Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 41
Found at i:2472622 original size:20 final size:20
Alignment explanation
Indices: 2472593--2472685 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
2472583 GCAGCCTTCG
*
2472593 TGCATAGATGCACAACATGA
1 TGCATCGATGCACAACATGA
*
2472613 TGCATCGATGCACATCATGA
1 TGCATCGATGCACAACATGA
* *
2472633 TGCATCGATGTACAGCATGA
1 TGCATCGATGCACAACATGA
*
2472653 TACATCGATGCACAACATGA
1 TGCATCGATGCACAACATGA
*
2472673 TGCGTCGATGCAC
1 TGCATCGATGCAC
2472686 TAAGTGCATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACAACATGA
Found at i:2472756 original size:21 final size:21
Alignment explanation
Indices: 2472705--2472781 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
2472695 TCGAAATGGA
*
2472705 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
*
2472725 GTGCATCGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
2472746 GTGTATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
2472767 GTGCATGGATGCACT
1 GTGCATGGATGCACT
2472782 TTGACACCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 17 0.33
21 34 0.67
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:2473025 original size:21 final size:21
Alignment explanation
Indices: 2473001--2473040 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2472991 ATGTTTAATG
*
2473001 AAAAAGATGTCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
2473022 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
2473041 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:2473503 original size:13 final size:13
Alignment explanation
Indices: 2473485--2473519 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
2473475 ATAAACATTT
*
2473485 AAATTTAGGTCAA
1 AAATTTAAGTCAA
2473498 AAATTTAAAGTCAA
1 AAATTT-AAGTCAA
2473512 AAATTTAA
1 AAATTTAA
2473520 AATTTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (13 bp):
AAATTTAAGTCAA
Found at i:2473512 original size:14 final size:14
Alignment explanation
Indices: 2473493--2473520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2473483 TTAAATTTAG
2473493 GTCAAAAATTTAAA
1 GTCAAAAATTTAAA
2473507 GTCAAAAATTTAAA
1 GTCAAAAATTTAAA
2473521 ATTTGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
GTCAAAAATTTAAA
Found at i:2474138 original size:21 final size:21
Alignment explanation
Indices: 2474113--2474178 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2474103 TTAAATCAAA
2474113 ATTTTCTTTTTCAAAACTTTC
1 ATTTTCTTTTTCAAAACTTTC
* * * *
2474134 ATTTTTTTTTTGAAAGCTCT-
1 ATTTTCTTTTTCAAAACTTTC
** *
2474154 AAATCCTTTTTCAAAA-TTTC
1 ATTTTCTTTTTCAAAACTTTC
2474174 ATTTT
1 ATTTT
2474179 GGCTTTCAAA
Statistics
Matches: 30, Mismatches: 14, Indels: 3
0.64 0.30 0.06
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 16 0.53
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTTTCTTTTTCAAAACTTTC
Found at i:2474204 original size:19 final size:20
Alignment explanation
Indices: 2474161--2474208 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2474151 TCTAAATCCT
*
2474161 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
2474181 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
2474200 TTTTCAAAA
1 TTTTCAAAA
2474209 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:2475383 original size:21 final size:21
Alignment explanation
Indices: 2475349--2475409 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
2475339 TGTTGTATAT
2475349 AGCCG-TTGGGGATGTTTTGA
1 AGCCGTTTGGGGATGTTTTGA
* *
2475369 AGCCGTTTAGGGATGTTTTGG
1 AGCCGTTTGGGGATGTTTTGA
2475390 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATG-TTTT
2475410 TCTACTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 5 0.14
21 27 0.75
22 4 0.11
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
AGCCGTTTGGGGATGTTTTGA
Found at i:2475544 original size:12 final size:12
Alignment explanation
Indices: 2475527--2475565 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2475517 CTTCATGCAT
2475527 GGATGCACATCA
1 GGATGCACATCA
2475539 GGATG--CATC-
1 GGATGCACATCA
2475548 -GATGCACATCA
1 GGATGCACATCA
2475559 GGATGCA
1 GGATGCA
2475566 TCAATGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 4 0.17
10 8 0.35
12 11 0.48
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (12 bp):
GGATGCACATCA
Found at i:2475546 original size:20 final size:20
Alignment explanation
Indices: 2475521--2475574 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2475511 TGCAGCCTTC
*
2475521 ATGCATGGATGCACATCAGG
1 ATGCATCGATGCACATCAGG
2475541 ATGCATCGATGCACATCAGG
1 ATGCATCGATGCACATCAGG
*
2475561 ATGCATCAATGCAC
1 ATGCATCGATGCAC
2475575 TAAGTGCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (20 bp):
ATGCATCGATGCACATCAGG
Found at i:2475618 original size:21 final size:21
Alignment explanation
Indices: 2475594--2475650 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
2475584 TCGAAATGGA
*
2475594 GTGCATGGATGCACTGC-AGAG
1 GTGCATGGATACACTGCAAG-G
2475615 GTGCATGGATACACTGCAAGG
1 GTGCATGGATACACTGCAAGG
2475636 GTGCATGGATACACT
1 GTGCATGGATACACT
2475651 TTGACACCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.21
Consensus pattern (21 bp):
GTGCATGGATACACTGCAAGG
Found at i:2476019 original size:18 final size:18
Alignment explanation
Indices: 2475969--2476058 Score: 90
Period size: 18 Copynumber: 4.8 Consensus size: 18
2475959 GGGTTTACGC
*
2475969 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGGACATAGT
2475987 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
2476005 GGTCATTCGGGACATATACAGT
1 GGTCCTTCGGGAC--AT--AGT
* *
2476027 GGTCCTTCGAGATATAGT
1 GGTCCTTCGGGACATAGT
* *
2476045 AGTCCTGCGGGACA
1 GGTCCTTCGGGACA
2476059 AATTCTACGC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
18 42 0.71
20 4 0.07
22 13 0.22
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:2476030 original size:40 final size:40
Alignment explanation
Indices: 2475982--2476058 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
2475972 CCTTCGGGAC
* * *
2475982 ACAGTGGTCCTTCGGGACATAGTGGTCATTCGGGACATAT
1 ACAGTGGTCCTTCGAGACATAGTAGTCATGCGGGACATAT
* *
2476022 ACAGTGGTCCTTCGAGATATAGTAGTCCTGCGGGACA
1 ACAGTGGTCCTTCGAGACATAGTAGTCATGCGGGACA
2476059 AATTCTACGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ACAGTGGTCCTTCGAGACATAGTAGTCATGCGGGACATAT
Found at i:2477274 original size:17 final size:18
Alignment explanation
Indices: 2477243--2477284 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
2477233 GAACAAAAGC
2477243 ATATTAGCATATTTATTA
1 ATATTAGCATATTTATTA
*
2477261 ATTTTAGC-TATTTATTA
1 ATATTAGCATATTTATTA
2477278 ATATTAG
1 ATATTAG
2477285 TCTCCAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (18 bp):
ATATTAGCATATTTATTA
Found at i:2480389 original size:14 final size:15
Alignment explanation
Indices: 2480370--2480405 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
2480360 TTTCATTATC
2480370 AAATATTATTA-TTT
1 AAATATTATTATTTT
2480384 AAATATTATTATTTT
1 AAATATTATTATTTT
2480399 AAATATT
1 AAATATT
2480406 TAAAGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATATTATTATTTT
Found at i:2480406 original size:23 final size:21
Alignment explanation
Indices: 2480379--2480421 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
2480369 CAAATATTAT
*
2480379 TATTTAAATATTATTATTTTAAA
1 TATTTAAAGA-TATT-TTTTAAA
2480402 TATTTAAAGATATTTTTTAA
1 TATTTAAAGATATTTTTTAA
2480422 TATACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTAAAGATATTTTTTAAA
Found at i:2487581 original size:2 final size:2
Alignment explanation
Indices: 2487574--2487618 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2487564 ATATTTTACA
2487574 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
2487616 AT A
1 AT A
2487619 ACTTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2492867 original size:10 final size:9
Alignment explanation
Indices: 2492832--2492941 Score: 94
Period size: 10 Copynumber: 11.4 Consensus size: 9
2492822 GCTGCTGGAA
*
2492832 ACCGGTTTA
1 ACCGGTTTG
*
2492841 ACCGGTTTTCA
1 ACCGG-TTT-G
2492852 ACCGGTTCTG
1 ACCGGTT-TG
2492862 ACCGGTTTG
1 ACCGGTTTG
*
2492871 ACCGGTTTCA
1 ACCGGTTT-G
*
2492881 ACCGGTTCG
1 ACCGGTTTG
2492890 AACCGGTTTG
1 -ACCGGTTTG
*
2492900 ACCGGTCTG
1 ACCGGTTTG
*
2492909 AACCGGCTTG
1 -ACCGGTTTG
*
2492919 ACCGGTCTG
1 ACCGGTTTG
2492928 AACCGGTTTG
1 -ACCGGTTTG
2492938 ACCG
1 ACCG
2492942 TTGACCCGAC
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
9 34 0.41
10 42 0.51
11 7 0.08
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2492876 original size:19 final size:20
Alignment explanation
Indices: 2492832--2492941 Score: 122
Period size: 19 Copynumber: 5.7 Consensus size: 20
2492822 GCTGCTGGAA
* * *
2492832 ACCGGTTTAACCGGTTTTCA
1 ACCGGTTTGACCGGTTCTGA
2492852 ACCGGTTCTGACCGGTT-TG-
1 ACCGGTT-TGACCGGTTCTGA
*
2492871 ACCGGTTTCAACCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTGA
2492891 ACCGGTTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
*
2492910 ACCGGCTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
2492929 ACCGGTTTGACCG
1 ACCGGTTTGACCG
2492942 TTGACCCGAC
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
18 3 0.04
19 52 0.66
20 16 0.20
21 8 0.10
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTGA
Found at i:2492894 original size:29 final size:28
Alignment explanation
Indices: 2492832--2492936 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 28
2492822 GCTGCTGGAA
*
2492832 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
2492862 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* *
2492890 AACCGGTTTGACCGGTCTGAACCGGCTT-G
1 -ACCGGTTTGACCGGTTTCAACCGG-TTCG
*
2492919 ACCGGTCTGAACCGGTTT
1 ACCGGTTTG-ACCGGTTT
2492937 GACCGTTGAC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.13
29 43 0.64
30 15 0.22
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:2500177 original size:19 final size:19
