Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 429 of 438
Found at i:132299351 original size:17 final size:17
Alignment explanation
Indices: 132299326--132299368 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
132299316 TTCTTCTATC
132299326 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
132299344 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
132299361 TTTATTTT
1 TTTATTTT
132299369 TGGCTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:132299352 original size:23 final size:23
Alignment explanation
Indices: 132299326--132299369 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
132299316 TTCTTCTATC
132299326 TTTATTTTTATTTTTATTTTTAT
1 TTTATTTTTATTTTTATTTTTAT
132299349 TTTATTTTTATTTTTATTTTT
1 TTTATTTTTATTTTTATTTTT
132299370 GGCTTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTATTTTTATTTTTATTTTTAT
Found at i:132309406 original size:375 final size:375
Alignment explanation
Indices: 132308716--132309467 Score: 1504
Period size: 375 Copynumber: 2.0 Consensus size: 375
132308706 ATCGTATGAT
132308716 TGAGGGACACCTAAAGTTTGATCCCAGTGTAATGGAGCCTGTAAGTGAGAGAGATGCTGGAACTG
1 TGAGGGACACCTAAAGTTTGATCCCAGTGTAATGGAGCCTGTAAGTGAGAGAGATGCTGGAACTG
132308781 AACTATTTGATAACAAGCATTACCGAGAGATTGAAGCAGATGATGCAGTAGACGAAGATGATGGT
66 AACTATTTGATAACAAGCATTACCGAGAGATTGAAGCAGATGATGCAGTAGACGAAGATGATGGT
132308846 GAACAAGACGATCAAGAGAACGAAGCTTTTGAAACCACGGAACTAGTTTCAGAAGGACCTGATGA
131 GAACAAGACGATCAAGAGAACGAAGCTTTTGAAACCACGGAACTAGTTTCAGAAGGACCTGATGA
132308911 AGTACAGCAAGGAATTGAGGTTGAGATGATTGAACTAGATCATTTAGAGACAGAGGAGAGCAAAG
196 AGTACAGCAAGGAATTGAGGTTGAGATGATTGAACTAGATCATTTAGAGACAGAGGAGAGCAAAG
132308976 GTGTTGAATTTGCTGTTGAGATGCAAGCTGAACTTCAGAGCAATGTGGACACTGAAAACCAGCAA
261 GTGTTGAATTTGCTGTTGAGATGCAAGCTGAACTTCAGAGCAATGTGGACACTGAAAACCAGCAA
132309041 AGTGTGATCTCACCGCAGGCTAGTGTAATTCAACATGATGGCTTGAACAA
326 AGTGTGATCTCACCGCAGGCTAGTGTAATTCAACATGATGGCTTGAACAA
132309091 TGAGGGACACCTAAAGTTTGATCCCAGTGTAATGGAGCCTGTAAGTGAGAGAGATGCTGGAACTG
1 TGAGGGACACCTAAAGTTTGATCCCAGTGTAATGGAGCCTGTAAGTGAGAGAGATGCTGGAACTG
132309156 AACTATTTGATAACAAGCATTACCGAGAGATTGAAGCAGATGATGCAGTAGACGAAGATGATGGT
66 AACTATTTGATAACAAGCATTACCGAGAGATTGAAGCAGATGATGCAGTAGACGAAGATGATGGT
132309221 GAACAAGACGATCAAGAGAACGAAGCTTTTGAAACCACGGAACTAGTTTCAGAAGGACCTGATGA
131 GAACAAGACGATCAAGAGAACGAAGCTTTTGAAACCACGGAACTAGTTTCAGAAGGACCTGATGA
132309286 AGTACAGCAAGGAATTGAGGTTGAGATGATTGAACTAGATCATTTAGAGACAGAGGAGAGCAAAG
196 AGTACAGCAAGGAATTGAGGTTGAGATGATTGAACTAGATCATTTAGAGACAGAGGAGAGCAAAG
132309351 GTGTTGAATTTGCTGTTGAGATGCAAGCTGAACTTCAGAGCAATGTGGACACTGAAAACCAGCAA
261 GTGTTGAATTTGCTGTTGAGATGCAAGCTGAACTTCAGAGCAATGTGGACACTGAAAACCAGCAA
132309416 AGTGTGATCTCACCGCAGGCTAGTGTAATTCAACATGATGGCTTGAACAA
326 AGTGTGATCTCACCGCAGGCTAGTGTAATTCAACATGATGGCTTGAACAA
132309466 TG
1 TG
132309468 TGGACACTGA
Statistics
Matches: 377, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
375 377 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (375 bp):
TGAGGGACACCTAAAGTTTGATCCCAGTGTAATGGAGCCTGTAAGTGAGAGAGATGCTGGAACTG
AACTATTTGATAACAAGCATTACCGAGAGATTGAAGCAGATGATGCAGTAGACGAAGATGATGGT
GAACAAGACGATCAAGAGAACGAAGCTTTTGAAACCACGGAACTAGTTTCAGAAGGACCTGATGA
AGTACAGCAAGGAATTGAGGTTGAGATGATTGAACTAGATCATTTAGAGACAGAGGAGAGCAAAG
GTGTTGAATTTGCTGTTGAGATGCAAGCTGAACTTCAGAGCAATGTGGACACTGAAAACCAGCAA
AGTGTGATCTCACCGCAGGCTAGTGTAATTCAACATGATGGCTTGAACAA
Found at i:132310778 original size:334 final size:333
Alignment explanation
Indices: 132310169--132311129 Score: 1877
Period size: 334 Copynumber: 2.9 Consensus size: 333
132310159 GGAGTAGAAG
132310169 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
1 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
132310234 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
66 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
132310299 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
131 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
132310364 CTTTGAATAGCACTCTTAGCTTTCAATTCCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCT
196 CTTTGAATAGCACTCTTAGCTTTCAA-TCCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCT
132310429 TGGTTGAGAAGTATGAGATCAAATGAAAGTTAATTCCAGTATTTGTGGATATGCATCTTAACTGC
260 TGGTTGAGAAGTATGAGATCAAATGAAAGTTAATTCCAGTATTTGTGGATATGCATCTTAACTGC
132310494 GTGTAGTTT
325 GTGTAGTTT
132310503 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
1 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
132310568 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
66 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
132310633 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
131 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
132310698 CTTTGAATAGCACTCTTAGCTTTCAATCCCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCT
196 CTTTGAATAGCACTCTTAGCTTTCAAT-CCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCT
132310763 TGGTTGAGAAGTATGAGATCAAATGAAAGTTAATTCCAGTATTTGTGGATATGCATCTTAACTGC
260 TGGTTGAGAAGTATGAGATCAAATGAAAGTTAATTCCAGTATTTGTGGATATGCATCTTAACTGC
132310828 GTGTAGTTT
325 GTGTAGTTT
132310837 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
1 AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
132310902 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
66 TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
*
132310967 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTCTCATAA
131 CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
* *
132311032 CTTTGAATAGCACTCTTAGCTTTCAATTCTTTTTTTCTTCACAGTTCCTTAGGCTCTGGTTGCTT
196 CTTTGAATAGCACTCTTAGCTTTCAATCCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCTT
132311097 GGTTGAGAAGTATGAGATCAAATGAAAGTTAAT
261 GGTTGAGAAGTATGAGATCAAATGAAAGTTAAT
132311130 GATAATCCAC
Statistics
Matches: 623, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
333 70 0.11
334 553 0.89
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (333 bp):
AAGAGATAGTTACTCCAGTTAGGCGTTCCAGCAGAATCAGAAACCAAGTTACATCTCCGTGACGA
TTGACAAGTTACATCTTATGTGTGTAACAGTAGCACTACTGTGCAATTCTAATGTGAATGAACCA
CTGTTGTTGGATGCAGACATTAGATTAGGACTTAATTGTACTATTATTCATTGTTCTTTTCATAA
CTTTGAATAGCACTCTTAGCTTTCAATCCTTTTTTTCTTCACAGTTCCTTAGGTTCTGGTTGCTT
GGTTGAGAAGTATGAGATCAAATGAAAGTTAATTCCAGTATTTGTGGATATGCATCTTAACTGCG
TGTAGTTT
Found at i:132311607 original size:167 final size:168
Alignment explanation
Indices: 132311329--132311660 Score: 596
Period size: 167 Copynumber: 2.0 Consensus size: 168
132311319 TTGGATCCAG
**
132311329 CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAATTTTTTTATATCATTGTGTAATCTT
1 CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAA-TAATTTATATCATTGTGTAATCTT
*
132311394 GTTTCTAGAACAGAATCAATCACAAGTACTATATGGCTAAAATGTAATGAACCACCCATACTTTA
65 GTTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
132311459 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
130 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
132311498 CAGCATACAAAGGAAATTGAAGGGCCAAAATGATAAAA-AA-AATTTATATCATTGTGTAATCTT
1 CAGCATACAAAGGAAATTGAAGGGCCAAAATGA-AAAAGAATAATTTATATCATTGTGTAATCTT
*
132311561 GTTTCTAGAACAGAATCAATCACGAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
65 GTTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTA
132311626 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTC
130 GTGACTTGAGCAAAGGGCATTCATACCAGTAATTC
132311661 GTGCTACACA
Statistics
Matches: 158, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
167 119 0.75
169 35 0.22
170 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (168 bp):
CAGCATACAAAGGAAATTGAAGGGCCAAAATGAAAAAGAATAATTTATATCATTGTGTAATCTTG
TTTCTAGAACAGAATCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTAG
TGACTTGAGCAAAGGGCATTCATACCAGTAATTCATAC
Found at i:132311950 original size:99 final size:99
Alignment explanation
Indices: 132311779--132311979 Score: 384
Period size: 99 Copynumber: 2.0 Consensus size: 99
132311769 CTTGTTTCTA
* *
132311779 GAACAGAATCAATCACAAGTATTATAGGGCTAAAATGTAATTAACCACCCATACTTTAGTGACTT
1 GAACAGAATCAATCACAAGTATTATAGGGCCAAAATGTAATGAACCACCCATACTTTAGTGACTT
132311844 GATCAAAGGGCATTCATACCAGTCAGTAATTATG
66 GATCAAAGGGCATTCATACCAGTCAGTAATTATG
132311878 GAACAGAATCAATCACAAGTATTATAGGGCCAAAATGTAATGAACCACCCATACTTTAGTGACTT
1 GAACAGAATCAATCACAAGTATTATAGGGCCAAAATGTAATGAACCACCCATACTTTAGTGACTT
132311943 GATCAAAGGGCATTCATACCAGTCAGTAATTATG
66 GATCAAAGGGCATTCATACCAGTCAGTAATTATG
132311977 GAA
1 GAA
132311980 GTTAAGTAAT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (99 bp):
GAACAGAATCAATCACAAGTATTATAGGGCCAAAATGTAATGAACCACCCATACTTTAGTGACTT
