Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 15 of 316
Found at i:4561502 original size:19 final size:20
Alignment explanation
Indices: 4561465--4561502 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4561455 ATAAGGTGGT
4561465 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
4561485 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
4561503 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:4575641 original size:46 final size:46
Alignment explanation
Indices: 4575591--4575763 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
4575581 TGGTTGAGCA
* *
4575591 TCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
4575637 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
4575684 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
4575730 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4575764 GGGGCAGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:4575747 original size:93 final size:93
Alignment explanation
Indices: 4575588--4575758 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
4575578 GGATGGTTGA
* *
4575588 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
4575653 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
4575681 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
4575746 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4575759 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4576025 original size:19 final size:20
Alignment explanation
Indices: 4575988--4576025 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4575978 ATAAGGTGGT
4575988 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
4576008 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
4576026 TAGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:4585510 original size:38 final size:38
Alignment explanation
Indices: 4585468--4585543 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4585458 ATGTATGGCA
*
4585468 TTATCATACTTAAAACAAACTATCAGATTTACAGTTTT
1 TTATCATACTTAAAACAAACTATCAGATTCACAGTTTT
* *
4585506 TTATCATACTTAAAATAGACTATCAGATTCACAGTTTT
1 TTATCATACTTAAAACAAACTATCAGATTCACAGTTTT
4585544 AGGGTTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (38 bp):
TTATCATACTTAAAACAAACTATCAGATTCACAGTTTT
Found at i:4589147 original size:83 final size:86
Alignment explanation
Indices: 4588998--4589243 Score: 329
Period size: 83 Copynumber: 2.9 Consensus size: 86
4588988 TTGTCCGTTT
* * **
4588998 TCTTTTCAAATTGATTAATTTTAGTACCTAT-CTTTTAGTATTTTAAATTTTAATCTTGACCGGG
1 TCTTTTCAAATTGATCAATTTTAGTACCTATACTTTTAGAATTTTAAATTTTAATCTTGACTTGG
**
4589062 TAACGGTTAAATTGTCCAATA
66 TAACAATTAAATTGTCCAATA
*
4589083 T-TTTTGAAATTGATCAA-TTTAGT-CCTATACTTTTAGAATTTTAAATTTTAATCTTGACTTGG
1 TCTTTTCAAATTGATCAATTTTAGTACCTATACTTTTAGAATTTTAAATTTTAATCTTGACTTGG
* *
4589145 TAACAATTAAATTGTCCATTT
66 TAACAATTAAATTGTCCAATA
* ** * *
4589166 TCTTTTCAAATTGATCAATTTTAGTCCCTGCATTTTTAGAATTTTAAATTTTAATCTTAACTTGG
1 TCTTTTCAAATTGATCAATTTTAGTACCTATACTTTTAGAATTTTAAATTTTAATCTTGACTTGG
*
4589231 TAACACTTAAATT
66 TAACAATTAAATT
4589244 CGTTTAATTA
Statistics
Matches: 142, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
82 5 0.04
83 54 0.38
84 29 0.20
85 7 0.05
86 47 0.33
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (86 bp):
TCTTTTCAAATTGATCAATTTTAGTACCTATACTTTTAGAATTTTAAATTTTAATCTTGACTTGG
TAACAATTAAATTGTCCAATA
Found at i:4589308 original size:25 final size:25
Alignment explanation
Indices: 4589274--4589323 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4589264 CTAGTCTTAT
4589274 AATATTTGTGAAATTATAGATTAAG
1 AATATTTGTGAAATTATAGATTAAG
4589299 AATATTTGTGAAATTATAGATTAAG
1 AATATTTGTGAAATTATAGATTAAG
4589324 GGTCTGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
AATATTTGTGAAATTATAGATTAAG
Found at i:4599144 original size:18 final size:18
Alignment explanation
Indices: 4599123--4599173 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4599113 TTTTCTTCTC
*
4599123 CTCATTATTATTCT-CATT
1 CTCATTATTATTATAC-TT
*
4599141 CTCATCATTATTATACTT
1 CTCATTATTATTATACTT
*
4599159 CTTATTATTATTATA
1 CTCATTATTATTATA
4599174 GTAGAGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (18 bp):
CTCATTATTATTATACTT
Found at i:4600180 original size:87 final size:87
Alignment explanation
Indices: 4600029--4600196 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
4600019 TACTCGATAT
* * * * * * *
4600029 TGCAGATTGCGATATGTGATGTTTTGCTTTGGACTTTGTCTTAATGAAATTGGTATGCATATGGT
1 TGCAGAATGCGATATATGATGTTTTGCTTTGGACTCTGCCTTAACGAAATAGGTATGCAAATGGT
4600094 CTCACTTT-TATATATATCGTAC
66 CTCA-TTTCTATATATATCGTAC
* * *
4600116 TGCAGAATGCGATATATGATGTTTTG-TTTGGAACTCTGCCTTTACGGAATAGGTATGGAAATGG
1 TGCAGAATGCGATATATGATGTTTTGCTTTGG-ACTCTGCCTTAACGAAATAGGTATGCAAATGG
*
4600180 TCTTATTTCTATATATA
65 TCTCATTTCTATATATA
4600197 CCGAAGCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 8 0.12
87 60 0.88
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (87 bp):
TGCAGAATGCGATATATGATGTTTTGCTTTGGACTCTGCCTTAACGAAATAGGTATGCAAATGGT
CTCATTTCTATATATATCGTAC
Found at i:4609638 original size:31 final size:31
Alignment explanation
Indices: 4609603--4609664 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4609593 TGCATGATAC
4609603 TTGCCTATGTATGTATTATGCAGATGAATAT
1 TTGCCTATGTATGTATTATGCAGATGAATAT
4609634 TTGCCTATGTATGTATTATGCAGATGAATAT
1 TTGCCTATGTATGTATTATGCAGATGAATAT
4609665 ATGAAGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (31 bp):
TTGCCTATGTATGTATTATGCAGATGAATAT
Found at i:4621084 original size:21 final size:20
Alignment explanation
Indices: 4621046--4621091 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
4621036 GGTTAGCCTA
4621046 TTTT-AAATTTATCCATATCAT
1 TTTTAAAATTTATCCATAT--T
*
4621067 TTTTAAAATTTAT-TATATT
1 TTTTAAAATTTATCCATATT
4621086 TTTTAA
1 TTTTAA
4621092 TTTTAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
21 8 0.35
22 8 0.35
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTTATCCATATT
Found at i:4623526 original size:26 final size:26
Alignment explanation
Indices: 4623496--4623550 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
4623486 AACTTTTATC
4623496 AAAT-ACAAATACCACATTAGATAAAA
1 AAATAACAAATACCACATTAGA-AAAA
*
4623522 AAATAACACAAATACTACATTAGAAAAA
1 AAAT-A-ACAAATACCACATTAGAAAAA
4623550 A
1 A
4623551 GTGTCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
28 5 0.20
29 16 0.64
ACGTcount: A:0.64, C:0.15, G:0.04, T:0.18
Consensus pattern (26 bp):
AAATAACAAATACCACATTAGAAAAA
Found at i:4624721 original size:28 final size:28
Alignment explanation
Indices: 4624689--4624743 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4624679 CAAGGTTGAC
4624689 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
4624717 TTTTAATTTACTTGTTTAATTTCAATC
1 TTTTAATCTACTTGTTTAATTTCAATC
4624744 ATTTACTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:4631094 original size:15 final size:16
Alignment explanation
Indices: 4631074--4631106 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4631064 ATATATTTTT
4631074 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
4631089 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
4631106 T
1 T
4631107 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:4631179 original size:21 final size:22
Alignment explanation
Indices: 4631153--4631211 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
4631143 GTTTTAAGAA
*
4631153 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
4631174 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
4631196 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
4631212 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:4631226 original size:26 final size:24
Alignment explanation
Indices: 4631182--4631231 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
4631172 ATTTGTTTTA
*
4631182 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
4631206 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
4631232 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:4634173 original size:28 final size:28
Alignment explanation
Indices: 4634141--4634195 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4634131 CAAGGCTGAC
4634141 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
4634169 TTTTAATTTACTTGTTTAATTTCAATC
1 TTTTAATCTACTTGTTTAATTTCAATC
4634196 ATTTACTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:4640902 original size:18 final size:18
Alignment explanation
Indices: 4640879--4640971 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
4640869 CCCAACTACT
*
4640879 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
4640897 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
4640915 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
4640933 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
4640951 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4640969 GTA
1 GTA
4640972 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4646678 original size:7 final size:7
Alignment explanation
Indices: 4646629--4646658 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4646619 AATGATGGGC
4646629 AAGTTTG
1 AAGTTTG
4646636 AAGTTTG
1 AAGTTTG
4646643 AAGTTTG
1 AAGTTTG
*
4646650 AATTTTG
1 AAGTTTG
4646657 AA
1 AA
4646659 TTTATGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (7 bp):
AAGTTTG
Found at i:4652849 original size:18 final size:19
