Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 255 of 320
Found at i:83078705 original size:19 final size:19
Alignment explanation
Indices: 83078666--83078705 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
83078656 AAAGATTGAA
*
83078666 TTTTAAATTTTTTTATGAT
1 TTTTAAATTTTTTTATAAT
* *
83078685 TTTTAACTTTTTTTTTAAT
1 TTTTAAATTTTTTTATAAT
83078704 TT
1 TT
83078706 AAGAGAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTAAATTTTTTTATAAT
Found at i:83086702 original size:21 final size:20
Alignment explanation
Indices: 83086672--83086711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
83086662 CAAATACTTG
83086672 TATAACTATCATCAAACATT
1 TATAACTATCATCAAACATT
*
83086692 TATAATCTATCATTAAACAT
1 TATAA-CTATCATCAAACAT
83086712 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAACTATCATCAAACATT
Found at i:83093557 original size:42 final size:42
Alignment explanation
Indices: 83093511--83093591 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
83093501 GTTAATGTAT
* * *
83093511 ATATATAGCCGAAGCTATCTCGATCTCGCATACTAAGTGCAA
1 ATATATAACCAAAGCTATCTCGATCTCGCACACTAAGTGCAA
* *
83093553 ATATATAACCAAAGCTATCTCGATTTCTCACACTAAGTG
1 ATATATAACCAAAGCTATCTCGATCTCGCACACTAAGTG
83093592 TCCATAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
ATATATAACCAAAGCTATCTCGATCTCGCACACTAAGTGCAA
Found at i:83094104 original size:21 final size:20
Alignment explanation
Indices: 83094076--83094114 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
83094066 CAAAACTTGT
83094076 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
83094096 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
83094115 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:83105384 original size:18 final size:18
Alignment explanation
Indices: 83105361--83105398 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
83105351 CTTTCTATTT
*
83105361 TTCTCCTCTCTCTCTC-CC
1 TTCTCCCCTCT-TCTCACC
83105379 TTCTCCCCTCTTCTCACC
1 TTCTCCCCTCTTCTCACC
83105397 TT
1 TT
83105399 TACACACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCTCCCCTCTTCTCACC
Found at i:83111111 original size:24 final size:24
Alignment explanation
Indices: 83111083--83111131 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
83111073 AATACCAAAG
83111083 AAATTTCTTTGATATAAGAAGAGA
1 AAATTTCTTTGATATAAGAAGAGA
83111107 AAATTTCTTTGATATAAGAAGAGA
1 AAATTTCTTTGATATAAGAAGAGA
83111131 A
1 A
83111132 TTACACGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (24 bp):
AAATTTCTTTGATATAAGAAGAGA
Found at i:83111359 original size:19 final size:19
Alignment explanation
Indices: 83111335--83111373 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
83111325 TACCACTAAA
83111335 CCAACAAGCTCATTCTTAT
1 CCAACAAGCTCATTCTTAT
83111354 CCAACAAGCTCATTCTTAT
1 CCAACAAGCTCATTCTTAT
83111373 C
1 C
83111374 ATTAGTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (19 bp):
CCAACAAGCTCATTCTTAT
Found at i:83113213 original size:38 final size:38
Alignment explanation
Indices: 83113158--83113231 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
83113148 AATATAAAAA
* *
83113158 TTATATTTAATACAATAAAATATTTATTATTTTTATTT
1 TTATATTTAATACAATAAAACATTTATTATATTTATTT
* *
83113196 TTATTTTTAATATAATAAAACATTTATTATATTTAT
1 TTATATTTAATACAATAAAACATTTATTATATTTAT
83113232 GATAGTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (38 bp):
TTATATTTAATACAATAAAACATTTATTATATTTATTT
Found at i:83118050 original size:19 final size:19
Alignment explanation
Indices: 83118026--83118064 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
83118016 ACCTTATATA
83118026 TACTAA-CTTCTCTAATAAT
1 TACTAAGCTTCT-TAATAAT
83118045 TACTAAGCTTCTTAATAAT
1 TACTAAGCTTCTTAATAAT
83118064 T
1 T
83118065 CTCCTTCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (19 bp):
TACTAAGCTTCTTAATAAT
Found at i:83120434 original size:30 final size:30
Alignment explanation
Indices: 83120398--83120473 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
83120388 AATGTTTTGT
83120398 TCACACAAGCTGACATTTTAATGGAATTGC
1 TCACACAAGCTGACATTTTAATGGAATTGC
*
83120428 TCACACAAGCTGACATTTTAGTGGAATTGC
1 TCACACAAGCTGACATTTTAATGGAATTGC
83120458 TCACACAAGCTGACAT
1 TCACACAAGCTGACAT
83120474 CGTGTCGAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (30 bp):
TCACACAAGCTGACATTTTAATGGAATTGC
Found at i:83122557 original size:46 final size:46
Alignment explanation
Indices: 83122504--83122679 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 46
83122494 TATTTGGGCA
*
83122504 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
83122550 TCCGAACTCGTTGAGTTAAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * *
83122597 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
83122643 CCCGAGCTCGTTAAGTTGAGTCCGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83122680 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:83122665 original size:93 final size:93
Alignment explanation
Indices: 83122500--83122672 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
83122490 GGGATATTTG
* *** *
83122500 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTAAG
83122565 TTAAGTCCGAGTTCGAGAGATGTAACTA
66 TTAAGTCCGAGTTCGAGAGATGTAACTA
* * *
83122593 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTAAG
* *
83122658 TTGAGTCCGATTTCG
66 TTAAGTCCGAGTTCG
83122673 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTAAG
TTAAGTCCGAGTTCGAGAGATGTAACTA
Found at i:83131164 original size:9 final size:9
Alignment explanation
Indices: 83131150--83131176 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
83131140 AAGTTTAGAG
83131150 AAAATAAAA
1 AAAATAAAA
83131159 AAAATAAAA
1 AAAATAAAA
83131168 AAAATAAAA
1 AAAATAAAA
83131177 GGTAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAATAAAA
Found at i:83131757 original size:16 final size:16
Alignment explanation
Indices: 83131736--83131767 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83131726 CAATCTTGTG
83131736 GGCAGTATACACAAAT
1 GGCAGTATACACAAAT
83131752 GGCAGTATACACAAAT
1 GGCAGTATACACAAAT
83131768 TTTGTGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
GGCAGTATACACAAAT
Found at i:83137757 original size:6 final size:6
Alignment explanation
Indices: 83137733--83137776 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
83137723 CTTTTTCGGA
*
83137733 ATTTAA ATTT-T ATTT-T ATTTAT ATTTAT ATTTAT ATTTAT ATTT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTT
83137777 TTATGAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTAT
Found at i:83150807 original size:41 final size:40
Alignment explanation
Indices: 83150655--83150824 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
83150645 GCTAATCGGG
*
83150655 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
83150696 G-CTAATAACCGAACTTAGTTTAGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
83150739 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
83150779 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
83150820 G-CTAA
1 GTCTAA
83150825 GAGTCGGACT
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 49 0.47
42 22 0.21
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:83155145 original size:284 final size:284
Alignment explanation
Indices: 83154616--83155184 Score: 1005
Period size: 284 Copynumber: 2.0 Consensus size: 284
83154606 GACCCGAACA
* * *
83154616 AATTTCGTATTCATGTAGTATCTGTTTCAAACAAGTGGTATTTTTTTACGTTGCTGTCCCAAATA
1 AATTTCGTATTCATGTAGTATCTATTTCAAACAAGTGGCATTTTTTTACGTTACTGTCCCAAATA
83154681 AAATGCAATCATCTGCAAAAAGTATGCTAGAAATCTGAGGGACCCTTCTGCTTACCTTAACTCTT
66 AAATGCAATCATCTGCAAAAAGTATGCTAGAAATCTGAGGGACCCTTCTGCTTACCTTAACTCTT
83154746 CTCATTAATTTTTCATGTATCCCTAACTTCATAAGGCTAGAAAGACCTTCTCCACAAAATAAGAA
131 CTCATTAATTTTTCATGTATCCCTAACTTCATAAGGCTAGAAAGACCTTCTCCACAAAATAAGAA
* * *
83154811 TAAGAGTAGACTCAACGAGTCACCCTGTCTTAATCCCCTTGAAAGGAAAAAAGTATCCGCTTTAT
196 TAAGAATAGACTCAACGAGTCACCCTGTCTCAATCCCCTTGAAAGGAAAAAAGTATCCCCTTTAT
83154876 TCCCATTTAAGACCAACGAATAAG
261 TCCCATTTAAGACCAACGAATAAG
*
83154900 AATTTCGTATTCATGTAGTATCTATTTCAAACAAGTGGCATTTTTTTCCGTTACTGTCCCAAATA
1 AATTTCGTATTCATGTAGTATCTATTTCAAACAAGTGGCATTTTTTTACGTTACTGTCCCAAATA
* *
83154965 AAATGCAATCATCTGCAAAAAGTATGCTAGAAATCTGAGGG-CCCATTCTGCTTGCCTTAGCTCT
66 AAATGCAATCATCTGCAAAAAGTATGCTAGAAATCTGAGGGACCC-TTCTGCTTACCTTAACTCT
*
83155029 TCTTATTAATTTTTCATGTATCCCTAACTTCATAAGGCTAGAAAGACCTTCTCCACAAAATAAGA
130 TCTCATTAATTTTTCATGTATCCCTAACTTCATAAGGCTAGAAAGACCTTCTCCACAAAATAAGA
* * *
83155094 ATAAGAATAGACTCAACGGGTCACCCTGTCTCAATCCCTTTGAAGGGAAAAAAGTATCCCCTTTA
195 ATAAGAATAGACTCAACGAGTCACCCTGTCTCAATCCCCTTGAAAGGAAAAAAGTATCCCCTTTA
83155159 TTCCCATTTAAGACCAACGAATAAG
260 TTCCCATTTAAGACCAACGAATAAG
83155184 A
1 A
83155185 TACTATAGTA
Statistics
Matches: 271, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
283 3 0.01
284 268 0.99
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (284 bp):
AATTTCGTATTCATGTAGTATCTATTTCAAACAAGTGGCATTTTTTTACGTTACTGTCCCAAATA