GATCAAAGGGCATTCATACCAGTCAGTAATTATG
Found at i:132315039 original size:15 final size:15
Alignment explanation
Indices: 132315019--132315049 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
132315009 ATAGTTTTGG
132315019 TCCAATTTGATCTTT
1 TCCAATTTGATCTTT
132315034 TCCAATTTGATCTTT
1 TCCAATTTGATCTTT
132315049 T
1 T
132315050 AACCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TCCAATTTGATCTTT
Found at i:132319517 original size:22 final size:22
Alignment explanation
Indices: 132319489--132319539 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
132319479 AATGTTATAA
*
132319489 ATTAAATCACAC-AAACTCGTTC
1 ATTAAATCAC-CTAAACTCATTC
* *
132319511 ATTAAATTACCTCAACTCATTC
1 ATTAAATCACCTAAACTCATTC
132319533 ATTAAAT
1 ATTAAAT
132319540 TACTTATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTAAATCACCTAAACTCATTC
Found at i:132326933 original size:16 final size:16
Alignment explanation
Indices: 132326912--132326944 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
132326902 ATAATATTAC
132326912 ATTTTCACTATTTTAA
1 ATTTTCACTATTTTAA
132326928 ATTTTCACTATTTTAA
1 ATTTTCACTATTTTAA
132326944 A
1 A
132326945 AAAAATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTCACTATTTTAA
Found at i:132336137 original size:13 final size:13
Alignment explanation
Indices: 132336119--132336182 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
132336109 TTCTTCGTTG
132336119 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
132336132 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
* *
132336145 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
* *
132336158 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
*
132336171 CTTTTAAAAAGT
1 CTTTTGAAAAGT
132336183 TTGATTTAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:132336146 original size:26 final size:26
Alignment explanation
Indices: 132336117--132336182 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
132336107 AGTTCTTCGT
132336117 TGCTTTTGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
* *
132336143 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
*
132336169 TGCTTTTAAAAAGT
1 TGCTTTTGAAAAGT
132336183 TTGATTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAGAAG
Found at i:132336755 original size:18 final size:18
Alignment explanation
Indices: 132336732--132336766 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
132336722 AGCTTTTCTT
132336732 CCAGAAGTGCTTTTGAAG
1 CCAGAAGTGCTTTTGAAG
132336750 CCAGAAGTGCTTTTGAA
1 CCAGAAGTGCTTTTGAA
132336767 AAGCAACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
CCAGAAGTGCTTTTGAAG
Found at i:132336938 original size:30 final size:28
Alignment explanation
Indices: 132336904--132336972 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 28
132336894 TTAATTTATT
* *
132336904 TATTTTATTTTTATTTTAAAGTAAATAATA
1 TATTTTATTTTAAATTTAAA--AAATAATA
* *
132336934 TATTTTAGTTTAAATTTAAAAATTAATA
1 TATTTTATTTTAAATTTAAAAAATAATA
132336962 TATTTTTATTT
1 TA-TTTTATTT
132336973 ATCGAAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 9 0.27
29 7 0.21
30 17 0.52
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
TATTTTATTTTAAATTTAAAAAATAATA
Found at i:132339713 original size:21 final size:21
Alignment explanation
Indices: 132339687--132339726 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
132339677 CCAAGCTCCT
* *
132339687 ATCTTCTTCCTCTTCATCGTC
1 ATCTTCTTCATCGTCATCGTC
132339708 ATCTTCTTCATCGTCATCG
1 ATCTTCTTCATCGTCATCG
132339727 AACTCCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.45
Consensus pattern (21 bp):
ATCTTCTTCATCGTCATCGTC
Found at i:132339717 original size:15 final size:15
Alignment explanation
Indices: 132339697--132339725 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
132339687 ATCTTCTTCC
132339697 TCTTCATCGTCATCT
1 TCTTCATCGTCATCT
132339712 TCTTCATCGTCATC
1 TCTTCATCGTCATC
132339726 GAACTCCGAA
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:0.14, C:0.34, G:0.07, T:0.45
Consensus pattern (15 bp):
TCTTCATCGTCATCT
Found at i:132350379 original size:22 final size:22
Alignment explanation
Indices: 132350339--132350380 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
132350329 TTTAAAATTT
* * *
132350339 TAAAAATTCTTTAATAAAATCA
1 TAAAAATTATATAAAAAAATCA
132350361 TAAAAATTATATAAAAAAAT
1 TAAAAATTATATAAAAAAAT
132350381 ATTTTGAAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAATTATATAAAAAAATCA
Found at i:132351443 original size:16 final size:18
Alignment explanation
Indices: 132351411--132351443 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
132351401 GGAGAATATT
132351411 ATTAGAAGTACATAAAAA
1 ATTAGAAGTACATAAAAA
132351429 ATTA-AAGTA-ATAAAA
1 ATTAGAAGTACATAAAA
132351444 TAGCCCACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (18 bp):
ATTAGAAGTACATAAAAA
Found at i:132352501 original size:18 final size:19
Alignment explanation
Indices: 132352459--132352515 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
132352449 AATTACAAAA
*
132352459 AAAATATCAAAATAATTTTT
1 AAAATATCAAAAT-ATTTAT
*
132352479 GAAAT-TCAAAATATTTAT
1 AAAATATCAAAATATTTAT
*
132352497 AAAATATCTAAA-ATTTAT
1 AAAATATCAAAATATTTAT
132352515 A
1 A
132352516 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.50
19 12 0.38
20 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATATCAAAATATTTAT
Found at i:132352571 original size:29 final size:27
Alignment explanation
Indices: 132352526--132352580 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
132352516 TTTTTAAAAA
*
132352526 AATATATAAAAATTTAAAAAATTAAAG
1 AATATATAAAAAGTTAAAAAATTAAAG
* *
132352553 AATATATAAAGAAAGTTAACAATTTAAA
1 AATATAT-AA-AAAGTTAAAAAATTAAA
132352581 ATTTTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 2 0.09
29 14 0.61
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (27 bp):
AATATATAAAAAGTTAAAAAATTAAAG
Found at i:132352699 original size:16 final size:16
Alignment explanation
Indices: 132352680--132352710 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132352670 TTGAAATTTT
132352680 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
132352696 TTTCAAATTTATATG
1 TTTCAAATATATATG
132352711 CTTCAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:132357736 original size:41 final size:41
Alignment explanation
Indices: 132357688--132357766 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
132357678 AAAAGAAAGT
132357688 TTTTTCAGAATTTGAAAGATTGCATTAAAAAACGTATCAAG
1 TTTTTCAGAATTTGAAAGATTGCATTAAAAAACGTATCAAG
132357729 TTTTTCAGAATTTGAAAGATTGCATTAAAAAACGTATC
1 TTTTTCAGAATTTGAAAGATTGCATTAAAAAACGTATC
132357767 GATAACTGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (41 bp):
TTTTTCAGAATTTGAAAGATTGCATTAAAAAACGTATCAAG
Found at i:132361927 original size:26 final size:25
Alignment explanation
Indices: 132361898--132361947 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
132361888 TAGAATATTA
132361898 TTATA-ATTTTAATTATTAAATAAATT
1 TTATATATTTTAATT-TTAAA-AAATT
*
132361924 TTATATTTTTTAATTTTAAAAAAT
1 TTATATATTTTAATTTTAAAAAAT
132361948 AATTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATATATTTTAATTTTAAAAAATT
Found at i:132365477 original size:21 final size:21
Alignment explanation
Indices: 132365451--132365491 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
132365441 AGACAAGCGA
* *
132365451 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
132365472 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
132365492 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:132368165 original size:13 final size:13
Alignment explanation
Indices: 132368147--132368171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132368137 TCGTAGCACC
132368147 ATTTTACATATAT
1 ATTTTACATATAT
132368160 ATTTTACATATA
1 ATTTTACATATA
132368172 CAAACAATTA
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTACATATAT
Found at i:132368241 original size:31 final size:31
Alignment explanation
Indices: 132368184--132368246 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
132368174 AACAATTATA
*
132368184 TTAAATATATACATTGAATCAAAATCAAAGT
1 TTAAATATATACATTGAACCAAAATCAAAGT
*
132368215 TTAATATATATAC-TTGAACCATAATCAAAGT
1 TTAA-ATATATACATTGAACCAAAATCAAAGT
132368246 T
1 T
132368247 CATGTATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
TTAAATATATACATTGAACCAAAATCAAAGT
Found at i:132369803 original size:18 final size:18
Alignment explanation
Indices: 132369751--132369804 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