Alignment explanation
Indices: 2500165--2500202 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2500155 ACCGGTTCGT
2500165 ACCGGCTTGACCGGTCTGA
1 ACCGGCTTGACCGGTCTGA
*
2500184 ACCGGCTTGACTGGTCTGA
1 ACCGGCTTGACCGGTCTGA
2500203 CCCGACCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.24
Consensus pattern (19 bp):
ACCGGCTTGACCGGTCTGA
Found at i:2500222 original size:17 final size:17
Alignment explanation
Indices: 2500200--2500289 Score: 162
Period size: 17 Copynumber: 5.3 Consensus size: 17
2500190 TTGACTGGTC
2500200 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
2500217 TGACCCGAACCGACCGT
1 TGACCCGACCCGACCGT
2500234 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2500251 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
2500268 TGACCTGACCCGACCGT
1 TGACCCGACCCGACCGT
2500285 TGACC
1 TGACC
2500290 GTTGACTTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 70 1.00
ACGTcount: A:0.19, C:0.44, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:2503999 original size:30 final size:30
Alignment explanation
Indices: 2503931--2503999 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
2503921 TGTAAAAAGA
* *
2503931 TAAAAAAAACT-ATGACATAATAATAAAAT
1 TAAAAAAAAATAATGAAATAATAATAAAAT
* *
2503960 TATAAAAAAATAATGAAATAATAAT-ATAT
1 TAAAAAAAAATAATGAAATAATAATAAAAT
2503989 TAAAATAAAAA
1 TAAAA-AAAAA
2504000 ATACCAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (30 bp):
TAAAAAAAAATAATGAAATAATAATAAAAT
Found at i:2504063 original size:23 final size:23
Alignment explanation
Indices: 2504036--2504079 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2504026 AAATTAAATC
2504036 ACAAA-AATAAAATAAAAGAATTA
1 ACAAAGAATAAAA-AAAAGAATTA
*
2504059 ACAAAGATTAAAAAAAAGAAT
1 ACAAAGAATAAAAAAAAGAAT
2504080 AAAGGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (23 bp):
ACAAAGAATAAAAAAAAGAATTA
Found at i:2505047 original size:15 final size:15
Alignment explanation
Indices: 2505022--2505093 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
2505012 TGGTTTTTCA
2505022 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
2505037 GAATTTGAATTACTG
1 GAAAATGAATTACTG
2505052 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
2505067 GAATTTGAATTA-TG
1 GAAAATGAATTACTG
2505081 GAAAATGAATTAC
1 GAAAATGAATTAC
2505094 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:2505092 original size:29 final size:30
Alignment explanation
Indices: 2505022--2505093 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
2505012 TGGTTTTTCA
2505022 GAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
2505052 GAAAATGAATTACTGGAATTTGAATTA-TG
1 GAAAATGAATTACTGGAATTTGAATTACTG
2505081 GAAAATGAATTAC
1 GAAAATGAATTAC
2505094 ATTTCTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (30 bp):
GAAAATGAATTACTGGAATTTGAATTACTG
Found at i:2505105 original size:20 final size:20
Alignment explanation
Indices: 2505079--2505144 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
2505069 ATTTGAATTA
2505079 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
*
2505099 TGTAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
2505119 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
2505139 TGGAAA
1 TGGAAA
2505145 CATCTGGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (20 bp):
TGGAAAATGAATTACATTTC
Found at i:2505355 original size:26 final size:25
Alignment explanation
Indices: 2505306--2505365 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
2505296 TTTACTAAAA
* * * *
2505306 TATTATTGAATATATAATATATTAT
1 TATTATTAAATATAAAAAAAATTAT
2505331 TCATTATTAAATATAAAAAAAATTAT
1 T-ATTATTAAATATAAAAAAAATTAT
2505357 TATATATTA
1 TAT-TATTA
2505366 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTATTAAATATAAAAAAAATTAT
Found at i:2505388 original size:22 final size:23
Alignment explanation
Indices: 2505344--2505388 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2505334 TTATTAAATA
*
2505344 TAAAAAAAATTATTATATATTAT
1 TAAAAAAAATTATAATATATTAT
* *
2505367 TAAATAAAA-TATAATATCTTAT
1 TAAAAAAAATTATAATATATTAT
2505389 ATTATTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAAAAAATTATAATATATTAT
Found at i:2505388 original size:29 final size:30
Alignment explanation
Indices: 2505317--2505396 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
2505307 ATTATTGAAT
2505317 ATATAATATATTAT-TCATTATTAAATATAA
1 ATATAATATATTATAT-ATTATTAAATATAA
* *
2505347 AAAAAAT-TATTATATATTATTAAATA-AA
1 ATATAATATATTATATATTATTAAATATAA
*
2505375 ATATAATATCTTATATTATTAT
1 ATATAATATATTATA-TATTAT
2505397 AATATATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 7 0.17
29 23 0.55
30 12 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
ATATAATATATTATATATTATTAAATATAA
Found at i:2505457 original size:14 final size:14
Alignment explanation
Indices: 2505414--2505457 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2505404 TGATTATTTT
*
2505414 ATATAATATTAAAA
1 ATATAATATTATAA
2505428 ATATAATATTAT--
1 ATATAATATTATAA
2505440 -TATAATATTATAA
1 ATATAATATTATAA
2505453 ATATA
1 ATATA
2505458 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 11 0.42
14 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAATATTATAA
Found at i:2505481 original size:46 final size:46
Alignment explanation
Indices: 2505387--2505483 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
2505377 ATAATATCTT
** *
2505387 ATATTATTATAATATATTGATTATTTTATATAATATTAAAAATATA
1 ATATTATTATAATATATAAATTATTTTAAATAATATTAAAAATATA
* *
2505433 ATATTATTATAATATTATAAATATATTTTAAAT-ATTTTAATAAT-TA
1 ATATTATTATAATA-TATAAAT-TATTTTAAATAATATTAAAAATATA
2505479 ATATT
1 ATATT
2505484 TTGATGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
46 21 0.48
47 14 0.32
48 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (46 bp):
ATATTATTATAATATATAAATTATTTTAAATAATATTAAAAATATA
Found at i:2505740 original size:41 final size:42
Alignment explanation
Indices: 2505655--2505770 Score: 189
Period size: 41 Copynumber: 2.8 Consensus size: 42
2505645 ATGAATTAGA
* * * *
2505655 TTCCGGAAAATGAATTACGTGAAAAAAACACGGGAAAACGTT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
2505697 TTCCGAAAAACGAATTACGTGAAACAAACACGGG-AAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
2505738 TTCCGAAAAACGAATTACGTGAAACAAACACGG
1 TTCCGAAAAACGAATTACGTGAAACAAACACGG
2505771 AAATTCGGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
41 39 0.56
42 31 0.44
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:2506066 original size:17 final size:17
Alignment explanation
Indices: 2506046--2506088 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
2506036 AAATTGCATC
2506046 AAAATTTTTATAATATT
1 AAAATTTTTATAATATT
2506063 AAAATTTTTATAATATT
1 AAAATTTTTATAATATT
2506080 AAAATTTTT
1 AAAATTTTT
2506089 CCCATCTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAATTTTTATAATATT
Found at i:2512820 original size:2 final size:2
Alignment explanation
Indices: 2512813--2512839 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2512803 CGTTTAGATT
2512813 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2512840 TGGAAGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2513417 original size:3 final size:3
Alignment explanation
Indices: 2513411--2513461 Score: 66
Period size: 3 Copynumber: 16.0 Consensus size: 3
2513401 GGTCTTTTTT
*
2513411 TTA TTA TTTA ATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
2513459 TTA
1 TTA
2513462 CATATTTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 35 0.81
4 8 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2513425 original size:7 final size:7
Alignment explanation
Indices: 2513410--2513460 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
2513400 GGGTCTTTTT
2513410 TTTATTA
1 TTTATTA
*
2513417 TTTAATA
1 TTTATTA
2513424 TTTATTA
1 TTTATTA
2513431 -TTATTA
1 TTTATTA
2513437 -TTATTA
1 TTTATTA
2513443 TTATTATTA
1 -T-TTATTA
2513452 TTTATTA
1 TTTATTA
2513459 TT
1 TT
2513461 ACATATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 12 0.31
7 20 0.51
8 1 0.03
9 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:2518352 original size:60 final size:60
Alignment explanation
Indices: 2518240--2518366 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
2518230 GTTTCGAATA
* *
2518240 ATCATTTTATAACTTTTAATAGTCAAGGGACCCAACAAAGCAATTCTATATAGTC-GAGGG
1 ATCATTTTATAACTTTTAATAATCAAGGGACCCAACAAAACAATTCTATATAGTCAGA-GG
* * * * *
2518300 ATCATTTTGTAACTTTTAATAAAT-AAGGGACTCAATAAAACAGTATC-CTATAGTCAGAGG
1 ATCATTTTATAACTTTTAAT-AATCAAGGGACCCAACAAAACAAT-TCTATATAGTCAGAGG
2518360 ATCATTT
1 ATCATTT
2518367 ATGCACTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
60 51 0.89
61 6 0.11
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (60 bp):
ATCATTTTATAACTTTTAATAATCAAGGGACCCAACAAAACAATTCTATATAGTCAGAGG
Found at i:2528335 original size:2 final size:2
Alignment explanation
Indices: 2528328--2528386 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
2528318 CCAAAACGTA
2528328 AT AT AT AT AT AT AT -T 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
2528369 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2528387 CAATGCTCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2529459 original size:29 final size:28
Alignment explanation
Indices: 2529414--2529521 Score: 67
Period size: 29 Copynumber: 3.6 Consensus size: 28
2529404 TTATGACAGT
2529414 TATTTTAGA-TTAGTCCTTAAACTTTTAAA
1 TATTTTA-ATTTA-TCCTTAAACTTTTAAA
* ** *
2529443 TATTTTAATTTCATCCTCAAACAATGATAAT
1 TATTTTAATTT-ATCCTTAAAC--TTTTAAA
*
2529474 TATTTTAAATTAGTCCTTAAACCTTTT-AA
1 TATTTTAATTTA-TCCTTAAA-CTTTTAAA
* *
2529503 CATTCTAATTTTATCCTTA
1 TATTTTAA-TTTATCCTTA
2529522 TACTATGACC
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
28 1 0.02
29 30 0.50
30 7 0.12
31 21 0.35
32 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (28 bp):