AAATGCAATCATCTGCAAAAAGTATGCTAGAAATCTGAGGGACCCTTCTGCTTACCTTAACTCTT
CTCATTAATTTTTCATGTATCCCTAACTTCATAAGGCTAGAAAGACCTTCTCCACAAAATAAGAA
TAAGAATAGACTCAACGAGTCACCCTGTCTCAATCCCCTTGAAAGGAAAAAAGTATCCCCTTTAT
TCCCATTTAAGACCAACGAATAAG
Found at i:83158367 original size:18 final size:18
Alignment explanation
Indices: 83158325--83158412 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
83158315 TTTTTAATTA
*
83158325 ATAAAATATTTTTAAAATAT
1 ATAAAAT-TTTATAAAA-AT
*
83158345 TTAAAATTTTATAAAAAT
1 ATAAAATTTTATAAAAAT
**
83158363 ATAAAAACTTATAAATAAT
1 ATAAAATTTTATAAA-AAT
* *
83158382 AT-AAATTTCAAAAAAAT
1 ATAAAATTTTATAAAAAT
*
83158399 -TAAAA-ATTATAAAA
1 ATAAAATTTTATAAAA
83158413 GGAAAGTCAT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 7 0.13
17 6 0.11
18 22 0.41
19 13 0.24
20 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAATTTTATAAAAAT
Found at i:83158891 original size:22 final size:21
Alignment explanation
Indices: 83158863--83158903 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
83158853 CTTGTTTTGA
83158863 TTTTTTATGAGTCTTTATAAAT
1 TTTTTTATGAGT-TTTATAAAT
*
83158885 TTTTTTATTAGTTTTATAA
1 TTTTTTATGAGTTTTATAA
83158904 TTATGGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTTTATGAGTTTTATAAAT
Found at i:83159037 original size:9 final size:9
Alignment explanation
Indices: 83159025--83159102 Score: 66
Period size: 9 Copynumber: 8.1 Consensus size: 9
83159015 AATACATTTT
83159025 ATTTTTATA
1 ATTTTTATA
* *
83159034 ATTTATAAGA
1 ATTT-TTATA
83159044 ATTTTTATA
1 ATTTTTATA
83159053 ATTTTTTATA
1 A-TTTTTATA
* *
83159063 CTATTTATA
1 ATTTTTATA
83159072 AGTTTTTATGA
1 A-TTTTTAT-A
83159083 ATTTTTTATA
1 A-TTTTTATA
*
83159093 ACTTTTATA
1 ATTTTTATA
83159102 A
1 A
83159103 GTTTATGTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
9 23 0.42
10 23 0.42
11 9 0.16
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:83159068 original size:12 final size:10
Alignment explanation
Indices: 83159026--83159102 Score: 61
Period size: 10 Copynumber: 7.9 Consensus size: 10
83159016 ATACATTTTA
83159026 TTTTTATAAT
1 TTTTTATAAT
* * *
83159036 TTATAAGAA-
1 TTTTTATAAT
83159045 TTTTTATAAT
1 TTTTTATAAT
*
83159055 TTTTTAT-AC
1 TTTTTATAAT
* *
83159064 TATTTATAAG
1 TTTTTATAAT
83159074 TTTTTATGAAT
1 TTTTTAT-AAT
83159085 TTTTTATAA-
1 TTTTTATAAT
*
83159094 CTTTTATAA
1 TTTTTATAA
83159103 GTTTATGTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
9 21 0.40
10 22 0.42
11 9 0.17
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:83159088 original size:30 final size:29
Alignment explanation
Indices: 83159026--83159106 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 29
83159016 ATACATTTTA
83159026 TTTTTATA--ATTTATAAGAATTTTTATAAT
1 TTTTTATACTATTTATAAG--TTTTTATAAT
83159055 TTTTTATACTATTTATAAGTTTTTATGAAT
1 TTTTTATACTATTTATAAGTTTTTAT-AAT
83159085 TTTTTATAACT-TTTATAAGTTT
1 TTTTTAT-ACTATTTATAAGTTT
83159107 ATGTTAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
29 15 0.31
30 21 0.44
31 12 0.25
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTTTATACTATTTATAAGTTTTTATAAT
Found at i:83180720 original size:6 final size:6
Alignment explanation
Indices: 83180709--83180747 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
83180699 GTCCTTGCAC
* *
83180709 GTGAGG GTGAGG GTGAGG ATGAGG GTGAGG GTGAAG GTG
1 GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTG
83180748 GTGGAAGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.62, T:0.18
Consensus pattern (6 bp):
GTGAGG
Found at i:83181755 original size:47 final size:48
Alignment explanation
Indices: 83181686--83181782 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
83181676 GTAAAGGTCC
83181686 TTTGAACATTCCTTTTATATATAGGTATATAGAT-AAAACACACAAAT
1 TTTGAACATTCCTTTTATATATAGGTATATAGATAAAAACACACAAAT
83181733 TTTGAACATTCCTTTTATATATAGGTATATAGATAAAAACACACAAAT
1 TTTGAACATTCCTTTTATATATAGGTATATAGATAAAAACACACAAAT
83181781 TT
1 TT
83181783 AGTTCACAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 34 0.69
48 15 0.31
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (48 bp):
TTTGAACATTCCTTTTATATATAGGTATATAGATAAAAACACACAAAT
Found at i:83188808 original size:24 final size:24
Alignment explanation
Indices: 83188753--83188809 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
83188743 TAATGAAAAA
* *
83188753 TATTGGTGTATTCAAGGGTTGTGT
1 TATTGGTGTATTCAAGGGTTGCGC
* **
83188777 TATCGGTGTATTGGAGGGTTGCGC
1 TATTGGTGTATTCAAGGGTTGCGC
83188801 TATTGGTGT
1 TATTGGTGT
83188810 GTTCGATATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.07, G:0.37, T:0.42
Consensus pattern (24 bp):
TATTGGTGTATTCAAGGGTTGCGC
Found at i:83197180 original size:19 final size:19
Alignment explanation
Indices: 83197158--83197194 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
83197148 TCGTGGAATA
83197158 ATTACTTA-ATACATGAAAC
1 ATTACTTATA-ACATGAAAC
83197177 ATTACTTATAACATGAAA
1 ATTACTTATAACATGAAA
83197195 ATTTTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTACTTATAACATGAAAC
Found at i:83203989 original size:20 final size:20
Alignment explanation
Indices: 83203964--83204001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83203954 CGTGGAATGA
* *
83203964 ATGTCTTTGGTGGGACAACG
1 ATGTCTATGATGGGACAACG
83203984 ATGTCTATGATGGGACAA
1 ATGTCTATGATGGGACAA
83204002 ACCTTGCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (20 bp):
ATGTCTATGATGGGACAACG
Found at i:83217587 original size:16 final size:15
Alignment explanation
Indices: 83217553--83217587 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
83217543 GGAGGAACTA
83217553 CTCTTTTTTTTTTCT
1 CTCTTTTTTTTTTCT
83217568 -TCTTTTTTTTTTCCT
1 CTCTTTTTTTTTT-CT
83217583 CTCTT
1 CTCTT
83217588 AAAAATGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.67
15 2 0.11
16 4 0.22
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTCTTTTTTTTTTCT
Found at i:83217710 original size:2 final size:2
Alignment explanation
Indices: 83217703--83217741 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
83217693 TTTCATCTTC
83217703 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
83217742 CATTCAACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:83227084 original size:46 final size:46
Alignment explanation
Indices: 83227034--83227206 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
83227024 TTGAGCATCT
* *
83227034 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
83227080 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GG-TG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * * *
83227127 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
83227173 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83227207 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:83227187 original size:93 final size:93
Alignment explanation
Indices: 83227028--83227198 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
83227018 GGATGGTTGA
* * * * **
83227028 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
83227093 TGAGTCCGAGTTCGTGAGGTGTAACTAG
66 TGAGTCCGAGTTCGTGAGGTGTAACTAG
* *
83227121 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
83227186 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
83227199 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGGTGTAACTAG
Found at i:83229615 original size:13 final size:13
Alignment explanation
Indices: 83229597--83229622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83229587 GGTTTTCTCC
83229597 AAAATGAAAATGA
1 AAAATGAAAATGA
83229610 AAAATGAAAATGA
1 AAAATGAAAATGA
83229623 CTTGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:83231167 original size:13 final size:13
Alignment explanation
Indices: 83231149--83231176 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83231139 TTTTAGACCT
83231149 TGGTTACCATATG
1 TGGTTACCATATG
83231162 TGGTTACCATATG
1 TGGTTACCATATG
83231175 TG
1 TG
83231177 AATATAAAAA
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:0.21, C:0.14, G:0.25, T:0.39
Consensus pattern (13 bp):
TGGTTACCATATG
Found at i:83234383 original size:48 final size:48
Alignment explanation
Indices: 83234243--83234815 Score: 542
Period size: 48 Copynumber: 12.0 Consensus size: 48
83234233 GACAATTAGG
* *
83234243 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-T
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * * * * *
83234290 ACATTATGAGAGCAAGTGCAAGACCATGACT-AGACATGGCATCGGCGT
1 TGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * **
83234338 TGATATGTGTGCCAGTGTAGGACCATGTCTGGAATATTTCATCGGCGT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * *
83234386 TGATATGTGTGCTAGTGTAAGACCATGTATGGGACATGGCATCTGTGT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
*
83234434 TGATATGTGTGCCAGTGTAAGACCATGTCTTGGACATGGCATCGGCGT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* *
83234482 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * * **
83234529 ACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCAACGT
1 TGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * *
83234578 TGATACGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * ** * *
83234625 ACATTATGAGAACCAGTGTAAAACCATGTCTGGGACATGGCATCGGCAT
1 TGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * * * * ** *
83234674 TGAGACGAGAGCTAGTGTAAAACCATGTCTGGGATATGGCATCAACAT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * * *
83234722 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * * *
83234770 CAACATGTGAGCCAGGGTAAGACCATGTCTGGGACATGGAATCGGC
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
83234816 AATTTACCCT
Statistics
Matches: 430, Mismatches: 89, Indels: 13
0.81 0.17 0.02
Matches are distributed among these distances:
47 37 0.09
48 391 0.91
49 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
Found at i:83239746 original size:29 final size:30
Alignment explanation
Indices: 83239682--83239747 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
83239672 AGTGAAACAG
* *
83239682 TAGTAAAATAGTGAAAAACAACAAAATAGA
1 TAGTAAAACAGTAAAAAACAACAAAATAGA
*
83239712 -AATAAAACAGTAAAAAACAACAAGAA-A-A
1 TAGTAAAACAGTAAAAAACAACAA-AATAGA
83239740 TAGTAAAA
1 TAGTAAAA
83239748 AAAGTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 1 0.03
29 27 0.90
30 2 0.07
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.14
Consensus pattern (30 bp):
TAGTAAAACAGTAAAAAACAACAAAATAGA
Found at i:83241041 original size:19 final size:19
Alignment explanation
Indices: 83240999--83241060 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
83240989 TTACAAAAAA
* *
83240999 AAATAATTTTCAAATATTCA
1 AAATAATTTT-AAAAATTCT
*
83241019 AAATAATTTTTAAAATTCT
1 AAATAATTTTAAAAATTCT
83241038 AAAT-ATTTATAAAAATTCT
1 AAATAATTT-TAAAAATTCT
83241057 AAAT
1 AAAT
83241061 TTTATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 4 0.11
19 23 0.62
20 10 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATAATTTTAAAAATTCT
Found at i:83241050 original size:18 final size:18
Alignment explanation
Indices: 83241014--83241066 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
83241004 ATTTTCAAAT
* *
83241014 ATTCAAAATAATTTTTAAA
1 ATTCTAAAT-ATTTATAAA
83241033 ATTCTAAATATTTATAAAA
1 ATTCTAAATATTTAT-AAA
83241052 ATTCTAAAT-TTTATA
1 ATTCTAAATATTTATA
83241067 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 1 0.03
18 10 0.32
19 20 0.65
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTCTAAATATTTATAAA
Found at i:83241062 original size:35 final size:34
Alignment explanation
Indices: 83241026--83241093 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
83241016 TCAAAATAAT
83241026 TTTTAAAATTCT-AAATATTTATAAAAATTCTAAA
1 TTTTAAAATTCTAAAATATTTATAAAAA-TCTAAA
* * * *
83241060 TTTTATATTTTTAAAATTTTTATAAAAATCTAAA
1 TTTTAAAATTCTAAAATATTTATAAAAATCTAAA
83241094 GAATATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (34 bp):
TTTTAAAATTCTAAAATATTTATAAAAATCTAAA
Found at i:83245322 original size:131 final size:131
Alignment explanation
Indices: 83245129--83245779 Score: 650
Period size: 131 Copynumber: 5.0 Consensus size: 131
83245119 AGTTTCACAA
* * *
83245129 TTATTAAGAATTCTTTAAAACGAAGGCGATTTTCGAT-TCTTGGCAATTCGTGGAATCGTGCCCT
1 TTATTAAAAATCCTTTAAAACGAAGGCGATATTCGATGT-TTGGCAATTCG-GGAATCGTGCCCT
* * *** * ** *
83245193 AACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTGATCGAAGGTCCCTTTAGAATTTCACCCA
64 ATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTTAGAATTTCACTCA
83245258 TGT
129 TGT
* * * * *
83245261 CTT-TTAAAAATCCCTT-AAACGAAGACGATATACGATATTTGGTAATTCGCGGAATCGTGCCCT
1 -TTATTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCG-GGAATCGTGCCCT
* * * * * * *
83245324 AACGTGCTGGGTTGCAATTTCCCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCA
64 ATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTTAGAATTTCACTCA
83245389 TGT
129 TGT
* * * * * * *
83245392 CTT-CTAAAAATCCTTTAAAACGAAGGCAATATTCGGTTTTTGACAATTCGAGAATCATGCCCTA
1 -TTATTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTA
** * *
83245456 TCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCAAATATTCCTTTAGATTTTCACTCAT
65 TCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTTAGAATTTCACTCAT
83245521 GT
130 GT
* * * * * *
83245523 TTATT-AAAATCCTTTAAAATGAAGACAATATTCGGTGTTTGACAATTCGGGAATCATGCCCTAT
1 TTATTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
** * * *
83245587 CGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATG
66 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATG
83245652 T
131 T
* ** * *
83245653 TTATTAAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTTGGTGATTTGAGAATCGTGCCCTA
1 TTATTAAAAATCCTTT-AAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTA
** * * * * * **
83245717 TCGTGCTGGGTTGCGCTTTTTCATTTG-TCCAAAATAATCGAAGATCCCTTCGGAATTTCACTC
65 TCGTGCTGGGTTGCAATTTCTCGTTTGCT-CAAAACAATCAAATATCCCTTTAGAATTTCACTC
83245780 GTATTTTCTA
Statistics
Matches: 443, Mismatches: 69, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
130 133 0.30
131 271 0.61
132 37 0.08
133 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (131 bp):
TTATTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATG
T
Found at i:83245778 original size:261 final size:261
Alignment explanation
Indices: 83245141--83245779 Score: 698
Period size: 261 Copynumber: 2.4 Consensus size: 261
83245131 ATTAAGAATT
* * *
83245141 CTTTAAAACGAAGGCGATTTTCGATTCTTGGCAATTCGTG-GAATCGTGCCCTAACGTGTTGGGT
1 CTTTAAAACGAAGGCGATATTCGATT-TTGGCAATT--TGAGAATCGTGCCCTATCGTGCTGGGT
* * * * *
83245205 TGCAATTTCTCGTTTGCTCAAAGTGATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAA
63 TGCGATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTTTTAAAA
* ** *
83245270 ATCCCTTAAACGAAGACGATATACGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGCTGGG
128 ATCCCTTAAACGAAGACAATATACGATATTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGG
* *
83245335 TTGCAATTTCCCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAA
193 TTGCAATTTCCCATTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAA
83245400 AATC
258 AATC
* * * * *
83245404 CTTTAAAACGAAGGCAATATTCGGTTTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTG
1 CTTTAAAACGAAGGCGATATTC-GATTTTGGCAATTTGAGAATCGTGCCCTATCGTGCTGGGTTG
* * * * * *
83245469 TGATTTCTCGTTTGCTCAAAACAATCAAATATTCCTTTAGATTTTCACTCATGT-TTATT-AAAA
65 CGATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTT-TTAAAAA
* * * * * *
83245532 TCCTTTAAAATGAAGACAATATTCGGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGG
129 TCCCTT-AAACGAAGACAATATACGATATTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGG
** * * * * * * * *
83245596 TTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGT-TTATTAA
193 TTGCAATTTCCCATTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCACTCATGTCTT-CTAA
83245660 AAA-C
257 AAATC
* **
83245664 CTTTCAAAACGAAGGCGATGTTCGATGTTTGGTGATTTGAGAATCGTGCCCTATCGTGCTGGGTT
1 CTTT-AAAACGAAGGCGATATTCGAT-TTTGGCAATTTGAGAATCGTGCCCTATCGTGCTGGGTT
* * * **
83245729 GCGCTTTTTCATTTG-TCCAAAATAATCGAAGATCCCTTCGGAATTTCACTC
64 GCGATTTCTCGTTTGCT-CAAAATAATCGAAGATCCCTTTAGAATTTCACTC
83245780 GTATTTTCTA
Statistics
Matches: 308, Mismatches: 60, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
260 10 0.03
261 173 0.56
262 94 0.31
263 28 0.09
264 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (261 bp):
CTTTAAAACGAAGGCGATATTCGATTTTGGCAATTTGAGAATCGTGCCCTATCGTGCTGGGTTGC
GATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTTTTAAAAATC
CCTTAAACGAAGACAATATACGATATTTGACAATTCGCGGAATCATGCCCTAACGTGCTGGGTTG
CAATTTCCCATTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAAT
C
Found at i:83254598 original size:128 final size:130
Alignment explanation
Indices: 83254430--83254684 Score: 365
Period size: 128 Copynumber: 2.0 Consensus size: 130
83254420 GAATATCGCC
* *
83254430 TTCGTTTTGAAGGGTTTTTAATAAACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGC
1 TTCGTTTTGAAGGGATTTTAATAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGC
* *
83254495 AAACGA-TAAATTGTAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCAAATCAC
66 AAAC-ACGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCAAATCAC
83254559 A
130 A
* *
83254560 TTCG-TTT-AAGGGATTTTAA-AAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAG
1 TTCGTTTTGAAGGGATTTTAATAA-ACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAG
* * * * *
83254622 CAAACACGAAATTGCAACCTAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATGTCAAATC
65 CAAACACGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCAAATC
83254685 TAGTCTTCGT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
127 3 0.03
128 102 0.91
129 3 0.03
130 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (130 bp):
TTCGTTTTGAAGGGATTTTAATAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGC
AAACACGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCAAATCACA
Found at i:83258443 original size:131 final size:132
Alignment explanation
Indices: 83258082--83258466 Score: 524
Period size: 132 Copynumber: 2.9 Consensus size: 132