132369741 TTTTTTAAAA
132369751 TTTTA-ATTCATTTATAAAT
1 TTTTAGATT-ATTTAT-AAT
132369770 TATTTATGATTATTTATAAT
1 T-TTTA-GATTATTTATAAT
*
132369790 TTTTAGATTTTTTAT
1 TTTTAGATTATTTAT
132369805 TTTTTATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 8 0.26
21 6 0.19
22 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTAGATTATTTATAAT
Found at i:132374476 original size:31 final size:31
Alignment explanation
Indices: 132374438--132374502 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
132374428 GAATCCAAAA
132374438 AAAAAAAAAAAAAAAAAAGCCTATTGAAACG
1 AAAAAAAAAAAAAAAAAAGCCTATTGAAACG
*
132374469 AAAAAAAAAAAAAAAAAAGCTTATTGAAACG
1 AAAAAAAAAAAAAAAAAAGCCTATTGAAACG
132374500 AAA
1 AAA
132374503 CTTTGAAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAAAAGCCTATTGAAACG
Found at i:132375223 original size:29 final size:29
Alignment explanation
Indices: 132375191--132375263 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
132375181 TTTTATTATT
*
132375191 TTAATATTCTA-TATTTTTATAGGATTAAA
1 TTAAT-TTCTATTATTTTTAGAGGATTAAA
* *
132375220 TTAATTTTTATTATTTTTAGAGGTTTAAA
1 TTAATTTCTATTATTTTTAGAGGATTAAA
132375249 TATAATTT-TATTATT
1 T-TAATTTCTATTATT
132375264 ATTAATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 4 0.10
29 29 0.74
30 6 0.15
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (29 bp):
TTAATTTCTATTATTTTTAGAGGATTAAA
Found at i:132376962 original size:8 final size:8
Alignment explanation
Indices: 132376949--132376977 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
132376939 TCAATAAATA
132376949 AAAATATT
1 AAAATATT
132376957 AAAATA-T
1 AAAATATT
132376964 AAAATATT
1 AAAATATT
132376972 AAAATA
1 AAAATA
132376978 ATATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAATATT
Found at i:132376969 original size:15 final size:14
Alignment explanation
Indices: 132376944--132376978 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
132376934 AACTTTCAAT
132376944 AAATAAAAATATTA
1 AAATAAAAATATTA
132376958 AAATATAAAATATTA
1 AAATA-AAAATATTA
132376973 AAATAA
1 AAATAA
132376979 TATAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAAAAATATTA
Found at i:132376985 original size:8 final size:7
Alignment explanation
Indices: 132376944--132377008 Score: 53
Period size: 7 Copynumber: 9.1 Consensus size: 7
132376934 AACTTTCAAT
132376944 AAATA-A
1 AAATATA
132376950 AAATATTA
1 AAATA-TA
132376958 AAATATA
1 AAATATA
132376965 AAATATTA
1 AAATA-TA
132376973 AAATAATA
1 AAAT-ATA
*
132376981 TAATAT-
1 AAATATA
*
132376987 AAATTTA
1 AAATATA
*
132376994 AAAAATA
1 AAATATA
*
132377001 AAAAATA
1 AAATATA
132377008 A
1 A
132377009 TATGAAAGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
6 9 0.18
7 22 0.45
8 17 0.35
9 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATATA
Found at i:132376985 original size:23 final size:21
Alignment explanation
Indices: 132376949--132377008 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
132376939 TCAATAAATA
*
132376949 AAAATATTAAAATATAAAATATT
1 AAAATAATAAAATAT-AAAT-TT
*
132376972 AAAATAATATAATATAAATTT
1 AAAATAATAAAATATAAATTT
*
132376993 AAAA-AATAAAAAATAA
1 AAAATAATAAAATATAA
132377009 TATGAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 10 0.30
21 6 0.18
22 4 0.12
23 13 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAATAAAATATAAATTT
Found at i:132377008 original size:20 final size:22
Alignment explanation
Indices: 132376965--132377008 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
132376955 TTAAAATATA
* *
132376965 AAATATTAAAATAATATAATAT
1 AAATATTAAAATAATAAAAAAT
132376987 AAAT-TTAAAA-AATAAAAAAT
1 AAATATTAAAATAATAAAAAAT
132377007 AA
1 AA
132377009 TATGAAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATATTAAAATAATAAAAAAT
Found at i:132381698 original size:18 final size:17
Alignment explanation
Indices: 132381662--132381713 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
132381652 AACAACTTCC
132381662 AAAATTGATTTT-TGAAAA
1 AAAATTGATTTTCT--AAA
132381680 ATAAATTGATTTTCTAAA
1 A-AAATTGATTTTCTAAA
*
132381698 AAATTTGATATTTCTA
1 AAAATTGAT-TTTCTA
132381714 GTGTTTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 11 0.37
19 11 0.37
20 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAATTGATTTTCTAAA
Found at i:132381701 original size:20 final size:19
Alignment explanation
Indices: 132381663--132381701 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
132381653 ACAACTTCCA
*
132381663 AAATTGATTTTTGAAAAAT
1 AAATTGATTTTTAAAAAAT
132381682 AAATTGATTTTCTAAAAAAT
1 AAATTGATTTT-TAAAAAAT
132381702 TTGATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATTGATTTTTAAAAAAT
Found at i:132381836 original size:16 final size:17
Alignment explanation
Indices: 132381815--132381848 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
132381805 CAACATAAAT
132381815 TATGTTTGTTA-CAAAA
1 TATGTTTGTTAGCAAAA
*
132381831 TATGTTTTTTAGCAAAA
1 TATGTTTGTTAGCAAAA
132381848 T
1 T
132381849 TTTATGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TATGTTTGTTAGCAAAA
Found at i:132382385 original size:25 final size:24
Alignment explanation
Indices: 132382356--132382438 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 24
132382346 AAAACCATAT
*
132382356 TTTTAAAAATATATATATAAAAAA
1 TTTTAAAAATATAAATATAAAAAA
* *
132382380 TATTTAAATATGTATAAATCTAAAAAA
1 T-TTTAAA-A-ATATAAATATAAAAAA
*
132382407 TTCTTAAAAATA-AAACTA-AAAAAG
1 TT-TTAAAAATATAAA-TATAAAAAA
132382431 TTTTAAAA
1 TTTTAAAA
132382439 CAATCCTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
23 6 0.12
24 11 0.23
25 9 0.19
26 3 0.06
27 19 0.40
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TTTTAAAAATATAAATATAAAAAA
Found at i:132382420 original size:23 final size:23
Alignment explanation
Indices: 132382393--132382438 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
132382383 TTAAATATGT
*
132382393 ATAAATCTAAAAAA-TTCTTAAAA
1 ATAAAACTAAAAAAGTT-TTAAAA
132382416 ATAAAACTAAAAAAGTTTTAAAA
1 ATAAAACTAAAAAAGTTTTAAAA
132382439 CAATCCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAAAACTAAAAAAGTTTTAAAA
Found at i:132385740 original size:16 final size:17
Alignment explanation
Indices: 132385700--132385740 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
132385690 ATAATGATGT
132385700 GAATAATAAAATATATA
1 GAATAATAAAATATATA
*
132385717 AAAT-ATAAAATAT-TA
1 GAATAATAAAATATATA
132385732 GAATAATAA
1 GAATAATAA
132385741 TAATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
GAATAATAAAATATATA
Found at i:132385957 original size:22 final size:24
Alignment explanation
Indices: 132385894--132385958 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
132385884 CGTGATAATA
*
132385894 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
132385919 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
132385942 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
132385959 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:132386013 original size:25 final size:25
Alignment explanation
Indices: 132385984--132386119 Score: 65
Period size: 25 Copynumber: 5.6 Consensus size: 25
132385974 AAATATATAT
132385984 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
132386009 ATATATACATAAAATAGTA-TAATAT
1 ATATATAAATAATATAATATTAA-AG
*
132386034 ATATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-A--TAATATA-ATATTAAAG
** *
132386062 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
132386084 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
132386107 AAATAT-AATAATA
1 ATATATAAATAATA
132386120 ACAAAAAAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.22
24 8 0.10
25 24 0.29
27 6 0.07
28 1 0.01
29 8 0.10
30 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:132386041 original size:29 final size:29
Alignment explanation
Indices: 132385929--132386054 Score: 89
Period size: 29 Copynumber: 4.4 Consensus size: 29
132385919 TTAAAAATAC
* * *
132385929 ATACATAATATAGT-TAAGATATATACAT
1 ATACATAAAATAGTATAATATATATATAT
* * * * *
132385957 A-AGATAACAT-GTAAAAAAAATATATAT
1 ATACATAAAATAGTATAATATATATATAT
* * * *
132385984 ATATAT-AAATAATATAATATTAAAGATAT
1 ATACATAAAATAGTATAATA-TATATATAT
132386013 ATACATAAAATAGTATAATATATATATAT
1 ATACATAAAATAGTATAATATATATATAT
* *
132386042 ATACGTAATATAG
1 ATACATAAAATAG
132386055 AATTTAAAAT
Statistics
Matches: 73, Mismatches: 20, Indels: 9
0.72 0.20 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.29
28 9 0.12
29 29 0.40
30 12 0.16
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (29 bp):
ATACATAAAATAGTATAATATATATATAT
