Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 30
Found at i:4639447 original size:29 final size:30
Alignment explanation
Indices: 4639384--4639447 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
4639374 AAAATATATA
4639384 ATATAGTTTTTTGAAAATATTTTTAAAAGT
1 ATATAGTTTTTTGAAAATATTTTTAAAAGT
*
4639414 GTATAG-TTTTTGAAAATATTTTTGAAAA-T
1 ATATAGTTTTTTGAAAATATTTTT-AAAAGT
4639443 ATATA
1 ATATA
4639448 TAATATATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (30 bp):
ATATAGTTTTTTGAAAATATTTTTAAAAGT
Found at i:4639553 original size:36 final size:35
Alignment explanation
Indices: 4639415--4639702 Score: 233
Period size: 35 Copynumber: 7.8 Consensus size: 35
4639405 TTTAAAAGTG
*
4639415 TATAGTTTTTGAAAATATTTTTGAAAATATATATAATA
1 TATA-TTTTT-AAAACATTTTT-AAAATATATATAATA
** * * *
4639453 TATGGTTTTAAAAAATATTTTAAAAAAACATATATATTA
1 TATATTTTTAAAACAT-TTTT---AAAATATATATAATA
** *
4639492 TATAGTTTAAAAAACA-TTTTGAAATATATATAATA
1 TATA-TTTTTAAAACATTTTTAAAATATATATAATA
4639527 TGAT-TTTTTAAAAGCATTTTTAAAATATATATAATA
1 T-ATATTTTTAAAA-CATTTTTAAAATATATATAATA
* * *
4639563 TATAGTTTTTAAAAACATTTTGAAAA-ATGTATAATG
1 TATA-TTTTT-AAAACATTTTTAAAATATATATAATA
* *
4639599 TATAATTTTTAAAACATTTTGAAAA-CTATATAATA
1 TAT-ATTTTTAAAACATTTTTAAAATATATATAATA
*
4639634 TATGATTTTGAAAACATTTTTAAAATATATATATAATA
1 TAT-ATTTTTAAAACATTTTT-AAA-ATATATATAATA
* *
4639672 TATAATTTTAAAATATTATTTAAAAGTATAT
1 TATATTTTTAAAACATT-TTTAAAA-TATAT
4639703 TATATGATTT
Statistics
Matches: 204, Mismatches: 30, Indels: 33
0.76 0.11 0.12
Matches are distributed among these distances:
34 7 0.03
35 57 0.28
36 47 0.23
37 44 0.22
38 26 0.13
39 16 0.08
40 7 0.03
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (35 bp):
TATATTTTTAAAACATTTTTAAAATATATATAATA
Found at i:4639694 original size:38 final size:36
Alignment explanation
Indices: 4639421--4639702 Score: 211
Period size: 36 Copynumber: 7.7 Consensus size: 36
4639411 AGTGTATAGT
* * **
4639421 TTTTGAAAATATTTTTGAAAATATATATAATATATGG
1 TTTT-AAAACATTTTTAAAAATATATATAATATATAA
* * * *
4639458 TTTTAAAAAATATTTTAAAAAAACATATATATTATATAG
1 TTTTAAAACAT-TTTT--AAAAATATATATAATATATAA
* * *
4639497 TTTAAAAAACA-TTTT-GAAATATATATAATATGAT-T
1 TTT-TAAAACATTTTTAAAAATATATATAATAT-ATAA
*
4639532 TTTTAAAAGCATTTTT-AAAATATATATAATATATAGT
1 TTTTAAAA-CATTTTTAAAAATATATATAATATATA-A
* * *
4639569 TTTTAAAAACA-TTTTGAAAA-ATGTATAATGTATAA
1 TTTT-AAAACATTTTTAAAAATATATATAATATATAA
* * *
4639604 TTTTTAAAACA-TTTTGAAAA-CTATATAATATATGA
1 -TTTTAAAACATTTTTAAAAATATATATAATATATAA
4639639 TTTTGAAAACATTTTTAAAATATATATATAATATATAA
1 TTTT-AAAACATTTTTAAAA-ATATATATAATATATAA
* *
4639677 TTTTAAAATATTATTTAAAAGTATAT
1 TTTTAAAACATT-TTTAAAAATATAT
4639703 TATATGATTT
Statistics
Matches: 203, Mismatches: 25, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
34 8 0.04
35 52 0.26
36 54 0.27
37 32 0.16
38 32 0.16
39 20 0.10
40 5 0.02
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (36 bp):
TTTTAAAACATTTTTAAAAATATATATAATATATAA
Found at i:4639701 original size:26 final size:26
Alignment explanation
Indices: 4639651--4639701 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4639641 TTGAAAACAT
*
4639651 TTTTAAAATATATATATAATATATAA
1 TTTTAAAATATATATATAAAATATAA
*
4639677 TTTTAAAATAT-TATTTAAAAGTATA
1 TTTTAAAATATATATATAAAA-TATA
4639702 TTATATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTAAAATATATATATAAAATATAA
Found at i:4639745 original size:71 final size:71
Alignment explanation
Indices: 4639421--4639735 Score: 197
Period size: 72 Copynumber: 4.4 Consensus size: 71
4639411 AGTGTATAGT
* * ** * * *
4639421 TTTTGAAAATATTTTTGAAA-ATATATATAATATATGGTTTTAAAAAATATTTTAAAAAAACATA
1 TTTT-AAAACATTTTTAAAACATATATATAATATATAATTTT-TAAAACATTTT--GAAAAC-TA
4639485 TATATTATAT-A
61 TATA-TATATGA
* * * *
4639496 GTTTAAAAAACA-TTTT-GAA-ATATATATAATATGAT--TTTTTAAAAGCATTTTTAAAATATA
1 -TTT-TAAAACATTTTTAAAACATATATATAATAT-ATAATTTTTAAAA-CATTTTGAAAA-CTA
*
4639556 TATAATATATAGT
61 TAT-ATATAT-GA
* * *
4639569 TTTTAAAAACA-TTTTGAAA-A-ATGTATAATGTATAATTTTTAAAACATTTTGAAAACTATATA
1 TTTT-AAAACATTTTTAAAACATATATATAATATATAATTTTTAAAACATTTTGAAAACTATAT-
4639631 ATATATGA
64 ATATATGA
* * * *
4639639 TTTTGAAAACATTTTTAAAATATATATATAATATATAA-TTTTAAAATATTATTTAAAAGTATAT
1 TTTT-AAAACATTTTTAAAACATATATATAATATATAATTTTTAAAACATT-TTGAAAACTATAT
4639703 -TATATGA
64 ATATATGA
**
4639710 TTTT-AAATTTTTTTAAAACATATATA
1 TTTTAAAACATTTTTAAAACATATATA
4639736 GTATGTATAT
Statistics
Matches: 199, Mismatches: 25, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
69 19 0.10
70 11 0.06
71 46 0.23
72 49 0.25
73 45 0.23
74 15 0.08
75 6 0.03
76 8 0.04
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (71 bp):
TTTTAAAACATTTTTAAAACATATATATAATATATAATTTTTAAAACATTTTGAAAACTATATAT
ATATGA
Found at i:4639772 original size:20 final size:21
Alignment explanation
Indices: 4639743--4639810 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
4639733 ATAGTATGTA
*
4639743 TATTTATATT-TTT-TTAATT
1 TATTTTTATTATTTATTAATT
*
4639762 TCATTTTTATTATTTATTTA-T
1 T-ATTTTTATTATTTATTAATT
* *
4639783 TATTTTTATTGTTTATTCATT
1 TATTTTTATTATTTATTAATT
4639804 TATTTTT
1 TATTTTT
4639811 TGTTTATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 24 0.59
21 13 0.32
22 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (21 bp):
TATTTTTATTATTTATTAATT
Found at i:4639779 original size:7 final size:6
Alignment explanation
Indices: 4639753--4639819 Score: 55
Period size: 6 Copynumber: 10.5 Consensus size: 6
4639743 TATTTATATT
* *
4639753 TTTTTA ATTTCA TTTTTA TTATTTA TTTATTA TTTTTA TTGTTTA TTCATTTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTT-TTA TTTTTA TT-TTTA TT--TTTA
*
4639806 TTTTT- TGTTTA TTT
1 TTTTTA TTTTTA TTT
4639820 CATTTCAGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 4 0.08
6 21 0.43
7 18 0.37
8 6 0.12
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:4639819 original size:15 final size:15
Alignment explanation
Indices: 4639744--4639811 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
4639734 TAGTATGTAT
*
4639744 ATTTATATTTTT-TTA
1 ATTTAT-TTTTTATTC
4639759 ATTTCA-TTTTTATT-
1 ATTT-ATTTTTTATTC
*
4639773 ATTTATTTATTATT-
1 ATTTATTTTTTATTC
*
4639787 -TTTATTGTTTATTC
1 ATTTATTTTTTATTC
4639801 ATTTATTTTTT
1 ATTTATTTTTT
4639812 GTTTATTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.27
14 16 0.36
15 15 0.34
16 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (15 bp):
ATTTATTTTTTATTC
Found at i:4639821 original size:20 final size:20
Alignment explanation
Indices: 4639744--4639824 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
4639734 TAGTATGTAT
*
4639744 ATTTATATTTTT-TTAATTTC
1 ATTTAT-TTTTTGTTTATTTC
* *
4639764 A-TT-TTTATTATTTATTT-
1 ATTTATTTTTTGTTTATTTC
4639781 A-TTATTTTTATTGTTTA-TTC
1 ATTTA-TTTT-TTGTTTATTTC
4639801 ATTTATTTTTTGTTTATTTC
1 ATTTATTTTTTGTTTATTTC
4639821 ATTT
1 ATTT
4639825 CAGGTCCGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
17 7 0.14
18 7 0.14
19 14 0.28
20 19 0.38
21 3 0.06
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTATTTTTTGTTTATTTC
Found at i:4641530 original size:31 final size:31
Alignment explanation
Indices: 4641492--4641555 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
4641482 GTCGCGACAA
*
4641492 ATATGATCA-TCTTCGTTTTTATTTAATTAAG
1 ATATGATCACT-TTCGGTTTTATTTAATTAAG
* *
4641523 ATATGATCACTTTTGGTTTTATTTATTTAAG
1 ATATGATCACTTTCGGTTTTATTTAATTAAG
4641554 AT
1 AT
4641556 GTGGTTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (31 bp):
ATATGATCACTTTCGGTTTTATTTAATTAAG
Found at i:4642130 original size:21 final size:21
Alignment explanation
Indices: 4642087--4642130 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4642077 CAGTGACCAA
* *
4642087 AAGTGGACAAAATACAAATAT
1 AAGTGGACAAAACACAAACAT
*
4642108 AAGTGGACAAAACACGAACAT
1 AAGTGGACAAAACACAAACAT
4642129 AA
1 AA
4642131 ATTCTTCTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (21 bp):
AAGTGGACAAAACACAAACAT
Found at i:4646408 original size:14 final size:14
Alignment explanation
Indices: 4646389--4646436 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
4646379 GCCTTCTGTT
4646389 CGAACATAAATGAA
1 CGAACATAAATGAA
4646403 CGAACATAAAT---
1 CGAACATAAATGAA
4646414 -GAACATAAATGAA
1 CGAACATAAATGAA
4646427 CGAACATAAA
1 CGAACATAAA
4646437 CAAACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.33
14 20 0.67
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:4646419 original size:24 final size:24
Alignment explanation
Indices: 4646389--4646454 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
4646379 GCCTTCTGTT
4646389 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
*
4646413 TGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
*
4646437 CAAACATATAATCGAACG
1 CGAACATA-AAT-GAACG
4646455 TTCATGAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 29 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (24 bp):
CGAACATAAATGAACGAACATAAA
Found at i:4646912 original size:10 final size:9
Alignment explanation
Indices: 4646889--4646914 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4646879 GCTTAATTTT
4646889 ATTTTTTCA
1 ATTTTTTCA
4646898 ATTTTTTCA
1 ATTTTTTCA
4646907 ATTTTTTC
1 ATTTTTTC
4646915 GTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTTCA
Found at i:4647632 original size:23 final size:23
Alignment explanation
Indices: 4647585--4647634 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
4647575 AATAACATAT
**
4647585 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
4647608 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
4647631 TAGG
1 TAGG
4647635 CATTTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:4648682 original size:200 final size:199
Alignment explanation
Indices: 4648304--4648894 Score: 794
Period size: 200 Copynumber: 3.0 Consensus size: 199
4648294 TTTCGATGTT
* * * *
4648304 TTTGGGTCGATACTTTATGTATACTTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATT
1 TTTGTGTCGATACTTTATGTATACTTGTTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATT
* * * * * *
4648369 GTAAAGTGACCTATTACATTATAATTATAGGTTTCGGTGTATTTGAGATCGACACTTGTTATAAA
65 GTTAATTAACCTATTACATTATAATTATATGTTTCGATG-ATTTTAGATCGACACTTGTTATAAA
* * *
4648434 TGTATCGACACTTTTTTGTGCA-TTGGTTTGGAAAATACATTATGGACAAAAAGTATCGACATTT
129 TGTATCGACACTTTCTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGACACTT
*
4648498 GTTGGA
194 GTTAGA
* *
4648504 TTTGTGTCGATATTTTATGTATACTTGTTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTG
1 TTTGTGTCGATACTTTATGTATACTTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTG
* *
4648569 TTATTTTACCTATTACATTAT-ATCTATATGTTTCGATGATTTTAGTATCGACACTTGTTATAAA
66 TTAATTAACCTATTACATTATAAT-TATATGTTTCGATGATTTTAG-ATCGACACTTGTTATAAA
* *
4648633 TGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTCTGGACAAAAAGTATCGACACTT
129 TGTATCGACACTTTCTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGACACTT
4648698 GTTAGA
194 GTTAGA
* * * * * * *
4648704 TTTGTGTTGATACTTTATGTATACATGTTTTCTAAAAAACCGGTTTATTTAGACTGGTTATATTG
1 TTTGTGTCGATACTTTATGTATACTTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTG
* * * *
4648769 TTAATTAACTTATTACATTATAATTATGTGTTTCGAT-TTTTTGAGATCGATACTTGTTATAAAT
66 TTAATTAACCTATTACATTATAATTATATGTTTCGATGATTTT-AGATCGACACTTGTTATAAAT
* * *
4648833 GTATCGACACTTTTCTCGTGCACTTGATTTGG-AAATACATTATGGACAACATGTATCGACAC
130 GTATCGACAC-TTTCTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGACAC
4648895 GAATGAATAA
Statistics
Matches: 347, Mismatches: 38, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
198 8 0.02
199 152 0.44
200 185 0.53
201 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (199 bp):
TTTGTGTCGATACTTTATGTATACTTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTG
TTAATTAACCTATTACATTATAATTATATGTTTCGATGATTTTAGATCGACACTTGTTATAAATG
TATCGACACTTTCTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGACACTTGT
TAGA
Found at i:4649128 original size:24 final size:24
Alignment explanation
Indices: 4649079--4649130 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4649069 ATTTACATTT
*
4649079 AAATTCAAACTCAAATTGAAATTG
1 AAATTCAAACTCAAATTGAAAATG
*
4649103 AAATTCAAACTCTAATT-ATAAATG
1 AAATTCAAACTCAAATTGA-AAATG
4649127 AAAT
1 AAAT
4649131 GAAAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAAATG
Found at i:4649685 original size:181 final size:180
Alignment explanation
Indices: 4649374--4650093 Score: 980
Period size: 181 Copynumber: 4.0 Consensus size: 180
4649364 TTTTAGCCCT
*
4649374 GTATCGACACTTTATAGGCGCTATCACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
1 GTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
* * * ** *
4649439 TTAAAGTATTGCCACTTTCAACATATCCGGTAGTTCTTTATCGGTTTTGTCATTTTGAGACCGGT
66 TTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGT
* *
4649504 TTTGTCATATTTTTAGCTATTATATTGTTATGGATCGATACATTTTCATAAA
131 TTTGTCATATTTTTA-CTGTTATATTGTTATGGATCGATACATTTT-TTAAA
* * * **
4649556 GTATCAACACTTTTTAGGCGCTATAACTTCTTCTCTTTT-AATT-TAGAAAGTGTCGATGTTTAT
1 GTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTAT
* * * *
4649619 ATTAAATTATCGACACTTTCAATATATCCGGTAGCGCTTTATCGGATTTGTCATTTTGGGACCGG
65 ATTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGG
* *
4649684 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA-TTTTTTTTAA
130 TTTTGTCATATTTTTAC-TGTTATATTGTTATGGATCGATACATTTTTTAAA
* * *
4649735 GTATCGACACTATATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAAATTTCGATACTTAT
1 GTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCC-AAAAGTGTCGATACTTAT
* *** **
4649800 ATTAAATTATCGACACTTTCAACATATCCGATA-TTTTTTACCGGTTTTGTCATTTTTGAGACAT
65 ATTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCA-TTTTGAGACCG
4649864 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAA
129 GTTTTGTCATATTTTTA-CTGTTATATTGTTATGGATCGATACATTTTTTAAA
* *
4649917 GTATCGACACTTTATAGGCACTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
1 GTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
* * * * * *
4649982 TTAAATTGTCAACACTTTCAACATATCTGGTATCGTTTTACCGGTTTTGTCATTTCGAGACCGGT
66 TTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGT
* * *
4650047 TTTGTCATATTTTTATCTGTAATATTGCTATGGAGCGATACATTTTT
131 TTTGTCATATTTTTA-CTGTTATATTGTTATGGATCGATACATTTTT
4650094 CATTTGTATC
Statistics
Matches: 473, Mismatches: 56, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
179 39 0.08
180 24 0.05
181 304 0.64
182 106 0.22
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (180 bp):
GTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
TTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGT
TTTGTCATATTTTTACTGTTATATTGTTATGGATCGATACATTTTTTAAA
Found at i:4653551 original size:245 final size:245
Alignment explanation
Indices: 4653121--4653610 Score: 980
Period size: 245 Copynumber: 2.0 Consensus size: 245
4653111 TTCCGATAAT
4653121 CTTCAAGGTTTCATCATCAGCTAGATGAACCTTCCCAAAATCACCACTGATATAGTTCTCCATGA
1 CTTCAAGGTTTCATCATCAGCTAGATGAACCTTCCCAAAATCACCACTGATATAGTTCTCCATGA
4653186 TTTCTTGGCATGGGGTGGAGTGGAAAGATGCCTCTGAATTCAAGATCCATGATTCAATCGGACTG
66 TTTCTTGGCATGGGGTGGAGTGGAAAGATGCCTCTGAATTCAAGATCCATGATTCAATCGGACTG
4653251 TTGACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCATGTTGGAAGATTCCTGTGCACCGGT
131 TTGACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCATGTTGGAAGATTCCTGTGCACCGGT
4653316 GTCTTTCTTCGGTGCTCGACAATCTCTTTTAAAGTGACCCTTATTGCCAC
196 GTCTTTCTTCGGTGCTCGACAATCTCTTTTAAAGTGACCCTTATTGCCAC
4653366 CTTCAAGGTTTCATCATCAGCTAGATGAACCTTCCCAAAATCACCACTGATATAGTTCTCCATGA
1 CTTCAAGGTTTCATCATCAGCTAGATGAACCTTCCCAAAATCACCACTGATATAGTTCTCCATGA
4653431 TTTCTTGGCATGGGGTGGAGTGGAAAGATGCCTCTGAATTCAAGATCCATGATTCAATCGGACTG
66 TTTCTTGGCATGGGGTGGAGTGGAAAGATGCCTCTGAATTCAAGATCCATGATTCAATCGGACTG
4653496 TTGACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCATGTTGGAAGATTCCTGTGCACCGGT
131 TTGACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCATGTTGGAAGATTCCTGTGCACCGGT
4653561 GTCTTTCTTCGGTGCTCGACAATCTCTTTTAAAGTGACCCTTATTGCCAC
196 GTCTTTCTTCGGTGCTCGACAATCTCTTTTAAAGTGACCCTTATTGCCAC
4653611 AATTATAACA
Statistics
Matches: 245, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 245 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (245 bp):
CTTCAAGGTTTCATCATCAGCTAGATGAACCTTCCCAAAATCACCACTGATATAGTTCTCCATGA
TTTCTTGGCATGGGGTGGAGTGGAAAGATGCCTCTGAATTCAAGATCCATGATTCAATCGGACTG
TTGACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCATGTTGGAAGATTCCTGTGCACCGGT
GTCTTTCTTCGGTGCTCGACAATCTCTTTTAAAGTGACCCTTATTGCCAC
Found at i:4653654 original size:15 final size:15
Alignment explanation
Indices: 4653634--4653665 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4653624 AAAATCTTTC
*
4653634 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
4653649 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
4653664 TT
1 TT
4653666 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:4655049 original size:198 final size:198
Alignment explanation
Indices: 4654699--4655092 Score: 662
Period size: 198 Copynumber: 2.0 Consensus size: 198
4654689 CTCTAAACTC
*
4654699 TTTAGTATTGGGAGAAAGAAATGATTTGAGATGATTTTGAAGCTAAATGGATTAGGGTATTTATA
1 TTTAATATTGGGAGAAAGAAATGATTTGAGATGATTTTGAAGCTAAATGGATTAGGGTATTTATA
* * *
4654764 GTTGAAGCTTAAAGACTAATCTTGTAAATACTCTAAAGTTGCAGGGATTAAATTTGCAATTATCC
66 GTTGAAACTTAAAGACTAATCTTATAAATACTCTAAAGTTACAGGGATTAAATTTGCAATTATCC
* *
4654829 CTTGCTAATTTTCAACAATTTGGTGTTGCCTAATTTGGTTTAGCCACCCTATTTGCCAGCCGCCC
131 CTTGCTAATTTTCAACAATTTGGTGCTGCCTAATTTGGTTTAGCCACCCCATTTGCCAGCCGCCC
4654894 CTT
196 CTT
* * * *
4654897 TTTAATATTGGGAGAAATAAATGATTTGGGATTATTTTGAAGCTAAATGTATTAGGGTATTTATA
1 TTTAATATTGGGAGAAAGAAATGATTTGAGATGATTTTGAAGCTAAATGGATTAGGGTATTTATA
*
4654962 GTTGAAACTTAAGGACTAATCTTATAAATACTCTAAAGTTACAGGGATTAAATTTGCAATTATCC
66 GTTGAAACTTAAAGACTAATCTTATAAATACTCTAAAGTTACAGGGATTAAATTTGCAATTATCC
* * *
4655027 CTTGCTAATTTTCAATAATTTGGTGCTGCCTAATTTGGTTTAGCCGCCCCATTTGCCAGCTGCCC
131 CTTGCTAATTTTCAACAATTTGGTGCTGCCTAATTTGGTTTAGCCACCCCATTTGCCAGCCGCCC
4655092 C
196 C
4655093 ATTTGCTAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
198 182 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (198 bp):
TTTAATATTGGGAGAAAGAAATGATTTGAGATGATTTTGAAGCTAAATGGATTAGGGTATTTATA
GTTGAAACTTAAAGACTAATCTTATAAATACTCTAAAGTTACAGGGATTAAATTTGCAATTATCC
CTTGCTAATTTTCAACAATTTGGTGCTGCCTAATTTGGTTTAGCCACCCCATTTGCCAGCCGCCC
CTT
Found at i:4664557 original size:46 final size:46
Alignment explanation
Indices: 4664504--4664595 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
4664494 TAGTACACTT
4664504 GTGTTGACCAGCTGGGGAAGTATTTAGGAGTTTTGTTGCTTAATAG
1 GTGTTGACCAGCTGGGGAAGTATTTAGGAGTTTTGTTGCTTAATAG
*
4664550 GTGTTGACCAGCTGGGGAAGTATTTAGGTGTTTTGTTGCTTAATAG
1 GTGTTGACCAGCTGGGGAAGTATTTAGGAGTTTTGTTGCTTAATAG
4664596 CCGAGTTACC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.38
Consensus pattern (46 bp):
GTGTTGACCAGCTGGGGAAGTATTTAGGAGTTTTGTTGCTTAATAG
Found at i:4666948 original size:3 final size:3
Alignment explanation
Indices: 4666942--4667001 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
4666932 TTCATTTAAA
* *
4666942 TAT TAT T-T ATAT TAT TAT TAT TAT TAA TAT TAT TATT TAT TAT TAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
4666988 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
4667002 CAAGCCCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4669058 original size:15 final size:16
Alignment explanation
Indices: 4669033--4669067 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4669023 TCTTTCAAAT
4669033 TTTTTATTACTTATTA
1 TTTTTATTACTTATTA
*
4669049 TTTTTA-TACTTTTTA
1 TTTTTATTACTTATTA
4669064 TTTT
1 TTTT
4669068 ATTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTATTACTTATTA
Found at i:4673689 original size:17 final size:17
Alignment explanation
Indices: 4673667--4673740 Score: 87
Period size: 17 Copynumber: 4.1 Consensus size: 17
4673657 GCAAAGAAAG
4673667 AAGAAAGAAAAAAAAG-A
1 AAGAAA-AAAAAAAAGAA
4673684 AAGAAAAAGAAAAAAGAA
1 AAGAAAAA-AAAAAAGAA
*
4673702 AAGAAAAAGAAAAAGAA
1 AAGAAAAAAAAAAAGAA
4673719 AAGAAAAATGAAAAAAGGAA
1 AAGAAAAA--AAAAAA-GAA
4673739 AA
1 AA
4673741 ATGAATCAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
16 2 0.04
17 29 0.58
18 9 0.18
19 5 0.10
20 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (17 bp):
AAGAAAAAAAAAAAGAA
Found at i:4673693 original size:30 final size:29
Alignment explanation
Indices: 4673659--4673732 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
4673649 CTCATCCAGC
*
4673659 AAAGAAAGAAG-AAAGAAAAAAAAGAAAGAA
1 AAAGAAAAAAGAAAAGAAAAAAAA-AAAG-A
*
4673689 AAAGAAAAAAGAAAAGAAAAAGAAAAAGA
1 AAAGAAAAAAGAAAAGAAAAAAAAAAAGA
*
4673718 AAAGAAAAATGAAAA
1 AAAGAAAAAAGAAAA
4673733 AAGGAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.38
30 14 0.35
31 11 0.28
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (29 bp):
AAAGAAAAAAGAAAAGAAAAAAAAAAAGA
Found at i:4673740 original size:6 final size:6
Alignment explanation
Indices: 4673663--4673733 Score: 83
Period size: 6 Copynumber: 11.5 Consensus size: 6