TATTTTAATTTATCCTTAAACTTTTAAA
Found at i:2529463 original size:60 final size:60
Alignment explanation
Indices: 2529406--2529519 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
2529396 TTTTCAAATT
* * * *
2529406 ATGACAGTTATTTTAGATTAGTCCTTAAA-CTTTTAAATATTTTAATTTCATCCTCAAACA
1 ATGACAATTATTTTAAATTAGTCCTTAAACCTTTT-AACATTCTAATTTCATCCTCAAACA
* *
2529466 ATGATAATTATTTTAAATTAGTCCTTAAACCTTTTAACATTCTAATTTTATCCT
1 ATGACAATTATTTTAAATTAGTCCTTAAACCTTTTAACATTCTAATTTCATCCT
2529520 TATACTATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 42 0.89
61 5 0.11
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (60 bp):
ATGACAATTATTTTAAATTAGTCCTTAAACCTTTTAACATTCTAATTTCATCCTCAAACA
Found at i:2529831 original size:60 final size:59
Alignment explanation
Indices: 2529697--2529837 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 59
2529687 TAGTGTATAC
*
2529697 ATATAATTTGGGATGAAATTGAAATGTTGAAAAAGTTTGGGGACCAAACTAGAATGAAAG
1 ATATAATTTGGGATGAAATTGAAATGTTGAAAAAGTTTAGGGA-CAAACTAGAATGAAAG
* * *
2529757 ATATAGTTTGGGGAT-AAAGTTGAAAT-TTTAAAAAGTTTAAGGG-CAAATTTAGAATGATAA-
1 ATATAATTT-GGGATGAAA-TTGAAATGTTGAAAAAGTTT-AGGGACAAA-CTAGAATGA-AAG
*
2529817 TTATAATTTAGGGATGAAATT
1 ATATAATTT-GGGATGAAATT
2529838 AGAATATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
59 4 0.06
60 44 0.65
61 20 0.29
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.32
Consensus pattern (59 bp):
ATATAATTTGGGATGAAATTGAAATGTTGAAAAAGTTTAGGGACAAACTAGAATGAAAG
Found at i:2530846 original size:10 final size:10
Alignment explanation
Indices: 2530794--2530891 Score: 61
Period size: 10 Copynumber: 8.8 Consensus size: 10
2530784 CATTTAAATG
2530794 ATAAACGAAC
1 ATAAACGAAC
*
2530804 ATAAATGAAC
1 ATAAACGAAC
* *
2530814 GTAAATGAAAAC
1 ATAAACG--AAC
*
2530826 AAACGAACGAAC
1 ATA--AACGAAC
2530838 ATAAACGAAC
1 ATAAACGAAC
*
2530848 ATAATAAATGAAC
1 ---ATAAACGAAC
2530861 ATAAACGAACAC
1 ATAAACG-A-AC
2530873 GATAAACGAAC
1 -ATAAACGAAC
2530884 ATAAACGA
1 ATAAACGA
2530892 CACAAACACA
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
10 36 0.51
11 3 0.04
12 12 0.17
13 16 0.23
14 3 0.04
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:2530860 original size:13 final size:13
Alignment explanation
Indices: 2530838--2530887 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
2530828 ACGAACGAAC
2530838 ATAAACGAACATA
1 ATAAACGAACATA
*
2530851 ATAAATGAAC---
1 ATAAACGAACATA
**
2530861 ATAAACGAACACG
1 ATAAACGAACATA
2530874 ATAAACGAACATA
1 ATAAACGAACATA
2530887 A
1 A
2530888 ACGACACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 9 0.30
13 21 0.70
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.14
Consensus pattern (13 bp):
ATAAACGAACATA
Found at i:2530861 original size:23 final size:23
Alignment explanation
Indices: 2530831--2530896 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
2530821 AAAACAAACG
*
2530831 AACGAACATAAACGAACATAATA
1 AACGAACATAAACGAACACAATA
* *
2530854 AATGAACATAAACGAACACGATA
1 AACGAACATAAACGAACACAATA
2530877 AACGAACATAAACG-ACACAA
1 AACGAACATAAACGAACACAA
2530897 ACACAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.11
Consensus pattern (23 bp):
AACGAACATAAACGAACACAATA
Found at i:2531175 original size:18 final size:18
Alignment explanation
Indices: 2531152--2531187 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2531142 CCCTCTGTCG
*
2531152 AACATAAATGAATGAACA
1 AACATAAATGAACGAACA
2531170 AACATAAATGAACGAACA
1 AACATAAATGAACGAACA
2531188 TAAACGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (18 bp):
AACATAAATGAACGAACA
Found at i:2531179 original size:14 final size:14
Alignment explanation
Indices: 2531162--2531197 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2531152 AACATAAATG
2531162 AATGAACAAACATA
1 AATGAACAAACATA
*
2531176 AATGAACGAACATA
1 AATGAACAAACATA
*
2531190 AACGAACA
1 AATGAACA
2531198 TATAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.17, G:0.11, T:0.11
Consensus pattern (14 bp):
AATGAACAAACATA
Found at i:2544093 original size:55 final size:54
Alignment explanation
Indices: 2544002--2544373 Score: 444
Period size: 55 Copynumber: 6.9 Consensus size: 54
2543992 CGGGTTCGCT
* * * *
2544002 CCCTA-TTGTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACACACTT-GTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-GA-TTCGTCTGCC
2544056 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT-CGTCTGCC
2544111 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT-CGTCTGCC
* * *
2544166 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT-CGTCTGCC
*
2544219 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT-CGTCTGCC
*
2544274 CCCTATTTCTTCAGAGAGTATAAAACTCGAAC-ATCTTCAAACGAGTTCG-CT---
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC-AACGA-TTCGTCTGCC
* * *
2544325 CCCTCTTTCTTTAGGGAGTAT-AGAACTCGAAC-ATCTTCAAACGAGTTCG
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACGA-TTCG
2544374 CTCCCTCTTT
Statistics
Matches: 292, Mismatches: 17, Indels: 21
0.88 0.05 0.06
Matches are distributed among these distances:
50 1 0.00
51 43 0.15
53 51 0.17
54 17 0.06
55 178 0.61
56 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTCGTCTGCC
Found at i:2544247 original size:108 final size:109
Alignment explanation
Indices: 2544002--2544313 Score: 465
Period size: 108 Copynumber: 2.9 Consensus size: 109
2543992 CGGGTTCGCT
* * * *
2544002 CCCTA-TTGTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACACACTT-GTCTGCCCCCTATTT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-GA-TTGGTCTGCCCCCTATTT
*
2544064 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
63 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGCC
2544111 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTG-GTCTGCCCCCTATTTCT
* *
2544176 TCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTGCC
65 TCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGCC
2544219 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTG-GTCTGCCCCCTATTTCT
*
2544284 TCAGAGAGTATAAAACTCGAAC-ATCTTCAA
65 TCAGAGAGTATAAGACTCGAACAATCTTCAA
2544314 ACGAGTTCGC
Statistics
Matches: 186, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
108 104 0.56
109 16 0.09
110 66 0.35
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (109 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGGTCTGCCCCCTATTTCTT
CAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGCC
Found at i:2544352 original size:51 final size:51
Alignment explanation
Indices: 2544274--2544976 Score: 913
Period size: 51 Copynumber: 13.8 Consensus size: 51
2544264 TGTGTCTGCC
* * * * *
2544274 CCCTATTTCTTCAGAGAGTATAAAACTCGAACATCTTCAAACGAGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
*
2544325 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGAGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
2544376 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTTC--ACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCT
* *
2544427 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT
* * *
2544478 CCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCGCT
* * *
2544531 CCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGC-
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* *
2544581 CCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAATGGGTTCGCT
1 CCC-TCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
2544633 CCCTCTTTCTTTAGGGAGTATA-AACTCGAACATCTCTTC--ACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCT
* * *
2544683 CCCTCTTTCTCTAGGGAGTATGGAACTTGAACATCTTC-AACTGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT
* * * *
2544734 CCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTTAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* * * * *
2544785 CCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* *
2544836 CCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGA-ACATCTTCAAACGGGTTCGCT
* *
2544887 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* * * *
2544938 CCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCA
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
2544977 TTTGCTTCAC
Statistics
Matches: 590, Mismatches: 43, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
49 10 0.02
50 47 0.08
51 471 0.80
52 12 0.02
53 46 0.08
54 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (51 bp):
CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
Found at i:2545273 original size:36 final size:36
Alignment explanation
Indices: 2545200--2545398 Score: 229
Period size: 36 Copynumber: 5.5 Consensus size: 36
2545190 ACTCTTCTGA
* * **
2545200 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
** * * *
2545237 GAAGAATTAAGATGGTTTGCTTCAATACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
2545273 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
2545309 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
2545345 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
2545381 GAAGGCTTAGGATGGTTT
1 GAAGGCTTAAGATGGTTT
2545399 TTCTCCAATC
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
35 1 0.01
36 127 0.91
37 12 0.09
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:2554819 original size:2 final size:2
Alignment explanation
Indices: 2554812--2554844 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2554802 CATAGTTGTC
2554812 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2554845 GCCACGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2571038 original size:23 final size:23
Alignment explanation
Indices: 2571012--2571059 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2571002 ATCAAGTACA
*
2571012 ATAATATATTAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGTTTAT
*
2571035 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGTTTAT
2571058 AT