Found at i:132386117 original size:23 final size:25
Alignment explanation
Indices: 132386074--132386119 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
132386064 TATACCTAAT
132386074 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
132386099 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
132386120 ACAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:132386652 original size:30 final size:30
Alignment explanation
Indices: 132386616--132386729 Score: 149
Period size: 30 Copynumber: 3.8 Consensus size: 30
132386606 CAAGTGGTGG
*
132386616 TGGAGCAAGTGTGGTTAGTGGAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* *
132386646 TGGAGCAAGTGTGGTTATTGGAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* * **
132386676 TGGAGCAAGTGTGGCTAGTGGATTTGGTGG
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
132386706 TGGAG-AAGGTGTGGCTAGTGGAGT
1 TGGAGCAA-GTGTGGCTAGTGGAGT
132386730 TGATGGTGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
29 2 0.03
30 73 0.97
ACGTcount: A:0.23, C:0.04, G:0.45, T:0.28
Consensus pattern (30 bp):
TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
Found at i:132386710 original size:60 final size:60
Alignment explanation
Indices: 132386616--132386784 Score: 180
Period size: 60 Copynumber: 2.8 Consensus size: 60
132386606 CAAGTGGTGG
* * ** * * *
132386616 TGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAA-GTGTGGTTATTGGAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTTGGTGGTGGAG-AAGGTGTGGCTAGTGGAGTAGATAA
* * **
132386676 TGGAGCAAGTGTGGCTAGTGGATTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGATGG
1 TGGAGCAAGTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTAGATAA
* * *
132386736 TGGA-AAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGAGCAA-GTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGT
132386785 TGAGAAAAGT
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
59 4 0.04
60 88 0.96
ACGTcount: A:0.23, C:0.04, G:0.46, T:0.27
Consensus pattern (60 bp):
TGGAGCAAGTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTAGATAA
Found at i:132386737 original size:30 final size:30
Alignment explanation
Indices: 132386684--132386784 Score: 166
Period size: 30 Copynumber: 3.4 Consensus size: 30
132386674 AATGGAGCAA
* *
132386684 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
132386714 GTGTGGCTAGTGGAGTTGATGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
132386744 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
132386774 GTGTGGCTAGT
1 GTGTGGCTAGT
132386785 TGAGAAAAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.28
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:132396862 original size:12 final size:12
Alignment explanation
Indices: 132396845--132396878 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
132396835 ATATAATTTT
132396845 TAAAAAATTATA
1 TAAAAAATTATA
*
132396857 TAAAAAATAATA
1 TAAAAAATTATA
132396869 TAAAAAATTA
1 TAAAAAATTA
132396879 ATACGAGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:132399965 original size:24 final size:24
Alignment explanation
Indices: 132399938--132399984 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
132399928 CATATGAAAA
*
132399938 TTAAATTAACCAAATCA-AATTATT
1 TTAAATCAACCAAA-CATAATTATT
*
132399962 TTAACTCAACCAAACATAATTAT
1 TTAAATCAACCAAACATAATTAT
132399985 AATACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAATCAACCAAACATAATTATT
Found at i:132404458 original size:59 final size:60
Alignment explanation
Indices: 132404359--132404505 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 60
132404349 ACTCCTACAC
* * * ** * *
132404359 TGGGGCTTGAACTTATTTTTTGTCCAAGTTAGTCTTTGAACTTAGCAATTGTTTCCACAT
1 TGGGGCCTGAACTTATTTTTAGTCCAAGTAAGTCCCTGAACTTAACAATTGTTCCCACAT
* *
132404419 TGGGGCCTGAAC-TGTTTTTAGTCCAAGTAAGTCCCTGAACTTAACATTTGTTCCCACAT
1 TGGGGCCTGAACTTATTTTTAGTCCAAGTAAGTCCCTGAACTTAACAATTGTTCCCACAT
* * * * *
132404478 TAGGGCTTTAA-TTTTTTTTTGTCCAAGT
1 TGGGGCCTGAACTTATTTTTAGTCCAAGT
132404506 TTATCCCTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 61 0.85
60 11 0.15
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (60 bp):
TGGGGCCTGAACTTATTTTTAGTCCAAGTAAGTCCCTGAACTTAACAATTGTTCCCACAT
Found at i:132404513 original size:59 final size:59
Alignment explanation
Indices: 132404374--132404506 Score: 158
Period size: 59 Copynumber: 2.3 Consensus size: 59
132404364 CTTGAACTTA
** * * *
132404374 TTTTTTGTCCAAGTTAGTCTTTGAACTTAGCAATTGTTTCCACATTGGGGCCTGAACTG
1 TTTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCCACATTAGGGCCTGAACTG
* * * * * * *
132404433 TTTTTAGTCCAAGTAAGTCCCTGAACTTAACATTTGTTCCCACATTAGGGCTTTAATTT
1 TTTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCCACATTAGGGCCTGAACTG
132404492 TTTTTTGTCCAAGTT
1 TTTTTTGTCCAAGTT
132404507 TATCCCTATA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (59 bp):
TTTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCCACATTAGGGCCTGAACTG
Found at i:132405271 original size:3 final size:3
Alignment explanation
Indices: 132405265--132405294 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
132405255 GAAAAAAATG
132405265 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
132405295 AATATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:132408326 original size:17 final size:17
Alignment explanation
Indices: 132408304--132408338 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
132408294 CTAATTTTAA
132408304 AATAGAGTTATT-ATTTG
1 AATAGAGTT-TTAATTTG
132408321 AATAGAGTTTTAATTTG
1 AATAGAGTTTTAATTTG
132408338 A
1 A
132408339 GTTAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
AATAGAGTTTTAATTTG
Found at i:132408459 original size:22 final size:22
Alignment explanation
Indices: 132408429--132408470 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
132408419 GATATGTTAG
132408429 AAATGC-TTTACTTATAATTTGA
1 AAATGCTTTTA-TTATAATTTGA
*
132408451 AAATTCTTTTATTATAATTT
1 AAATGCTTTTATTATAATTT
132408471 TTGAATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (22 bp):
AAATGCTTTTATTATAATTTGA
Found at i:132408717 original size:24 final size:24
Alignment explanation
Indices: 132408685--132408732 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
132408675 TTTATAAGTC
132408685 CCTTTGTAGCACAGTAATAGTGCG
1 CCTTTGTAGCACAGTAATAGTGCG
132408709 CCTTTGTAGCACAGTAATAGTGCG
1 CCTTTGTAGCACAGTAATAGTGCG
132408733 TCCGCTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
CCTTTGTAGCACAGTAATAGTGCG
Found at i:132415379 original size:38 final size:38
Alignment explanation
Indices: 132415319--132415437 Score: 175
Period size: 38 Copynumber: 3.1 Consensus size: 38
132415309 ATATTTGATG
* *
132415319 TATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
**
132415357 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** *
132415395 TATATAAGGGTCAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
132415433 TATAT
1 TATAT
132415438 TCGAGCTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:132417540 original size:40 final size:40
Alignment explanation
Indices: 132417390--132417583 Score: 225
Period size: 40 Copynumber: 4.8 Consensus size: 40
132417380 TTCGAATGAT
* * * * *
132417390 ATCCGGGCTAAGTCCCGAAGGCTTTTGCGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
132417431 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-A
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
132417470 ATCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 AT-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
132417510 ATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
132417551 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
132417584 ATGTAACATC
Statistics
Matches: 132, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
39 33 0.25
40 71 0.54
41 27 0.20
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:132419044 original size:46 final size:44
Alignment explanation
Indices: 132418985--132419099 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
132418975 ACAGGACAGA
* *
132418985 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
132419031 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
132419075 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
132419100 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:132419080 original size:44 final size:45
Alignment explanation
Indices: 132418985--132419118 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
132418975 ACAGGACAGA
* *
132418985 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