Alignment explanation
Indices: 4652816--4652854 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4652806 AAATAATAAG
* *
4652816 AAAAGAAAATATAAAG-GA
1 AAAAGAAAAAAAAAAGAGA
4652834 AAAAGAAAAAAAAAAGAGA
1 AAAAGAAAAAAAAAAGAGA
4652853 AA
1 AA
4652855 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAGAGA
Found at i:4654646 original size:9 final size:9
Alignment explanation
Indices: 4654632--4654660 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4654622 GTTATGGAAT
4654632 TTAGGGCCA
1 TTAGGGCCA
4654641 TTAGGGCCA
1 TTAGGGCCA
4654650 TTAGGGCCA
1 TTAGGGCCA
4654659 TT
1 TT
4654661 CATGCACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (9 bp):
TTAGGGCCA
Found at i:4655337 original size:8 final size:8
Alignment explanation
Indices: 4655324--4655371 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
4655314 TCTTTTACTA
4655324 ATTTTTAT
1 ATTTTTAT
4655332 ATTTTTAAT
1 ATTTTT-AT
4655341 AGTTTTTAT
1 A-TTTTTAT
*
4655350 TTTTTTAT
1 ATTTTTAT
4655358 AATTTTTA-
1 -ATTTTTAT
4655366 ATTTTT
1 ATTTTT
4655372 TAAATATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 6 0.17
8 13 0.37
9 11 0.31
10 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:4655354 original size:17 final size:17
Alignment explanation
Indices: 4655316--4655374 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
4655306 TGAGAAAATC
*
4655316 TTTTACTAATTTTTATAT
1 TTTTAATAATTTTTAT-T
*
4655334 TTTTAATAGTTTTTATT
1 TTTTAATAATTTTTATT
*
4655351 TTTTTATAATTTTTAATT
1 TTTTAATAATTTTT-ATT
4655369 TTTTAA
1 TTTTAA
4655375 ATATATGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 13 0.37
18 22 0.63
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTAATAATTTTTATT
Found at i:4655372 original size:18 final size:17
Alignment explanation
Indices: 4655316--4655373 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
4655306 TGAGAAAATC
4655316 TTTTACTAATTTTTATATT
1 TTTTA-TAATTTTTAT-TT
* *
4655335 TTTAATAGTTTTTATTT
1 TTTTATAATTTTTATTT
*
4655352 TTTTATAATTTTTAATT
1 TTTTATAATTTTTATTT
4655369 TTTTA
1 TTTTA
4655374 AATATATGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 21 0.62
18 9 0.26
19 4 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTATAATTTTTATTT
Found at i:4657147 original size:7 final size:7
Alignment explanation
Indices: 4657137--4657164 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4657127 TAAAAATGAA
4657137 AATATTT
1 AATATTT
4657144 AATATTT
1 AATATTT
4657151 AATATTT
1 AATATTT
4657158 AATATTT
1 AATATTT
4657165 TAAATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:4657199 original size:20 final size:22
Alignment explanation
Indices: 4657153--4657203 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
4657143 TAATATTTAA
4657153 TATTTAATATTTTAAATGTTTT
1 TATTTAATATTTTAAATGTTTT
*
4657175 T-TTTATTATTTT-AAT-TTTT
1 TATTTAATATTTTAAATGTTTT
4657194 TATTTAATAT
1 TATTTAATAT
4657204 AAAATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 10 0.38
22 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTAATATTTTAAATGTTTT
Found at i:4658029 original size:17 final size:18
Alignment explanation
Indices: 4658003--4658036 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4657993 TAAAACTAGA
4658003 ATACCAAATAAA-TTATT
1 ATACCAAATAAAGTTATT
*
4658020 ATACCTAATAAAGTTAT
1 ATACCAAATAAAGTTAT
4658037 AATTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (18 bp):
ATACCAAATAAAGTTATT
Found at i:4661522 original size:8 final size:8
Alignment explanation
Indices: 4661509--4661536 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4661499 CAACTACTTT
4661509 TTTTATTC
1 TTTTATTC
4661517 TTTTATTC
1 TTTTATTC
4661525 TTTTATTC
1 TTTTATTC
4661533 TTTT
1 TTTT
4661537 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTATTC
Found at i:4661544 original size:16 final size:16
Alignment explanation
Indices: 4661506--4661543 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
4661496 CAACAACTAC
4661506 TTTTTTTATTCTTTTA
1 TTTTTTTATTCTTTTA
*
4661522 TTCTTTTATTCTTTT-
1 TTTTTTTATTCTTTTA
4661537 TTTTTTT
1 TTTTTTT
4661544 TTTGCGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTATTCTTTTA
Found at i:4661934 original size:21 final size:21
Alignment explanation
Indices: 4661908--4661961 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4661898 AATAGCGGTG
* *
4661908 ACGGTGAGATTAGTTATTGTA
1 ACGGTGAGATTAGATAATGTA
4661929 ACGGTGAGATTAGATAATGTA
1 ACGGTGAGATTAGATAATGTA
*
4661950 ACAGTGAGATTA
1 ACGGTGAGATTA
4661962 AAAACAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (21 bp):
ACGGTGAGATTAGATAATGTA
Found at i:4662598 original size:13 final size:13
Alignment explanation
Indices: 4662580--4662607 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4662570 GAAAAGATTG
4662580 CATTCATCGTTGA
1 CATTCATCGTTGA
4662593 CATTCATCGTTGA
1 CATTCATCGTTGA
4662606 CA
1 CA
4662608 AGGCCAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (13 bp):
CATTCATCGTTGA
Found at i:4668724 original size:171 final size:171
Alignment explanation
Indices: 4668423--4668757 Score: 598
Period size: 171 Copynumber: 2.0 Consensus size: 171
4668413 ATCTTTCTCT
* *
4668423 TGTACATCATCTGGTTTCTCTTCATTAATGGCAATGTCTAGACCCTGCTGAAAAAGGGCATCTAG
1 TGTACATCATCTGGTTTCTCTTAATCAATGGCAATGTCTAGACCCTGCTGAAAAAGGGCATCTAG
* * *
4668488 AACCTCACTTTGCCACATACCAAAATGACCTGTGCCATCAAAGATCTCTACGGCCAATCTTGCAT
66 AACCTCACTTTGCCACATACCAAAATGACCCGTGCCATCAAAGATCTCCACAGCCAATCTTGCAT
4668553 TTGCAATTGTCAGTCTTGTCCACATGGACGATGTGGTATCA
131 TTGCAATTGTCAGTCTTGTCCACATGGACGATGTGGTATCA
*
4668594 TGTACATCATCTGGTTTCTCTTAATCAATGGCAATGTTTAGACCCTGCTGAAAAAGGGCATCTAG
1 TGTACATCATCTGGTTTCTCTTAATCAATGGCAATGTCTAGACCCTGCTGAAAAAGGGCATCTAG
*
4668659 AACCTCACTTTGCCACATACCAAAATGACCCGTGCCATCAAAGATCTCCACAGCCAATTTTGCAT
66 AACCTCACTTTGCCACATACCAAAATGACCCGTGCCATCAAAGATCTCCACAGCCAATCTTGCAT
*
4668724 TTGCAATTGTCGGTCTTGTCCACATGGACGATGT
131 TTGCAATTGTCAGTCTTGTCCACATGGACGATGT
4668758 TGAAGCTCCT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 156 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (171 bp):
TGTACATCATCTGGTTTCTCTTAATCAATGGCAATGTCTAGACCCTGCTGAAAAAGGGCATCTAG
AACCTCACTTTGCCACATACCAAAATGACCCGTGCCATCAAAGATCTCCACAGCCAATCTTGCAT
TTGCAATTGTCAGTCTTGTCCACATGGACGATGTGGTATCA
Found at i:4676590 original size:29 final size:29
Alignment explanation
Indices: 4676557--4676613 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
4676547 AGTTGGAATA
*
4676557 CAACTAAGTTACATCATTACGTCCACTTC
1 CAACTAAGTTACATCATTACATCCACTTC
4676586 CAACTAAGTTACATCATTACATCCACTT
1 CAACTAAGTTACATCATTACATCCACTT
4676614 AAAATAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (29 bp):
CAACTAAGTTACATCATTACATCCACTTC
Found at i:4676660 original size:101 final size:101
Alignment explanation
Indices: 4676485--4676685 Score: 384
Period size: 101 Copynumber: 2.0 Consensus size: 101
4676475 AGTTGGAATA
*
4676485 CAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
1 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
*
4676550 TGGAATACAACTAAGTTACATCATTACGTCCACTTC
66 TGGAATACAACTAAGTTACATCATTACATCCACTTC
4676586 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
1 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
4676651 TGGAATACAACTAAGTTACATCATTACATCCACTT
66 TGGAATACAACTAAGTTACATCATTACATCCACTT
4676686 AAAATAAATC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (101 bp):
CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
TGGAATACAACTAAGTTACATCATTACATCCACTTC
Found at i:4676703 original size:72 final size:72
Alignment explanation
Indices: 4676586--4676754 Score: 338
Period size: 72 Copynumber: 2.3 Consensus size: 72
4676576 CGTCCACTTC
4676586 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
1 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
4676651 TGGAATA
66 TGGAATA
4676658 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
1 CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
4676723 TGGAATA
66 TGGAATA
4676730 CAACTAAGTTACATCATTACATCCA
1 CAACTAAGTTACATCATTACATCCA
4676755 AATAATAATA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (72 bp):
CAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGT
TGGAATA
Found at i:4676763 original size:3 final size:3
Alignment explanation
Indices: 4676755--4676798 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4676745 ATTACATCCA
4676755 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4676799 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4681134 original size:72 final size:72
Alignment explanation
Indices: 4681017--4681200 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
4681007 ACAACTTGAC
*
4681017 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
4681082 ACTAACA
66 ACTAACA
4681089 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
4681154 ACTAACA
66 ACTAACA
4681161 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
4681201 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:4681209 original size:3 final size:3
Alignment explanation
Indices: 4681201--4681247 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4681191 ATTACATCCA
4681201 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4681248 AACATGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4682196 original size:17 final size:17
Alignment explanation
Indices: 4682155--4682197 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