83258072 GCAATCTTCG
* * * * * *
83258082 GCCTACTCCGTTACAACCTTAGGGCGCTAGGATAGTGGCTTGAATCTTGCTTCACTACAATTTCA
1 GCCTACTCCGCTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATC-TGCTTCACTATAACTTCA
* * * * *
83258147 GGAAGACTAGATTCACCGTCTTTGATCTGC-TCTACTGCAACCTCA-AGGAGACAAGATCTAAAA
65 GGAAGCCAAGATTCACCGTCTTCGATCTGCTTC-ACTGCAACTTCAGGGGA-ACAAGATCTAAAA
83258210 TTTCA
128 TTTCA
* * *
83258215 GCCTACTCCGCTACAACTTTAGGAAGCTAGGTTGGTGGCTTAAATCTGCTTCACTATAACTTCAG
1 GCCTACTCCGCTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTATAACTTCAG
* *
83258280 GAAGCCAAGATTCGCCGTCTTCGATCTACTTCACTGCAACTTCAGGGGAACAAGATCTAAAATTT
66 GAAGCCAAGATTCACCGTCTTCGATCTGCTTCACTGCAACTTCAGGGGAACAAGATCTAAAATTT
83258345 CA
131 CA
* * *
83258347 GCCTACTCCACTACAACTTTAGGGAGCTAGG-TAGTGGTTTAAATCTGCTTCACTGTAACTTCAG
1 GCCTACTCCGCTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTATAACTTCAG
* * *
83258411 GAAGCCAAGATTCACCGTCTTCGATCTGCTTCACTGTAACTTTAGGGAAACAAGAT
66 GAAGCCAAGATTCACCGTCTTCGATCTGCTTCACTGCAACTTCAGGGGAACAAGAT
83258467 TTGTAGGATT
Statistics
Matches: 224, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
131 81 0.36
132 99 0.44
133 44 0.20
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GCCTACTCCGCTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTATAACTTCAG
GAAGCCAAGATTCACCGTCTTCGATCTGCTTCACTGCAACTTCAGGGGAACAAGATCTAAAATTT
CA
Found at i:83270384 original size:128 final size:129
Alignment explanation
Indices: 83270144--83270414 Score: 395
Period size: 128 Copynumber: 2.1 Consensus size: 129
83270134 TCGAACATCG
* *
83270144 CCTTCGTTTTGAAGGGTTTTTAATAAACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAA
1 CCTTCG-TTT-AAGGGATTTTAATAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAA
*
83270209 GCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCAAA-TC
64 GCAAACGAGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAACTC
83270273 A
129 A
* *
83270274 CCTTCGTTTAAGGGATTTTAA-AAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAG
1 CCTTCGTTTAAGGGATTTTAATAA-ACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAG
* * *
83270338 CAAAC-ACGAAATTGCAACCTAGCACGTTAGGGCACAATTCCGCGAATTGCCAAATATCAAATCT
65 CAAACGA-GAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAA-CT
83270402 CA
128 CA
*
83270404 TCTTCGTTTAA
1 CCTTCGTTTAA
83270415 AAGAATTTAT
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
127 3 0.02
128 103 0.80
129 3 0.02
130 19 0.15
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (129 bp):
CCTTCGTTTAAGGGATTTTAATAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGC
AAACGAGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAACTCA
Found at i:83273374 original size:26 final size:26
Alignment explanation
Indices: 83273345--83273411 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
83273335 ATTTGGACTT
*
83273345 TTGGGTTTGGGTTTAAGTTTGGGCCA
1 TTGGGTTTGGTTTTAAGTTTGGGCCA
83273371 TTGGGTTTGGTTTTAAGTTTGGGCCA
1 TTGGGTTTGGTTTTAAGTTTGGGCCA
83273397 TTGGGTTTGGTTTTA
1 TTGGGTTTGGTTTTA
83273412 GGATATTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.10, C:0.06, G:0.36, T:0.48
Consensus pattern (26 bp):
TTGGGTTTGGTTTTAAGTTTGGGCCA
Found at i:83282356 original size:28 final size:28
Alignment explanation
Indices: 83282325--83282380 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
83282315 TTTCTAATTA
* * *
83282325 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
83282353 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
83282381 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:83282477 original size:14 final size:14
Alignment explanation
Indices: 83282432--83282496 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
83282422 TTATTTTATC
*
83282432 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
83282447 AAATTATATTATATT
1 ATA-TATTTTATTTT
83282462 ATATATTTTATTTT
1 ATATATTTTATTTT
*
83282476 ATATA-TTT-CTTT
1 ATATATTTTATTTT
83282488 ATATATTTT
1 ATATATTTT
83282497 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:83282829 original size:15 final size:15
Alignment explanation
Indices: 83282811--83282863 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
83282801 TCTATCTTTC
83282811 TTATATTTTTATATA
1 TTATATTTTTATATA
*
83282826 TTATTTTTTTATACTA
1 TTATATTTTTATA-TA
*
83282842 TT-TATTTTACTATATT
1 TTATATTTT--TATATA
83282858 TTATAT
1 TTATAT
83282864 GCAAATTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 17 0.55
16 7 0.23
17 7 0.23
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTTTATATA
Found at i:83282832 original size:13 final size:13
Alignment explanation
Indices: 83282814--83282863 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
83282804 ATCTTTCTTA
*
83282814 TATTTTTATATAT
1 TATTTTTATATAC
*
83282827 TATTTTTTTATAC
1 TATTTTTATATAC
83282840 TATTTATT-T-TAC
1 TATTT-TTATATAC
83282852 TATATTTTATAT
1 TAT-TTTTATAT
83282864 GCAAATTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 8 0.26
13 20 0.65
14 3 0.10
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTTATATAC
Found at i:83284216 original size:14 final size:14
Alignment explanation
Indices: 83284197--83284229 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
83284187 CAAACTAACC
83284197 CCTAACCC-AATAAA
1 CCTAACCCGAAT-AA
83284211 CCTAACCCGAATAA
1 CCTAACCCGAATAA
83284225 CCTAA
1 CCTAA
83284230 TAATCCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.45, C:0.36, G:0.03, T:0.15
Consensus pattern (14 bp):
CCTAACCCGAATAA
Found at i:83284249 original size:23 final size:23
Alignment explanation
Indices: 83284200--83284252 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
83284190 ACTAACCCCT
*
83284200 AACCCAATAAACCTAACCCGAAT
1 AACCCAATAAACCTAACCCGAAG
* *
83284223 AACCTAATAATCCTAACCC-AAGG
1 AACCCAATAAACCTAACCCGAA-G
83284246 AACCCAA
1 AACCCAA
83284253 AAGCCCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.47, C:0.34, G:0.06, T:0.13
Consensus pattern (23 bp):
AACCCAATAAACCTAACCCGAAG
Found at i:83290000 original size:15 final size:16
Alignment explanation
Indices: 83289982--83290014 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
83289972 GTTTTAAATA
*
83289982 AATAACTTT-TATTTT
1 AATAAATTTATATTTT
83289997 AATAAATTTATATTTT
1 AATAAATTTATATTTT
83290013 AA
1 AA
83290015 ATTGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATAAATTTATATTTT
Found at i:83292334 original size:106 final size:106
Alignment explanation
Indices: 83292163--83292412 Score: 358
Period size: 106 Copynumber: 2.4 Consensus size: 106
83292153 AATAGAGTGA
* * *
83292163 TAACTACACCACACCCAAAG-ACCGTAATGCAAAGCCCGTAGGCACAAATATCCTATCATGTAAT
1 TAACTACACCACA-CCAAAGCACCATAGTGCAAAGCTCGTAGGCACAAATATCCTATCATGTAAT
**
83292227 ATATTTCATCCCTCCATTACACCAAATGGCTCAAAAAAGAGT
65 ATATTTCATCCCTCCACCACACCAAATGGCTCAAAAAAGAGT
* * * *
83292269 TAACTACACCACATCAAGGCATCATAGTGCAAAGCTCGTATGCACAAATATCCTATCATGTAATA
1 TAACTACACCACACCAAAGCACCATAGTGCAAAGCTCGTAGGCACAAATATCCTATCATGTAATA
* * * *
83292334 TATTTCATCCCTTCACCATACCAAATGGCTTAAAAAAGTGT
66 TATTTCATCCCTCCACCACACCAAATGGCTCAAAAAAGAGT
*
83292375 TAACTACACCACACCAAAGCACCATAGTACAAAGCTCG
1 TAACTACACCACACCAAAGCACCATAGTGCAAAGCTCG
83292413 GTAATCCATA
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
105 4 0.03
106 122 0.97
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (106 bp):
TAACTACACCACACCAAAGCACCATAGTGCAAAGCTCGTAGGCACAAATATCCTATCATGTAATA
TATTTCATCCCTCCACCACACCAAATGGCTCAAAAAAGAGT
Found at i:83294470 original size:27 final size:26
Alignment explanation
Indices: 83294440--83294524 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
83294430 AATATGTATA
*
83294440 TATAAAAATTGTTTGAAATAAATAATG
1 TATAAAAA-TATTTGAAATAAATAATG
* * *
83294467 TAT-AAAATATCTAAAATAAATAATA
1 TATAAAAATATTTGAAATAAATAATG
* *
83294492 TGTAAAAGAAATTTGAAATAAATAATG
1 TATAAAA-ATATTTGAAATAAATAATG
83294519 TATAAA
1 TATAAA
83294525 CCGTTTAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 16 0.35
26 7 0.15
27 23 0.50
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (26 bp):
TATAAAAATATTTGAAATAAATAATG
Found at i:83309114 original size:58 final size:58
Alignment explanation
Indices: 83309039--83309150 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
83309029 GTCAATGTTT
*
83309039 TTTGTCAAGTGTTCTTTATCTT-CTTTAACAACTGATAACTTGAGACTTCCAATCATTA
1 TTTGACAAGTGTTCTTTATCTTAC-TTAACAACTGATAACTTGAGACTTCCAATCATTA
* *
83309097 TTTGACAAGTGTTCTTTATCTTACTTAACAGCTGATAACTTGGGACTTCCAATC
1 TTTGACAAGTGTTCTTTATCTTACTTAACAACTGATAACTTGAGACTTCCAATC
83309151 GATAACTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (58 bp):
TTTGACAAGTGTTCTTTATCTTACTTAACAACTGATAACTTGAGACTTCCAATCATTA
Found at i:83309154 original size:21 final size:21
Alignment explanation
Indices: 83309130--83309171 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
83309120 CTTAACAGCT
83309130 GATAACTTGGGACTTCCAATC
1 GATAACTTGGGACTTCCAATC
83309151 GATAACTTGGGACTTCCAATC
1 GATAACTTGGGACTTCCAATC
83309172 ATTATTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (21 bp):