132419031 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
132419075 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
132419119 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:132425173 original size:46 final size:44
Alignment explanation
Indices: 132425114--132425228 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
132425104 ACAGGACAGA
* *
132425114 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
132425160 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
132425204 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
132425229 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:132425209 original size:44 final size:45
Alignment explanation
Indices: 132425114--132425247 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
132425104 ACAGGACAGA
* *
132425114 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
132425160 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
132425204 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
132425248 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:132434701 original size:40 final size:39
Alignment explanation
Indices: 132434505--132434694 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 39
132434495 AATGATATCC
* * * * *
132434505 GGGCTAAGTCCCGAAGGCTTTTGCGCTAAGTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACT
* * *
132434546 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACT
* *
132434586 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACT
*
132434624 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACT
1 -GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACT
* *
132434665 GGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
132434695 AGCTATATCC
Statistics
Matches: 125, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 33 0.26
40 67 0.54
41 24 0.19
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACT
Found at i:132434709 original size:79 final size:79
Alignment explanation
Indices: 132434556--132434720 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
132434546 GGACTAAGAT
* *
132434556 CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTTACTAA
* *
132434621 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
132434635 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTA-C
* *
132434698 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
132434714 CCGAAGG
1 CCGAAGG
132434721 TATGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 22 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTTACTAA
ATTCCGGTTAAATC
Found at i:132443863 original size:46 final size:46
Alignment explanation
Indices: 132443768--132443969 Score: 266
Period size: 46 Copynumber: 4.4 Consensus size: 46
132443758 AACCTGTGTG
132443768 TAAGACCATGGTTGAAAGATACCAT-GCAACCTGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
* * *
132443813 TAAGACCATGGTTGAAAGATACCATAGCAACCTGATATGAGATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
* * * *
132443859 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
* * *
132443905 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT-AA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTA
*
132443950 GTAAGACCATAGTTGAAAGA
1 -TAAGACCATGGTTGAAAGA
132443970 CACTATGACA
Statistics
Matches: 142, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 28 0.20
46 114 0.80
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
Found at i:132444285 original size:23 final size:25
Alignment explanation
Indices: 132444240--132444286 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
132444230 AATAAATATA
*
132444240 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
132444265 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
132444287 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:132445000 original size:38 final size:38
Alignment explanation
Indices: 132444949--132445103 Score: 256
Period size: 38 Copynumber: 4.1 Consensus size: 38
132444939 ATATTTGATG
* *
132444949 TATATCCGGGTTTTATCCCACAGGCTTCGTGTTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
*
132444987 TATATCCGGGTTTTATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
132445025 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
** *
132445063 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
132445101 TAT
1 TAT
132445104 GTTCGAGCTT
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 110 1.00
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:132445135 original size:40 final size:38
Alignment explanation
Indices: 132444949--132445138 Score: 193
Period size: 38 Copynumber: 4.9 Consensus size: 38
132444939 ATATTTGATG
* ** * *
132444949 TATATCCGGGTTTTATCCCACAGGCTTCGTGTTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
* ** *
132444987 TATATCCGGGTTTTATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
* **
132445025 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
132445063 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
132445101 TATGTTCGAGCTTAAAGTTCCGCAGG-TTCTGTGCTGGT
1 TATATCCG-GCTTAAA-TCCCGCAGGCTTC-GTGCTGGT
132445139 GACCGGATTC
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
38 113 0.82
39 8 0.06
40 16 0.12
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (38 bp):
TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:132447785 original size:31 final size:30
Alignment explanation
Indices: 132447750--132447829 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
132447740 ATTCGGCCCT
*
132447750 CAACCTTTTTAAAAGAGACAAATTTAACCAC
1 CAACCTTTTGAAAA-AGACAAATTTAACCAC
* *
132447781 CAACCTTTTGAATTAAAGTCAAATTTAACCAT
1 CAACCTTTTGAA--AAAGACAAATTTAACCAC
*
132447813 CAATCTTTTGAAAAAGA
1 CAACCTTTTGAAAAAGA
132447830 GTCGAAATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 4 0.10
31 11 0.26
32 25 0.60
33 2 0.05
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (30 bp):
CAACCTTTTGAAAAAGACAAATTTAACCAC
Found at i:132448553 original size:12 final size:12
Alignment explanation
Indices: 132448538--132448564 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
132448528 ACTTGACATA
132448538 TTACCAAATTTT
1 TTACCAAATTTT
132448550 TTACCAAATTTT
1 TTACCAAATTTT
132448562 TTA
1 TTA
132448565 TATGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (12 bp):
TTACCAAATTTT
Found at i:132451176 original size:87 final size:87
Alignment explanation
Indices: 132451067--132451236 Score: 277
Period size: 87 Copynumber: 2.0 Consensus size: 87
132451057 AATTGATAAT
* * *
132451067 ATTATTAAAAGAGTTCTGTTAAATTGAATATATGATATCTTAATTTCCAGTTGTGTCCCTTCCTT
1 ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTCCAGTTGTGTCCCTTCCTT
132451132 TTTCTATTTATTTCTATGGTCA
66 TTTCTATTTATTTCTATGGTCA
* * *
132451154 ATTATTAAAAGACTTCTATTAAACTGAATATATGATGTTTTAATTTTCAGTTGTGTCCCTTCCTT
1 ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTCCAGTTGTGTCCCTTCCTT
*
132451219 TTTCTATTTATTTTTATG
66 TTTCTATTTATTTCTATG
132451237 ATCGATGATC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (87 bp):
ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTCCAGTTGTGTCCCTTCCTT
TTTCTATTTATTTCTATGGTCA
Found at i:132452495 original size:13 final size:13
Alignment explanation
Indices: 132452477--132452501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132452467 TGGAAATAAA
132452477 CATGATAACAAAG
1 CATGATAACAAAG
132452490 CATGATAACAAA
1 CATGATAACAAA
132452502 TTTAACCATC
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
CATGATAACAAAG
Found at i:132454522 original size:46 final size:46
Alignment explanation
Indices: 132454472--132454647 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
132454462 TGGTTGAGCA
132454472 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
132454518 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
132454563 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
132454611 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
132454648 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:132454628 original size:93 final size:93
Alignment explanation
Indices: 132454469--132454640 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
132454459 GGATGGTTGA
* *
132454469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
132454534 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
132454562 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
132454627 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
132454641 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:132466631 original size:24 final size:25
Alignment explanation