4682145 CAAAACCTAT
*
4682155 AAAAGTTATAAGTAACC
1 AAAAGTTTTAAGTAACC
4682172 AAAAGTTTTAAGTAACC
1 AAAAGTTTTAAGTAACC
4682189 AAAAGTTTT
1 AAAAGTTTT
4682198 GTCAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (17 bp):
AAAAGTTTTAAGTAACC
Found at i:4682384 original size:18 final size:18
Alignment explanation
Indices: 4682361--4682398 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4682351 GATCGTAAAG
4682361 TTTGTCAAAGTCGCGGAT
1 TTTGTCAAAGTCGCGGAT
4682379 TTTGTCAAAGTCGCGGAT
1 TTTGTCAAAGTCGCGGAT
4682397 TT
1 TT
4682399 GACTTAGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (18 bp):
TTTGTCAAAGTCGCGGAT
Found at i:4684974 original size:17 final size:17
Alignment explanation
Indices: 4684952--4684985 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4684942 TGAAACCTTC
4684952 ACCAATTTTTCATAAGT
1 ACCAATTTTTCATAAGT
4684969 ACCAATTTTTCATAAGT
1 ACCAATTTTTCATAAGT
4684986 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
ACCAATTTTTCATAAGT
Found at i:4690303 original size:283 final size:290
Alignment explanation
Indices: 4689951--4690529 Score: 712
Period size: 283 Copynumber: 2.0 Consensus size: 290
4689941 CCACTTGAAG
* * * *
4689951 AGGGTTGTAGATTCTTCGTGTTTCCAAGGCTTCTTAGGACTTCTACACGCCACGTTCTATATTTC
1 AGGGTTGTAGATTCTTCATGTATCCAAGGCTTCTTAAGACTTCTACACACCACGTTCTATATTTC
4690016 CATCTATCTTCTTTATTCGCTTCCTTATTATTCTAATC-T-TTGATT-TAT-TA-TT-TTA-TTT
66 CATCTATCTTCTTTATTCGCTTCCTTATTATTCTAATCGTATTGATTAT-TCTATTTATTATTTT
* ** *
4690074 TAGTTATTTATTTTAATTGTTTCATCTGACTTGGACTCAATTTCATTTCAGGTTGTGTC-AAAAT
130 TAGTTAATTATTTTAATTGTTTCATCCAACTTGGACTCAATTGCATTTCAGGTTGTGTCAAAAAT
* * * *
4690138 CCAAGTTTCTTT-GAACGTTTAAAG-CCATAAGTCAAATCCTCAACTTTGACAAACTTTACGAT-
195 CCAAGTTTCTTTCAAACGTCTAAAGTCC-TAAGTCAAATCCGCAACTTTCACAAACTTTACGATC
*
4690200 TCGCTTCCGCATTCATTCATCTCATTCTTTATC
259 T-GCTTCCGCATTCATCCATCTCATTCTTTATC
* * * *
4690233 AGGGTTTGTGGATTCTTCATGTATCCAAGGCTTCTTAAGACTTCTATATACCACGTTCTATCTTT
1 AGGG-TTGTAGATTCTTCATGTATCCAAGGCTTCTTAAGACTTCTACACACCACGTTCTATATTT
** * *
4690298 CCATCTATCTTCTTTATTTTCTTCCTTATTTTTCTAATCGTAAATTTATTATTCTATTTTAATTA
65 CCATCTATCTTCTTTATTCGCTTCCTTATTATTCTAATCGT--ATTGATTATTCTA-TTT-ATTA
* * ** *
4690363 TTTTTAGTTAATTATTTTAATTGTTTTATCCAACTTGGATTTGATTGCGTTTCAGGTTGTGTCAA
126 TTTTTAGTTAATTATTTTAATTGTTTCATCCAACTTGGACTCAATTGCATTTCAGGTTGTGTCAA
* * * *
4690428 AAATCTAAGTTTCTTTCCAAACGTCTAAAGTCCTAAGTTAAATTCGCCACTTTCACAAACTTTAC
191 AAATCCAAGTTTCTTT-CAAACGTCTAAAGTCCTAAGTCAAATCCGCAACTTTCACAAACTTTAC
* *
4690493 GATCTGCTTCCGCATTTATCCGTCTCATTCTTTATC
255 GATCTGCTTCCGCATTCATCCATCTCATTCTTTATC
4690529 A
1 A
4690530 ACTGGCCACT
Statistics
Matches: 248, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
282 4 0.02
283 88 0.35
284 1 0.00
287 6 0.02
288 3 0.01
290 2 0.01
292 3 0.01
293 53 0.21
294 16 0.06
296 69 0.28
297 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (290 bp):
AGGGTTGTAGATTCTTCATGTATCCAAGGCTTCTTAAGACTTCTACACACCACGTTCTATATTTC
CATCTATCTTCTTTATTCGCTTCCTTATTATTCTAATCGTATTGATTATTCTATTTATTATTTTT
AGTTAATTATTTTAATTGTTTCATCCAACTTGGACTCAATTGCATTTCAGGTTGTGTCAAAAATC
CAAGTTTCTTTCAAACGTCTAAAGTCCTAAGTCAAATCCGCAACTTTCACAAACTTTACGATCTG
CTTCCGCATTCATCCATCTCATTCTTTATC
Found at i:4702860 original size:9 final size:9
Alignment explanation
Indices: 4702842--4702876 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
4702832 TCCACTCTTC
4702842 TAAA-TTTT
1 TAAATTTTT
4702850 TAAATTTTT
1 TAAATTTTT
4702859 TAAATTTTT
1 TAAATTTTT
4702868 TAAATTTTT
1 TAAATTTTT
4702877 GTTGCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:4706303 original size:120 final size:120
Alignment explanation
Indices: 4706171--4707510 Score: 2542
Period size: 120 Copynumber: 11.2 Consensus size: 120
4706161 TTTTCAAGTT
4706171 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
4706236 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4706291 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
4706356 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4706411 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
4706476 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATA-TTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4706530 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
4706595 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4706650 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
4706715 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4706770 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
4706835 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4706890 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
4706955 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4707010 GTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
4707075 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4707130 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTACAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
4707195 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4707249 ATATATTTAATAATAATTATGTTTATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
4707314 TAATATAAGAATATTAATTATTATGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4707369 ATATATTTAATAAT-ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
4707433 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4707488 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
4707511 TAAATATGAT
Statistics
Matches: 1199, Mismatches: 18, Indels: 6
0.98 0.01 0.00
Matches are distributed among these distances:
119 351 0.29
120 848 0.71
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:4706522 original size:17 final size:17
Alignment explanation
Indices: 4706502--4706535 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4706492 ATTATTAAGA
* *
4706502 ATTTCATTAAATTATAT
1 ATTTAATTAAAATATAT
4706519 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
4706536 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:4706649 original size:18 final size:17
Alignment explanation
Indices: 4706621--4706655 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4706611 ATTATTAAGA
*
4706621 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4706638 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4706656 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4707241 original size:17 final size:17
Alignment explanation
Indices: 4707221--4707254 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4707211 ATTATTAAGA
4707221 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
4707238 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
4707255 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:4707368 original size:18 final size:17
Alignment explanation
Indices: 4707340--4707374 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4707330 ATTATTATGA
*
4707340 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4707357 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4707375 TTAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4707487 original size:18 final size:17
Alignment explanation
Indices: 4707459--4707493 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4707449 ATTATTAAGA
*
4707459 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4707476 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4707494 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4707750 original size:16 final size:16
Alignment explanation
Indices: 4707729--4707797 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
4707719 GATTAGCTAT
4707729 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4707745 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
4707762 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4707778 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
4707794 TACA
1 TACA
4707798 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4707771 original size:33 final size:32
Alignment explanation
Indices: 4707729--4707797 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
4707719 GATTAGCTAT
4707729 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
4707762 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
4707794 TACA
1 TACA
4707798 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:4711271 original size:21 final size:18
Alignment explanation
Indices: 4711218--4711298 Score: 83
Period size: 18 Copynumber: 4.3 Consensus size: 18
4711208 TTTTTTTTAT
* *
4711218 TTTATCATTCTTACTATTA
1 TTTAT-ATTATTATTATTA
4711237 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
4711255 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
4711276 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
*
4711293 TATATA
1 TTTATA
4711299 CCCTCTCCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 10 0.19
18 17 0.31
19 10 0.19
20 5 0.09
21 12 0.22
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:4711294 original size:27 final size:24
Alignment explanation
Indices: 4711232--4711297 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
4711222 TCATTCTTAC
4711232 TATTATTTATATTATTATTATTATT
1 TATTATTTATA-TATTATTATTATT
* * *
4711257 TCTCATGTATATATTATTATTTATAT
1 TATTATTTATATATTATTA-TTAT-T
4711283 TATTATATTATATAT
1 TATTAT-TTATATAT
4711298 ACCCTCTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 8 0.25
25 12 0.38
26 5 0.16
27 7 0.22
