATTG
1307592 ACTCTTTAGATCAACATAA
66 ACTCTTTAGATCAACATAA
1307611 AGTCTAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 22 0.28
88 56 0.72
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (88 bp):
TTGACATTTTAAGTCTGTAGATTAAAGATAACGCCTAAATCTTTCATACTCAAAATTTAATATTG
ACTCTTTAGATCAACATAATACT
Found at i:1312647 original size:13 final size:13
Alignment explanation
Indices: 1312629--1312673 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
1312619 ATAAATAATA
*
1312629 AAAAAATTACAAT
1 AAAAAACTACAAT
*
1312642 AAAAAAGTACAAT
1 AAAAAACTACAAT
*
1312655 AAACAACTACAAT
1 AAAAAACTACAAT
1312668 AAAAAA
1 AAAAAA
1312674 GTACTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:1312697 original size:26 final size:26
Alignment explanation
Indices: 1312625--1312697 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
1312615 AATGATAAAT
* *
1312625 AATAAAAAAATTACAATAAAAAAGTAC
1 AATAAACAAA-TACAAAAAAAAAGTAC
* *
1312652 AATAAACAACTACAATAAAAAAGTAC
1 AATAAACAAATACAAAAAAAAAGTAC
* *
1312678 TAA-ATACAAATATAAAAAAA
1 -AATAAACAAATACAAAAAAA
1312698 TCTAATACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 29 0.74
27 10 0.26
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.18
Consensus pattern (26 bp):
AATAAACAAATACAAAAAAAAAGTAC
Done.