Indices: 132466604--132466656 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
132466594 TATTTTTTAC
* *
132466604 ATATT-ATGTAATTTATATAAAACA
1 ATATTAATATAATATATATAAAACA
*
132466628 ATATTAAATATAATATATATAATACA
1 ATATT-AATATAATATATATAAAACA
132466654 ATA
1 ATA
132466657 ACGTAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
26 19 0.79
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATATTAATATAATATATATAAAACA
Found at i:132468305 original size:2 final size:2
Alignment explanation
Indices: 132468298--132468332 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
132468288 TAATGTATTA
132468298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132468333 GGGTGTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:132470050 original size:53 final size:53
Alignment explanation
Indices: 132469983--132470142 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 53
132469973 TATTCTTATT
* *
132469983 TTATATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACTGAA
1 TTAT-TAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
* * * *
132470038 TTCTTAAATATTT-AAATATAATAATGTATTTATTACCCCAAATTACTACTCAA
1 TTATTAAATATTTGAAA-ATAATAATATATTTATTACCCCCAATTACGACTCAA
* *
132470091 TTATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGACTCAA
1 TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
132470143 GGATCACAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
52 17 0.19
53 66 0.73
54 5 0.05
55 3 0.03
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (53 bp):
TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
Found at i:132476355 original size:15 final size:15
Alignment explanation
Indices: 132476302--132476356 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
132476292 TCCACCACCG
*
132476302 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
132476317 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
132476329 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
132476344 GGATATCCTCCTC
1 GGATATCCTCCTC
132476357 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:132477968 original size:37 final size:37
Alignment explanation
Indices: 132477918--132477998 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
132477908 TAATGTACTC
*
132477918 AAACTCACATATTTTTATATTGGCAACGAAGCTCACA
1 AAACTCACATATTTTTATATTGGCAACAAAGCTCACA
*
132477955 AAACTCACGTATTTTTATATTGGCAACAAAGCTCACA
1 AAACTCACATATTTTTATATTGGCAACAAAGCTCACA
132477992 AAACTCA
1 AAACTCA
132477999 ATTGACACGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (37 bp):
AAACTCACATATTTTTATATTGGCAACAAAGCTCACA
Found at i:132480465 original size:37 final size:36
Alignment explanation
Indices: 132480416--132480485 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 36
132480406 TTAAGCTAAG
* * *
132480416 TTATAAACTTTTAAATGGATTAAAATGCAATTTTAC
1 TTATAAACTTTTAAAGGGACTAAAATGAAATTTTAC
* *
132480452 TTATATAATTTTTAAAGGGACTACAATGAAATTT
1 TTATA-AACTTTTAAAGGGACTAAAATGAAATTT
132480486 CTCCATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 5 0.18
37 23 0.82
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (36 bp):
TTATAAACTTTTAAAGGGACTAAAATGAAATTTTAC
Found at i:132483770 original size:15 final size:16
Alignment explanation
Indices: 132483734--132483771 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
132483724 GAGCAGTTGC
132483734 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
132483750 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
132483764 AGAAGCAG
1 AGAAGCAG
132483772 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:132483817 original size:21 final size:21
Alignment explanation
Indices: 132483793--132483832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
132483783 GAGGTTGCTG
*
132483793 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
132483814 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
132483833 AATGAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:132484188 original size:30 final size:29
Alignment explanation
Indices: 132484117--132484203 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
132484107 TGTTGACGAT
132484117 TTTTGCAGCAGGCACCCAGTCATCATCCC
1 TTTTGCAGCAGGCACCCAGTCATCATCCC
*
132484146 TTTTGCAGCAGGCACCCAGTCATCGTCCC
1 TTTTGCAGCAGGCACCCAGTCATCATCCC
* *
132484175 TATTTGTAGCAGGCACCCAGTGATCATCC
1 T-TTTGCAGCAGGCACCCAGTCATCATCC
132484204 TTATTATTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 29 0.55
30 24 0.45
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (29 bp):
TTTTGCAGCAGGCACCCAGTCATCATCCC
Found at i:132486023 original size:22 final size:24
Alignment explanation
Indices: 132485995--132486041 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
132485985 CAGCTTTGGA
132485995 TTTTATCC-T-TATAGAGGCGAGG
1 TTTTATCCTTATATAGAGGCGAGG
132486017 TTTTATCCTTATATAGAGGCGAGG
1 TTTTATCCTTATATAGAGGCGAGG
132486041 T
1 T
132486042 GGATTATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (24 bp):
TTTTATCCTTATATAGAGGCGAGG
Found at i:132488059 original size:57 final size:57
Alignment explanation
Indices: 132487987--132488098 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
132487977 AAAAATTATA
*
132487987 ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAATTTTAAGTTTG
1 ATTTGTTAAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAATTTTAAGTTTG
*
132488044 ATTTGTTAAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTT
1 ATTTGTTAAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAATTTTAAGTT
132488099 CGAGTTTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.40
Consensus pattern (57 bp):
ATTTGTTAAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAATTTTAAGTTTG
Found at i:132488084 original size:31 final size:31
Alignment explanation
Indices: 132487995--132488086 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 31
132487985 TAATTTGTTG
132487995 AGTAGAGTGATAAAAGAGTTCAATACTTTTA
1 AGTAGAGTGATAAAAGAGTTCAATACTTTTA
* *** **
132488026 AGTA-A--AATTTTA-AGTTTGAT--TTGTTA
1 AGTAGAGTGATAAAAGAGTTCAATACTT-TTA
132488052 AGTAGAGTGATAAAAGAGTTCAATACTTTTA
1 AGTAGAGTGATAAAAGAGTTCAATACTTTTA
132488083 AGTA
1 AGTA
132488087 AAGTTTTAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 14
0.62 0.18 0.21
Matches are distributed among these distances:
25 2 0.05
26 7 0.17
27 7 0.17
28 3 0.07
29 3 0.07
30 7 0.17
31 11 0.26
32 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.37
Consensus pattern (31 bp):
AGTAGAGTGATAAAAGAGTTCAATACTTTTA
Found at i:132490222 original size:3 final size:3
Alignment explanation
Indices: 132490214--132490240 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
132490204 CACAACCTCA
132490214 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
132490241 TGAAATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:132494745 original size:70 final size:69
Alignment explanation
Indices: 132494598--132494751 Score: 175
Period size: 70 Copynumber: 2.2 Consensus size: 69
132494588 GTTGAACACT
* * * *
132494598 AGCAATAAGATGGACACAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCA
1 AGCAATAAGATGGACAAAGAACATTGTTTA-GCAGAGGTTATTTTTAAGAAATAAAATTAATGCA
*
132494663 AGCCC
65 AACCC
** * * *
132494668 AATAATAAGATGGACAAAGAACATTGTTTA-CAGAGGCTTCTTTTTAAGACAATAAAATTAGTTC
1 AGCAATAAGATGGACAAAGAACATTGTTTAGCAGAGG-TTATTTTTAAGA-AATAAAATTAATGC
*
132494732 AAATCC
64 AAACCC
132494738 AGCAATAAGATGGA
1 AGCAATAAGATGGA
132494752 GGTGGAAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 5 0.07
69 11 0.16
70 53 0.77
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (69 bp):
AGCAATAAGATGGACAAAGAACATTGTTTAGCAGAGGTTATTTTTAAGAAATAAAATTAATGCAA
ACCC
Found at i:132497861 original size:14 final size:13
Alignment explanation
Indices: 132497840--132497890 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
132497830 ACTAAAATAC
132497840 TAAA-TTTAAAAT
1 TAAAGTTTAAAAT
*
132497852 TAAGAGTTTAGAAT
1 TAA-AGTTTAAAAT
* *
132497866 TTAAGTTAAAAATT
1 TAAAGTTTAAAA-T
132497880 TAAAGTTTAAA
1 TAAAGTTTAAA
132497891 TTGAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 3 0.10
13 8 0.27
14 19 0.63
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TAAAGTTTAAAAT
Found at i:132507494 original size:27 final size:28
Alignment explanation
Indices: 132507455--132507511 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
132507445 AAAGCTAAAT
132507455 TTTTGAAATTTTTAAAATTAGAATCAAA
1 TTTTGAAATTTTTAAAATTAGAATCAAA
*
132507483 TTTTG-AATTTTTTAAATTAGAATCAAA
1 TTTTGAAATTTTTAAAATTAGAATCAAA
132507510 TT
1 TT