GATAACTTGGGACTTCCAATC
Found at i:83309168 original size:79 final size:79
Alignment explanation
Indices: 83309072--83309229 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
83309062 TTTAACAACT
83309072 GATAACTTGAGACTTCCAATCATTATTTGACAAGTGTTCTTTATCTTAC-TTAACAGCTGATAAC
1 GATAACTTGAGACTTCCAATCATTATTTGACAAGTGTTCTTTATCTT-CTTTAACAGCTGATAAC
83309136 TTGGGACTTCCAATC
65 TTGGGACTTCCAATC
* *
83309151 GATAACTTGGGACTTCCAATCATTATTTGACAAGTGTTCTTTATCTTCTTTGACAGCTGATAACT
1 GATAACTTGAGACTTCCAATCATTATTTGACAAGTGTTCTTTATCTTCTTTAACAGCTGATAACT
*
83309216 TGGGGCTTCCAATC
66 TGGGACTTCCAATC
83309230 ATTCTTTGAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 74 0.99
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (79 bp):
GATAACTTGAGACTTCCAATCATTATTTGACAAGTGTTCTTTATCTTCTTTAACAGCTGATAACT
TGGGACTTCCAATC
Found at i:83322572 original size:21 final size:22
Alignment explanation
Indices: 83322548--83322588 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
83322538 GTTTTATTTA
*
83322548 TTATT-GCATTTATTTTTTTCT
1 TTATTAGCATTTATTATTTTCT
*
83322569 TTATTAGTATTTATTATTTT
1 TTATTAGCATTTATTATTTT
83322589 ATTGGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTAGCATTTATTATTTTCT
Found at i:83325319 original size:21 final size:21
Alignment explanation
Indices: 83325293--83325344 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
83325283 GAAGCAGTAT
83325293 ACGACACATAAAGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
**** *
83325314 ACGACACACGTGGTGCCTAAT
1 ACGACACATAAAGTGCCTAAA
83325335 ACGACACATA
1 ACGACACATA
83325345 TAGCGTTTGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.15
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:83325826 original size:11 final size:11
Alignment explanation
Indices: 83325797--83325830 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
83325787 CATTTAATAT
83325797 TTAAATTTCTTA
1 TTAAATTTC-TA
83325809 TTAAATTTCTA
1 TTAAATTTCTA
*
83325820 TTCAATTTCTA
1 TTAAATTTCTA
83325831 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAAATTTCTA
Found at i:83326290 original size:27 final size:27
Alignment explanation
Indices: 83326260--83326314 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
83326250 CCTTCTTTCC
*
83326260 TGTTTCCAGTGCTTTTTGTTTCTTTTA
1 TGTTTCCAGTCCTTTTTGTTTCTTTTA
****
83326287 TGTTTTGTTTCCTTTTTGTTTCTTTTA
1 TGTTTCCAGTCCTTTTTGTTTCTTTTA
83326314 T
1 T
83326315 TACATGCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.05, C:0.13, G:0.13, T:0.69
Consensus pattern (27 bp):
TGTTTCCAGTCCTTTTTGTTTCTTTTA
Found at i:83326292 original size:16 final size:16
Alignment explanation
Indices: 83326273--83326307 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
83326263 TTCCAGTGCT
83326273 TTTTGTTT-CTTTTATG
1 TTTTGTTTCCTTTT-TG
83326289 TTTTGTTTCCTTTTTG
1 TTTTGTTTCCTTTTTG
83326305 TTT
1 TTT
83326308 CTTTTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.03, C:0.09, G:0.11, T:0.77
Consensus pattern (16 bp):
TTTTGTTTCCTTTTTG
Found at i:83326378 original size:15 final size:15
Alignment explanation
Indices: 83326358--83326396 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
83326348 TAATATAATC
83326358 ATTTAATAAATATCT
1 ATTTAATAAATATCT
83326373 ATTTAATAAATATCT
1 ATTTAATAAATATCT
83326388 ATTTAATAA
1 ATTTAATAA
83326397 TTAATTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAATAAATATCT
Found at i:83327922 original size:25 final size:25
Alignment explanation
Indices: 83327861--83327923 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
83327851 ATTCATGTAT
* * *
83327861 GCTCATACGAGCTATGAATCAGTAT
1 GCTCATACGAGCTATAAATCAGAAA
* *
83327886 GCTC-TCATGAGCTATAAATCGGAAA
1 GCTCAT-ACGAGCTATAAATCAGAAA
83327911 GCTCATACGAGCT
1 GCTCATACGAGCT
83327924 GTAGTGTGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCAGAAA
Found at i:83329389 original size:18 final size:18
Alignment explanation
Indices: 83329368--83329402 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
83329358 AAAAATCACA
83329368 TTTTTATATTT-AAAATAT
1 TTTTTA-ATTTCAAAATAT
83329386 TTTTTAATTTCAAAATA
1 TTTTTAATTTCAAAATA
83329403 CATTGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAATTTCAAAATAT
Found at i:83333501 original size:15 final size:15
Alignment explanation
Indices: 83333469--83333497 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
83333459 ATTTTATATG
83333469 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
83333484 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
83333498 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:83334696 original size:45 final size:44
Alignment explanation
Indices: 83334618--83334750 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 44
83334608 ATAGGATCCA
* **
83334618 ATATGTGTTTTCGTGTAAGACCACATCTT-GGACATTGGCATCGAT
1 ATATGTG-ATTCGTGTAAGACCATGT-TTGGGACATTGGCATCGAT
* * *
83334663 ATATGTGGTTACGTGTAAGACCATGTTTGGGACATCGGCGTCG-T
1 ATATGTGATT-CGTGTAAGACCATGTTTGGGACATTGGCATCGAT
* * * * *
83334707 AT-T-TAATTCGTGTAAGACCCTGTCTGGGACAGTGACATCGAT
1 ATATGTGATTCGTGTAAGACCATGTTTGGGACATTGGCATCGAT
83334749 AT
1 AT
83334751 GTGACAGCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
41 26 0.36
42 6 0.08
43 1 0.01
44 7 0.10
45 32 0.44
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
ATATGTGATTCGTGTAAGACCATGTTTGGGACATTGGCATCGAT
Found at i:83337705 original size:32 final size:32
Alignment explanation
Indices: 83337669--83337733 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
83337659 TAGATAGGGG
83337669 AACACCATGTAATCTCACAATTTCAAAAATAT
1 AACACCATGTAATCTCACAATTTCAAAAATAT
*
83337701 AACACCATGTAATCTCACAATTTCGAAAATAT
1 AACACCATGTAATCTCACAATTTCAAAAATAT
83337733 A
1 A
83337734 CAACTCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.28
Consensus pattern (32 bp):
AACACCATGTAATCTCACAATTTCAAAAATAT
Found at i:83348029 original size:13 final size:13
Alignment explanation
Indices: 83348011--83348055 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
83348001 TATATATTAT
83348011 CAATTCACATATA
1 CAATTCACATATA
* **
83348024 CAATTCATACCTA
1 CAATTCACATATA
83348037 -AATTCACATATA
1 CAATTCACATATA
83348049 CAATTCA
1 CAATTCA
83348056 ATCAACTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (13 bp):
CAATTCACATATA
Found at i:83350542 original size:29 final size:31
Alignment explanation
Indices: 83350489--83350559 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
83350479 TATTGTCTAT
83350489 ATTTTTAT-ATTTTTTAAAAGATT-AAATCA-A
1 ATTTTTATCA-TTTTTAAAAGATTAAAAT-ATA
*
83350519 ATTTTTATCATTTTTAAGAG-TTAAAATATA
1 ATTTTTATCATTTTTAAAAGATTAAAATATA
83350549 A-TTTTATCATT
1 ATTTTTATCATT
83350560 ACTAATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 13 0.35
30 23 0.62
31 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (31 bp):
ATTTTTATCATTTTTAAAAGATTAAAATATA
Found at i:83355249 original size:17 final size:17
Alignment explanation
Indices: 83355208--83355242 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
83355198 TTCTTATACA
*
83355208 AATTTGACATTTATTCC
1 AATTTGATATTTATTCC
83355225 AATTTGATATTTATTCC
1 AATTTGATATTTATTCC
83355242 A
1 A
83355243 TTATGATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
AATTTGATATTTATTCC
Found at i:83363201 original size:23 final size:23
Alignment explanation
Indices: 83363166--83363211 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
83363156 AATGCAACAA
* * *
83363166 GAGACCAGTAGCAGTTCAGCATG
1 GAGACCAGCAGCAGCTCAACATG
*
83363189 GAGACTAGCAGCAGCTCAACATG
1 GAGACCAGCAGCAGCTCAACATG
83363212 AAGATCAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.28, T:0.15
Consensus pattern (23 bp):
GAGACCAGCAGCAGCTCAACATG
Found at i:83363964 original size:34 final size:37
Alignment explanation
Indices: 83363896--83363964 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
83363886 TTAGTATCTA
83363896 TATTCTAATATTTATTATTTATCATTTTAAATAAAATT
1 TATTCTAATATTTATTA-TTATCATTTTAAATAAAATT
*
83363934 TATTCTAATATTT-TTA-TAT-ATTTTATATAAA
1 TATTCTAATATTTATTATTATCATTTTAAATAAA
83363965 TTGTTTCACC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.37
35 3 0.10
37 3 0.10
38 13 0.43
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (37 bp):
TATTCTAATATTTATTATTATCATTTTAAATAAAATT
Found at i:83364986 original size:16 final size:17
Alignment explanation
Indices: 83364965--83365016 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 17
83364955 GAGTGGAAAG
83364965 AAAATTAGAAAGA-TGA
1 AAAATTAGAAAGAGTGA
*
83364981 AAAATTA-AAAAAGTGA
1 AAAATTAGAAAGAGTGA
* *
83364997 AAAAATAGAAAGATTGA
1 AAAATTAGAAAGAGTGA
83365014 AAA
1 AAA
83365017 TATAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 4 0.13
16 16 0.53
17 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.17
Consensus pattern (17 bp):
AAAATTAGAAAGAGTGA
Found at i:83377525 original size:48 final size:48
Alignment explanation
Indices: 83377461--83377558 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
83377451 ATTAGCCGAG
*