4673653 TCCAGCAAAG
*
4673663 AAAGAA GAAAGAA AAAAAA GAAAGAA AAAGAA AAA-AGA AAAGAA AAAGAA
1 AAAGAA -AAAGAA AAAGAA -AAAGAA AAAGAA AAAGA-A AAAGAA AAAGAA
4673713 AAAG-A AAAGAA AAATGAA AAA
1 AAAGAA AAAGAA AAA-GAA AAA
4673734 AGGAAAAATG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
5 6 0.11
6 33 0.58
7 18 0.32
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:4673741 original size:15 final size:14
Alignment explanation
Indices: 4673670--4673745 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 14
4673660 AAGAAAGAAG
4673670 AAAGAAAAA--AAA
1 AAAGAAAAATGAAA
4673682 GAAAGAAAAA-GAAA
1 -AAAGAAAAATGAAA
4673696 AAAG-AAAA-G-AA
1 AAAGAAAAATGAAA
4673707 AAAGAAAAA-G--A
1 AAAGAAAAATGAAA
4673718 AAAGAAAAATGAAA
1 AAAGAAAAATGAAA
4673732 AAAGGAAAAATGAA
1 AAA-GAAAAATGAA
4673746 TCAAGATGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
11 16 0.28
12 11 0.19
13 13 0.23
14 7 0.12
15 10 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAAATGAAA
Found at i:4676074 original size:114 final size:114
Alignment explanation
Indices: 4675874--4676093 Score: 386
Period size: 114 Copynumber: 1.9 Consensus size: 114
4675864 AACGTTCTCG
* *
4675874 TAGTAGAAATAAGGAGACCCAATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* *
4675939 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
*
4675988 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
*
4676053 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
4676094 CTGCATGATC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
Found at i:4678149 original size:54 final size:54
Alignment explanation
Indices: 4678082--4678233 Score: 223
Period size: 54 Copynumber: 2.8 Consensus size: 54
4678072 ATCTGGGCAG
* *
4678082 AAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGAACAA
1 AAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAACAA
* *
4678136 AAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGCAG
1 AAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAACAA
* * * * *
4678190 AAGCCACAGGAGATGAAGAATGTGTTGTCAAATGTTTTATGAAC
1 AAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
4678234 CAGTGATTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (54 bp):
AAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAACAA
Found at i:4678580 original size:22 final size:22
Alignment explanation
Indices: 4678551--4678602 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4678541 ATCTACACTC
4678551 TTCAAAGAAGATA-AGTTCTCTT
1 TTCAAAGAAGATAGA-TTCTCTT
* *
4678573 TTTAAAGACGATAGATTCTCTT
1 TTCAAAGAAGATAGATTCTCTT
4678595 TTCAAAGA
1 TTCAAAGA
4678603 TGAAAGCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
TTCAAAGAAGATAGATTCTCTT
Found at i:4679845 original size:188 final size:184
Alignment explanation
Indices: 4679157--4679875 Score: 1091
Period size: 175 Copynumber: 4.0 Consensus size: 184
4679147 CCAATCAACA
*
4679157 TGTTATTTTGAAAAA-AATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
4679221 AAATTGTTGAAAAGTAAGAAAACGATTTCC---------TACTTAGTAAACTATTTCCCACATCT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
* * * *
4679277 GTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCAGGAGCTTTTTGATGT
131 ATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
*
4679331 TGTTACTTTGAAAAATAATGAGAAAATGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
4679396 AAATTGTTGAAAAGTAAGAAAACGATTTCC---------TACTTAGTAAACTATTTCCCACATCT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
* *
4679452 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
131 ATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
4679506 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
*
4679571 AAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
* * *
4679636 ATAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGAGAGTTTTTTGATAT
131 ATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
* **
4679690 TGTTATTTTGAAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAA
1 TGTTACTTTG--AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAA
* * *
4679754 TGAAATTGTTGAAAAGTAAGAAAACGGTTTCCTTAGTTTTTTTTTACTTATTAAACTATTTCCTA
64 TGAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG---TTTTTTACTTAGTAAACTATTTCCCA
4679819 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
126 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
4679876 GTTTTTAAAG
Statistics
Matches: 509, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
174 14 0.03
175 249 0.49
184 84 0.17
185 38 0.07
186 46 0.09
188 78 0.15
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (184 bp):
TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
ATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
Found at i:4679918 original size:76 final size:76
Alignment explanation
Indices: 4679819--4680228 Score: 784
Period size: 76 Copynumber: 5.4 Consensus size: 76
4679809 CTATTTCCTA
* *
4679819 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4679884 AGCCTTAGGGT
66 AGCCTTAGGGT
4679895 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4679960 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4679971 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4680036 AGCCTTAGGGT
66 AGCCTTAGGGT
4680047 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4680112 AGCCTTAGGGT
66 AGCCTTAGGGT
4680123 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4680188 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4680199 CATCTGTAAGTCCTGCAGTACATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
4680229 TCAAGCATTT
Statistics
Matches: 329, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 329 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:4680367 original size:3 final size:3
Alignment explanation
Indices: 4680361--4680437 Score: 118
Period size: 3 Copynumber: 24.7 Consensus size: 3
4680351 TTCATTTAAA
*
4680361 TAT TATT TATT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4680408 TATT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
4680438 CAAGCCCAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
3 60 0.86
4 10 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4681780 original size:27 final size:26
Alignment explanation
Indices: 4681747--4681822 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
4681737 ATATAGTTCT
4681747 AATTTTATTTTTATTATTGATTATTTA
1 AATTTTATTTTTATTATTGA-TATTTA
** * * *
4681774 TGTTTTAATTTTACTTGTTTATATTTA
1 AATTTTATTTTTA-TTATTGATATTTA
*
4681801 AATATTATTTTTATTATT-ATAT
1 AATTTTATTTTTATTATTGATAT
4681823 AGTCATATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 25 0.66
28 5 0.13
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (26 bp):
AATTTTATTTTTATTATTGATATTTA
Found at i:4683928 original size:35 final size:35
Alignment explanation
Indices: 4683889--4683968 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
4683879 AACACAACCA
*
4683889 TCAATTATATTCTAAA-CTCTAAATTCCAAAATACT
1 TCAATTACATTCTAAACCTC-AAATTCCAAAATACT
*
4683924 TCAATTACATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
4683959 TCAATTACAT
1 TCAATTACAT
4683969 ACCCAACCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 39 0.93
36 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATACT
Found at i:4683982 original size:35 final size:35
Alignment explanation
Indices: 4683909--4683984 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
4683899 TCTAAACTCT
* * *
4683909 AAATTCCAAAATACTTCAATTACATTCTAAACCTC
1 AAATTCCAAAATACTTCAATTACATACCAAACCCC
* *
4683944 AAATTCTAAAATACTTCAATTACATACCCAACCCC
1 AAATTCCAAAATACTTCAATTACATACCAAACCCC
4683979 AAATTC
1 AAATTC
4683985 ACAATCCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (35 bp):
AAATTCCAAAATACTTCAATTACATACCAAACCCC
Found at i:4684327 original size:148 final size:147
Alignment explanation
Indices: 4684142--4684430 Score: 452
Period size: 148 Copynumber: 2.0 Consensus size: 147
4684132 TACTCAATTC
** *
4684142 AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATCTAAATCAAGTTGAGT
1 AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATCTAAATCAAGTCAAAT
* * * * *
4684207 TGAATTGAATTTTCAAGTTTTTGTTTAAATTTAATTATAAATATTTATCATATTGTAATATTATT
66 TGAATTGAATTCTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATT
4684272 TGATTCCAATTCAGTTT
131 TGATTCCAATTCAGTTT
* * *
4684289 AGTTTATAAAATAGTTTACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCAAA
1 AGTTTATAAAATAGTTGACTC-AAAATTTTTCGATTTGAGTTTATAAAATCTAAATCAAGTCAAA
*
4684354 TTGAATTGAATTCTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
65 TTGAATTGAATTCTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
*
4684419 TTGATTCTAATT
130 TTGATTCCAATT
4684431 TAAATAGTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
147 20 0.16
148 108 0.84
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (147 bp):
AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATCTAAATCAAGTCAAAT
TGAATTGAATTCTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATT
TGATTCCAATTCAGTTT
Found at i:4684975 original size:35 final size:36
Alignment explanation
Indices: 4684936--4685012 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
4684926 GTTGGGCATG
*
4684936 TAATTGAAA-CATTTTAGAATTTGAGGTTTATAATA
1 TAATTGAAATCATTTTAGAATTTGAGGTTTAAAATA
* *
4684971 TAATT-AAATCATTTTGGAATTTGGGGTTTAAAATA
1 TAATTGAAATCATTTTAGAATTTGAGGTTTAAAATA
4685006 TAATTGA
1 TAATTGA
4685013 TGACTATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 3 0.08
35 33 0.89
36 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.43
Consensus pattern (36 bp):
TAATTGAAATCATTTTAGAATTTGAGGTTTAAAATA
Found at i:4686952 original size:40 final size:40
Alignment explanation
Indices: 4686897--4687012 Score: 214
Period size: 40 Copynumber: 2.9 Consensus size: 40
4686887 CATAAGTGTC
*
4686897 TTCAGACGGCTTAACAGTGGAATAACATGTAACACATGTT
1 TTCAGAAGGCTTAACAGTGGAATAACATGTAACACATGTT
4686937 TTCAGAAGGCTTAACAGTGGAATAACATGTAACACATGTT
1 TTCAGAAGGCTTAACAGTGGAATAACATGTAACACATGTT
*
4686977 TTCAGAAGGCTTAACAATGGAATAACATGTAACACA
1 TTCAGAAGGCTTAACAGTGGAATAACATGTAACACA
4687013 ACTTTCAGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (40 bp):
TTCAGAAGGCTTAACAGTGGAATAACATGTAACACATGTT
Found at i:4690149 original size:31 final size:31
Alignment explanation
Indices: 4690082--4690154 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
4690072 GGTCCACAGG
* *
4690082 ACCTACCCATGAAAGATCTCGAGGCCGCATA
1 ACCTACCCAAGAAAGATCTCGAGGCCGCAGA
* *
4690113 ACCTACCCAAGAAAGATCTCTG-GGCCTCGGA