1 AT
2571060 TGACCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGTTTAT
Found at i:2571819 original size:181 final size:182
Alignment explanation
Indices: 2571493--2571943 Score: 712
Period size: 181 Copynumber: 2.5 Consensus size: 182
2571483 ACTCTTTTAC
* *
2571493 TACCGGTTTTGTCATTTCGAGACCGAG-TTTATCATATTTTTACATTTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCG-GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCG
* *
2571557 ATACATTTTTATAAAGTATCGACACTTTATTGACACTATAACTTCTTTTCTTTTAAATTTCAAAA
65 ATACATTTTTATAAAGTATCGACACTTTATTGACACTATAACTTCTTCTCTTTTAAATTCCAAAA
* *
2571622 GTGTCGATACTTATAATAAAGTACCGACACTTTCAACATATCCGGTAGCTCTT
130 GTGTCGATACTTATAATAAAGTACCGACACTATCAACATATCCGGTAGCGCTT
2571675 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
*
2571740 TACA-TTTTATAAAGTATCGACACTTTATT-AGCGCTATAACTTCTTCTCTTTTAAATTCCAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTGA-CACTATAACTTCTTCTCTTTTAAATTCCAAAA
* *
2571803 GTGTCGATATTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
130 GTGTCGATACTTATAATAAAGTACCGACACTATCAACATATCCGGTAGCGCTT
* ** * * *
2571856 TACCTGTTTTGTCATTTATAGACCGGTTTTGTTAT-TTTTTACATGTTATATTGTTATCGATCTA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
*
2571920 TATATTTTTATAAAGTATCGACAC
66 TACATTTTTATAAAGTATCGACAC
2571944 AAACCGACAA
Statistics
Matches: 250, Mismatches: 16, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
180 31 0.12
181 154 0.62
182 65 0.26
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGACACTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTACCGACACTATCAACATATCCGGTAGCGCTT
Found at i:2578235 original size:6 final size:6
Alignment explanation
Indices: 2578224--2578249 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2578214 GGTAAACCAT
2578224 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
2578250 AGTAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:2583878 original size:23 final size:23
Alignment explanation
Indices: 2583834--2583878 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2583824 CATTTTATAT
*
2583834 GGCACTTCAGTGCAATTCTACGC
1 GGCACTTCAGTGCAATTATACGC
* *
2583857 GGCACTTCGGTGCATTTATACG
1 GGCACTTCAGTGCAATTATACG
2583879 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTTCAGTGCAATTATACGC
Found at i:2584982 original size:40 final size:40
Alignment explanation
Indices: 2584927--2585009 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
2584917 GTATCTTGTA
2584927 ATTATATCCTCTTGTACCTAACCTTTTTAATCAACATCTG
1 ATTATATCCTCTTGTACCTAACCTTTTTAATCAACATCTG
2584967 ATTATATCCTCTTGTACCTAACCTTTTTAATCAACATCTG
1 ATTATATCCTCTTGTACCTAACCTTTTTAATCAACATCTG
2585007 ATT
1 ATT
2585010 CATTTAACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.43
Consensus pattern (40 bp):
ATTATATCCTCTTGTACCTAACCTTTTTAATCAACATCTG
Found at i:2591680 original size:3 final size:3
Alignment explanation
Indices: 2591672--2591741 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
2591662 AATTTTTCGT
** * *
2591672 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2591720 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
2591742 AAGCCCAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2599200 original size:26 final size:26
Alignment explanation
Indices: 2599164--2599216 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2599154 TCTTATACTC
2599164 ATCCAACAAAGAAAGAAAAAAGAAAA
1 ATCCAACAAAGAAAGAAAAAAGAAAA
* *
2599190 ATCCAGCAAAGAAAGAAGAAAGAAAA
1 ATCCAACAAAGAAAGAAAAAAGAAAA
2599216 A
1 A
2599217 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (26 bp):
ATCCAACAAAGAAAGAAAAAAGAAAA
Found at i:2599226 original size:8 final size:9
Alignment explanation
Indices: 2599197--2599235 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
2599187 AAAATCCAGC
2599197 AAAGAAAGAA
1 AAAGAAA-AA
2599207 GAAAGAAAAA
1 -AAAGAAAAA
2599217 AAAGAAAAA
1 AAAGAAAAA
2599226 AAAGGAAAAA
1 AAA-GAAAAA
2599236 GGTAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 12 0.44
10 8 0.30
11 7 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:2601572 original size:114 final size:114
Alignment explanation
Indices: 2601372--2601705 Score: 533
Period size: 114 Copynumber: 2.9 Consensus size: 114
2601362 CACGTTCTCG
2601372 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
* * *
2601437 GGTATAAACCCCAAAACCAATCATTAGATTTGAAAAATGAATTTATTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
*
2601486 TAGTAGAAATAAAGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
** * *
2601551 GGTATGAACCTTAAAACCAATCATTGGATTTGAAAGATAAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
* * * *
2601600 TAGTAGAAATAAAGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
* * *
2601665 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
2601706 CTGCATGATC
Statistics
Matches: 201, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 201 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
Found at i:2601920 original size:31 final size:31
Alignment explanation
Indices: 2601882--2601944 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2601872 GCACATATAA
2601882 AATCTGTCAACTCTGCAATTGATGAATTCAG
1 AATCTGTCAACTCTGCAATTGATGAATTCAG
2601913 AATCTGTCAACTCTGCAATTGATGAATTCAG
1 AATCTGTCAACTCTGCAATTGATGAATTCAG
2601944 A
1 A
2601945 CCACATCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
AATCTGTCAACTCTGCAATTGATGAATTCAG
Found at i:2603743 original size:54 final size:54
Alignment explanation
Indices: 2603658--2603761 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
2603648 TAATTGAGAA
*
2603658 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATGCTTTACGAAC
* * * *
2603712 ATCTGAGCAGAAGCTACA-AGAAATGAAGAATGTGTTTTCAAATGTTTTAC
1 ATCTGAGCAGAAGCCACAGA-AAAGGAAGAATGTGTTGTCAAATGCTTTAC
2603762 ATCTCGATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.02
54 43 0.98
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (54 bp):
ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:2604211 original size:22 final size:22
Alignment explanation
Indices: 2604182--2604236 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2604172 ATCTACACTC
2604182 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
2604204 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2604226 TTCAAAGATGA
1 TTCAAAGATGA
2604237 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2605039 original size:76 final size:76
Alignment explanation
Indices: 2604913--2605852 Score: 1686
Period size: 76 Copynumber: 12.4 Consensus size: 76
2604903 CTACTTCCCA
2604913 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2604978 AGTCTTAGGGT
66 AGCCTTAGGGT
* *
2604989 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605054 AGCCTTAGGGT
66 AGCCTTAGGGT
2605065 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605130 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2605141 CATATGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605206 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2605217 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2605282 AGTCTTAGGGT
66 AGCCTTAGGGT
* *
2605293 CATCTGTAAGTCCTGCAGTTCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605358 AGCCTTAGGGT
66 AGCCTTAGGGT
2605369 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605434 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2605445 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605510 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2605521 CATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605586 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2605597 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605662 A-CCTTAGGGT
66 AGCCTTAGGGT
* *
2605672 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2605736 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2605747 CATCTGTAAGTCCTACATTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2605812 AGCCTTAAGGT
66 AGCCTTAGGGT
* *
2605823 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
2605853 TTAAGACCTC
Statistics
Matches: 833, Mismatches: 29, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
74 16 0.02
75 112 0.13
76 705 0.85
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2606021 original size:18 final size:18
Alignment explanation
Indices: 2605998--2606057 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
2605988 AATTTTTTGT
2605998 TTATTATTATTAAAATTA
1 TTATTATTATTAAAATTA
2606016 TTATTATTATTATAAA-TA
1 TTATTATTATTA-AAATTA
2606034 TTATTATTATT-AAATATA
1 TTATTATTATTAAAAT-TA
2606052 TTATTA
1 TTATTA
2606058 CAAGCCCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTATTATTAAAATTA
Found at i:2606057 original size:3 final size:3
Alignment explanation
Indices: 2605998--2606045 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
2605988 AATTTTTTGT
** * *
2605998 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2606046 AATATATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:2619641 original size:6 final size:6
Alignment explanation
Indices: 2619625--2619657 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
2619615 TGCGATATAA
2619625 TTTCATT TTTCTT TTTCTT TTTCTT TTT-TT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTT
2619658 GGTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 17 0.65
7 4 0.15
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:2624161 original size:15 final size:15
Alignment explanation
Indices: 2624141--2624173 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2624131 GAACAACATT
2624141 CTCTTCTAATAGTAA
1 CTCTTCTAATAGTAA
2624156 CTCTTCTAATAGTAA
1 CTCTTCTAATAGTAA
2624171 CTC
1 CTC
2624174 AATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (15 bp):
CTCTTCTAATAGTAA
Found at i:2625116 original size:10 final size:10
Alignment explanation