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTTATATATTATTATTATT
Found at i:4732000 original size:86 final size:87
Alignment explanation
Indices: 4731853--4732974 Score: 1189
Period size: 86 Copynumber: 13.0 Consensus size: 87
4731843 GAATCAGTGG
* * * ** *
4731853 ATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACCCCT
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
* * *
4731918 AAGAAGTAGGGTAACAGACCGA
66 AAGCAGTAGGGTAACAGGCTGA
** * * *
4731940 A-TTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATCGAAAACGAAGGGTCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCC
* * *
4732003 TAAGCAGTAAGGTAACAGAC-CA
65 TAAGCAGTAGGGTAACAGGCTGA
* * * * *
4732025 AATTGCAGATCTTATCTCCCTAAGCAGTA-GTAGAGCAGATCGAAGACGAAGGGTCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGA-AACAGATCGAAGACGAAGGGCCTTAAACCCC
* *
4732089 TAAGCAGTAGGGTAACAGAC-CA
65 TAAGCAGTAGGGTAACAGGCTGA
* * ** * *
4732111 AATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATCAAAGACGAATGGCCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCC
4732175 TAAGCAGTAGGGTAACAGGCTGA
65 TAAGCAGTAGGGTAACAGGCTGA
* * *
4732198 ATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCT
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
* *
4732263 AAGCAGTAGGGTAACAGAC-CA
66 AAGCAGTAGGGTAACAGGCTGA
* * * * * *
4732284 AATTGTAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGGGTCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCC
4732348 TAAGCAGTAGGGTAACAGGCTGA
65 TAAGCAGTAGGGTAACAGGCTGA
* * * *
4732371 ATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAA-AGCG-ATGGCCTTAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAGATCGAAGA-CGAAGGGCCTTAAACCC
* *
4732433 CTAAGCAGTAGGGTAGCAGGCTAA
64 CTAAGCAGTAGGGTAACAGGCTGA
* * * * *
4732457 ATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCT
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
*
4732522 AAGCAGTAGGGTAACAGGTTGA
66 AAGCAGTAGGGTAACAGGCTGA
* * * * *
4732544 ATTTACAGATCTTAACCCCCTAAACAGTAGGGAAATAGATCGAAGACGATGGGCCTTAAACCCCT
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
4732609 AAGCAGTAGGGTAACAGGCTGA
66 AAGCAGTAGGGTAACAGGCTGA
* * * * *
4732631 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATA-AGCCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAACCCC
*
4732695 TAAGCAGTAGGGTAACAGGCTAA
65 TAAGCAGTAGGGTAACAGGCTGA
* * ** *
4732718 ATTTACAG-----A---CCCTAAACAGTAGGGAAACAGATCGAAGGTGACA-AGCCTTAAACCCC
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAA-CCC
4732774 CTAAGCAGTAGGGTAACAGGCTGAA
64 CTAAGCAGTAGGGTAACAGGCTG-A
* * *
4732799 GATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGATTGAAAGTGAC-AA--GCCTT-AA
1 -ATTTGCAGATCTT-ATCCCCCTAAGCAGTAGGGAAACAGATCG-AA--GACGAAGGGCCTTAAA
* *
4732860 CCCCTAAACAGTAGGGTAACAGGCTAA
61 CCCCTAAGCAGTAGGGTAACAGGCTGA
* * * * *
4732887 ATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGATA-GGCCTTAAACCCT
1 ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAACCCC
* *
4732951 TAAGCAGTAGGGTACCAAGCTGA
65 TAAGCAGTAGGGTAACAGGCTGA
4732974 A
1 A
4732975 AATTACAACT
Statistics
Matches: 907, Mismatches: 94, Indels: 68
0.85 0.09 0.06
Matches are distributed among these distances:
79 39 0.04
80 25 0.03
81 1 0.00
82 9 0.01
83 2 0.00
84 2 0.00
85 7 0.01
86 401 0.44
87 359 0.40
88 3 0.00
89 24 0.03
90 2 0.00
91 28 0.03
92 3 0.00
93 1 0.00
94 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (87 bp):
ATTTGCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTGA
Found at i:4732221 original size:43 final size:43
Alignment explanation
Indices: 4732165--4732924 Score: 391
Period size: 43 Copynumber: 17.7 Consensus size: 43
4732155 GACGAATGGC
* *
4732165 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * *
4732208 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAA--GACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTAC--A-GAT
* * **
4732252 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGT--AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT-TACAGAT
* * * ** * *
4732294 CTTATCTCCCTAAGCAGTAGTGG-AGCA-AATCGAA--GACGAAGGGT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-GAATTTAC--A-GAT
*
4732338 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *
4732381 CTTATCCCCCTAAGCAGTAGTGG-AGCA-GATCGAA---AGC-GAT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-GAATTTA-CAGAT
* *
4732421 GGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGAT
1 ---CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * ** **
4732467 CTTAACCCCCTAAGTAGTAGGGAAACA-GATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
* *
4732511 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * *
4732554 CTTAACCCCCTAAACAGTAGGGAAATA-GATCGAA--GAC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGAT
*
4732594 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 ----CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * ** * *
4732641 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATA-AG-C
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGA-AT-TTACAGAT
* *
4732685 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG--
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * *
4732726 ----A--CCCTAAACAGTAGGGAAACA-GATCGAAGGTGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA-T
4732764 CTTAAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGAT
* ** * * *
4732810 CTTAAACCCCCTAAGCAGTAGGGAAACAGATTGAAAGTGACA-AGC
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGA-T
* *
4732855 CTTAA-CCCCTAAACAGTAGGGTAACAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* *
4732897 CTTAACACCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
4732925 ATCGAAGATG
Statistics
Matches: 539, Mismatches: 112, Indels: 132
0.69 0.14 0.17
Matches are distributed among these distances:
34 2 0.00
35 20 0.04
36 4 0.01
37 1 0.00
40 7 0.01
41 7 0.01
42 49 0.09
43 212 0.39
44 146 0.27
45 37 0.07
46 49 0.09
47 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:4732281 original size:173 final size:173
Alignment explanation
Indices: 4731853--4732964 Score: 1185
Period size: 173 Copynumber: 6.5 Consensus size: 173
4731843 GAATCAGTGG
* * * * * ** *
4731853 ATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
* * * *** *
4731918 AAGAAGTAGGGTAACAGACCGAATTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATCGA
66 AAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATC-A
* * * * *
4731982 AA-ACGAAGGGTCTTAAACCCCTAAGCAGTAAGGTAACAGAC-CA
129 AAGACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* * * * * * *
4732025 AATTGCAGATCTTATCTCCCTAAGCAGTA-GTAGAGCAGATCGAAGACGAAGGGTCTTAAACCCC
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGA-AACAGATCGAAGACGAAGGGCCTTAAACCCC
* * * **
4732089 TAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATCA
65 TAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCA
4732153 AAGACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
129 AAGACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* *
4732198 ATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
** * * * * *
4732263 AAGCAGTAGGGTAACAGACCAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAAATCGA
66 AAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCAA
* *
4732327 AGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
130 AGACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* * * *
4732371 ATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAA-AGCG-ATGGCCTTAACCCC
1 ATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGA-CGAAGGGCCTTAAACCC
* * * *
4732433 CTAAGCAGTAGGGTAGCAGGCTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATC
64 CTAAGCAGTAGGGTAACAGACCAAA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
* * *
4732498 GAAGATG-ATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
128 AAAGACGAAT-GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* * *
4732544 ATTTACAGATCTTAACCCCCTAAACAGTAGGGAAATAGATCGAAGACGATGGGCCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
* * *
4732609 AAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAA
66 AAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAA
* * *
4732674 AGATG-ATAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
130 AGACGAAT-GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* ** *
4732718 ATTTACAG------A--CCCTAAACAGTAGGGAAACAGATCGAAGGTGACA-AGCCTTAAACCCC
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAA-CCC
* *
4732774 CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAG
64 CTAAGCAGTAGGGTAACAGAC-CAA-A-TTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAG
* * *
4732839 ATTGAAAGTGAC-AA--GCCTT-AACCCCTAAACAGTAGGGTAACAGGCTAA
125 A-TCAAA--GACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* * *
4732887 ATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGATA-GGCCTTAAACCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAACCCC
4732951 TAAGCAGTAGGGTA
65 TAAGCAGTAGGGTA
4732965 CCAAGCTGAA
Statistics
Matches: 830, Mismatches: 80, Indels: 56
0.86 0.08 0.06
Matches are distributed among these distances:
166 37 0.04
167 28 0.03
168 1 0.00
169 47 0.06
170 31 0.04
171 9 0.01
172 185 0.22
173 310 0.37
174 123 0.15
175 3 0.00
176 17 0.02
177 39 0.05
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (173 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCT
AAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAA
GACGAATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
Found at i:4732950 original size:43 final size:44
Alignment explanation
Indices: 4732726--4732962 Score: 189
Period size: 43 Copynumber: 5.4 Consensus size: 44
4732716 AAATTTACAG
* * *
4732726 ACCCTAAACAGTAGGGAAACAGATCGAAG-GTGACAAGCCTTAA
1 ACCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGGCCTTAA
* * * **
4732769 ACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAA
1 A--CCCTAAGCAGTAGGGAAACAGATC-GAAGATTGACAGGCCTTAA
* * *
4732815 ACCCCCTAAGCAGTAGGGAAACAGATTGAA-AGTGACAAGCCTTAA
1 A--CCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGGCCTTAA
* * * * * * **
4732860 CCCCTAAACAGTAGGGTAACAG-GCTAA-ATTTACAGATCTTAA
1 ACCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGGCCTTAA
*
4732902 CACCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATAGGCCTTAA
1 -ACCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGGCCTTAA
4732946 ACCCTTAAGCAGTAGGG
1 ACCC-TAAGCAGTAGGG
4732963 TACCAAGCTG
Statistics
Matches: 149, Mismatches: 36, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
42 12 0.08
43 43 0.29
44 25 0.17
45 34 0.23
46 35 0.23
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (44 bp):
ACCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGGCCTTAA
Found at i:4733518 original size:30 final size:30
Alignment explanation
Indices: 4733484--4733569 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
4733474 AAAACCCTAG
4733484 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
4733514 CCACCTTGCCTCCCACTTGCAACTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
4733544 CCACCTTGTCTCCCACTTCCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
4733570 ACCATCAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.17, C:0.52, G:0.06, T:0.24
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:4734089 original size:3 final size:3
Alignment explanation
Indices: 4734056--4734138 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
4734046 TTTATTTTTT
* * *
4734056 TTA TT- TTA TCA TTC TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
4734099 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
4734139 ATATACCATC
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 7 0.11
3 47 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4734113 original size:21 final size:18
Alignment explanation
Indices: 4734060--4734142 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
4734050 TTTTTTTTAT
* *
4734060 TTTATCATTCTTACTATTA
1 TTTAT-ATTATTATTATTA
4734079 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
4734097 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
4734118 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
4734135 TTATATAT
1 TT-TATAT
4734143 ACCATCTCTA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 25 0.45
19 10 0.18
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:4734264 original size:12 final size:13
Alignment explanation
Indices: 4734213--4734266 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
4734203 TTCTAACTAC
4734213 TATTATTATATATG
1 TATTATTAT-TATG
4734227 TA-TA-TA-TATG
1 TATTATTATTATG
*
4734237 TATTATTGTT-TG
1 TATTATTATTATG
4734249 TATTATTATTAT-
1 TATTATTATTATG
4734261 TATTAT
1 TATTAT
4734267 CACCCCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 6 0.18
11 2 0.06
12 20 0.59
13 4 0.12
14 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TATTATTATTATG
Found at i:4734278 original size:95 final size:92
Alignment explanation
Indices: 4734178--4734358 Score: 219
Period size: 92 Copynumber: 1.9 Consensus size: 92
4734168 TTACTATCAT
*
4734178 TATTGTTACTT-CTATTA-TTTTTTATTTCTAACTACTATTATTATATATGTA-T-ATATATGTA
1 TATTGTTA-TTACT-TTACTTTTGTA-TTCTAA-TA-TATTATTA-ATAT-TACTCATATATGTA
*
4734239 TTATTGTTTG-TATTATTATTATTATTATCACCCC
59 TTATT-TTTGCTATTACTATTATTATTATCACCCC
* *
4734273 TATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCATATTTTTATTATTTT
1 TATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCATATATGTATTATTTT
4734338 TGCTATTACTATTATTATTAT
66 TGCTATTACTATTATTATTAT
4734359 ATATTAGTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
90 2 0.03
91 9 0.12
92 37 0.48
93 2 0.03
94 11 0.14
95 16 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (92 bp):
TATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCATATATGTATTATTTT
TGCTATTACTATTATTATTATCACCCC
Found at i:4746780 original size:20 final size:20
Alignment explanation
Indices: 4746755--4746794 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4746745 AACGAAAACC
*
4746755 ACAATATCAAATGACAGCAA
1 ACAATAACAAATGACAGCAA
* *
4746775 ACAATAACAGATTACAGCAA
1 ACAATAACAAATGACAGCAA
4746795 GGATTTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.20, G:0.10, T:0.15
Consensus pattern (20 bp):
ACAATAACAAATGACAGCAA
Found at i:4749302 original size:12 final size:13
Alignment explanation
Indices: 4749285--4749314 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4749275 ATGTATTATT
4749285 TTTATA-TATAAA
1 TTTATATTATAAA
4749297 TTTATATTATAAA
1 TTTATATTATAAA
4749310 TTTAT
1 TTTAT
4749315 GATTTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTATATTATAAA
Found at i:4752099 original size:39 final size:39
Alignment explanation
Indices: 4752040--4752257 Score: 328
Period size: 39 Copynumber: 5.6 Consensus size: 39
4752030 TTCGTGATCT
** * *
4752040 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
4752079 GAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
4752118 GAAACCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * * *
4752157 GAAGCTCGAAGGCTGACTGAAGCGCAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
4752196 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4752235 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4752258 TCATTAGAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:4762548 original size:3 final size:3
Alignment explanation
Indices: 4762542--4762860 Score: 103
Period size: 3 Copynumber: 106.7 Consensus size: 3
4762532 AAAAATAGTA
* * * *
4762542 AAT AAT AAT -AT ATT AAT AAG AAT TAT AAT AAT ATAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * ** * *
4762587 AACA AAT AAT AA- AA- AAT AAC AAT GGGTT AAT AAA AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT
* * * * * *
4762633 AAT AGA- AGT AAA AAC AAT AAT AAT AA- ATAT AAT AAT AGT GAT AGT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
4762678 GAT AAT AGT ACAA AAT -AT AAT AAT AACA AAT AAAT AAGT -AT AGA-
1 AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT -AAT AA-T AAT A-AT
* * *
4762722 AAG GA- AAT -GT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
4762768 AA- AAGT AGT AAT AAA AAT AAA AAT AAC AAT AAT AGT AAA AAT -AT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
4762812 AAT AAAT AAT AGT AA- AAG AA- AAT AAT AA- AATT AACT AAT -TT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT
4762856 AAT AA
1 AAT AA
4762861 AGTAGCTAAA
Statistics
Matches: 227, Mismatches: 60, Indels: 58
0.66 0.17 0.17
Matches are distributed among these distances:
2 24 0.11
3 178 0.78
4 24 0.11
5 1 0.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4762594 original size:23 final size:24
Alignment explanation
Indices: 4762541--4762597 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
4762531 AAAAAATAGT
*
4762541 AAATAATAATATATTAATAAGAATT
1 AAATAAT-ATATATTAATAAGAATC
*
4762566 ATAATAATATATATTAATAATAA-C
1 A-AATAATATATATTAATAAGAATC
4762590 AAATAATA
1 AAATAATA
4762598 AAAAATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.24
24 1 0.03
25 15 0.52
26 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAATATATATTAATAAGAATC
Found at i:4762918 original size:15 final size:15
Alignment explanation
Indices: 4762898--4762926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4762888 GTAGATTCGA
4762898 AAAGAAAAAGAAAAT
1 AAAGAAAAAGAAAAT
4762913 AAAGAAAAAGAAAA
1 AAAGAAAAAGAAAA
4762927 AAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAGAAAAT
Found at i:4765078 original size:18 final size:18
Alignment explanation
Indices: 4765055--4765141 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
4765045 CGTTTATGGT
4765055 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* *
4765073 ACTATTCATGTATACGGT
1 ACTATTCACGTATACGGC
* *
4765091 ACTATTTACGTATATGGC
1 ACTATTCACGTATACGGC
*
4765109 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
4765127 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
4765142 AGTAGTTGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:4765102 original size:36 final size:36
Alignment explanation
Indices: 4765052--4765141 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
4765042 AACCGTTTAT
*
4765052 GGTACTATTCACGTATACGGCACTATTCATGTATAC
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
* *
4765088 GGTACTATTTACGTATATGGCACTATTCACGTATAC
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
*
4765124 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
4765142 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (36 bp):
GGTACTATTCACGTATACGGCACTATTCACGTATAC
Found at i:4771326 original size:22 final size:23
Alignment explanation
Indices: 4771301--4771354 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
4771291 AAAATAATAA
4771301 AATATTTAAAATATTTT-TAATT