1 ACCTACCCAAGAAAGATCTC-GAGGCCGCAGA
*
4690144 GCCTACCCAAG
1 ACCTACCCAAG
4690155 GGTCATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCTACCCAAGAAAGATCTCGAGGCCGCAGA
Found at i:4693661 original size:21 final size:20
Alignment explanation
Indices: 4693637--4693676 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4693627 GATTCCCCTG
*
4693637 TGGGGGGAATCGGTTCCCTCA
1 TGGGGGG-ATCGATTCCCTCA
4693658 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGATTCCCTC
4693677 TGCACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (20 bp):
TGGGGGGATCGATTCCCTCA
Found at i:4697526 original size:22 final size:21
Alignment explanation
Indices: 4697484--4697523 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4697474 GAGTTTGTTT
*
4697484 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4697505 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4697524 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4702006 original size:25 final size:23
Alignment explanation
Indices: 4701912--4702006 Score: 54
Period size: 23 Copynumber: 4.0 Consensus size: 23
4701902 CATAAATATT
*
4701912 AATATTTATTA-TAAAA-ACTTATT
1 AATA-TTATTATTAAAATA-TTATG
* *
4701935 ATTATTATTTTTAAAATATTA-G
1 AATATTATTATTAAAATATTATG
*
4701957 AATAATT-TTATTTAATACTATTTATG
1 AAT-ATTATTA-TTAA-AATA-TTATG
4701983 TCAATATTATTATTAAAATATTAT
1 --AATATTATTATTAAAATATTAT
4702007 TTCTATAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
22 9 0.16
23 18 0.33
24 4 0.07
25 7 0.13
26 4 0.07
27 7 0.13
28 6 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (23 bp):
AATATTATTATTAAAATATTATG
Found at i:4702117 original size:21 final size:23
Alignment explanation
Indices: 4702092--4702138 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4702082 TCTATAAAAA
*
4702092 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
4702113 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
4702136 TAA
1 TAA
4702139 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:4702153 original size:23 final size:22
Alignment explanation
Indices: 4702092--4702154 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
4702082 TCTATAAAAA
* *
4702092 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
4702113 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
4702136 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
4702155 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:4702280 original size:13 final size:13
Alignment explanation
Indices: 4702264--4702363 Score: 59
Period size: 13 Copynumber: 7.6 Consensus size: 13
4702254 TTATTAATAA
4702264 ATTATTATATATT
1 ATTATTATATATT
** *
4702277 ATTAAAATAAGATT
1 ATTATTAT-ATATT
4702291 ATAATATTATCATA-T
1 AT--TATTAT-ATATT
4702306 ATTATTATA-A-T
1 ATTATTATATATT
*
4702317 ATAATTGAGTATATT
1 ATTATT-A-TATATT
4702332 ATT-TTA-ATATT
1 ATTATTATATATT
4702343 ATTATTATTATATT
1 ATTATTA-TATATT
4702357 A-TATTAT
1 ATTATTAT
4702364 TAAAAATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 21
0.69 0.09 0.21
Matches are distributed among these distances:
11 15 0.22
12 6 0.09
13 20 0.29
14 15 0.22
15 6 0.09
16 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:4702347 original size:14 final size:14
Alignment explanation
Indices: 4702305--4702365 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
4702295 TATTATCATA
*
4702305 TATTATTATAATAT
1 TATTATTATATTAT
* *
4702319 AATTGAGTATATTAT
1 TATT-ATTATATTAT
4702334 T-TTA--ATATTAT
1 TATTATTATATTAT
4702345 TATTATTATATTA-
1 TATTATTATATTAT
4702358 TATTATTA
1 TATTATTA
4702366 AAAATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 8 0.21
12 3 0.08
13 9 0.23
14 11 0.28
15 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:4702374 original size:12 final size:12
Alignment explanation
Indices: 4702254--4702397 Score: 65
Period size: 11 Copynumber: 12.2 Consensus size: 12
4702244 AATATAACTT
*
4702254 TTATT-AATAAA
1 TTATTAAATATA
4702265 TTATT--ATATA
1 TTATTAAATATA
4702275 TTATTAAA-ATA
1 TTATTAAATATA
** *
4702286 AGATTATA-ATA
1 TTATTAAATATA
*
4702297 TTA-T-CATATA
1 TTATTAAATATA
4702307 TTATTATAATATA
1 TTATTA-AATATA
* *
4702320 --ATTGAGTATA
1 TTATTAAATATA
4702330 TTATTTTAATATTATTA
1 TTA--TTAA-A-TA-TA
*
4702347 TTATTATATTATA
1 TTATTA-AATATA
*
4702360 TTATTAAAAATA
1 TTATTAAATATA
*
4702372 TTAATAAATATA
1 TTATTAAATATA
4702384 -TATTAAATATA
1 TTATTAAATATA
4702395 TTA
1 TTA
4702398 ATAATTAATA
Statistics
Matches: 100, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
9 1 0.01
10 21 0.21
11 31 0.31
12 18 0.18
13 13 0.13
14 5 0.05
15 3 0.03
16 3 0.03
17 5 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (12 bp):
TTATTAAATATA
Found at i:4702395 original size:23 final size:23
Alignment explanation
Indices: 4702356--4702409 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4702346 ATTATTATAT
4702356 TATATTATTAAAAATATTAATAAA
1 TATA-TATTAAAAATATTAATAAA
* *
4702380 TATATATTAAATATATTAATAAT
1 TATATATTAAAAATATTAATAAA
4702403 TA-ATATT
1 TATATATT
4702410 TTATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.18
23 19 0.68
24 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATATATTAAAAATATTAATAAA
Found at i:4707379 original size:22 final size:22
Alignment explanation
Indices: 4707354--4707449 Score: 117
Period size: 22 Copynumber: 4.4 Consensus size: 22
4707344 TTTCATTTCG
*
4707354 CGTTGCGATAGTGTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** *
4707376 CGTTGCGATTTTCTA-A-AT-T
1 CGTTGCGATAGTCTACAGTTGT
4707395 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
4707417 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
4707439 CGCGTTGCGAT
1 --CGTTGCGAT
4707450 TTTCCAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
19 14 0.23
20 2 0.03
21 2 0.03
22 35 0.56
24 9 0.15
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:4708185 original size:22 final size:22
Alignment explanation
Indices: 4708160--4708252 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 22
4708150 CAAAGAATTT
*
4708160 TCGCAACGACAACTGTTGACTA
1 TCGCAACGACAACTGTAGACTA
4708182 TCGCAACGACAACTGTAGACTA
1 TCGCAACGACAACTGTAGACTA
* * **
4708204 TCGCAACG--AA-TTTGGAAAA
1 TCGCAACGACAACTGTAGACTA
4708223 TCGCAACGACAACTGTAGACTA
1 TCGCAACGACAACTGTAGACTA
4708245 TCGCAACG
1 TCGCAACG
4708253 CGAAATAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 13 0.22
20 2 0.03
21 2 0.03
22 42 0.71
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
TCGCAACGACAACTGTAGACTA
Found at i:4708304 original size:21 final size:21
Alignment explanation
Indices: 4708241--4708304 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
4708231 ACAACTGTAG
4708241 ACTATCGCAACGCGAAATAG-A
1 ACTATCGCAACGCGAAAT-GCA
* * ** *
4708262 A-AATCGCAACGTGATTTTCA
1 ACTATCGCAACGCGAAATGCA
4708282 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
4708303 AC
1 AC
4708305 GCGAATTTGC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:4712510 original size:23 final size:23
Alignment explanation
Indices: 4712479--4712547 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
4712469 TACCATATAA
4712479 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* * * *
4712502 AATTATCCCGAATGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
4712524 TA-TGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
4712546 AA
1 AA
4712548 CCCTCAACTC
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
21 15 0.43
22 2 0.06
23 18 0.51
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:4717035 original size:83 final size:84
Alignment explanation
Indices: 4716940--4717102 Score: 231
Period size: 84 Copynumber: 2.0 Consensus size: 84
4716930 ATACAATCAC
* * *
4716940 GACACACGAATGTGT-TCATCTTCATTTATGACGGGGGTTTCAATGCCACGCAAT-ATAATCATA
1 GACACACAAATGTGTATCATCTTCATTTATGAC-GGGGCTTCAATGACACGCAATGATAATCATA
**
4717003 AATGTGTGTCATAAATATAT
65 AATGTGCATCATAAATATAT
* **
4717023 GACACACAAATGTGTATCATCTTCATTTATGACGGGGCTTCAATGACGCGCAATGATCGTCATAA
1 GACACACAAATGTGTATCATCTTCATTTATGACGGGGCTTCAATGACACGCAATGATAATCATAA
4717088 ATGTGCATCATAAAT
66 ATGTGCATCATAAAT
4717103 GAGCATCATA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 32 0.46
84 38 0.54
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (84 bp):
GACACACAAATGTGTATCATCTTCATTTATGACGGGGCTTCAATGACACGCAATGATAATCATAA
ATGTGCATCATAAATATAT
Found at i:4717124 original size:13 final size:13
Alignment explanation
Indices: 4717080--4717138 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
4717070 GCGCAATGAT
*
4717080 CGTCATAAATGTG
1 CGTCATAAATGCG
* *
4717093 CATCATAAATGAG
1 CGTCATAAATGCG
*
4717106 CATCATAAATGCG
1 CGTCATAAATGCG
*
4717119 TGTCATAAATGCG
1 CGTCATAAATGCG
4717132 CGTCATA
1 CGTCATA
4717139 GATTTATGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:4719373 original size:45 final size:44
Alignment explanation
Indices: 4719309--4719412 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
4719299 AGGAGGTGCA
* *
4719309 GATGCTATGTGACCCGGACCTCGCATGAGATACTTGGAAGGTAT
1 GATGCTATGTGACCCGGACCTCGCATAAGATACTTGGAAGATAT
* * *
4719353 CGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGGAGATGT
1 -GATGCTATGTGACCCGGACCTCGCATAAGATACTTGGAAGATAT
*
4719398 GATGCTGTGTGACCC
1 GATGCTATGTGACCC
4719413 AGGTCTACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.26
45 39 0.74
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (44 bp):
GATGCTATGTGACCCGGACCTCGCATAAGATACTTGGAAGATAT
Found at i:4724790 original size:23 final size:23
Alignment explanation
Indices: 4724760--4724827 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
4724750 TACCATATAA
4724760 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* * *
4724783 AATTGTCCCGAATGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
4724805 TA-TGT-CCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
4724826 AA
1 AA
4724828 CCCTCAAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 12 0.33
21 4 0.11
22 1 0.03
23 19 0.53
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:4725496 original size:19 final size:19
Alignment explanation
Indices: 4725472--4725520 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4725462 CCCTTATTGG
4725472 GTATCGATACTATGCTGCA
1 GTATCGATACTATGCTGCA
*
4725491 GTATCGATACCATGCTGCA
1 GTATCGATACTATGCTGCA
4725510 GTATCGATACT
1 GTATCGATACT
4725521 TTTTCCAGTT
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:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (19 bp):
GTATCGATACTATGCTGCA
Found at i:4726708 original size:26 final size:26
Alignment explanation