132507512 GATAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (28 bp):
TTTTGAAATTTTTAAAATTAGAATCAAA
Found at i:132509934 original size:12 final size:12
Alignment explanation
Indices: 132509919--132509943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132509909 CAGTTAATTT
132509919 GGTCGGTTAACC
1 GGTCGGTTAACC
132509931 GGTCGGTTAACC
1 GGTCGGTTAACC
132509943 G
1 G
132509944 AATTAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:132517452 original size:40 final size:41
Alignment explanation
Indices: 132517408--132517504 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 41
132517398 TAGGTATGCC
* * *
132517408 CTTGTCATGTCCACCGCCACTGGCGCGCCTGCTG-CACTGG
1 CTTGTCATGTCCACCGCCACTGGCGCGCCTACTGCCACCGA
132517448 CTTGTCATGTCCACCGCCACTGGCGCGCCTACTGCCACCGA
1 CTTGTCATGTCCACCGCCACTGGCGCGCCTACTGCCACCGA
*
132517489 CTTGTCACGTCCACCG
1 CTTGTCATGTCCACCG
132517505 ACTTCAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 33 0.63
41 19 0.37
ACGTcount: A:0.12, C:0.42, G:0.24, T:0.22
Consensus pattern (41 bp):
CTTGTCATGTCCACCGCCACTGGCGCGCCTACTGCCACCGA
Found at i:132517972 original size:16 final size:16
Alignment explanation
Indices: 132517953--132517986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132517943 GGGAATGAAT
* *
132517953 GAAAATAAAATAAAAA
1 GAAAAGAAAAAAAAAA
132517969 GAAAAGAAAAAAAAAA
1 GAAAAGAAAAAAAAAA
132517985 GA
1 GA
132517987 TTGACTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
GAAAAGAAAAAAAAAA
Found at i:132518423 original size:3 final size:3
Alignment explanation
Indices: 132518415--132518529 Score: 117
Period size: 3 Copynumber: 38.7 Consensus size: 3
132518405 TTAATTTAAC
* * * *
132518415 ATT ATT ATT ATT ATT ATT ATT ATG ACT ATC ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
132518463 ATT ACT ATT ATT ATT ATT ACT ATT GTT -TT ATT ATT AATT AAT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* *
132518507 AAT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
132518530 ATTTCTTTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
2 3 0.03
3 84 0.93
4 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:132518542 original size:35 final size:35
Alignment explanation
Indices: 132518390--132518562 Score: 109
Period size: 35 Copynumber: 5.1 Consensus size: 35
132518380 TTGACATTTT
*
132518390 TTATTATTAAATTAA-TTA-ATT-TAAC-ATTATTA
1 TTATTATT-AATTAATTTATATTATTACTATTATTA
* * *
132518422 TTATTATT-ATT-ATTATGACTATCATTATTATTACTA
1 TTATTATTAATTAATT-T-A-TATTATTACTATTATTA
* *
132518458 TTATTATT-ACT-A-TTATTATTATTACTATTGTT-
1 TTATTATTAATTAATTTA-TATTATTACTATTATTA
132518490 TTATTATTAATTAATTTAATATTATTACTATTATTA
1 TTATTATTAATTAATTT-ATATTATTACTATTATTA
** *
132518526 TTA-TATTTCTTTATTTAT-TTATTTACTTATTATTA
1 TTATTATTAATTAATTTATATTA-TTAC-TATTATTA
132518561 TT
1 TT
132518563 CTTTAAATAC
Statistics
Matches: 112, Mismatches: 15, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
29 1 0.01
30 4 0.04
31 1 0.01
32 17 0.15
33 18 0.16
34 10 0.09
35 40 0.36
36 21 0.19
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (35 bp):
TTATTATTAATTAATTTATATTATTACTATTATTA
Found at i:132520252 original size:65 final size:64
Alignment explanation
Indices: 132520139--132520330 Score: 280
Period size: 62 Copynumber: 3.0 Consensus size: 64
132520129 TCCCTTTTGC
* * * * *
132520139 TTTTCTAATTAAACGTTGGCGTTCTCTTTTTCCAAAGGCTTTTTTCCCTTTCCTTCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCC-TTCCTTCTCCAGCAAG
* *
132520204 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCGTCCC-T-CTCCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTTCCTTCTCCAGCAAG
*
132520266 TCTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTCTCCTTCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCT-TCCTTCTCCAGCAAG
132520331 CATGGAAGAG
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
62 58 0.51
63 1 0.01
64 1 0.01
65 54 0.47
ACGTcount: A:0.16, C:0.31, G:0.13, T:0.40
Consensus pattern (64 bp):
TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTTCCTTCTCCAGCAAG
Found at i:132526991 original size:25 final size:24
Alignment explanation
Indices: 132526943--132526998 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
132526933 AAATATATTC
*
132526943 ATTAATTTATTTTTATTTTAAATAA
1 ATTAA-TTATTTTTATTGTAAATAA
132526968 ATATAATTATTTTTATATGT-AATAA
1 AT-TAATTATTTTTAT-TGTAAATAA
132526993 ATTAAT
1 ATTAAT
132526999 ATAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 19 0.68
26 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTAATTATTTTTATTGTAAATAA
Found at i:132530114 original size:77 final size:77
Alignment explanation
Indices: 132530019--132530220 Score: 395
Period size: 77 Copynumber: 2.6 Consensus size: 77
132530009 TATGGTGAGA
132530019 TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTTGCTTCTGTTTTATCTGC
1 TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTTGCTTCTGTTTTATCTGC
132530084 AGTCAGGCATTG
66 AGTCAGGCATTG
132530096 TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTTGCTTCTGTTTTATCTGC
1 TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTTGCTTCTGTTTTATCTGC
132530161 AGTCAGGCATTG
66 AGTCAGGCATTG
*
132530173 TTCTTACATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTT
1 TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTT
132530221 ATCGATCATT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 124 1.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (77 bp):
TTCTTAAATTCATTATGGTTTTCTTAACCTCTACCGAAAGGCGAGTTTGCTTCTGTTTTATCTGC
AGTCAGGCATTG
Found at i:132530870 original size:61 final size:60
Alignment explanation
Indices: 132530791--132530913 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
132530781 TATTTAAATA
* * * * *
132530791 TTTTTGGCCTATTTGGTACCTAAACTTGATAATTTTTTCT-TAATTTGGTACTTTAATTTTT
1 TTTTTGCCCAATTCGGTACCTAAACTTG-GAATTTTTTCTGTAATTTGGTAC-TTAAGTTTT
* * * *
132530852 TTTTTGCCCAATTCGGTACTTAAATTTGGCATTTTTTTTGTAATTTGGTACTTAAGTTTT
1 TTTTTGCCCAATTCGGTACCTAAACTTGGAATTTTTTCTGTAATTTGGTACTTAAGTTTT
132530912 TT
1 TT
132530914 CTAGGTCCAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
60 18 0.35
61 34 0.65
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.55
Consensus pattern (60 bp):
TTTTTGCCCAATTCGGTACCTAAACTTGGAATTTTTTCTGTAATTTGGTACTTAAGTTTT
Found at i:132543400 original size:11 final size:11
Alignment explanation
Indices: 132543384--132543408 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
132543374 TCGAATATTC
132543384 ATGTCCAAAAT
1 ATGTCCAAAAT
132543395 ATGTCCAAAAT
1 ATGTCCAAAAT
132543406 ATG
1 ATG
132543409 CATAAATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGTCCAAAAT
Found at i:132556530 original size:16 final size:16
Alignment explanation
Indices: 132556511--132556543 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132556501 ATTTTTCCTC
132556511 TCATTTTATTTT-TTTT
1 TCATTTT-TTTTATTTT
132556527 TCATTTTTTTTATTTT
1 TCATTTTTTTTATTTT
132556543 T
1 T
132556544 GAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (16 bp):
TCATTTTTTTTATTTT
Found at i:132559156 original size:17 final size:17
Alignment explanation
Indices: 132559131--132559174 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
132559121 TTTTGAGCGA
132559131 TTTA-ATTTTTTT--CT
1 TTTATATTTTTTTAACT
*
132559145 TTTATGTTTTTTTAACT
1 TTTATATTTTTTTAACT
132559162 TTTATATTTTTTT
1 TTTATATTTTTTT
132559175 GATTCTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
17 14 0.56
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATATTTTTTTAACT
Found at i:132563550 original size:3 final size:3
Alignment explanation
Indices: 132563542--132563566 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
132563532 ACCCAGTTTA
132563542 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
132563567 CGTTTTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:132569746 original size:21 final size:21
Alignment explanation
Indices: 132569716--132569794 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
132569706 ATAATGATAC
*
132569716 TTTTATAATTCAATTAAAATA
1 TTTTAAAATTCAATTAAAATA
* *
132569737 TTTTAAAATTTGCTATAATAATGATA
1 TTTTAAAA-TT-C-A-ATTAA-AATA
*
132569763 CTTTTAGAATTCAATTAAAATA
1 -TTTTAAAATTCAATTAAAATA
132569785 TTTTAAAATT
1 TTTTAAAATT
132569795 TGCTACTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 16 0.36
22 5 0.11
23 5 0.11
24 2 0.04
25 5 0.11
26 5 0.11
27 7 0.16
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTTAAAATTCAATTAAAATA
Found at i:132569774 original size:48 final size:48
Alignment explanation
Indices: 132569698--132569799 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