1 AATATTTAAAATATTTTATAATT
* *
4771323 AATATTTTATATATTTTATAATT
1 AATATTTAAAATATTTTATAATT
4771346 AA-ATTTAAA
1 AATATTTAAA
4771355 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAAATATTTTATAATT
Found at i:4780463 original size:24 final size:24
Alignment explanation
Indices: 4780374--4780514 Score: 106
Period size: 24 Copynumber: 5.8 Consensus size: 24
4780364 ATCTCGTTAT
*
4780374 TTGGCTTCTCACGAGCTTCCCGATAA
1 TTGGC-TCTCATGAGCTTCCCGAT-A
* **
4780400 TTAGCTCTCATGAGCTTCTTGATTA
1 TTGGCTCTCATGAGCTTCCCGA-TA
* **
4780425 ATGGCTCTCCGGAGCTTCCCGATA
1 TTGGCTCTCATGAGCTTCCCGATA
* *
4780449 TTGGCTCGCATGAGCTTCCC-AAA
1 TTGGCTCTCATGAGCTTCCCGATA
* * *
4780472 TTTGGCTTTCTTGAGCTTCCCGTTA
1 -TTGGCTCTCATGAGCTTCCCGATA
*
4780497 ATGGCTCGT-ATGAGCTTC
1 TTGGCTC-TCATGAGCTTC
4780515 TTGATGATTA
Statistics
Matches: 88, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
23 2 0.02
24 48 0.55
25 33 0.38
26 5 0.06
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
TTGGCTCTCATGAGCTTCCCGATA
Found at i:4780936 original size:19 final size:19
Alignment explanation
Indices: 4780912--4780955 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
4780902 TAAGTATTCA
4780912 ATGTTTGAATGTGCCTTGC
1 ATGTTTGAATGTGCCTTGC
4780931 ATGTTTGAATGTGCCTTGC
1 ATGTTTGAATGTGCCTTGC
4780950 ATGTTT
1 ATGTTT
4780956 ATCTTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (19 bp):
ATGTTTGAATGTGCCTTGC
Found at i:4789151 original size:46 final size:46
Alignment explanation
Indices: 4789099--4789280 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
4789089 AGTGTGCTCT
* *
4789099 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
4789145 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
4789191 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
4789237 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
4789281 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4791537 original size:38 final size:38
Alignment explanation
Indices: 4791440--4791567 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 38
4791430 CGAGGTATAA
* * * *
4791440 AACCCGAATATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACTAAGCCTGCGGGA-TTT
* * *
4791479 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACTAAGCCTGCGGGATTT
* *
4791518 AACCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTTT
1 AACCCGGATATAATACCAGCACTA-AGCCTGCGGG-ATTT
4791557 AAGCCCGGATA
1 AA-CCCGGATA
4791568 CACATCAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
37 2 0.03
38 27 0.37
39 8 0.11
40 36 0.49
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACTAAGCCTGCGGGATTT
Found at i:4794342 original size:85 final size:85
Alignment explanation
Indices: 4794199--4794369 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
4794189 CAAATCTGGC
4794199 TGTACAACAACCTCCACCCCCTTCTGTTTCTCAACCGGTTCCTGATATGCCTCAGAGTACATAAA
1 TGTACAACAACCTCCACCCCCTTCTGTTTCTCAACCGGTTCCTGATATGCCTCAGAGTACATAAA
4794264 TTATTAAAGCTGGTAAGCCT
66 TTATTAAAGCTGGTAAGCCT
4794284 TGTACAACAACCTCCACCCCCTTCTGTTTCTCAACCGGTTCCTGATATGCCTCAGAGTACATAAA
1 TGTACAACAACCTCCACCCCCTTCTGTTTCTCAACCGGTTCCTGATATGCCTCAGAGTACATAAA
*
4794349 TTATTAGAGCTGGTAAGCCT
66 TTATTAAAGCTGGTAAGCCT
4794369 T
1 T
4794370 CCGTTGATAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (85 bp):
TGTACAACAACCTCCACCCCCTTCTGTTTCTCAACCGGTTCCTGATATGCCTCAGAGTACATAAA
TTATTAAAGCTGGTAAGCCT
Found at i:4803099 original size:21 final size:21
Alignment explanation
Indices: 4803075--4803126 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4803065 TGAAGGTCTC
4803075 ACACGCCCGTGTGCCCACAAA-
1 ACACGCCCGTGTGCCCA-AAAT
* *
4803096 ACACGGCCGTGTGTCCAAAAT
1 ACACGCCCGTGTGCCCAAAAT
*
4803117 ACATGCCCGT
1 ACACGCCCGT
4803127 ATGGGATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.27, C:0.37, G:0.21, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGCCCAAAAT
Found at i:4806660 original size:19 final size:19
Alignment explanation
Indices: 4806636--4806722 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
4806626 AATCTTTAAG
4806636 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4806655 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4806674 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4806691 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4806710 GATATGCAATCTT
1 GATATGCAATCTT
4806723 GAAGATATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.26
19 49 0.74
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4806666 original size:36 final size:35
Alignment explanation
Indices: 4806626--4806722 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 35
4806616 ATGGAAATAT
4806626 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
4806662 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
4806698 AATCTTAGATATGATATGCAATCTT
1 AATCTT---TAAGATATGCAATCTT
4806723 GAAGATATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 2 0.04
36 28 0.54
37 1 0.02
38 7 0.13
40 1 0.02
41 6 0.12
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:4806744 original size:22 final size:21
Alignment explanation
Indices: 4806717--4806760 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4806707 TATGATATGC
4806717 AATCTTGAAGATATAATCTTGT
1 AATCTTGAAGATATAAT-TTGT
* *
4806739 AATCTTGGAGATTTAATTTGT
1 AATCTTGAAGATATAATTTGT
4806760 A
1 A
4806761 GATATCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (21 bp):
AATCTTGAAGATATAATTTGT
Found at i:4819562 original size:44 final size:43
Alignment explanation
Indices: 4819498--4819602 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
4819488 GATCTTATCA
* * * * *
4819498 CCCTAAGCAGTAGGGAAACAAATCGAAGATA-ATGAGCTTTAACC
1 CCCTAAGTAGTAGGGTAACAAACCAAAGATACA-GA-CCTTAACC
* **
4819542 CCCTAAGTAGTAGGGTAACAAGCCAAATTTACAGACCTTAACC
1 CCCTAAGTAGTAGGGTAACAAACCAAAGATACAGACCTTAACC
4819585 CCCTAAGTAGTAGGGTAA
1 CCCTAAGTAGTAGGGTAA
4819603 ATAGGCTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
43 25 0.48
44 26 0.50
45 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (43 bp):
CCCTAAGTAGTAGGGTAACAAACCAAAGATACAGACCTTAACC
Found at i:4820046 original size:44 final size:44
Alignment explanation
Indices: 4819981--4820139 Score: 178
Period size: 44 Copynumber: 3.6 Consensus size: 44
4819971 GATTTACAGA
* *
4819981 TCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGGTGATGAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGATGAG
* * ** ** * *
4820025 TATTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTTA-CAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGATGAG
* *
4820067 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAG
1 -TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGATGAG
*
4820112 TCTTAAACCCCTAAGCAGTAGGGTAACA
1 TCTTAAACCCCTAAGCAGTAGGGAAACA
4820140 AGCTAAATTT
Statistics
Matches: 90, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.02
43 30 0.33
44 56 0.62
45 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (44 bp):
TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGATGAG
Found at i:4820069 original size:87 final size:87
Alignment explanation
Indices: 4819972--4820177 Score: 367
Period size: 87 Copynumber: 2.4 Consensus size: 87
4819962 CAGATTGAAG
* *
4819972 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGGTGATGAGTATTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTATTAAACCCCT
*
4820037 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAAGCTAA
*
4820059 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTATTAAACCCCT
4820124 AAGCAGTAGGGTAACAAGCTAA
66 AAGCAGTAGGGTAACAAGCTAA
*
4820146 ATTTACAGATCTTAAACCCCTAAGCAGTAGGG
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGG
4820178 TAAAAGGCTG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (87 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTATTAAACCCCT
AAGCAGTAGGGTAACAAGCTAA
Found at i:4820134 original size:131 final size:131
Alignment explanation
Indices: 4819981--4820270 Score: 347
Period size: 131 Copynumber: 2.2 Consensus size: 131
4819971 GATTTACAGA
* * *
4819981 TCTTAACCCCCTAAGCAGTAGGG-AA-ATAGATTGAAGGTGA-TGAGTATTAAACCCCTAAGCAG
1 TCTTAACCCCCTAAGCAGTAGGGTAACA-AG-CT-AAAGTGACAGA-TATTAAACCCCTAAGCAG
* * *
4820043 TAGGGTAACAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GGT
62 TAGGGTAAAAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATC-AATGAT
**
4820106 GATGAG
126 GACAAG
* * * *
4820112 TCTTAAACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAGTGACAGATATTAAACCCCTAAGCAGTAGG
* * * *
4820177 GTAAAAGGCTGATTTTACAATATCTTAAACCCCTAAGCAGTAGGGAAACGGATCAATGATGACAA
66 GTAAAAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAA
4820242 G
131 G
*
4820243 CCTTAACCCCCTAAGCAGTAGGGTAACA
1 TCTTAACCCCCTAAGCAGTAGGGTAACA
4820271 GGTTGAAAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
130 42 0.31
131 89 0.65
132 4 0.03
133 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (131 bp):
TCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAGTGACAGATATTAAACCCCTAAGCAGTAGG
GTAAAAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAA
G
Found at i:4820217 original size:44 final size:42
Alignment explanation
Indices: 4820027--4820221 Score: 214
Period size: 43 Copynumber: 4.5 Consensus size: 42
4820017 GTGATGAGTA
*
4820027 TTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
1 TTAAACCCCTAAGCAGTAGGGTAA-AAGCTAAATTTACAGATC
* * ** * *