Indices: 4726678--4726731 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4726668 TTTCACAGCT
4726678 AGTTGATTGTTTGTATGATATCAAAC
1 AGTTGATTGTTTGTATGATATCAAAC
4726704 AGTTGATTGTTTGTATGATATCAAAC
1 AGTTGATTGTTTGTATGATATCAAAC
4726730 AG
1 AG
4726732 AAGCAGAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (26 bp):
AGTTGATTGTTTGTATGATATCAAAC
Found at i:4728006 original size:35 final size:36
Alignment explanation
Indices: 4727966--4728052 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 36
4727956 TTGCACTAAT
* * *
4727966 CTTTGCACTAAGTTCCATTTAATTTC-TTCTGTAAC
1 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
*
4728001 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAT
1 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
*
4728037 CTTTGCACTAAATTAC
1 CTTTGCACTAAGTTAC
4728053 TATTTCTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 24 0.52
36 22 0.48
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (36 bp):
CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
Found at i:4729975 original size:65 final size:66
Alignment explanation
Indices: 4729859--4729988 Score: 174
Period size: 65 Copynumber: 2.0 Consensus size: 66
4729849 CAATCACGAC
* *
4729859 ACACGAATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACATGCAAT-ATAAGTCATAAA
1 ACACAAATGTGTGTCA--TTCATTTATGACGGGGGATTCAATGACACGCAATGAT-AGTCATAAA
4729923 TATG
63 TATG
* * *
4729927 ACACAAATGTGTGTCA-TCATTTATGACGGGGGCTTCAATGACGCGCAATGATCGTCATAAAT
1 ACACAAATGTGTGTCATTCATTTATGACGGGGGATTCAATGACACGCAATGATAGTCATAAAT
4729989 GTGCATCATA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
65 39 0.70
66 2 0.04
68 15 0.27
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (66 bp):
ACACAAATGTGTGTCATTCATTTATGACGGGGGATTCAATGACACGCAATGATAGTCATAAATAT
G
Found at i:4729997 original size:13 final size:13
Alignment explanation
Indices: 4729981--4730027 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
4729971 GCAATGATCG
4729981 TCATAAATGTGCA
1 TCATAAATGTGCA
*
4729994 TCAT-AATGAGCA
1 TCATAAATGTGCA
**
4730006 TCATAAATGTGTG
1 TCATAAATGTGCA
4730019 TCATAAATG
1 TCATAAATG
4730028 CGTCATAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (13 bp):
TCATAAATGTGCA
Found at i:4730993 original size:21 final size:21
Alignment explanation
Indices: 4730969--4731027 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
4730959 ATCTGTTTTC
4730969 AAAAAGATCGATCCCTTAGAG
1 AAAAAGATCGATCCCTTAGAG
* * * *
4730990 AAAATGATCGA-CCCATCGAT
1 AAAAAGATCGATCCCTTAGAG
*
4731010 ATAAAGGATCGATCCCTT
1 A-AAAAGATCGATCCCTT
4731028 CTCTGTTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.23
21 19 0.63
22 4 0.13
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
AAAAAGATCGATCCCTTAGAG
Found at i:4732153 original size:45 final size:45
Alignment explanation
Indices: 4732001--4732156 Score: 179
Period size: 45 Copynumber: 3.5 Consensus size: 45
4731991 TAGCCAGGCA
* * * * *
4732001 AGGTGTCGATGCTATGTGACCCGGACATAGCCTAAGGTA-TTAGG
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* * *
4732045 AGGTGCAGATGCTATGTGACCCGGACCTCGCCTGAGATACTTGGA
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* *
4732090 AGGTATCGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* * * *
4732135 AGATGTTGATGTTGTGTGACCC
1 AGGTGTAGATGCTATGTGACCC
4732157 AGGTCTACCC
Statistics
Matches: 93, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.35
45 60 0.65
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (45 bp):
AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
Found at i:4735838 original size:23 final size:23
Alignment explanation
Indices: 4735807--4735875 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
4735797 TACCATATAA
4735807 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* * * *
4735830 AATTATCCCGAATGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
4735852 TA-TGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
4735874 AA
1 AA
4735876 CCCTCAACTC
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
21 15 0.43
22 2 0.06
23 18 0.51
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:4740449 original size:85 final size:85
Alignment explanation
Indices: 4740360--4740525 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 85
4740350 ATACAATCAC
* * *
4740360 GACACACGAATGTGTGTCATCTTCATTTATGACGGGGGTTTCAATGACACGCAAT-ATAAGTCAT
1 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGAT-AGTCAT
**
4740424 AAATGTGTGTCATAAATATAT
65 AAATGTGCATCATAAATATAT
* *
4740445 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGATCGTCATA
1 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGATAGTCATA
4740510 AATGTGCATCATAAAT
66 AATGTGCATCATAAAT
4740526 GAGCATCATA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 71 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (85 bp):
GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGATAGTCATA
AATGTGCATCATAAATATAT
Found at i:4740547 original size:13 final size:13
Alignment explanation
Indices: 4740503--4740561 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
4740493 GCGCAATGAT
*
4740503 CGTCATAAATGTG
1 CGTCATAAATGCG
* *
4740516 CATCATAAATGAG
1 CGTCATAAATGCG
*
4740529 CATCATAAATGCG
1 CGTCATAAATGCG
*
4740542 TGTCATAAATGCG
1 CGTCATAAATGCG
4740555 CGTCATA
1 CGTCATA
4740562 GATTTATGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:4742612 original size:45 final size:45
Alignment explanation
Indices: 4742547--4742653 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
4742537 AGGAGGTGCA
* *
4742547 GATGCTATGTGACCCAGACCTCGCATGAGATACTTGGAAGGTATC
1 GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
* * * * *
4742592 GATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGGAGATGTT
1 GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
*
4742637 GATGCTGTGTGACCCAG
1 GATGCTATGTGACCCAG
4742654 GTCTACCCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (45 bp):
GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
Found at i:4748061 original size:23 final size:23
Alignment explanation
Indices: 4748031--4748099 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
4748021 TACCATATAA
4748031 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* * *
4748054 AATTGTCCCGAATGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
4748076 TA-TGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
4748098 AA
1 AA
4748100 CCCTCAACTC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 16 0.43
22 2 0.05
23 19 0.51
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:4748775 original size:19 final size:19
Alignment explanation
Indices: 4748751--4748799 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4748741 CCTTATTGTG
*
4748751 GTATCGATACTATGCTGCA
1 GTATCGATACCATGCTGCA
4748770 GTATCGATACCATGCTGCA
1 GTATCGATACCATGCTGCA
4748789 GTATCGATACC
1 GTATCGATACC
4748800 TTTTTCCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (19 bp):
GTATCGATACCATGCTGCA
Found at i:4751300 original size:36 final size:36
Alignment explanation
Indices: 4751260--4751347 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
4751250 TTGCACTAAT
* * *
4751260 CTTTGCACTAAGTTCCATTTAATTTCTTTCTGTAAC
1 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
*
4751296 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAT
1 CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
*
4751332 CTTTGCACTAAATTAC
1 CTTTGCACTAAGTTAC
4751348 TATTTTCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (36 bp):
CTTTGCACTAAGTTACACTTAATTTCTTTCAGTAAC
Found at i:4751359 original size:36 final size:34
Alignment explanation
Indices: 4751256--4751360 Score: 111
Period size: 36 Copynumber: 2.9 Consensus size: 34
4751246 TTTATTGCAC
* *
4751256 TAATCTTTGCACTAAGTTCCATTTAATTTCTTTCTG
1 TAATCTTTGCACTAAGTTACATTT--TTTCTTTCAG
* *
4751292 TAACCTTTGCACTAAGTTACACTTAATTTCTTTCAG
1 TAATCTTTGCACTAAGTTACA-TT-TTTTCTTTCAG
*
4751328 TAATCTTTGCACTAAATTACTATTTTCTTCTTT
1 TAATCTTTGCACTAAGTTAC-ATTTT-TTCTTT
4751361 GTTTTGGGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
35 1 0.02
36 54 0.93
37 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.49
Consensus pattern (34 bp):
TAATCTTTGCACTAAGTTACATTTTTTCTTTCAG
Found at i:4753289 original size:72 final size:72
Alignment explanation
Indices: 4753163--4753302 Score: 219
Period size: 72 Copynumber: 1.9 Consensus size: 72
4753153 ATACAATCAC
* *
4753163 GACACACGAATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACATGCAAT-ATAAGTCAT
1 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACACGCAATGAT-AGTCAT
4753227 AAATATAT
65 AAATATAT
* * *
4753235 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGATCGTCATA
1 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACACGCAATGATAGTCATA
4753300 AAT
66 AAT
4753303 GTGCATCATA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 60 0.97
73 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (72 bp):
GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACACGCAATGATAGTCATA
AATATAT
Found at i:4753316 original size:26 final size:26
Alignment explanation
Indices: 4753287--4753351 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
4753277 AATGACGCGC
*
4753287 AATGATCGTCATAAATGTGCATCATA
1 AATGAGCGTCATAAATGTGCATCATA
* **
4753313 AATGAGCATCATAAATGTGTGTCATA
1 AATGAGCGTCATAAATGTGCATCATA
*
4753339 AATGCGCGTCATA
1 AATGAGCGTCATA
4753352 GATTTATGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (26 bp):
AATGAGCGTCATAAATGTGCATCATA
Found at i:4753349 original size:13 final size:13
Alignment explanation
Indices: 4753293--4753351 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
4753283 GCGCAATGAT
4753293 CGTCATAAATGTG
1 CGTCATAAATGTG
* *
4753306 CATCATAAATGAG
1 CGTCATAAATGTG
*
4753319 CATCATAAATGTG
1 CGTCATAAATGTG
* *
4753332 TGTCATAAATGCG
1 CGTCATAAATGTG
4753345 CGTCATA
1 CGTCATA
4753352 GATTTATGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:4754326 original size:21 final size:21
Alignment explanation
Indices: 4754302--4754360 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
4754292 ATCTGTTTTC
4754302 AAAAAGATCGATCCCTTAGAG
1 AAAAAGATCGATCCCTTAGAG
* * * *
4754323 AAAATGATCGA-CCCATCGAT
1 AAAAAGATCGATCCCTTAGAG
*
4754343 ATAAAGGATCGATCCCTT
1 A-AAAAGATCGATCCCTT
4754361 CTCTGTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.23
21 19 0.63
22 4 0.13
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
AAAAAGATCGATCCCTTAGAG
Found at i:4755524 original size:45 final size:45
Alignment explanation
Indices: 4755372--4755527 Score: 179