Indices: 2625101--2625139 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
2625091 CATTTAAATG
2625101 ATAAACGAAC
1 ATAAACGAAC
2625111 ATAAACGAAC
1 ATAAACGAAC
*
2625121 GTAAACGAAC
1 ATAAACGAAC
*
2625131 ACAAACGAA
1 ATAAACGAA
2625140 AGAACATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:2625127 original size:20 final size:20
Alignment explanation
Indices: 2625102--2625139 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2625092 ATTTAAATGA
*
2625102 TAAACGAACATAAACGAACG
1 TAAACGAACACAAACGAACG
2625122 TAAACGAACACAAACGAA
1 TAAACGAACACAAACGAA
2625140 AGAACATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.21, G:0.13, T:0.08
Consensus pattern (20 bp):
TAAACGAACACAAACGAACG
Found at i:2625471 original size:14 final size:14
Alignment explanation
Indices: 2625448--2625500 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
2625438 GCCCTCTGTT
2625448 CGAACATAAATGAA
1 CGAACATAAATGAA
*
2625462 CGAACGTAAAT---
1 CGAACATAAATGAA
2625473 -GAACATAAATGAA
1 CGAACATAAATGAA
*
2625486 CGAACATAAACGAA
1 CGAACATAAATGAA
2625500 C
1 C
2625501 ATATAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.28
14 23 0.72
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.13
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:2625478 original size:24 final size:24
Alignment explanation
Indices: 2625448--2625537 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
2625438 GCCCTCTGTT
2625448 CGAACATAAATGAACGAACGTAAA
1 CGAACATAAATGAACGAACGTAAA
* *
2625472 TGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACGTAAA
**
2625496 CGAACAT--AT-AATCGAACGTTCA
1 CGAACATAAATGAA-CGAACGTAAA
*
2625518 CGAACGTAAATGAACGAACG
1 CGAACATAAATGAACGAACG
2625538 AGCCATTTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.04
22 15 0.27
24 36 0.65
25 2 0.04
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.16
Consensus pattern (24 bp):
CGAACATAAATGAACGAACGTAAA
Found at i:2632288 original size:31 final size:30
Alignment explanation
Indices: 2632245--2632414 Score: 164
Period size: 31 Copynumber: 5.5 Consensus size: 30
2632235 ATGAATACTT
* *
2632245 ATAATTAGTTGTA-AATGTTTGATAAATTTA
1 ATAATTA-TTTTATAATATTTGATAAATTTA
* * * *
2632275 ATGATTATTTTGTAATATTTAATATATTTTA
1 ATAATTATTTTATAATATTTGATA-AATTTA
*
2632306 ATTATTATTTTATAATAATTTGATAAATTTA
1 ATAATTATTTTATAAT-ATTTGATAAATTTA
* * *
2632337 ATAACTAATTTATAATAGTTTAATAAATTTA
1 ATAATTATTTTATAATA-TTTGATAAATTTA
2632368 ATAATTATTTTAT-ATCAATTTGATAAATTTA
1 ATAATTATTTTATAAT--ATTTGATAAATTTA
* *
2632399 ATGATTATTTTGTAAT
1 ATAATTATTTTATAAT
2632415 TATTATATCA
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.03
30 18 0.16
31 83 0.73
32 10 0.09
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (30 bp):
ATAATTATTTTATAATATTTGATAAATTTA
Found at i:2632331 original size:11 final size:11
Alignment explanation
Indices: 2632287--2632377 Score: 61
Period size: 11 Copynumber: 8.8 Consensus size: 11
2632277 GATTATTTTG
2632287 TAAT-ATTTAA
1 TAATAATTTAA
*
2632297 T-ATATTTTAA
1 TAATAATTTAA
* * *
2632307 TTATTATTTTA
1 TAATAATTTAA
*
2632318 TAATAATTTGA
1 TAATAATTTAA
2632329 T-A-AATTTAA
1 TAATAATTTAA
2632338 TAACTAATTT-A
1 TAA-TAATTTAA
*
2632349 TAATAGTTTAA
1 TAATAATTTAA
2632360 T-A-AATTTAA
1 TAATAATTTAA
*
2632369 TAATTATTT
1 TAATAATTT
2632378 TATATCAATT
Statistics
Matches: 62, Mismatches: 11, Indels: 15
0.70 0.12 0.17
Matches are distributed among these distances:
9 16 0.26
10 16 0.26
11 25 0.40
12 5 0.08
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:2632337 original size:62 final size:62
Alignment explanation
Indices: 2632262--2632414 Score: 220
Period size: 62 Copynumber: 2.5 Consensus size: 62
2632252 GTTGTAAATG
* *
2632262 TTTGATAAATTTAATGATTATTTTGTAATA-TTTAATATATTTTAATTATTATTTTATAAT-AA
1 TTTGATAAATTTAATGATTATTTTGTAATAGTTTAATA-AATTTAATAATTATTTTAT-ATCAA
* * * *
2632324 TTTGATAAATTTAATAACTAATTTATAATAGTTTAATAAATTTAATAATTATTTTATATCAA
1 TTTGATAAATTTAATGATTATTTTGTAATAGTTTAATAAATTTAATAATTATTTTATATCAA
2632386 TTTGATAAATTTAATGATTATTTTGTAAT
1 TTTGATAAATTTAATGATTATTTTGTAAT
2632415 TATTATATCA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 2 0.03
62 70 0.89
63 7 0.09
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (62 bp):
TTTGATAAATTTAATGATTATTTTGTAATAGTTTAATAAATTTAATAATTATTTTATATCAA
Found at i:2632360 original size:22 final size:20
Alignment explanation
Indices: 2632262--2632400 Score: 74
Period size: 20 Copynumber: 6.8 Consensus size: 20
2632252 GTTGTAAATG
* *
2632262 TTTGATAAATTTAATGATTAT
1 TTTGATAAATTTAAT-AATAA
*
2632283 TTTG-TAATATTTAAT-ATAT
1 TTTGATAA-ATTTAATAATAA
* * *
2632302 TTTAATTATTATTTTATAATAA
1 TTTGA-TA-AATTTAATAATAA
2632324 TTTGATAAATTTAATAACTAA
1 TTTGATAAATTTAATAA-TAA
2632345 TTT-ATAATAGTTTAAT-A-AA
1 TTTGATAA-A-TTTAATAATAA
* *
2632364 TTTAATAATTATTTTAT-ATCAA
1 TTTGATAA--ATTTAATAAT-AA
2632386 TTTGATAAATTTAAT
1 TTTGATAAATTTAAT
2632401 GATTATTTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
19 11 0.12
20 31 0.33
21 31 0.33
22 22 0.23
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTGATAAATTTAATAATAA
Found at i:2638146 original size:79 final size:79
Alignment explanation
Indices: 2638015--2638171 Score: 215
Period size: 79 Copynumber: 2.0 Consensus size: 79
2638005 TAGAAAAAAT
* * * *
2638015 AACATTTTAAGTAGCGCCCAATATTAACGTATCCGGTAGAAAAAATAATGTTTTAGGTGACTCTT
1 AACATTTTAAGTAGCGCCCAATATTAACATATCCGGTAGAAAAAATAATGTTTTAGATAACCCTT
*
2638080 TACCGGAAATGTTA
66 TACCGAAAATGTTA
* * * * **
2638094 AACATTTTAGGTAGCGTCCAATATTAATATTTCCGGTAGAGGAAATAATGTTTTAGATAACCCTT
1 AACATTTTAAGTAGCGCCCAATATTAACATATCCGGTAGAAAAAATAATGTTTTAGATAACCCTT
2638159 TACCGAAAATGTT
66 TACCGAAAATGTT
2638172 TAAAAAATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (79 bp):
AACATTTTAAGTAGCGCCCAATATTAACATATCCGGTAGAAAAAATAATGTTTTAGATAACCCTT
TACCGAAAATGTTA
Found at i:2638435 original size:12 final size:13
Alignment explanation
Indices: 2638417--2638451 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2638407 ATAAATATAA
*
2638417 AAAAAAAATTTAT
1 AAAAAAAATTAAT
2638430 AAAAAAAATTAAT
1 AAAAAAAATTAAT
*
2638443 AAAATAAAT
1 AAAAAAAAT
2638452 AACTAACCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAAAATTAAT
Found at i:2645672 original size:23 final size:23
Alignment explanation
Indices: 2645646--2645693 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2645636 ATAAAGTACA
*
2645646 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
2645669 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2645692 AT
1 AT
2645694 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2646132 original size:21 final size:20
Alignment explanation
Indices: 2646102--2646155 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2646092 GATAGACACT
*
2646102 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
2646123 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
2646146 TTACATTATA
1 TTACATTATA
2646156 TAAGCGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:2646143 original size:23 final size:23
Alignment explanation
Indices: 2646117--2646179 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2646107 ATATAACCAT
2646117 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2646140 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2646163 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2646180 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2646288 original size:30 final size:29
Alignment explanation
Indices: 2646210--2646289 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
2646200 GTGTCCATAC
2646210 TTTTTATAAAATATTAATTTAATAATTTCA
1 TTTTTATAAAATATT-ATTTAATAATTTCA
** * * * * *
2646240 TTTGCACAAAAAATTATTTGATTATTTGA
1 TTTTTATAAAATATTATTTAATAATTTCA
2646269 TATTTTATAAAATATTATTTA
1 T-TTTTATAAAATATTATTTA
2646290 GAATTTTTAA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTTTATAAAATATTATTTAATAATTTCA
Found at i:2646881 original size:18 final size:18
Alignment explanation
Indices: 2646858--2646894 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2646848 CGAAATATAT
2646858 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2646876 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2646894 A
1 A
2646895 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2647347 original size:23 final size:23
Alignment explanation
Indices: 2647315--2647371 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
2647305 GATAGATACT
*
2647315 TTACAATATATAAACGATACCTA
1 TTACATTATATAAACGATACCTA
* *
2647338 TTACATTATATAAGCGCTACCTA
1 TTACATTATATAAACGATACCTA
*
2647361 TTACATCATAT
1 TTACATTATAT
2647372 GTTTACCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.35
Consensus pattern (23 bp):
TTACATTATATAAACGATACCTA
Found at i:2647688 original size:25 final size:25
Alignment explanation
Indices: 2647631--2647696 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2647621 CACTCAAAAG
*
2647631 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
2647656 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
2647681 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
2647697 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:2650473 original size:183 final size:182
Alignment explanation
Indices: 2650157--2650647 Score: 833
Period size: 183 Copynumber: 2.7 Consensus size: 182
2650147 TTAAAATTAC
2650157 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * **
2650222 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACAAGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
2650287 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
2650340 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
2650405 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
2650470 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* * *
2650523 CGACACTTTTTAACAATGTATCG--ACATTTTTCTTCCAATCTGGACATAAAGTACCAACACAAG