4820070 TTAACCCCCTAAGCAGTAGGG-AAACAGATCGAAGGTGA-TGAGTC
1 TTAAACCCCTAAGCAGTAGGGTAAA-AG--CTAAATTTACAGA-TC
4820114 TTAAACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATC
1 TTAAACCCCTAAGCAGTAGGGTAA-AAGCTAAATTTACAGATC
* * *
4820157 TTAAACCCCTAAGCAGTAGGGTAAAAGGCTGATTTTACAATATC
1 TTAAACCCCTAAGCAGTAGGGTAAAA-GCTAAATTTAC-AGATC
4820201 TTAAACCCCTAAGCAGTAGGG
1 TTAAACCCCTAAGCAGTAGGG
4820222 AAACGGATCA
Statistics
Matches: 127, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 62 0.49
44 54 0.43
45 4 0.03
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
TTAAACCCCTAAGCAGTAGGGTAAAAGCTAAATTTACAGATC
Found at i:4820248 original size:44 final size:41
Alignment explanation
Indices: 4820027--4820265 Score: 190
Period size: 44 Copynumber: 5.5 Consensus size: 41
4820017 GTGATGAGTA
*
4820027 TTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
1 TTAAACCCCTAAGCAGTAGGGAAAC-GGCTAAATTTACAG-TC
* * * ** * *
4820070 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTC
1 TTAAACCCCTAAGCAGTAGGGAAAC-G-GCTAAATTTA-CAGTC
* *
4820114 TTAAACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATC
1 TTAAACCCCTAAGCAGTAGGGAAAC-GGCTAAATTTACAG-TC
* * * *
4820157 TTAAACCCCTAAGCAGTAGGGTAAAAGGCTGATTTTACAATATC
1 TTAAACCCCTAAGCAGTAGGG-AAACGGCTAAATTTAC-A-GTC
* * * *
4820201 TTAAACCCCTAAGCAGTAGGGAAACGGATCAATGATGACAAGCC
1 TTAAACCCCTAAGCAGTAGGGAAACGGCTAAAT--TTAC-AGTC
*
4820245 TTAACCCCCTAAGCAGTAGGG
1 TTAAACCCCTAAGCAGTAGGG
4820266 TAACAGGTTG
Statistics
Matches: 157, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
42 2 0.01
43 70 0.45
44 78 0.50
45 7 0.04
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
TTAAACCCCTAAGCAGTAGGGAAACGGCTAAATTTACAGTC
Found at i:4820806 original size:22 final size:22
Alignment explanation
Indices: 4820778--4820827 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
4820768 CCCTTGCTGG
4820778 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
4820800 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
4820822 CCACCC
1 CCACCC
4820828 CAACCACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.54, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:4820923 original size:9 final size:9
Alignment explanation
Indices: 4820909--4820944 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
4820899 AGAGAGGGAG
4820909 GTTTTTTTT
1 GTTTTTTTT
4820918 GTTTTTTGGTT
1 GTTTTTT--TT
4820929 GTTTTTTTT
1 GTTTTTTTT
4820938 GTTTTTT
1 GTTTTTT
4820945 GGAATGAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 16 0.64
11 9 0.36
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:4820934 original size:20 final size:20
Alignment explanation
Indices: 4820909--4820946 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4820899 AGAGAGGGAG
4820909 GTTTTTTTTGTTTTTTGGTT
1 GTTTTTTTTGTTTTTTGGTT
4820929 GTTTTTTTTGTTTTTTGG
1 GTTTTTTTTGTTTTTTGG
4820947 AATGAGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (20 bp):
GTTTTTTTTGTTTTTTGGTT
Found at i:4821309 original size:3 final size:3
Alignment explanation
Indices: 4821274--4821367 Score: 65
Period size: 3 Copynumber: 31.3 Consensus size: 3
4821264 GAGCTTTGTT
* * *
4821274 TTA TTT TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
4821317 TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
4821362 -TA TTA T
1 TTA TTA T
4821368 GTATGTCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.12
3 55 0.75
4 7 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4821342 original size:21 final size:18
Alignment explanation
Indices: 4821274--4821362 Score: 89
Period size: 18 Copynumber: 5.1 Consensus size: 18
4821264 GAGCTTTGTT
*
4821274 TTATTTTTATT-TTATT-
1 TTATTTATATTATTATTA
*
4821290 TTA-TTAT-TT-TTACTA
1 TTATTTATATTATTATTA
4821305 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
*
4821323 TTATTTCTCATGTATATATTA
1 TTATTTAT-AT-TAT-TATTA
4821344 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
4821362 T
1 T
4821363 ATTATGTATG
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
14 6 0.10
15 6 0.10
16 7 0.11
17 2 0.03
18 18 0.30
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:4821604 original size:16 final size:17
Alignment explanation
Indices: 4821573--4821623 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
4821563 ACTATTATTA
*
4821573 TATATTAGTGTATATTTT
1 TATA-TAGTATATATTTT
* *
4821591 TATGTA-TATATATTTA
1 TATATAGTATATATTTT
4821607 TATATAGTAT-TATTTT
1 TATATAGTATATATTTT
4821623 T
1 T
4821624 TATTACTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 19 0.70
17 5 0.19
18 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (17 bp):
TATATAGTATATATTTT
Found at i:4822926 original size:13 final size:13
Alignment explanation
Indices: 4822910--4822948 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
4822900 CTGAAATTTT
4822910 TAGCTTTTCAAAA
1 TAGCTTTTCAAAA
4822923 TAGCTTTTCAAAA
1 TAGCTTTTCAAAA
4822936 TAGCTTTTCAAAA
1 TAGCTTTTCAAAA
4822949 GCACTTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TAGCTTTTCAAAA
Found at i:4822961 original size:26 final size:26
Alignment explanation
Indices: 4822910--4822961 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
4822900 CTGAAATTTT
* *
4822910 TAGCTTTTCAAAATAGCTTTTCAAAA
1 TAGCTTTTCAAAACAGCTTCTCAAAA
*
4822936 TAGCTTTTCAAAAGCA-CTTCTGAAAA
1 TAGCTTTTCAAAA-CAGCTTCTCAAAA
4822962 GAAAGCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (26 bp):
TAGCTTTTCAAAACAGCTTCTCAAAA
Found at i:4822981 original size:18 final size:17
Alignment explanation
Indices: 4822946--4822978 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4822936 TAGCTTTTCA
4822946 AAAGCACTTCTGAAAAG
1 AAAGCACTTCTGAAAAG
4822963 AAAGCACTTCTGAAAA
1 AAAGCACTTCTGAAAA
4822979 AGAGAAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAGCACTTCTGAAAAG
Found at i:4823486 original size:13 final size:13
Alignment explanation
Indices: 4823421--4823484 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
4823411 TTAAACTAAA
4823421 TTTTTAAAAGCAC
1 TTTTTAAAAGCAC
* *
4823434 TTCTTAAAAGTAC
1 TTTTTAAAAGCAC
4823447 -TTTTACACAA-CAC
1 TTTTTA-A-AAGCAC
* *
4823460 TTTTCAAAAGCAT
1 TTTTTAAAAGCAC
4823473 TTTTTAAAAGCA
1 TTTTTAAAAGCA
4823485 TTGCTAAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 6 0.15
13 28 0.70
14 6 0.15
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (13 bp):
TTTTTAAAAGCAC
Found at i:4828609 original size:18 final size:18
Alignment explanation
Indices: 4828582--4828656 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
4828572 CCCAACTACG
* *
4828582 GTATACGTGAACAGTACC
1 GTATATGTGAATAGTACC
4828600 GTATATGTGAATAGTACC
1 GTATATGTGAATAGTACC
*
4828618 GTATATGTGAATAGTGCC
1 GTATATGTGAATAGTACC
* *
4828636 GTATAAGTGAATAGTATC
1 GTATATGTGAATAGTACC
4828654 GTA
1 GTA
4828657 AAACGGTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (18 bp):
GTATATGTGAATAGTACC
Found at i:4834000 original size:18 final size:18
Alignment explanation
Indices: 4833979--4834020 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4833969 TAATGCTAAC
*
4833979 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
4833997 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
4834015 AATAAC
1 AATAAC
4834021 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:4834205 original size:3 final size:3
Alignment explanation
Indices: 4834197--4834346 Score: 71
Period size: 3 Copynumber: 50.3 Consensus size: 3
4834187 TAGTACCATT
* * * * * *
4834197 ATA ATA ATA AAA ATA ATA ATA ATA A-A ATA ACA AT- ATG TTT CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
4834243 ATA ATA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A ATA ATA GTA
1 ATA ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA
* * *
4834290 ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA ATA TATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* *
4834334 ATA TTA AAA ATA A
1 ATA ATA ATA ATA A
4834347 CACTCTTCCC
Statistics
Matches: 111, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
2 12 0.11
3 83 0.75
4 16 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4834326 original size:41 final size:39
Alignment explanation
Indices: 4834265--4834342 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 39
4834255 AAATAATGGT
* *
4834265 AATAAATATATATAAAATAATAGTAACAGTAATAAAATA
1 AATAAATATATATAAAATAATAATAACAATAATAAAATA
*
4834304 AATATAATATA-ATAATATATAATAATAACAATATTAAAA
1 AATA-AATATATATAA-A-ATAATAATAACAATAATAAAA
4834343 ATAACACTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 8 0.24
40 7 0.21
41 18 0.55
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (39 bp):
AATAAATATATATAAAATAATAATAACAATAATAAAATA
Found at i:4842582 original size:16 final size:16
Alignment explanation
Indices: 4842544--4842585 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4842534 TGTGTAAATA
4842544 ATTTTTATTTGTTTAT
1 ATTTTTATTTGTTTAT
*
4842560 ATATTTA-TTGTTTTAT
1 ATTTTTATTTG-TTTAT
*
4842576 TTTTTTATTT
1 ATTTTTATTT
4842586 CAAAAGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
ATTTTTATTTGTTTAT
Found at i:4847751 original size:54 final size:54
Alignment explanation
Indices: 4847691--4847796 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
4847681 TGAAGGACAC
*
4847691 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACGGTAATGGAATG
1 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAATG
*