Period size: 45 Copynumber: 3.5 Consensus size: 45
4755362 TAGCCAGGCA
* * * * *
4755372 AGGTGTCGATGCTATGTGACCCGGACATAGCCTAAGGTA-TTAGG
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* * *
4755416 AGGTGCAGATGCTATGTGACCCGGACCTCGCCTGAGATACTTGGA
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* *
4755461 AGGTATCGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
1 AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
* * * *
4755506 AGATGTTGATGTTGTGTGACCC
1 AGGTGTAGATGCTATGTGACCC
4755528 AGGTCTACCC
Statistics
Matches: 93, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.35
45 60 0.65
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (45 bp):
AGGTGTAGATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGG
Found at i:4759395 original size:23 final size:23
Alignment explanation
Indices: 4759364--4759432 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
4759354 TACCATATAA
4759364 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* * * *
4759387 AATTATCCCGAATGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
4759409 TA-TGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
4759431 AA
1 AA
4759433 CCCTCAACTC
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
21 15 0.43
22 2 0.06
23 18 0.51
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:4764017 original size:85 final size:85
Alignment explanation
Indices: 4763926--4764091 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 85
4763916 ATACAATCAC
* * *
4763926 GACACACGAATGTGTGTCATCTTCATTTATGACGGGGGTTTCAATGACACGCAAT-ATAAGTCAT
1 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGAT-AGTCAT
**
4763990 AAATGTGTGTCATAAATATAT
65 AAATGTGCATCATAAATATAT
* *
4764011 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGATCGTCATA
1 GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGATAGTCATA
4764076 AATGTGCATCATAAAT
66 AATGTGCATCATAAAT
4764092 GAGCATCATA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 71 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (85 bp):
GACACACAAATGTGTATCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGATAGTCATA
AATGTGCATCATAAATATAT
Found at i:4764113 original size:13 final size:13
Alignment explanation
Indices: 4764069--4764127 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
4764059 GCGCAATGAT
*
4764069 CGTCATAAATGTG
1 CGTCATAAATGCG
* *
4764082 CATCATAAATGAG
1 CGTCATAAATGCG
*
4764095 CATCATAAATGCG
1 CGTCATAAATGCG
*
4764108 TGTCATAAATGCG
1 CGTCATAAATGCG
4764121 CGTCATA
1 CGTCATA
4764128 GATTTATGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:4766179 original size:45 final size:45
Alignment explanation
Indices: 4766114--4766220 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
4766104 AGGAGGTGCA
* *
4766114 GATGCTATGTGACCCAGACCTCGCATGAGATACTTGGAAGGTATC
1 GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
* * * * *
4766159 GATGCTATGTGACCCGGACCTCGCCTAAGATACTTGGGAGATGTT
1 GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
*
4766204 GATGCTGTGTGACCCAG
1 GATGCTATGTGACCCAG
4766221 GTCTACCCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (45 bp):
GATGCTATGTGACCCAGACCTCGCATAAGATACTTGGAAGATATC
Found at i:4771314 original size:13 final size:13
Alignment explanation
Indices: 4771296--4771320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4771286 ATCAACGTAA
4771296 AATATATTTTAAC
1 AATATATTTTAAC
4771309 AATATATTTTAA
1 AATATATTTTAA
4771321 TTTAATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATATTTTAAC
Found at i:4772011 original size:74 final size:75
Alignment explanation
Indices: 4771885--4772025 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
4771875 GGTATATTTA
* *
4771885 GTATCTAAATTATTAGTTTTGGTTCATTTTAGTACATAAACTTTTAA-TTTTTTCAAAATCATAC
1 GTATCTAAACTATTAGTTTTGGTCCATTTTAGTACATAAACTTTTAAGTTTTTTCAAAATCATAC
4771949 CTAACGTTTG
66 CTAACGTTTG
* *
4771959 GTATCTAAACTATTAGTTTTGGTCCATTTTAGTACCCAT-AAC-TTTCAGTTTTTTCAAAATTAT
1 GTATCTAAACTATTAGTTTTGGTCCATTTTAGTA--CATAAACTTTTAAGTTTTTTCAAAATCAT
4772022 ACCT
64 ACCT
4772026 TAACCATCAG
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
74 36 0.60
75 21 0.35
76 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (75 bp):
GTATCTAAACTATTAGTTTTGGTCCATTTTAGTACATAAACTTTTAAGTTTTTTCAAAATCATAC
CTAACGTTTG
Found at i:4773272 original size:72 final size:72
Alignment explanation
Indices: 4773150--4773288 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
4773140 TAATTCTTGG
* ** * *
4773150 TGTTATAAATTGGGTAAATTACATTTTTAATCACTCAACTATTTTCTTCTCTTATATTTTGGTCA
1 TGTTATAAATTGGGAAAATTACACATTTAATCACTCAACTATTTTATTCTCTTATATTTTAGTCA
4773215 CTACTGT
66 CTACTGT
* *
4773222 TGTTATAAATTGGGAAAATTATAGCATTT-ATCACTCAACTATTTTATTCTCTTCTATTTTAGTC
1 TGTTATAAATTGGGAAAATTACA-CATTTAATCACTCAACTATTTTATTCTCTTATATTTTAGTC
4773286 ACT
65 ACT
4773289 CAACTCTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 56 0.95
73 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (72 bp):
TGTTATAAATTGGGAAAATTACACATTTAATCACTCAACTATTTTATTCTCTTATATTTTAGTCA
CTACTGT
Found at i:4778047 original size:10 final size:10
Alignment explanation
Indices: 4778034--4778066 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4778024 CTATTATAAG
4778034 TATATACATA
1 TATATACATA
4778044 TATAT--ATA
1 TATATACATA
4778052 TATATACATA
1 TATATACATA
4778062 TATAT
1 TATAT
4778067 TAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (10 bp):
TATATACATA
Found at i:4778545 original size:177 final size:174
Alignment explanation
Indices: 4778052--4778567 Score: 824
Period size: 177 Copynumber: 3.0 Consensus size: 174
4778042 TATATATATA
*
4778052 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAAAGAAAAAAAAAGTATACG-
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATC--AA-ATAAAAAAAGTATACGC
4778116 -TATAATAATAATAACG----TA-A-ATATATATATAT--ATTAGTAAAAAGAAGATAATAGTAA
63 ATATAATAATAATAACGTAAATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAA
4778172 TAGTTAAATTAAAA-AATAATATACATATAT-ATAATTTGTAAAACAG
128 TAGTTAAATTAAAATAAT-ATATACATATATAATAATTTGTAAAACAG
4778218 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAATAAAAAAAGTATACGCATA
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAATAAAAAAAGTATACGCATA
4778283 TAATAATAATAACGTAAATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAG
66 TAATAATAATAACGTAAATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAG
4778348 TTAAATTAAAATAATATATACATATATAATAATTTGTAAAACAG
131 TTAAATTAAAATAATATATACATATATAATAATTTGTAAAACAG
*
4778392 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATC-AATAAAAAAAAGGTATACGTA
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAAT-AAAAAAA-GTATACGCA
4778456 TATAATAATAATAACGTAAATATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTA
64 TATAATAATAATAACGT-AA-ATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTA
** *
4778521 ATAGTTAAATTAAAATAATATATACATATATAGCAAATTGTAAAACA
127 ATAGTTAAATTAAAATAATATATACATATATAATAATTTGTAAAACA
4778568 CAACAAAAAG
Statistics
Matches: 329, Mismatches: 5, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
163 15 0.05
164 2 0.01
165 16 0.05
166 43 0.13
169 2 0.01
170 1 0.00
171 12 0.04
173 54 0.16
174 69 0.21
175 25 0.08
176 2 0.01
177 88 0.27
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (174 bp):
TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAATAAAAAAAGTATACGCATA
TAATAATAATAACGTAAATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAG
TTAAATTAAAATAATATATACATATATAATAATTTGTAAAACAG
Found at i:4780253 original size:105 final size:104
Alignment explanation
Indices: 4780071--4780631 Score: 898
Period size: 105 Copynumber: 5.4 Consensus size: 104
4780061 GTGTTGTTTC
* * * ** * *
4780071 GAGTCCGATGTCCTTCGTTGTGGAGTTGAAATTGAATCTGAA--T--GAAATTTTGTTGACAAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTGTTGACAACC
*
4780132 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4780171 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGA-TTGGGAAGTTGTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATTTGAGAA-ATGTTGTTGACAA
*
4780235 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4780276 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAGAAATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTTGAGAAATGTT-GTTGACAA
*
4780341 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4780382 GAGTCTAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG-TTGTTGACAAC
4780447 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4780487 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG-TTGTTGACAAC
4780552 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4780592 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
4780632 GGTAAAACCT
Statistics
Matches: 433, Mismatches: 19, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
100 36 0.08
101 1 0.00
102 1 0.00
104 3 0.01
105 299 0.69
106 93 0.21
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (104 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4780442 original size:211 final size:210
Alignment explanation
Indices: 4780072--4780631 Score: 909
Period size: 211 Copynumber: 2.7 Consensus size: 210
4780062 TGTTGTTTCG
* * * ** *
4780072 AGTCCGATGTCCTTCGTTGTGGAGTTGAAATTGAATCTGAA--T--GAAAT-TTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
*
4780132 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* * *
4780197 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAGATTGAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
4780262 ACTTGCGTTGTCTGA
196 ACTTGCGTTGTCTGA
*
4780277 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAGAAATGTTCGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTTGAGAAATGTTTGTTGACAAC
* *
4780342 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCTAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
4780407 TTAAAATTGGCTCTGA-ATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 TTGAAATTGGCTCTGAGA-TTGAGAAATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
4780470 TGAACTTGCGTTGTCTGG
193 TGAACTTGCGTTGTCTGA
4780488 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
4780553 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
4780618 TGAAATTGGCTCTG
131 TGAAATTGGCTCTG
4780632 GGTAAAACCT
Statistics
Matches: 328, Mismatches: 19, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
205 34 0.10
206 2 0.01
208 1 0.00
210 109 0.33
211 182 0.55
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (210 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAGATTGAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGA
Found at i:4781429 original size:49 final size:50
Alignment explanation
Indices: 4781374--4781470 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
4781364 CTTTTTTTCT
* * *
4781374 CTTTTTTCTTTTTCAATTTAGG-GTGCCCTTTCGGGTTTTCACCCTAAACA
1 CTTTTTTCTTTTTCAACTTAGGACT-CCCTCTCGGGTTTTCACCCTAAACA
* *
4781424 CTTTTTTTTTTTTCAACTTAGGACTCCCTCTCGGGTTTTCATCCTAA
1 CTTTTTTCTTTTTCAACTTAGGACTCCCTCTCGGGTTTTCACCCTAA
4781471 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 40 0.98
51 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.47
Consensus pattern (50 bp):
CTTTTTTCTTTTTCAACTTAGGACTCCCTCTCGGGTTTTCACCCTAAACA
Found at i:4791907 original size:10 final size:10
Alignment explanation
Indices: 4791894--4791926 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4791884 CTATTATAAG
4791894 TATATACATA
1 TATATACATA
4791904 TATAT--ATA
1 TATATACATA
4791912 TATATACATA
1 TATATACATA
4791922 TATAT
1 TATAT
4791927 TAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (10 bp):
TATATACATA
Found at i:4795573 original size:28 final size:30
Alignment explanation
Indices: 4795519--4795579 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
4795509 TAATTATTTA
4795519 TTATATTTTAAACTATTAAAATAATAT-AT
1 TTATATTTTAAACTATTAAAATAATATAAT
*
4795548 TTATATTTTTAA-TAATTAAAA-AATATAAT
1 TTATATTTTAAACT-ATTAAAATAATATAAT
4795577 TTA
1 TTA
4795580 ATAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
TTATATTTTAAACTATTAAAATAATATAAT
Found at i:4796570 original size:29 final size:30
Alignment explanation
Indices: 4796507--4796574 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4796497 TTTAAGTGTC
*
4796507 TAAAATATTTTTTGATCAAAATAAATATCT
1 TAAATTATTTTTTGATCAAAATAAATATCT
* * **
4796537 AAAATTATTTTTTGGTCAAAATAGGTA-CT
1 TAAATTATTTTTTGATCAAAATAAATATCT
4796566 TAAATTATT
1 TAAATTATT
4796575 CAAATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (30 bp):
TAAATTATTTTTTGATCAAAATAAATATCT
Found at i:4800735 original size:35 final size:35
Alignment explanation
Indices: 4800694--4800764 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
4800684 AAGAAATAAG
*
4800694 TTTATGGGCCCTGCTTTTAATTTAATTTATTAATA
1 TTTATGGGCCCTGCTTTTAATTTAATATATTAATA
* * *
4800729 TTTATGGGCTCTGTTTTTAATTTAGTATATTAATA
1 TTTATGGGCCCTGCTTTTAATTTAATATATTAATA
4800764 T
1 T
4800765 AGTTTTTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (35 bp):
TTTATGGGCCCTGCTTTTAATTTAATATATTAATA
Found at i:4806648 original size:22 final size:22
Alignment explanation
Indices: 4806623--4806689 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
4806613 TGGGAGATTG
*
4806623 TTGAAAGTCCAAGATGACAACA
1 TTGAAAGTCCAAGATGGCAACA
*
4806645 TTGAAAGTCCAAGATGGCATCA
1 TTGAAAGTCCAAGATGGCAACA
*
4806667 CTGAAAGTCCAAGATGGCAACA
1 TTGAAAGTCCAAGATGGCAACA
4806689 T
1 T
4806690 AGATTGATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
TTGAAAGTCCAAGATGGCAACA
Found at i:4807979 original size:2 final size:2
Alignment explanation
Indices: 4807974--4808000 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4807964 AGAGAGATGA
4807974 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4808001 CCAACGGGAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4818201 original size:13 final size:13
Alignment explanation
Indices: 4818183--4818208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4818173 TCCCTCAACT
4818183 TTGAATTTCATAA
1 TTGAATTTCATAA
4818196 TTGAATTTCATAA
1 TTGAATTTCATAA
4818209 AATGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTGAATTTCATAA
Found at i:4825089 original size:20 final size:20
Alignment explanation
Indices: 4825064--4825103 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4825054 GTAGAAGAGC
*
4825064 AAAAGGCATTGTGGTTTTGA
1 AAAAGGCAATGTGGTTTTGA
4825084 AAAAGGCAATGTGGTTTTGA
1 AAAAGGCAATGTGGTTTTGA
4825104 GCTAGTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (20 bp):
AAAAGGCAATGTGGTTTTGA
Found at i:4826372 original size:27 final size:27
Alignment explanation
Indices: 4826333--4826401 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
4826323 GATAACCCAC
*
4826333 TTATAAAATTTTAAAAATTAAATGTAT
1 TTATAAAAATTTAAAAATTAAATGTAT
*
4826360 TTATAAAACTTTAAAAATTAAATGTAT
1 TTATAAAAATTTAAAAATTAAATGTAT
4826387 TTATAAAAATTTAAA
1 TTATAAAAATTTAAA
4826402 GGTAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (27 bp):
TTATAAAAATTTAAAAATTAAATGTAT
Found at i:4845563 original size:31 final size:32
Alignment explanation
Indices: 4845515--4845583 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
4845505 ATTCTTTTGC
4845515 TTTACATTCTTTTTTTATTAAATTTTATTCACT
1 TTTA-ATTCTTTTTTTATTAAATTTTATTCACT
** * *
4845548 TTTAATTC-TTTTTTATTGTATTTTATTTATT
1 TTTAATTCTTTTTTTATTAAATTTTATTCACT
4845579 TTTAA
1 TTTAA
4845584 ATATATGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 24 0.75
32 4 0.12
33 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.68
Consensus pattern (32 bp):
TTTAATTCTTTTTTTATTAAATTTTATTCACT
Found at i:4856575 original size:15 final size:17
Alignment explanation
Indices: 4856552--4856585 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4856542 TTAAGACATG
4856552 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTAGTTAT
4856568 TTTA-TTTATTAGTTAT
1 TTTAGTTTATTAGTTAT
4856584 TT
1 TT
4856586 AGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTAGTTAT
Found at i:4858586 original size:13 final size:13
Alignment explanation
Indices: 4858568--4858601 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
4858558 CGATACTAAC
4858568 ATGAACATGTAGT
1 ATGAACATGTAGT
4858581 ATGAACATGTAGT
1 ATGAACATGTAGT
4858594 ATGAACAT
1 ATGAACAT
4858602 TTTATGCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (13 bp):
ATGAACATGTAGT
Found at i:4862656 original size:68 final size:63
Alignment explanation
Indices: 4862543--4862760 Score: 171
Period size: 68 Copynumber: 3.3 Consensus size: 63
4862533 AAAGATATTG
* * *
4862543 TTAATTTGAATATTAGTAGGATAATTATTCTTTGAATATATCAAATTAAAATGTATTTATTATTT
1 TTAATTTGAATATTA--AAGATAATTA-TCTTTTAATATTTCAAATTAAAA-GTATTTATTATTT
4862608 AT
62 AT
*
4862610 TTAACTTTGAATATTAAAGATAATTACATACTTTTAATATTTCAAATTAAAA-TA---A-TATCT
1 TTAA-TTTGAATATTAAAGATAATT--AT-CTTTTAATATTTCAAATTAAAAGTATTTATTATTT
4862670 AT
62 AT
* * *
4862672 TTAAGTTTGAATAGTAAAAAGT-GTGTATCTTTTGAATATTTCAAATTAAAAG-ATATTATTATT
1 TTAA-TTTGAATATTAAAGA-TAAT-TATCTTTT-AATATTTCAAATTAAAAGTAT-TTATTATT
*
4862735 TGT
61 TAT
*
4862738 TTAAATTTGAATGTTAAAAGATA
1 TT-AATTTGAATATT-AAAGATA
4862761 TTTGATTTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 32
0.73 0.08 0.19
Matches are distributed among these distances:
60 5 0.04
61 20 0.16
62 24 0.20
63 3 0.02
65 1 0.01
66 26 0.21
67 11 0.09
68 32 0.26
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (63 bp):
TTAATTTGAATATTAAAGATAATTATCTTTTAATATTTCAAATTAAAAGTATTTATTATTTAT
Found at i:4862683 original size:62 final size:61
Alignment explanation
Indices: 4862607--4862722 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
4862597 ATTTATTATT
*
4862607 TATTTAACTTTGAATATTAAAGATAAT-TACATACTTTT-AATATTTCAAATTAAAATAATATC
1 TATTTAACTTTGAATAGTAAA-A-AATGTACAT-CTTTTGAATATTTCAAATTAAAATAATATC
* * **
4862669 TATTTAAGTTTGAATAGTAAAAAGTGTGTATCTTTTGAATATTTCAAATTAAAA
1 TATTTAACTTTGAATAGTAAAAAATGTACATCTTTTGAATATTTCAAATTAAAA
4862723 GATATTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 7 0.15
61 21 0.45
62 19 0.40
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (61 bp):
TATTTAACTTTGAATAGTAAAAAATGTACATCTTTTGAATATTTCAAATTAAAATAATATC
Found at i:4862735 original size:62 final size:64
Alignment explanation
Indices: 4862573--4862735 Score: 158
Period size: 62 Copynumber: 2.5 Consensus size: 64
4862563 ATAATTATTC
* *
4862573 TTTGAATATATCAAATTAAAATGTATTTATTATTTATTTAACTTTGAATATTAAAGATAATTACA
1 TTTGAATATTTCAAATTAAAA-G-A--TATTA-TTATTTAACTTTGAATAGTAAAGATAATTACA
4862638 TACT
61 TACT
* * * **
4862642 TTT-AATATTTCAAATT-AAA-ATAATATCTATTTAAGTTTGAATAGTAAA-A-AGTGTGTAT-C
1 TTTGAATATTTCAAATTAAAAGATATTAT-TATTTAACTTTGAATAGTAAAGATAAT-TACATAC
4862701 T
64 T
4862702 TTTGAATATTTCAAATTAAAAGATATTATTATTT
1 TTTGAATATTTCAAATTAAAAGATATTATTATTT
4862736 GTTTAAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
60 7 0.09
61 18 0.22
62 31 0.38
63 6 0.07
64 1 0.01
67 3 0.04
68 12 0.15
69 3 0.04
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (64 bp):
TTTGAATATTTCAAATTAAAAGATATTATTATTTAACTTTGAATAGTAAAGATAATTACATACT
Found at i:4863888 original size:30 final size:31
Alignment explanation
Indices: 4863854--4863924 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
4863844 ATTATATCAT
* *
4863854 TTATACTATTGAACTTTCAA-TTT-TTTTCAA
1 TTATACTACTGAACTTT-AACTTTCATTTCAA
4863884 TTATAGC-ACTGAACTTTAACTTTCATTTCAA
1 TTATA-CTACTGAACTTTAACTTTCATTTCAA
4863915 TTATACTACT
1 TTATACTACT
4863925 AAACCATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
29 2 0.06
30 18 0.51
31 15 0.43
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (31 bp):
TTATACTACTGAACTTTAACTTTCATTTCAA
Found at i:4864198 original size:29 final size:25
Alignment explanation
Indices: 4864164--4864235 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 25
4864154 TCCCATACAA
*
4864164 AACATTTTACCTACAATTTGTCAAGAC
1 AACATTTAACCTACAATTTG--AAGAC
* * *
4864191 AGGACATTTGACCCACAATTTGAAGAT
1 A--ACATTTAACCTACAATTTGAAGAC
4864218 AACATTTAACCTACAATT
1 AACATTTAACCTACAATT
4864236 CAGTTCAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 15 0.39
27 6 0.16
29 17 0.45
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (25 bp):
AACATTTAACCTACAATTTGAAGAC
Found at i:4869642 original size:45 final size:45
Alignment explanation
Indices: 4869571--4869662 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
4869561 GCAAAGAGAA
* *
4869571 TGGCGGTGGCGGTCCCAAAAGGCAAATGAAGATAGCAATATTCAT
1 TGGCCGTGGCGGTCCCAAAAGCCAAATGAAGATAGCAATATTCAT
* *
4869616 TGGCCGTGGTGGTCCCAAAAGCCAAATGAAGATAGTAATATTCAT
1 TGGCCGTGGCGGTCCCAAAAGCCAAATGAAGATAGCAATATTCAT
4869661 TG
1 TG
4869663 TCCCCACTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (45 bp):
TGGCCGTGGCGGTCCCAAAAGCCAAATGAAGATAGCAATATTCAT
Found at i:4886979 original size:20 final size:21
Alignment explanation
Indices: 4886917--4886993 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
4886907 TGCAAGAAAA
*
4886917 GGATCGATCTTTTAAGG-GAAG
1 GGATCGATCTTTT-TGGTGAAG
* * **
4886938 GGATAGATCCTTTTCATCGAA-
1 GGATCGATCTTTTTGGT-GAAG
4886959 GGATCGATCTTTTTGGTGAAG