83377461 AAAAAGTAACCTTTTACCATCAGGGGAAAATTTTTACAAATTTTATCT
1 AAAAAATAACCTTTTACCATCAGGGGAAAATTTTTACAAATTTTATCT
*
83377509 AAAAAATAACCTTTTACCATCAGGGGAAAATTTTTACAACTTTTATCT
1 AAAAAATAACCTTTTACCATCAGGGGAAAATTTTTACAAATTTTATCT
83377557 AA
1 AA
83377559 CATCACATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (48 bp):
AAAAAATAACCTTTTACCATCAGGGGAAAATTTTTACAAATTTTATCT
Found at i:83381270 original size:18 final size:18
Alignment explanation
Indices: 83381231--83381265 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
83381221 TAATAAGGGC
83381231 AAAA-GTGTAATTTTGTA
1 AAAATGTGTAATTTTGTA
83381248 AAAATGTGTAACTTTTGT
1 AAAATGTGTAA-TTTTGT
83381266 TAAATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (18 bp):
AAAATGTGTAATTTTGTA
Found at i:83381699 original size:43 final size:42
Alignment explanation
Indices: 83381556--83381729 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 42
83381546 GATTGTCGAG
*
83381556 ATGAGATTACATGTAAAACCATGTCT-GGACATTGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
* * * * * *
83381597 ATTGTGATTACGTGTAAGACGATGTCTAGAACATTGGCATCGTT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
*** * *
83381641 AT-ATGATTTTGTGTAAGACCGTGTCTGGGACATTGGCATCTAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGT
* * *
83381684 ATGAGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
83381725 ATGAG
1 ATGAG
83381730 CTTTATGTGA
Statistics
Matches: 104, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
41 8 0.08
42 27 0.26
43 66 0.63
44 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:83388573 original size:41 final size:39
Alignment explanation
Indices: 83388528--83388637 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 39
83388518 TGACTTCGAG
*
83388528 TCGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAA
1 TCGATGAGACACTGGGTGCCAATTTACTACTTT-GATTAA
* * *
83388568 TTCGATGAGGCACTGGGTGCCAATTTACT--TCTGTTTAA
1 -TCGATGAGACACTGGGTGCCAATTTACTACTTTGATTAA
* *
83388606 CCAATGAGACACTGGGTGCCAATTTACTACTT
1 TCGATGAGACACTGGGTGCCAATTTACTACTT
83388638 CGAATTATCC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 25 0.42
38 5 0.08
39 3 0.05
41 26 0.44
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGCCAATTTACTACTTTGATTAA
Found at i:83388650 original size:40 final size:38
Alignment explanation
Indices: 83388531--83388667 Score: 141
Period size: 37 Copynumber: 3.5 Consensus size: 38
83388521 CTTCGAGTCG
* * *
83388531 ATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATTCG
1 ATGAGACACTGGGTGCCAATTTACTAC-TT-GATT-ATCCA
* * * *
83388572 ATGAGGCACTGGGTGCCAATTTACTTC-TGTTTAACCA
1 ATGAGACACTGGGTGCCAATTTACTACTTGATTATCCA
83388609 ATGAGACACTGGGTGCCAATTTACTACTTCGAATTATCCA
1 ATGAGACACTGGGTGCCAATTTACTACTT-G-ATTATCCA
* *
83388649 ATGAGGCATTGGGTGCCAA
1 ATGAGACACTGGGTGCCAA
83388668 ACTAGTGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 27 0.34
38 4 0.05
39 2 0.03
40 23 0.29
41 24 0.30
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (38 bp):
ATGAGACACTGGGTGCCAATTTACTACTTGATTATCCA
Found at i:83394932 original size:57 final size:57
Alignment explanation
Indices: 83394846--83394963 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 57
83394836 GGAAATGGTG
* *
83394846 AAATAGAGAAATAGGAAATATTTGAAAATGATTATGGTTTTCT-TCAAAATGAAAATGA
1 AAATAGAGAAATA-GAAATATTTGAAAATGAATATGGTTTCCTCT-AAAATGAAAATGA
* * *
83394904 AAATGGAGAAAT-GAAATAATTTGGAAATGAATGTGGTTTCCTCTAAAATGAAAATGA
1 AAATAGAGAAATAGAAAT-ATTTGAAAATGAATATGGTTTCCTCTAAAATGAAAATGA
83394961 AAA
1 AAA
83394964 ATGACCTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 5 0.09
57 36 0.68
58 12 0.23
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (57 bp):
AAATAGAGAAATAGAAATATTTGAAAATGAATATGGTTTCCTCTAAAATGAAAATGA
Found at i:83397367 original size:5 final size:5
Alignment explanation
Indices: 83397357--83397387 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
83397347 TGAATTTTTT
*
83397357 TCGAA TCGAA TCGAA TCGAA TCAAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
83397388 TAAGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:83399682 original size:18 final size:18
Alignment explanation
Indices: 83399661--83399695 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
83399651 ACATAACTGC
83399661 AAATTAGTATCAATACTA
1 AAATTAGTATCAATACTA
83399679 AAATTAGTATCAATACT
1 AAATTAGTATCAATACT
83399696 TTATAGAAGA
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:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATTAGTATCAATACTA
Found at i:83401898 original size:13 final size:13
Alignment explanation
Indices: 83401880--83401904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83401870 CATGTCAAAC
83401880 AAAAGAAAATATA
1 AAAAGAAAATATA
83401893 AAAAGAAAATAT
1 AAAAGAAAATAT
83401905 TCAAGTATGA
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAGAAAATATA
Found at i:83402531 original size:14 final size:14
Alignment explanation
Indices: 83402508--83402541 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
83402498 TACAATATCT
*
83402508 AAATAATAACAATA
1 AAATAGTAACAATA
83402522 AAATAGTAACAATA
1 AAATAGTAACAATA
*
83402536 TAATAG
1 AAATAG
83402542 CAAATAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:83402548 original size:32 final size:28
Alignment explanation
Indices: 83402512--83402571 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
83402502 ATATCTAAAT
83402512 AATAACAATAAAATAGTAACAATATAATAGCA
1 AATAAC-ATAAAA-A-TAACAATA-AATAGCA
*
83402544 AATAACATCAAAATAACAATAAATAGCA
1 AATAACATAAAAATAACAATAAATAGCA
83402572 GTAGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 7 0.26
29 8 0.30
30 1 0.04
31 5 0.19
32 6 0.22
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.20
Consensus pattern (28 bp):
AATAACATAAAAATAACAATAAATAGCA
Found at i:83403536 original size:33 final size:33
Alignment explanation
Indices: 83403499--83403629 Score: 190
Period size: 33 Copynumber: 4.0 Consensus size: 33
83403489 TGGGACCCCG
* * *
83403499 ATTTCCAGGTATTCTAATTCTTGTTGGATCTCT
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
* * *
83403532 ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
83403565 ATTTCCAGGCATTCCAATTCCTGTTGGATCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
83403598 ATTTCCAGGCATTCTAATTTCTGTTGGATCTC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTC
83403630 TATGATCTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (33 bp):
ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
Found at i:83408786 original size:30 final size:29
Alignment explanation
Indices: 83408752--83408812 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
83408742 AAACGGAAGT
*
83408752 TTTGGCACTAAGTGTGTGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
83408782 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
83408811 TT
1 TT
83408813 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:83412652 original size:14 final size:14
Alignment explanation
Indices: 83412617--83412668 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
83412607 GTTTGCAGGT
*
83412617 AAAAT-ATTTTCTAG
1 AAAATGATTTT-TGG
*
83412631 AAAGTGATTTTTGG
1 AAAATGATTTTTGG
* *
83412645 AAAATGATTTCTGA
1 AAAATGATTTTTGG
83412659 AAAATGATTT
1 AAAATGATTT
83412669 ACTTTTCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 27 0.84
15 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:83419658 original size:25 final size:24
Alignment explanation
Indices: 83419622--83419674 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
83419612 ACATACCGCA
83419622 GCTCTTTATGAGCATATTGATATAG
1 GCTCTTTATGAGCATATTGATAT-G
* * *
83419647 GCTCTTTGTGAGCTTCTTGATATG
1 GCTCTTTATGAGCATATTGATATG
83419671 GCTC
1 GCTC
83419675 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCATATTGATATG
Found at i:83421426 original size:19 final size:20
Alignment explanation
Indices: 83421404--83421441 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
83421394 ACCACCGTCA
*
83421404 TCCATCGTAAT-AAAATTTG
1 TCCACCGTAATCAAAATTTG
*
83421423 TCCACCTTAATCAAAATTT
1 TCCACCGTAATCAAAATTT
83421442 TGATTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (20 bp):
TCCACCGTAATCAAAATTTG
Found at i:83424856 original size:16 final size:16
Alignment explanation
Indices: 83424834--83424902 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
83424824 TTTGGTTCGC
83424834 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
83424850 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
83424866 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
83424883 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
83424899 TGTA
1 TGTA
83424903 ATAGCTAATC
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:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:83424880 original size:33 final size:32
Alignment explanation
Indices: 83424834--83424902 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
83424824 TTTGGTTCGC
83424834 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