132569688 AATGACTTGA
*
132569698 TTGCTATAATAATGATACTTTTATAATTCAATTAAAATATTTTAAAAT
1 TTGCTATAATAATGATACTTTTAGAATTCAATTAAAATATTTTAAAAT
132569746 TTGCTATAATAATGATACTTTTAGAATTCAATTAAAATATTTTAAAAT
1 TTGCTATAATAATGATACTTTTAGAATTCAATTAAAATATTTTAAAAT
132569794 TTGCTA
1 TTGCTA
132569800 CTTTTAGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (48 bp):
TTGCTATAATAATGATACTTTTAGAATTCAATTAAAATATTTTAAAAT
Found at i:132569804 original size:37 final size:37
Alignment explanation
Indices: 132569761--132569833 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
132569751 ATAATAATGA
132569761 TACTTTTAGAATTCAATTAAAATATTTTAAAATTTGC
1 TACTTTTAGAATTCAATTAAAATATTTTAAAATTTGC
132569798 TACTTTTAGAATTCAATTAAAATATTTTAAAATTTG
1 TACTTTTAGAATTCAATTAAAATATTTTAAAATTTG
132569834 AAGAGCAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (37 bp):
TACTTTTAGAATTCAATTAAAATATTTTAAAATTTGC
Found at i:132569948 original size:10 final size:10
Alignment explanation
Indices: 132569933--132569958 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
132569923 AATTCATTAT
132569933 AAATATTTGC
1 AAATATTTGC
132569943 AAATATTTGC
1 AAATATTTGC
132569953 AAATAT
1 AAATAT
132569959 ATTAGATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (10 bp):
AAATATTTGC
Found at i:132576534 original size:31 final size:31
Alignment explanation
Indices: 132576456--132576537 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
132576446 TACAAGCCAG
* *
132576456 TGACTTAAATAAAAATTTTTAGATAGTTAAA
1 TGACCTAAATGAAAATTTTTAGATAGTTAAA
*
132576487 TGACCTAAATGAAAATTTTT-GAATAGTTTAA
1 TGACCTAAATGAAAATTTTTAG-ATAGTTAAA
* *
132576518 TGA-TTAAATTGTAAATTTTT
1 TGACCTAAA-TGAAAATTTTT
132576538 TAATTAAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
30 5 0.11
31 39 0.89
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (31 bp):
TGACCTAAATGAAAATTTTTAGATAGTTAAA
Found at i:132579347 original size:16 final size:16
Alignment explanation
Indices: 132579326--132579356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132579316 TTTGAAAGAA
132579326 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
132579342 TTTCAAATTTATATG
1 TTTCAAATATATATG
132579357 CTCTAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:132580912 original size:9 final size:9
Alignment explanation
Indices: 132580898--132580927 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
132580888 TTATTACTAA
132580898 AAATATTTT
1 AAATATTTT
132580907 AAATATTTT
1 AAATATTTT
132580916 AAATATTTT
1 AAATATTTT
132580925 AAA
1 AAA
132580928 ATTCATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAATATTTT
Found at i:132581122 original size:25 final size:28
Alignment explanation
Indices: 132581071--132581137 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
132581061 TAACATCATT
*
132581071 TTATATTTATATATTATATACATAAAT-AA
1 TTATATTTAT-T-TAATATACATAAATAAA
132581100 TTATATTTATTTAATATA-A-AAATAAA
1 TTATATTTATTTAATATACATAAATAAA
*
132581126 TTA-ATATATTTA
1 TTATATTTATTTA
132581138 TTTCTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.34
26 6 0.17
27 6 0.17
28 1 0.03
29 10 0.29
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TTATATTTATTTAATATACATAAATAAA
Found at i:132581139 original size:29 final size:29
Alignment explanation
Indices: 132581071--132581140 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
132581061 TAACATCATT
* * * *
132581071 TTATATTTATATATTATATACATAAATAA
1 TTATATTTATTTAATATAAAAATAAATAA
132581100 TTATATTTATTTAATATAAAAATAAATTAA
1 TTATATTTATTTAATATAAAAATAAA-TAA
132581130 -TATATTTATTT
1 TTATATTTATTT
132581141 CTTTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATATTTATTTAATATAAAAATAAATAA
Found at i:132583273 original size:12 final size:12
Alignment explanation
Indices: 132583256--132583287 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
132583246 AAGGCGGAAA
132583256 CATCACCACCAC
1 CATCACCACCAC
132583268 CATCACCACCAC
1 CATCACCACCAC
*
132583280 CACCACCA
1 CATCACCA
132583288 ACAACAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.06
Consensus pattern (12 bp):
CATCACCACCAC
Found at i:132587034 original size:24 final size:24
Alignment explanation
Indices: 132587001--132587047 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
132586991 TTATAGACCA
*
132587001 AAATAGATACAGGTGCCAAAGTGG
1 AAATAAATACAGGTGCCAAAGTGG
132587025 AAATAAATACAGGTGCCAAAGTG
1 AAATAAATACAGGTGCCAAAGTG
132587048 AACTTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.17
Consensus pattern (24 bp):
AAATAAATACAGGTGCCAAAGTGG
Found at i:132593096 original size:8 final size:8
Alignment explanation
Indices: 132593083--132593118 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
132593073 GATTTATGAA
132593083 CATTTTCC
1 CATTTTCC
132593091 CATTTTCC
1 CATTTTCC
132593099 CATTTTCC
1 CATTTTCC
*
132593107 CATTTTCT
1 CATTTTCC
132593115 CATT
1 CATT
132593119 CATGTGGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.14, C:0.33, G:0.00, T:0.53
Consensus pattern (8 bp):
CATTTTCC
Found at i:132600904 original size:28 final size:29
Alignment explanation
Indices: 132600872--132600943 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
132600862 TCAGTCGAGG
132600872 TCGGTTAATAATTTTTTG-AAAGTTTGAT
1 TCGGTTAATAATTTTTTGAAAAGTTTGAT
* *
132600900 TCGGTTAAT-TTTTTTTGAAAAAATTTTGAT
1 TCGGTTAATAATTTTTTG--AAAAGTTTGAT
*
132600930 TCGGTTAACAATTT
1 TCGGTTAATAATTT
132600944 AAAAGGGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.19
28 9 0.25
30 17 0.47
31 3 0.08
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (29 bp):
TCGGTTAATAATTTTTTGAAAAGTTTGAT
Found at i:132601580 original size:6 final size:6
Alignment explanation
Indices: 132601569--132601595 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
132601559 AGAAATTGAT
132601569 GCTCAA GCTCAA GCTCAA GCTCAA GCT
1 GCTCAA GCTCAA GCTCAA GCTCAA GCT
132601596 TGTCACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (6 bp):
GCTCAA
Found at i:132603364 original size:14 final size:13
Alignment explanation
Indices: 132603334--132603363 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
132603324 TTCTAAAGCT
132603334 AAAACTCCAATAA
1 AAAACTCCAATAA
132603347 AAAACTCCAATAA
1 AAAACTCCAATAA
132603360 AAAA
1 AAAA
132603364 ATTATGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAACTCCAATAA
Found at i:132605653 original size:2 final size:2
Alignment explanation
Indices: 132605648--132605676 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
132605638 ATGCAAAAAA
132605648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132605677 AAAGGACCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132605924 original size:30 final size:28
Alignment explanation
Indices: 132605856--132605924 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 28
132605846 AGAATTTCTA
*
132605856 TAAATTTTGAGGGTTAAGTTAAAAATTT
1 TAAATTTTGAGGGTTAAGTAAAAAATTT
132605884 TAAAAGTTTTGAAAGGGTTAA-TGAAAAAATTT
1 T-AAA-TTTTG--AGGGTTAAGT-AAAAAATTT
132605916 TAAATTTTG
1 TAAATTTTG
132605925 TTTCTTGGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 1 0.03
29 3 0.09
30 10 0.29
31 4 0.11
32 17 0.49
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (28 bp):
TAAATTTTGAGGGTTAAGTAAAAAATTT
Found at i:132606769 original size:30 final size:30
Alignment explanation
Indices: 132606735--132606822 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
132606725 CTTAAAAAAA
*
132606735 TTTGAAAGCTCTAACTAAAATTTTTAAACT
1 TTTGAAAGCTCTAATTAAAATTTTTAAACT
* * *
132606765 TTTGAAAG-TTTAATTAGAAATTTTAAAAGT
1 TTTGAAAGCTCTAATTA-AAATTTTTAAACT
* *
132606795 TTTGAAGGAC-CTAATTAAAATATTTAAA
1 TTTGAAAG-CTCTAATTAAAATTTTTAAA
132606823 AAATTTGGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 6 0.13
30 35 0.74
31 6 0.13
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTGAAAGCTCTAATTAAAATTTTTAAACT
Found at i:132610830 original size:40 final size:40
Alignment explanation
Indices: 132610783--132610957 Score: 325
Period size: 40 Copynumber: 4.4 Consensus size: 40
132610773 GACTTATAGT
*
132610783 CCGCAGGCTTTGTGCTGGCAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
132610823 CCGCAGGC-TTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
132610862 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
*
132610902 TCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
132610942 CCGCAGGCTTTGTGCT
1 CCGCAGGCTTTGTGCT
132610958 AGAAATTGGA
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
39 38 0.29
40 93 0.71
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
Done.