1 CGACACTTTTTTA-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
2650586 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGTATAAAACCGGTATATTTATACCG
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
2650648 ATAGCATTGC
Statistics
Matches: 292, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
181 98 0.34
183 191 0.65
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:2652137 original size:3 final size:3
Alignment explanation
Indices: 2652129--2652209 Score: 63
Period size: 3 Copynumber: 27.0 Consensus size: 3
2652119 ACTTGTTTGG
* * * * **
2652129 ATC ATC ATC TTC ATC ATC AAC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
2652177 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2652210 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.25, C:0.35, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:2652164 original size:12 final size:12
Alignment explanation
Indices: 2652129--2652213 Score: 80
Period size: 12 Copynumber: 7.1 Consensus size: 12
2652119 ACTTGTTTGG
*
2652129 ATCATCATCTTC
1 ATCATCATCGTC
* *
2652141 ATCATCAACATC
1 ATCATCATCGTC
* *
2652153 ATCATCGTCATC
1 ATCATCATCGTC
* *
2652165 ATCTTCATCGCC
1 ATCATCATCGTC
* *
2652177 AGCTTCATCGTC
1 ATCATCATCGTC
2652189 ATCATCATCGTC
1 ATCATCATCGTC
*
2652201 ATCTTCATCGTC
1 ATCATCATCGTC
2652213 A
1 A
2652214 GCTTCATCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.25, C:0.34, G:0.07, T:0.34
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:2652191 original size:36 final size:36
Alignment explanation
Indices: 2652151--2652221 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
2652141 ATCATCAACA
*
2652151 TCATCATCGTCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCTTCATCGCCAGCTTCATCG
* *
2652187 TCATCATCATCGTCATCTTCATCGTCAGCTTCATC
1 TCATCATCATCATCATCTTCATCGCCAGCTTCATC
2652222 TTCTGCGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCTTCATCGCCAGCTTCATCG
Found at i:2652218 original size:12 final size:12
Alignment explanation
Indices: 2652167--2652221 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
2652157 TCGTCATCAT
*
2652167 CTTCATCGCCAG
1 CTTCATCGTCAG
*
2652179 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
2652191 CATCATCGTCAT
1 CTTCATCGTCAG
2652203 CTTCATCGTCAG
1 CTTCATCGTCAG
2652215 CTTCATC
1 CTTCATC
2652222 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.35
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:2652220 original size:18 final size:18
Alignment explanation
Indices: 2652163--2652224 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
2652153 ATCATCGTCA
*
2652163 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
2652181 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
2652199 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
2652217 TCATCTTC
1 TCATCTTC
2652225 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:2652224 original size:6 final size:6
Alignment explanation
Indices: 2652133--2652224 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
2652123 GTTTGGATCA
* * * * * * * * *
2652133 TCATCT TCATCA TCAACA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
2652181 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
2652225 TGCGACCGCT
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.36
Consensus pattern (6 bp):
TCATCT
Found at i:2654117 original size:198 final size:197
Alignment explanation
Indices: 2653673--2654637 Score: 1688
Period size: 198 Copynumber: 4.9 Consensus size: 197
2653663 TTTAAATTAG
* *
2653673 TATCGACACAAACTATATTAGTGTCG--ACATTATTTATACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2653736 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2653801 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGCTTTCCATTCATTCTGGGAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
2653866 AAAA
194 AAAA
*
2653870 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2653935 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2654000 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAAA
2654065 AAA
195 AAA
2654068 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2654133 ATTGTACCAGTTAGATTGAAGAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2654198 CG--ACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2654260 AA
196 AA
*
2654262 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2654327 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2654392 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
2654457 AAA
195 AAA
* *
2654460 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCTTAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
2654525 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
2654590 TTGACATTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACA--CTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
2654638 GGCCATATTG
Statistics
Matches: 740, Mismatches: 19, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
194 138 0.19
195 47 0.06
196 8 0.01
197 30 0.04
198 353 0.48
199 126 0.17
200 38 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AA
Found at i:2654457 original size:392 final size:395
Alignment explanation
Indices: 2653673--2654637 Score: 1699
Period size: 392 Copynumber: 2.4 Consensus size: 395
2653663 TTTAAATTAG
* *
2653673 TATCGACACAAACTATATTAGTGTCG--ACATTATTTATACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2653736 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2653801 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGCTTTCCATTCATTCTGGGAAA
131 CG--ACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
* *
2653866 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGG
2653931 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
259 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
2653996 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGG
324 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGG
2654061 AAAAAAA
389 AAAAAAA
2654068 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2654133 ATTGTACCAGTTAGATTGAAGAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2654198 CGAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAAAA
131 CGACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAAAA
2654260 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGGTA
2654325 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
2654390 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCT-GGA
326 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGGA
2654454 AAAAAA
390 AAAAAA
* *
2654460 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCTTAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * * *
2654525 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
2654590 TTGACATTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGAC---TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
2654638 GGCCATATTG
Statistics
Matches: 546, Mismatches: 15, Indels: 15
0.95 0.03 0.03
Matches are distributed among these distances:
392 259 0.47
393 116 0.21
394 4 0.01
395 28 0.05
397 105 0.19
398 34 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (395 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGGAA
AAAAA
Found at i:2654802 original size:19 final size:19
Alignment explanation
Indices: 2654756--2654804 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2654746 TTATATTCAC
*
2654756 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2654775 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2654794 ATACAAAATTA
1 ATACAAAATTA
2654805 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2656628 original size:32 final size:32
Alignment explanation
Indices: 2656592--2656655 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2656582 CATCTTAATA
*
2656592 TCACCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
* *
2656624 TCACCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
2656656 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (32 bp):
TCACCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2656728 original size:21 final size:21
Alignment explanation
Indices: 2656704--2656752 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2656694 AGTGTATCTT
* *
2656704 CGACTCTCTCGAGTTTCTCTA
1 CGACTCTATCAAGTTTCTCTA
* *
2656725 CGACTCGATCAAGTTTCTCTT
1 CGACTCTATCAAGTTTCTCTA
2656746 CGACTCT
1 CGACTCT
2656753 TGATTGTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.33, G:0.14, T:0.37
Consensus pattern (21 bp):
CGACTCTATCAAGTTTCTCTA
Found at i:2658997 original size:17 final size:18
Alignment explanation
Indices: 2658975--2659017 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2658965 ATATATCCGG
2658975 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2658992 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2659012 TATCAT
1 TATCAT
2659018 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2659035 original size:20 final size:19
Alignment explanation
Indices: 2658980--2659026 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2658970 TCCGGTATCA
2658980 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2658999 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2659020 TTTTACC
1 TTTTACC
2659027 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2659673 original size:224 final size:226
Alignment explanation
Indices: 2659254--2659691 Score: 767
Period size: 224 Copynumber: 1.9 Consensus size: 226
2659244 TTAAAACTGC
2659254 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
2659319 CTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 CTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
*
2659384 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAATAAG
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATATTTTCAACAGTGAATAAG
*
2659449 TATGGACACTTTTATAAAATGATATATACTT