1 GGATCGATCTTTTTGGTGAAG
*
4886980 GGATCGTTCTTTTT
1 GGATCGATCTTTTT
4886994 CTTCTAGGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.07
21 37 0.86
22 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (21 bp):
GGATCGATCTTTTTGGTGAAG
Found at i:4887114 original size:20 final size:21
Alignment explanation
Indices: 4887067--4887124 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
4887057 ATCATTCTAC
*
4887067 AAGGGATTGATCCTTTGGTCT
1 AAGGGATCGATCCTTTGGTCT
*
4887088 AAAGGATCGATCCTATT-G-CT
1 AAGGGATCGATCCT-TTGGTCT
* *
4887108 AAGGGATCAATCATTTG
1 AAGGGATCGATCCTTTG
4887125 AGAAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.07
20 13 0.43
21 13 0.43
22 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (21 bp):
AAGGGATCGATCCTTTGGTCT
Found at i:4891933 original size:23 final size:23
Alignment explanation
Indices: 4891907--4891954 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4891897 ATAAAGTACA
*
4891907 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4891930 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4891953 AT
1 AT
4891955 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4892939 original size:23 final size:23
Alignment explanation
Indices: 4892913--4892977 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
4892903 ATGCGAGATA
4892913 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
4892936 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
4892959 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
4892978 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:4893310 original size:20 final size:20
Alignment explanation
Indices: 4893285--4893323 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4893275 TCCACAGTGA
* *
4893285 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
4893305 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
4893324 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:4893805 original size:22 final size:22
Alignment explanation
Indices: 4893752--4893811 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
4893742 CAATAACCAT
4893752 TACCTATTACATTATATAAACGA
1 TACCTA-TACATTATATAAACGA
** *
4893775 TA-CTATACATTATATAAGGGC
1 TACCTATACATTATATAAACGA
*
4893796 TACCTATACATCATAT
1 TACCTATACATTATAT
4893812 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 15 0.47
22 15 0.47
23 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (22 bp):
TACCTATACATTATATAAACGA
Found at i:4893861 original size:416 final size:421
Alignment explanation
Indices: 4892915--4893899 Score: 1793
Period size: 416 Copynumber: 2.4 Consensus size: 421
4892905 GCGAGATAGA
4892915 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTA-TACATCATATGT
4892980 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCG-TACTTTTTTTAAAACTTA
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
4893044 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATGATTTAATAAT
130 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATGATTTAATAAT
4893109 TTCATTTGCACAAAAAAATTATTTGATTGTTTTTATTTTATAAAATATTATTTAGAATTTTAAAT
195 TTCATTTGCACAAAAAAATTATTTGATTGTTTTTATTTTATAAAATATTATTTAGAATTTTAAAT
4893174 TTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAATATCT
260 TTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAATATCT
4893239 TAAAACTCACTCAAAAGATAACCTTAAATTAAGTTTTCCACAGTGAAAAAAGTATGGACACTTTA
325 TAAAACTCACTCAAAAGATAACCTTAAATTAAGTTTTCCACAGTGAAAAAAGTATGGACACTTTA
4893304 TAAAAAGGATAGACACTTTACAATATAACCAT
390 TAAAAAGGATAGACACTTTACAATATAACCAT
4893336 TACCTATTACATTATA-AAACGATACCTATTACATTATATAAGGGCTACCT-TACATCATATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATACATCATATGTT
4893399 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
4893464 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATG-TTTCCACCTACAATATGA-TT-ATAATT
131 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATGATTTAATAATT
4893526 TCATTTGCAC-AAAAAATTATTTGATTGTTTTATATTTTAT-AAATATTA-TTAGAATTTTAAAT
196 TCATTTGCACAAAAAAATTATTTGATTGTTTT-TATTTTATAAAATATTATTTAGAATTTTAAA-
4893588 TTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AATTAAT
259 TT--TAATAATATATACCGTAACGTAAAAAATAAATCATTAGACG-CTATAATTACTAAATTAAT
4893652 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACA
321 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAA-GTTTTCCACAGTGAAAAAAGTATGGACA
4893716 CTTTTATAAAAAGGATAGACACTTTAC-A-ATAACCAT
385 C-TTTATAAAAAGGATAGACACTTTACAATATAACCAT
4893752 TACCTATTACATTATATAAACGATA-CTA-TACATTATATAAGGGCTACCTATACATCATATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATACATCATATGTT
4893815 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
4893880 GTAATTTATGTTTCAATTTT
131 GTAATTTATGTTTCAATTTT
4893900 AAATTTAATA
Statistics
Matches: 554, Mismatches: 0, Indels: 25
0.96 0.00 0.04
Matches are distributed among these distances:
414 13 0.02
415 52 0.09
416 149 0.27
417 110 0.20
418 125 0.23
419 55 0.10
420 34 0.06
421 16 0.03
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (421 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATACATCATATGTT
TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATGATTTAATAATT
TCATTTGCACAAAAAAATTATTTGATTGTTTTTATTTTATAAAATATTATTTAGAATTTTAAATT
TAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAATATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAAGTTTTCCACAGTGAAAAAAGTATGGACACTTTAT
AAAAAGGATAGACACTTTACAATATAACCAT
Found at i:4894088 original size:23 final size:23
Alignment explanation
Indices: 4894061--4894109 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
4894051 ACACTGTTAA
4894061 ATAT-AACCATTACCTATTACATT
1 ATATAAACCA-TACCTATTACATT
*
4894084 ATATAAACGATACCTATTACATT
1 ATATAAACCATACCTATTACATT
4894107 ATA
1 ATA
4894110 AGGGCTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATAAACCATACCTATTACATT
Found at i:4894189 original size:321 final size:316
Alignment explanation
Indices: 4893578--4894192 Score: 1096
Period size: 321 Copynumber: 1.9 Consensus size: 316
4893568 ATATTATTAG
4893578 AATTTTAAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
1 AATTTTAAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
4893643 CTAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAG
66 CTAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAG
*
4893708 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATAACCATTACCTATTACATTATATAAAC
131 TATGGACACTTTTATAAAAAGGATAGACACTTTAAAATAACCATTACCTATTACATTATATAAAC
4893773 GATACTATACATTATATAAGGGCTACCTATACATCATATGTTTACCTATTATATTGAAAGTGTCC
196 GATACTATACATTATATAAGGGCTACCTATACATCATATGTTTACCTATTATATTGAAAGTGTCC
4893838 ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
261 ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
4893894 AATTTTAAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
1 AATTTTAAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
4893957 CTAAATTAATATCTTAAAAACTCAAC-CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAA
66 CT-AATTAATATCTT-AAAACTC-ACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AA
4894021 AAAGTATGGACACTTTTATAAAAAGGATAGACACTGTTAAATATAACCATTACCTATTACATTAT
127 AAAGTATGGACACTTTTATAAAAAGGATAGACACT-TTAAA-ATAACCATTACCTATTACATTAT
4894086 ATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACACTCATATGTTTACCTATTATATT
190 ATAAACGATA-CTA-TACATTATATAAGGGCTACCTA-TACA-TCATATGTTTACCTATTATATT
4894149 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTA
251 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTA
4894193 GATAACCTTA
Statistics
Matches: 288, Mismatches: 1, Indels: 15
0.95 0.00 0.05
Matches are distributed among these distances:
314 46 0.16
315 13 0.05
316 60 0.21
317 39 0.14
318 4 0.01
319 48 0.17
320 8 0.03
321 70 0.24
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (316 bp):
AATTTTAAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
CTAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAG
TATGGACACTTTTATAAAAAGGATAGACACTTTAAAATAACCATTACCTATTACATTATATAAAC
GATACTATACATTATATAAGGGCTACCTATACATCATATGTTTACCTATTATATTGAAAGTGTCC
ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
Found at i:4894285 original size:21 final size:20
Alignment explanation
Indices: 4894260--4894313 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
4894250 GGATAGACAC
4894260 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
4894281 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
4894304 TTACATTATA
1 TTACAATATA
4894314 TAAGGGCTAC
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
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:4894301 original size:23 final size:23
Alignment explanation
Indices: 4894275--4894337 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4894265 ATATAACCAT
4894275 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
4894298 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
4894321 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4894338 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4894339 original size:205 final size:204
Alignment explanation
Indices: 4893987--4894397 Score: 772
Period size: 205 Copynumber: 2.0 Consensus size: 204
4893977 CTCAACCAAA
4893987 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
1 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
4894052 CACTGTTAAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTA
66 CAC-GTTAAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTA
4894117 CCTATTACACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
130 CCTATTACACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
4894182 TACTTTTTTT
195 TACTTTTTTT
4894192 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
1 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
4894257 CAC-TTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGC
66 CACGTTA-AATATAACCATTACCTATTACATTATATAAACGATACCTATTACA-T-TATAAGGGC
4894321 TACCTATTACA-TCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
128 TACCTATTACACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
4894385 GATACTTTTTTT
193 GATACTTTTTTT
4894397 A
1 A
4894398 AAACTTATGT
Statistics
Matches: 203, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
203 3 0.01
204 45 0.22
205 135 0.67
206 20 0.10
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (204 bp):
AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
CACGTTAAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTAC
CTATTACACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
ACTTTTTTT
Done.