4847745 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAA
1 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAA
4847797 CGAATGAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (54 bp):
AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAATG
Found at i:4860103 original size:34 final size:34
Alignment explanation
Indices: 4860060--4860128 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
4860050 TTAAACTGAC
4860060 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
1 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
4860094 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
1 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
4860128 T
1 T
4860129 TCACAAGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (34 bp):
TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
Found at i:4860445 original size:6 final size:6
Alignment explanation
Indices: 4860436--4860465 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4860426 ACCCGCATCC
4860436 GCACCA GCACCA GCACCA GCACCA GCACCA
1 GCACCA GCACCA GCACCA GCACCA GCACCA
4860466 TGGGCCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
GCACCA
Found at i:4877113 original size:54 final size:54
Alignment explanation
Indices: 4877053--4877158 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
4877043 TGAAGGACAC
*
4877053 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACGGTAATGGAATG
1 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAATG
*
4877107 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAA
1 AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAA
4877159 CGAATGAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (54 bp):
AACAACATAGATGACGAAGATGTGAACAATCCCATTAAGCACAGTAATGGAATG
Found at i:4889975 original size:6 final size:6
Alignment explanation
Indices: 4889966--4890004 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
4889956 ACCCGCATCC
* *
4889966 GCAACA GCAACA GCACCA GCACCA GCAACA GCAACA GCA
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCA
4890005 CCATGTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.44, C:0.38, G:0.18, T:0.00
Consensus pattern (6 bp):
GCAACA
Found at i:4889993 original size:18 final size:18
Alignment explanation
Indices: 4889970--4890007 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4889960 GCATCCGCAA
*
4889970 CAGCAACAGCACCAGCAC
1 CAGCAACAGCAACAGCAC
4889988 CAGCAACAGCAACAGCAC
1 CAGCAACAGCAACAGCAC
4890006 CA
1 CA
4890008 TGTGCCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.16, T:0.00
Consensus pattern (18 bp):
CAGCAACAGCAACAGCAC
Found at i:4897969 original size:16 final size:16
Alignment explanation
Indices: 4897938--4897970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4897928 AAAATAATTA
4897938 AATATGTATGTTTAAT
1 AATATGTATGTTTAAT
4897954 AATAT-TATGTTATAAT
1 AATATGTATGTT-TAAT
4897970 A
1 A
4897971 TTCATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AATATGTATGTTTAAT
Found at i:4904022 original size:20 final size:20
Alignment explanation
Indices: 4903997--4904036 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4903987 ACAGCATGTA
4903997 AGTTCAATTCTTGATTATTT
1 AGTTCAATTCTTGATTATTT
4904017 AGTTCAATTCTTGATTATTT
1 AGTTCAATTCTTGATTATTT
4904037 CTTGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
AGTTCAATTCTTGATTATTT
Found at i:4904825 original size:52 final size:50
Alignment explanation
Indices: 4904764--4904974 Score: 216
Period size: 52 Copynumber: 4.2 Consensus size: 50
4904754 ATGGAAAAGG
*
4904764 TGTGATATGTGCGCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGCAA
1 TGTGATATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTG--A
** *
4904816 TGTGATATGTGCTCCTATATAAGACTATAGTTGGGCTATGGCATCGGTGTGA
1 TGTGATATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATC-G-GTGA
* * * * *
4904868 TGTGATAATGTGCTTCTGTAAAAGACCATATTTGGGATATGGCATCGGT-A
1 TGTGAT-ATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGA
* * ** *
4904918 --TGATATGTG-ACCCGTGTAAGACCATAACTGGGCTATGGCTTCGGTG-
1 TGTGATATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGA
4904964 TGTGATATGTG
1 TGTGATATGTG
4904975 ACTATGTGCA
Statistics
Matches: 134, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
46 27 0.20
47 5 0.04
48 13 0.10
50 1 0.01
51 2 0.01
52 49 0.37
53 34 0.25
54 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (50 bp):
TGTGATATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGA
Found at i:4905948 original size:20 final size:20
Alignment explanation
Indices: 4905920--4905958 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4905910 GACCACACAG
4905920 CCTACCCACACGGGCGTGTC
1 CCTACCCACACGGGCGTGTC
*
4905940 CCTATCCACACGGGCGTGT
1 CCTACCCACACGGGCGTGT
4905959 GGCCCTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.41, G:0.26, T:0.18
Consensus pattern (20 bp):
CCTACCCACACGGGCGTGTC
Found at i:4906361 original size:18 final size:18
Alignment explanation
Indices: 4906338--4906375 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4906328 TGCTTGGAAA
4906338 GAAATAATGCAACTTAGT
1 GAAATAATGCAACTTAGT
4906356 GAAATAATGCAACTTAGT
1 GAAATAATGCAACTTAGT
4906374 GA
1 GA
4906376 TAGCTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (18 bp):
GAAATAATGCAACTTAGT
Found at i:4907272 original size:22 final size:21
Alignment explanation
Indices: 4907247--4907318 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 21
4907237 TTTCAATAAT
4907247 ATATTAAAAATATTAAAATTTA
1 ATATTAAAAATA-TAAAATTTA
** *
4907269 ATATTATTATTACTAAAA-TTA
1 ATATTAAAAATA-TAAAATTTA
* *
4907290 ATTATT-AAAATAAAAAATGTA
1 A-TATTAAAAATATAAAATTTA
4907311 ATATTAAA
1 ATATTAAA
4907319 TAATTTATTG
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
20 8 0.21
21 12 0.32
22 18 0.47
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
ATATTAAAAATATAAAATTTA
Found at i:4907625 original size:19 final size:19
Alignment explanation
Indices: 4907588--4907626 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4907578 ATTGTTATTT
* **
4907588 AAATTTTTAATTTTTTAAA
1 AAATTTTAAATTTAATAAA
4907607 AAATTTTAAATTTAATAAA
1 AAATTTTAAATTTAATAAA
4907626 A
1 A
4907627 GTAAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTTAAATTTAATAAA
Found at i:4915133 original size:3 final size:3
Alignment explanation
Indices: 4915125--4915209 Score: 97
Period size: 3 Copynumber: 28.7 Consensus size: 3
4915115 ATTCCTTAGT
* *
4915125 TTA TTA TTA TTA -TA TCA TT- TT- TTA TGTA TTTA TCTA -CA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA T-TA TTA TTA TTA
4915169 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4915210 TTTGAACACA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
2 7 0.10
3 58 0.81
4 6 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4917888 original size:16 final size:15
Alignment explanation
Indices: 4917860--4917889 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
4917850 ATTAAAAATT
4917860 TAAAATTATTATTAC
1 TAAAATTATTATTAC
4917875 TAAAATTAATTATTA
1 TAAAATT-ATTATTA
4917890 AAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATTATTATTAC
Found at i:4947063 original size:93 final size:93
Alignment explanation
Indices: 4946955--4947123 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
4946945 CCCATAAGGC
* *
4946955 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAAAGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
4947020 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
*
4947048 AACTCGGACTCAACTCAAAGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAAAGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
4947113 GAGTTCGGATG
66 GAGCTCGGATG
4947124 TTCGCATCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAAAGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:4947162 original size:46 final size:46
Alignment explanation
Indices: 4946946--4947165 Score: 270
Period size: 46 Copynumber: 4.8 Consensus size: 46
4946936 TGTAACCCGC
* * *
4946946 CCATAAG-GCAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTG-AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
4946992 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
4947042 -C-TCA-CGAACTCGGACTCAACTCAAAGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
4947085 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
4947131 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
4947166 AATACCTAAA
Statistics
Matches: 152, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 2 0.01
46 104 0.68
47 28 0.18
48 2 0.01
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:4949839 original size:17 final size:16
Alignment explanation
Indices: 4949811--4949863 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
4949801 TTTGGTTCGC
4949811 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4949827 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
4949844 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4949860 TGTA
1 TGTA
4949864 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4949928 original size:44 final size:45
Alignment explanation
Indices: 4949844--4949934 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4949834 GGATTAGAGG
* * *
4949844 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
4949889 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
4949933 TG
1 TG
4949935 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Done.