196 TATGGACACTTTCATAAAATGATATATACTT
*
2659480 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATG-TTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
* *
2659544 ATTAATTTAATAATTTCATTTACACAAAA-ATTATTTGATTGTTTTGATATTTTAT-AAATATTA
65 ACTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
2659607 TTTAGATTTTAAATTTAACAATATTAACTAAATATAATAATAAATATATTTTC-ACAGTGAAATA
130 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATATTTTCAACAGTG-AATA
2659671 AGTATGGACACTTTCATAAAA
194 AGTATGGACACTTTCATAAAA
2659692 AGGATAGATA
Statistics
Matches: 203, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
223 6 0.03
224 82 0.40
225 26 0.13
226 45 0.22
227 44 0.22
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
CTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATATTTTCAACAGTGAATAAG
TATGGACACTTTCATAAAATGATATATACTT
Found at i:2665642 original size:14 final size:14
Alignment explanation
Indices: 2665624--2665670 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
2665614 ATTATTTTTA
2665624 ATTTAGAATTTAA-
1 ATTTAGAATTTAAG
**
2665637 AGTTTAGTGTTTAAG
1 A-TTTAGAATTTAAG
2665652 ATTTAGAATTCTAAG
1 ATTTAGAATT-TAAG
2665667 ATTT
1 ATTT
2665671 TAGGAGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.04
14 17 0.63
15 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (14 bp):
ATTTAGAATTTAAG
Found at i:2666232 original size:13 final size:13
Alignment explanation
Indices: 2666214--2666261 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
2666204 TGCGTCATAA
*
2666214 ATTTATGACGCAC
1 ATTTATGACGCGC
* *
2666227 ATTTATTACACGC
1 ATTTATGACGCGC
2666240 ATTTATGACGCGC
1 ATTTATGACGCGC
2666253 ATTTATGAC
1 ATTTATGAC
2666262 TTACATTGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:2666374 original size:15 final size:16
Alignment explanation
Indices: 2666354--2666391 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
2666344 ACTTACATTG
2666354 CGTGTCATTGAAG-CC
1 CGTGTCATTGAAGTCC
2666369 CGTGTCATTGAAGTCC
1 CGTGTCATTGAAGTCC
2666385 C-TGTCAT
1 CGTGTCAT
2666392 AAATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (16 bp):
CGTGTCATTGAAGTCC
Found at i:2674601 original size:3 final size:3
Alignment explanation
Indices: 2674595--2674627 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2674585 TTTAGGAAAA
*
2674595 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2674628 ACATTTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2676481 original size:33 final size:33
Alignment explanation
Indices: 2676435--2676500 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2676425 AAATGCTTCA
* *
2676435 GTTTTAGTGTTTCAATAGGACTCAAATACGTTG
1 GTTTCAGTGTTTCAATAAGACTCAAATACGTTG
*
2676468 GTTTCAGTGTTTCAATAAGATTCAAATACGTTG
1 GTTTCAGTGTTTCAATAAGACTCAAATACGTTG
2676501 ATTTATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (33 bp):
GTTTCAGTGTTTCAATAAGACTCAAATACGTTG
Found at i:2676595 original size:16 final size:16
Alignment explanation
Indices: 2676551--2676622 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 16
2676541 CGGGGCCTGC
2676551 AAAAATAAT-AA-AAT
1 AAAAATAATAAATAAT
*
2676565 AAAAAT-ATGCTAATAAT
1 AAAAATAAT--AAATAAT
2676582 AAAAATAATAAATATAT
1 AAAAATAATAAATA-AT
2676599 AAATAAATATATAATATAAT
1 -AA-AAATA-ATAA-ATAAT
2676619 AAAA
1 AAAA
2676623 TGTTCATGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
13 2 0.04
14 6 0.13
16 6 0.13
17 11 0.23
18 6 0.13
19 7 0.15
20 6 0.13
21 3 0.06
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (16 bp):
AAAAATAATAAATAAT
Found at i:2676603 original size:12 final size:12
Alignment explanation
Indices: 2676588--2676617 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
2676578 TAATAAAAAT
2676588 AATAAATATATA
1 AATAAATATATA
2676600 AATAAATATATA
1 AATAAATATATA
2676612 ATATAA
1 A-ATAA
2676618 TAAAATGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATATATA
Found at i:2677098 original size:84 final size:83
Alignment explanation
Indices: 2676969--2677637 Score: 626
Period size: 84 Copynumber: 8.1 Consensus size: 83
2676959 AATGAAATCA
* * * *
2676969 AACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATGATAGTGCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-GTGCC
* * *
2677031 TTTGAGCTGAGTGGAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * *
2677050 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCCGTAAATGATATGCCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CC
* * * *
2677115 TCGAAGCTGAGTGTAATCG
65 TTGGAGCTGAGCGTAGTCG
* *
2677134 AACTCGAGGGGTCTTTG--G-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
* *
2677196 TTGGAGCTTAGCGT-GATCA
65 TTGGAGCTGAGCGTAG-TCG
* * * * * *
2677215 AACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-C
* * * * *
2677280 CTCGAAACTGAGTGTAATCG
64 CTTGGAGCTGAGCGTAGTCG
* * * *
2677300 AACTCG-AGG--GTT-TT--CAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
2677359 TGGAGCTGAGCGTAGTCG
66 TGGAGCTGAGCGTAGTCG
* * *
2677377 AACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGAATTAAGTTATGCTGCAAATGATATGCC
1 AACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
*
2677442 TTGGAGCTGAGCATAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * * ** *
2677461 AACTCGAAGGTCTTTTGGTCACAGACAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTACC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT-GC
*** * * *
2677526 CTCAAAGCTGAGTGTAATCA
64 CTTGGAGCTGAGCGTAGTCG
* * * * * *
2677546 AACTTGAGGGTCTTCGGTTGGCAGATAACCCTTTTTGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
2677611 TTGGAGCTGAGCGTAGTCG
65 TTGGAGCTGAGCGTAGTCG
2677630 AACTCGAA
1 AACTCGAA
2677638 TGCCTTTGGT
Statistics
Matches: 469, Mismatches: 97, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
77 22 0.05
78 38 0.08
80 7 0.01
81 43 0.09
82 38 0.08
83 4 0.01
84 227 0.48
85 90 0.19
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (83 bp):
AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCG
Found at i:2677245 original size:166 final size:165
Alignment explanation
Indices: 2676941--2677646 Score: 703
Period size: 166 Copynumber: 4.3 Consensus size: 165
2676931 GCAACGCGTT
* * * * * *
2676941 TGATACGCCCTCG-AGCTGAATGAAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCT
1 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACT
* * * * *
2677005 TGAGATATGCTGCAAATGATAGTGCCTTTGAGCTGAGTG-GAGTCGAACTCGAAGGTCTTTGTTG
66 TAAGTTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTGAGTCGAACTCGAAGGTCTTTGGTG
*
2677069 ACAGATAACCCTTCTAGCCTTGAGTTATGCCGTAAA
130 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
*
2677105 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGGTCTTTGGCAGATAACCCTTCTCGAC
1 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGA-AGGTCTTTGGCAGATAACCCTTCTCGAC
* *
2677170 TTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGTGA-TCAAACTCGAAGGTCTTTTGGT
65 TTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTGAGTCGAACTCGAAGGTC-TTTGGT
* *
2677234 CACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
129 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * * *
2677271 TGATGTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGT-TTT--CAGATAACTCTTCTCGACT
1 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACT
*
2677333 TAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAGCGT-AGTCGAACTCGAAGGTCTTTGGTTG
66 TAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTGAGTCGAACTCGAAGGTCTTTGG-TG
* ** * *
2677397 ACAGATAACCCTTCTCGAATTAAGTTATGCTGCAAA
130 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * ** * * *
2677433 TGATATG-CCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTCACAGACAACCCTTCTA
1 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTC
* * ** * *** * * * * * *
2677497 GCCTTGAGTTATGCTATAAATGATGTACCCTCAAAGCTGAGTGT-AATCAAACTTGAGGGTCTTC
62 GACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTGAGTCGAACTCGAAGGTCTTT
* * * * * *
2677561 GGTTGGCAGATAACCCTTTTTGACTTAAGTTATGCTGCAAA
126 GG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * * * * * *
2677602 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAATGCCTTTGG
1 TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
2677647 TGGGCACGAT
Statistics
Matches: 465, Mismatches: 63, Indels: 24
0.84 0.11 0.04
Matches are distributed among these distances:
161 31 0.07
162 106 0.23
163 3 0.01
164 15 0.03
165 52 0.11
166 119 0.26
168 39 0.08
169 100 0.22
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
TGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACT
TAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTGAGTCGAACTCGAAGGTCTTTGGTGA
CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
Found at i:2677429 original size:246 final size:245
Alignment explanation
Indices: 2676965--2677648 Score: 803
Period size: 246 Copynumber: 2.8 Consensus size: 245
2676955 GCTGAATGAA
* * *
2676965 ATCAAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATGATA
1 ATCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT-
* * * * * * *
2677026 GTGCCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTT
65 GTGCCCTCGAAACTGAGTGTAATCGAACTCG-AGG--GTTGTTG-CAGATAACCCTTCTAGACTT
* * * * * * * * * *
2677090 GAGTTATGCCGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGGTCTTT-G-GC
126 AAGTTATGCTGCAAATGATGT-ACCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTCTTTGGTGC
* * * *
2677153 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGT
189 AGATAACCCTTCTCGAATTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCAT
*
2677210 GATCAAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 -ATCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* *
2677275 GTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTT-TT-CAGATAACTCTTCTCGACTTAAGT
65 GTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTTGTTGCAGATAACCCTTCTAGACTTAAGT