83424866 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
83424899 TGTA
1 TGTA
83424903 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:83424967 original size:44 final size:45
Alignment explanation
Indices: 83424883--83424973 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
83424873 GGATTAGAGG
* * *
83424883 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
83424928 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
83424972 TG
1 TG
83424974 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
Found at i:83425510 original size:120 final size:120
Alignment explanation
Indices: 83425121--83425731 Score: 1165
Period size: 120 Copynumber: 5.1 Consensus size: 120
83425111 ATCATATTTA
*
83425121 AACATAATTATTATTAAATATATTTTAATTAAAATATA-AATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
83425185 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
83425240 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425305 TATTCTTATATTAATTTACTC-AATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425359 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425424 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425479 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425544 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425599 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425664 TATTCTTATATTAATTTACT-AAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425718 AACATAATTATTAT
1 AACATAATTATTAT
83425732 ATATTATTAA
Statistics
Matches: 486, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
119 203 0.42
120 283 0.58
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:83425539 original size:239 final size:239
Alignment explanation
Indices: 83425121--83425954 Score: 1168
Period size: 239 Copynumber: 3.6 Consensus size: 239
83425111 ATCATATTTA
*
83425121 AACATAATTATTATTAAATATATTTTAATTAAAATATA-AATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425185 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACT-AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
83425250 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATA
130 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
83425315 TTAATTTACTC-AATCATAATATATGATACTGTAAAATATAAATT
195 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425359 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425424 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACT-AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
83425489 TTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
130 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
83425554 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
195 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
83425599 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
83425664 TATTCTTATATTAATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACAT-A--AT
66 TATTCTTATATTAATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
83425726 TATT--ATATA--TT-ATT-AAA-ATAT-ATTT-AT--AA----T--TAA-TAATATTC-TATA-
131 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
* *** * *
83425771 TAA-TTACT-AAATAAT-ATGATACT-ATAAAATATAAT-T---TG
196 TAATTTACTCAAATCATAAT-ATA-TGATACTGTAAAATATAAATT
* * * * *
83425809 AA-ATAATTATTATTAAATATATTTAATTAAAATATA--TGATTTAATAAAATTCTTAAT-ATTC
1 AACATAATTATTATTAAATATATTTTAATTAAA-CTATATAATTTAATAAAATTCTTAATAATT-
* * * *
83425870 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAA-ATAAT
64 AATATTCTTATATTAATTTACT-AAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
*
83425934 TATTATTAAATATAATTTAAT
128 TATTATTAAATATATTTTAAT
83425955 ATTTTTTCTA
Statistics
Matches: 561, Mismatches: 20, Indels: 52
0.89 0.03 0.08
Matches are distributed among these distances:
207 3 0.01
208 43 0.08
209 61 0.11
210 5 0.01
211 6 0.01
213 8 0.01
214 17 0.03
215 8 0.01
216 5 0.01
217 4 0.01
218 8 0.01
219 3 0.01
221 1 0.00
225 2 0.00
227 2 0.00
228 4 0.01
229 4 0.01
230 2 0.00
231 3 0.01
232 2 0.00
234 5 0.01
236 6 0.01
238 38 0.07
239 203 0.36
240 118 0.21
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (239 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:83425845 original size:17 final size:17
Alignment explanation
Indices: 83425825--83425858 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
83425815 TTATTATTAA
83425825 ATAT-ATTTAATTAAAAT
1 ATATGATTTAA-TAAAAT
83425842 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
83425859 TCTTAATATT
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:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:83440362 original size:16 final size:17
Alignment explanation
Indices: 83440330--83440364 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
83440320 TGTGTCTCTT
83440330 TTTTTTTAAAATATTTA
1 TTTTTTTAAAATATTTA
*
83440347 TTTTTTTAATAT-TTTA
1 TTTTTTTAAAATATTTA
83440363 TT
1 TT
83440365 ATACCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTAAAATATTTA
Found at i:83441025 original size:33 final size:32
Alignment explanation
Indices: 83440988--83441057 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
83440978 TTAAGTTTTG
*
83440988 AATTAACTTTA-TCAAAGAATTATTTTTAAGAAA
1 AATTAACGTTAGT-AAAGAATTATTTTTAA-AAA
** *
83441021 AATTAACGTTAGTAATTAATTGTTTTTAAAAA
1 AATTAACGTTAGTAAAGAATTATTTTTAAAAA
83441053 AATTA
1 AATTA
83441058 TTTTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 8 0.25
33 23 0.72
34 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (32 bp):
AATTAACGTTAGTAAAGAATTATTTTTAAAAA
Found at i:83448545 original size:14 final size:14
Alignment explanation
Indices: 83448517--83448561 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
83448507 ACTTAAGGTG
*
83448517 ATTTTGTTTACTTTT
1 ATTTT-TTTATTTTT
83448532 ATTTTTTTATTTTT
1 ATTTTTTTATTTTT
*
83448546 ATTTTTCT-TTTTT
1 ATTTTTTTATTTTT
83448559 ATT
1 ATT
83448562 CTACTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 8 0.29
14 15 0.54
15 5 0.18
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:83449253 original size:15 final size:15
Alignment explanation
Indices: 83449235--83449341 Score: 52
Period size: 15 Copynumber: 7.4 Consensus size: 15
83449225 TTATTAATAC
83449235 TATTATTTCTATTAT
1 TATTATTTCTATTAT
83449250 TATTATTGT-TATTAT
1 TATTATT-TCTATTAT
* *
83449265 TAATA-TTCTGGTTAT
1 TATTATTTCT-ATTAT
83449280 TA--A---CATATTAT
1 TATTATTTC-TATTAT
*
83449291 TATT-TTT-AATGTAT
1 TATTATTTCTAT-TAT
*
83449305 TATTATTACTAGTTAT
1 TATTATTTCTA-TTAT
* *
83449321 TATTAGTTCTAGTAT
1 TATTATTTCTATTAT
83449336 TATTAT
1 TATTAT
83449342 ATATATAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 26
0.66 0.10 0.25
Matches are distributed among these distances:
11 7 0.10
12 1 0.01
13 4 0.06
14 9 0.13
15 33 0.48
16 14 0.20
17 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (15 bp):
TATTATTTCTATTAT
Found at i:83449323 original size:16 final size:14
Alignment explanation
Indices: 83449301--83449341 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
83449291 TATTTTTAAT
83449301 GTATTATTATTACTA
1 GTATTATTATT-CTA
83449316 GTTATTATTAGTTCTA
1 G-TATTATTA-TTCTA
83449332 GTATTATTAT
1 GTATTATTAT
83449342 ATATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.04
15 9 0.38
16 12 0.50
17 2 0.08
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (14 bp):
GTATTATTATTCTA
Found at i:83449341 original size:3 final size:3
Alignment explanation
Indices: 83449223--83449325 Score: 57
Period size: 3 Copynumber: 33.7 Consensus size: 3
83449213 TCATTCCTAA
* * * *
83449223 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
83449268 TAT TCT GGT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
83449314 TAGT TAT TAT TA
1 TA-T TAT TAT TA
83449326 GTTCTAGTAT
Statistics
Matches: 75, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
2 2 0.03
3 66 0.88
4 6 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:83449389 original size:18 final size:19
Alignment explanation
Indices: 83449341--83449390 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
83449331 AGTATTATTA
83449341 TATATATAATATTAGTGTATG
1 TATATAT-ATA-TAGTGTATG
*
83449362 T-TTTATTATATA-TGTATG
1 TATATA-TATATAGTGTATG
83449380 TATATATATAT
1 TATATATATAT
83449391 GATATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 12 0.48
19 5 0.20
20 6 0.24
21 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (19 bp):
TATATATATATAGTGTATG
Found at i:83449598 original size:22 final size:21
Alignment explanation
Indices: 83449559--83449623 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
83449549 TTTTCTTTTA
83449559 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
83449582 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
83449604 ATATTTTTATATATTATGTA
1 ATATTTTTATATATTATGTA
83449624 TATTTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 8 0.22
22 21 0.58
23 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:83449781 original size:22 final size:21