2677338 TATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGAT
130 TATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TG-CAGAT
2677403 AACCCTTCTCGAATTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCAT
193 AACCCTTCTCGAATTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCAT
* * *
2677456 AGTCGAACTCGAAGGTCTTTTGGTCACAGACAACCCTTCTAGCCTTGAGTTATGCTATAAATGAT
1 A-TCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* * * * *
2677521 GTACCCTC-AAAGCTGAGTGTAATCAAACTTGAGGGTCTTCGGTTGGCAGATAACCCTTTTTGAC
65 GTGCCCTCGAAA-CTGAGTGTAATCGAACTCGAGGG--TT--GTT-GCAGATAACCCTTCTAGAC
* * *
2677585 TTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAATGCCTTTGGTG
124 TTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTG
2677649 GGCACGATTC
Statistics
Matches: 380, Mismatches: 40, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
242 7 0.02
243 25 0.07
244 34 0.09
245 5 0.01
246 159 0.42
247 7 0.02
248 2 0.01
249 10 0.03
250 53 0.14
251 2 0.01
252 2 0.01
253 74 0.19
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (245 bp):
ATCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
TGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTTGTTGCAGATAACCCTTCTAGACTTAAGTT
ATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAAC
CCTTCTCGAATTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCAT
Found at i:2677974 original size:110 final size:110
Alignment explanation
Indices: 2677754--2678190 Score: 666
Period size: 110 Copynumber: 4.0 Consensus size: 110
2677744 ATCCAAATAT
* * * * *
2677754 TTGTGTTGTTTCAAGGCTAATATCCTTCGCTGTGAAGTTGAAATTGACTC----TGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * *
2677815 AGTTGTTTGTTGACAGCCAGTCGTCCATTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
2677860 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
2677925 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
2677970 TTGTGTTGTCTCGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGATTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
2678035 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGTTGTGAAGTTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAG-TTGAGC
* * * *
2678081 TTGTGGTGTCTCGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGACTTTGAATGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
2678146 AGTTATTTGTTGACCGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
2678191 AACCACCATC
Statistics
Matches: 302, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
106 46 0.15
110 157 0.52
111 99 0.33
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:2678110 original size:221 final size:216
Alignment explanation
Indices: 2677754--2678190 Score: 658
Period size: 221 Copynumber: 2.0 Consensus size: 216
2677744 ATCCAAATAT
* * * *
2677754 TTGTGTTGTTTCAAGGCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTGGAAAGTT
1 TTGTGTTGTCTCAAGGCCAATATCCTTCGCTGTGAAGTTGAAATTGACTATGAAACTGAAAAGTT
** *
2677819 GTTTGTTGACAGCCAGTCGTCCATTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
66 GTTTGTTGACAGCCAGTCACCCATTCGCTGTGAAGTTGAGCTTGTGGTGTCTCGAGTCCAATATC
* *
2677884 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGC
131 CTTCGCTATGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCGC
2677949 CCCTTCGCTGTGAAGTTGAGC
196 CCCTTCGCTGTGAAGTTGAGC
* * * *
2677970 TTGTGTTGTCTCGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGATTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCAAGGCCAATATCCTTCGCTGTGAAGTTGAAATTGA--CT--ATGAAACTGAAA
* * *
2678035 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGTTGTGAAGTTTGAGCTTGTGGTGTCTCGAGTCCA
62 AGTTGTTTGTTGACAGCCAGTCACCCATTCGCTGTGAAG-TTGAGCTTGTGGTGTCTCGAGTCCA
* * *
2678100 ATATCCTTCGCTATGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTATTTGTTGACCGTCA
126 ATATCCTTCGCTATGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCA
2678165 GTCGCCCCTTCGCTGTGAAGTTGAGC
191 GTCGCCCCTTCGCTGTGAAGTTGAGC
2678191 AACCACCATC
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
216 41 0.21
218 2 0.01
220 44 0.22
221 110 0.56
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (216 bp):
TTGTGTTGTCTCAAGGCCAATATCCTTCGCTGTGAAGTTGAAATTGACTATGAAACTGAAAAGTT
GTTTGTTGACAGCCAGTCACCCATTCGCTGTGAAGTTGAGCTTGTGGTGTCTCGAGTCCAATATC
CTTCGCTATGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCGC
CCCTTCGCTGTGAAGTTGAGC
Found at i:2680193 original size:30 final size:30
Alignment explanation
Indices: 2680097--2680306 Score: 371
Period size: 30 Copynumber: 7.2 Consensus size: 30
2680087 TCCGAATGAC
2680097 CTATCCAGAGGTCATAAAGATCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680126 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680156 C--TCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680184 CTATCCAGAGGTCATAAAGATCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680213 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680243 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680273 C--TCCAGAGGTCAT-AAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2680300 CTATCCA
1 CTATCCA
2680307 TAGGCCCGAA
Statistics
Matches: 175, Mismatches: 0, Indels: 12
0.94 0.00 0.06
Matches are distributed among these distances:
27 15 0.09
28 40 0.23
29 58 0.33
30 62 0.35
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2680243 original size:87 final size:88
Alignment explanation
Indices: 2680097--2680306 Score: 374
Period size: 87 Copynumber: 2.4 Consensus size: 88
2680087 TCCGAATGAC
2680097 CTATCCAGAGGTCATAAAGATCCTCGTAACTATCCAGAGGTCATAAAGATCCTCGGTAAC-TCCA
1 CTATCCAGAGGTCATAAAGATCCTCGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACATCCA
2680161 GAGGTCATAAAGATCCTCGGTAA
66 GAGGTCATAAAGATCCTCGGTAA
2680184 CTATCCAGAGGTCATAAAGATCCTCGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
1 CTATCCAGAGGTCATAAAGATCCTCGTAACTATCCAGAGGTCATAAAGATCCTCGGTAAC-ATCC
2680249 AGAGGTCATAAAGATCCTCGGTAA
65 AGAGGTCATAAAGATCCTCGGTAA
2680273 C--TCCAGAGGTCAT-AAGATCCTCGGTAACTATCCA
1 CTATCCAGAGGTCATAAAGATCCTC-GTAACTATCCA
2680307 TAGGCCCGAA
Statistics
Matches: 120, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
86 9 0.08
87 83 0.69
89 28 0.23
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (88 bp):
CTATCCAGAGGTCATAAAGATCCTCGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACATCCA
GAGGTCATAAAGATCCTCGGTAA
Found at i:2684680 original size:59 final size:60
Alignment explanation
Indices: 2684554--2684802 Score: 452
Period size: 59 Copynumber: 4.2 Consensus size: 60
2684544 TCCGAAGGAC
*
2684554 CTATCCAGAGGTCATAAAGATCCTCGATAACTATCCAGA-GTC-TAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
2684612 CTATCCAGAGGTCATAAAGATCCTC-GTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
2684671 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
2684731 CTATCCAGAGGTCA-AAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2684790 CTATCCATAGGTC
1 CTATCCAGAGGTC
2684803 CCGAAGAACC
Statistics
Matches: 186, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
57 12 0.06
58 28 0.15
59 98 0.53
60 48 0.26
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (60 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2684723 original size:89 final size:90
Alignment explanation
Indices: 2684554--2684802 Score: 452
Period size: 89 Copynumber: 2.8 Consensus size: 90
2684544 TCCGAAGGAC
*
2684554 CTATCCAGAGGTCATAAAGATCCTCGATAACTATCCAGA-GTC-TAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
2684617 CAGAGGTCATAAAGATCCTC-GTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
2684641 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
2684706 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
2684731 CTATCCAGAGGTCA-AAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
*
2684795 CATAGGTC
66 CAGAGGTC
2684803 CCGAAGAACC
Statistics
Matches: 157, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
87 38 0.24
88 3 0.02
89 98 0.62
90 18 0.11
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (90 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
CAGAGGTCATAAAGATCCTCGGTAA
Found at i:2684819 original size:30 final size:30
Alignment explanation
Indices: 2684554--2684802 Score: 452
Period size: 30 Copynumber: 8.4 Consensus size: 30
2684544 TCCGAAGGAC
*
2684554 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684584 CTATCCAGA-GTC-TAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684612 CTATCCAGAGGTCATAAAGATCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684641 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684671 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684701 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684731 CTATCCAGAGGTCA-AAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2684760 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2684790 CTATCCATAGGTC
1 CTATCCAGAGGTC
2684803 CCGAAGAACC
Statistics
Matches: 213, Mismatches: 2, Indels: 8
0.96 0.01 0.04
Matches are distributed among these distances:
28 24 0.11
29 64 0.30
30 125 0.59
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2684842 original size:31 final size:31
Alignment explanation
Indices: 2684788--2684880 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
2684778 GATCCTCGGT
* *
2684788 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
2684819 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
2684850 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
2684881 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:2685061 original size:4 final size:4
Alignment explanation
Indices: 2685052--2685076 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2685042 ATATAACCAT
2685052 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
2685077 GTCATCCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Done.