Alignment explanation
Indices: 83449742--83449799 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
83449732 TTTACCCTAT
83449742 TATA-TTTATTATTAATGT-TA
1 TATATTTTATTA-TAATGTATA
83449762 GTATATTTTATTATACATGTATA
1 -TATATTTTATTATA-ATGTATA
*
83449785 TATATATTTTTTATA
1 TATAT-TTTATTATA
83449800 TATAGTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.19
22 16 0.50
23 10 0.31
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TATATTTTATTATAATGTATA
Found at i:83449818 original size:18 final size:15
Alignment explanation
Indices: 83449781--83449820 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
83449771 ATTATACATG
83449781 TATATATATATTTTT
1 TATATATATATTTTT
83449796 TATATATAGTATTATTT
1 TATATATA-TATT-TTT
83449813 TCATATAT
1 T-ATATAT
83449821 CCTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 4 0.18
18 6 0.27
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TATATATATATTTTT
Found at i:83449829 original size:18 final size:18
Alignment explanation
Indices: 83449805--83449850 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
83449795 TTATATATAG
*
83449805 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
83449824 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
83449842 TATTATTTT
1 TATTATTTT
83449851 ATTCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:83453795 original size:19 final size:19
Alignment explanation
Indices: 83453773--83453823 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
83453763 ATAGCAACGT
* *
83453773 AATAGTAAAATGATAATAA
1 AATAGTAAAATAACAATAA
83453792 AATAGTAAGAAAATAACAATAA
1 AATAGT---AAAATAACAATAA
83453814 AATAGTAAAA
1 AATAGTAAAA
83453824 AAATAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 10 0.37
22 17 0.63
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (19 bp):
AATAGTAAAATAACAATAA
Found at i:83453804 original size:22 final size:22
Alignment explanation
Indices: 83453787--83453829 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83453777 GTAAAATGAT
*
83453787 AATAAAATAGTAAGAAAATAAC
1 AATAAAATAGTAAAAAAATAAC
83453809 AATAAAATAGTAAAAAAATAA
1 AATAAAATAGTAAAAAAATAA
83453830 AAGAGCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (22 bp):
AATAAAATAGTAAAAAAATAAC
Found at i:83458834 original size:73 final size:73
Alignment explanation
Indices: 83458718--83458864 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 73
83458708 TCTATCGAAT
* * * *
83458718 AAACTTCATTCGCTTTGGAAACCAAAAGTCCCAATTAAAATTATGAATTTTGAGAATGATTATTT
1 AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
83458783 TATGGTTA
66 TATGGTTA
* * *
83458791 AAACTTCATTCACTTTGGAAACTAAAAGCCCCATTTCAAATTATGAATATTGAGAATAATTATTT
1 AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
83458856 TATGGTTA
66 TATGGTTA
83458864 A
1 A
83458865 GTTTAAATGT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (73 bp):
AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
TATGGTTA
Found at i:83462220 original size:29 final size:27
Alignment explanation
Indices: 83462183--83462299 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
83462173 ATTTTATTTT
*
83462183 TATAGTTTCTTTTAAATCTATTTAATATA
1 TATATTTTCTTTTAAATCTA-TT-ATATA
* * *
83462212 TATGTTTTCTTTTCAAATCTGTTATGTA
1 TATATTTTCTTTT-AAATCTATTATATA
* * *
83462240 AATATTTTCTTCTAAATTTATTATATA
1 TATATTTTCTTTTAAATCTATTATATA
*
83462267 TATATTTTCTTTAAAAT-TATTCATATA
1 TATATTTTCTTTTAAATCTATT-ATATA
83462294 TA-ATTT
1 TATATTT
83462300 GGCTTTCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.11
27 32 0.44
28 14 0.19
29 13 0.18
30 6 0.08
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTTTCTTTTAAATCTATTATATA
Found at i:83464551 original size:19 final size:19
Alignment explanation
Indices: 83464527--83464573 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
83464517 CTTACTTTCT
83464527 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
83464546 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
83464565 TGTGCATTA
1 TTTGCATTA
83464574 AACTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:83467297 original size:15 final size:15
Alignment explanation
Indices: 83467273--83467325 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
83467263 AAAGGCAGCC
*
83467273 AAAAAGAAAGAAACA
1 AAAAATAAAGAAACA
*
83467288 AAAAATAAAGAAAAAA
1 AAAAATAAAG-AAACA
*
83467304 CAAAAATAAAAACAACA
1 -AAAAATAAAGA-AACA
83467321 AAAAA
1 AAAAA
83467326 AGATTGTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 9 0.29
16 10 0.32
17 12 0.39
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAATAAAGAAACA
Found at i:83469368 original size:177 final size:176
Alignment explanation
Indices: 83469070--83469653 Score: 832
Period size: 177 Copynumber: 3.3 Consensus size: 176
83469060 TCGGTAAATT
* * *
83469070 TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAACTATAGATCTTATCTCCATGTA
1 TACAAG-CTTTACCCCCTAAGCAGTAGGGTAACAGGCTGAAAACTACAGATCTTATCTCCATGTA
* ** * * *
83469135 TCGACTATAGAGCAGATAAAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTC
65 TCGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCATATTTT
*
83469200 AGCCACCGGCCTTATATCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
130 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * * * *
83469247 TACAAGCTTTACCAACCTAAGCAGTAAGGCAACAAGCTGAAAACTACAGATCTTATCTTCATGTA
1 TACAAGCTTTACC-CCCTAAGCAGTAGGGTAACAGGCTGAAAACTACAGATCTTATCTCCATGTA
* * * *
83469312 TCGGCTATAGAGTAGATCGAAAATGGCGAGTCTTATCTCTATGTATTGGTTATGGAGCATATTTT
65 TCGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCATATTTT
* *
83469377 AGCTACCGGCCTTATCTCTCTGAGGTAGCAAGACAGCAGGTTGAAGA
130 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * *
83469424 TACAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAAACTATAGGTCTTATCTCCATGTA
1 TACAAGCTTT-ACCCCCTAAGCAGTAGGGTAACAGGCTGAAAACTACAGATCTTATCTCCATGTA
*
83469489 T-GGACTAT-GAAGCAGATCGAAAATGGCGAGTCTTAACTCCATGTATCGGCTATGGAGCATATT
65 TCGG-CTATAG-AGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCATATT
83469552 TTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
128 TTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * *
83469601 TACGAGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGGAAAA-TACAGATCT
1 TACAAG-CTTTACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAACTACAGATCT
83469654 CCCCTAAACA
Statistics
Matches: 359, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
176 9 0.03
177 339 0.94
178 11 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (176 bp):
TACAAGCTTTACCCCCTAAGCAGTAGGGTAACAGGCTGAAAACTACAGATCTTATCTCCATGTAT
CGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCATATTTTA
GCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
Found at i:83469835 original size:44 final size:44
Alignment explanation
Indices: 83469701--83469843 Score: 107
Period size: 44 Copynumber: 3.2 Consensus size: 44
83469691 CCTTAACCCT
* *
83469701 TTAAGCAGTACGGTAACAGGCTA-AAGATTACAAATCTTATCTCC
1 TTAAGCAGTAGGGTAACAGGCTAGAA-ATTACAGATCTTATCTCC
* * * * * * * *
83469745 CTAAGCAGTAGTGG-AGC-GGATTG-AA-GACAGTGAGCCTTAACCCC
1 TTAAGCAGTAG-GGTAACAGGCTAGAAATTACA--GA-TCTTATCTCC
83469789 TTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
1 TTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
*
83469833 TTAAGTAGTAG
1 TTAAGCAGTAG
83469844 TGGAGCAGAT
Statistics
Matches: 71, Mismatches: 19, Indels: 18
0.66 0.18 0.17
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 7 0.10
44 47 0.66
45 8 0.11
46 2 0.03
47 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (44 bp):
TTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
Found at i:83470026 original size:88 final size:88
Alignment explanation
Indices: 83469604--83470013 Score: 481
Period size: 88 Copynumber: 4.7 Consensus size: 88
83469594 TTGAAGATAC
* * * * * *
83469604 GAGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGGAAAATACAGATC---TC-CCCTAAACAG
1 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
** *
83469665 TAGTGGAGTGGATCTAAGACAGT
66 TAGTGGAGCAGATCGAAGACAGT
* *
83469688 GAGCCTTAACCCTTTAAGCAGTACGGTAACAGGCTA-AAGATTACAAATCTTATCTCCCTAAGCA
1 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAA-ATTACAAATCTTATCTCCCTAAGCA
* *
83469752 GTAGTGGAGCGGATTGAAGACAGT
65 GTAGTGGAGCAGATCGAAGACAGT
* * *
83469776 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCCTTAAGTAG
1 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
*
83469841 TAGTGGAGCAGATCGAAGACGGT
66 TAGTGGAGCAGATCGAAGACAGT
* * * * * * *
83469864 GAGCCTTAACCCCCTAAGTAATAGGGTAATAGGCTGGAAATTACAGATCTTATCTTCCTAAGCAG
1 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
* *
83469929 TAATGGAGCAGATCGAAGACGGT
66 TAGTGGAGCAGATCGAAGACAGT
* * * * *
83469952 AAGCTTTAACCCCTTAAGCAGTAAGGTAACAAGCT-GAAGATTACAAATCATATCTCCCTAAG
1 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAA-ATTACAAATCTTATCTCCCTAAG
83470014 TAATAGCGGA
Statistics
Matches: 280, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
83 2 0.01
84 39 0.14
87 5 0.02
88 232 0.83
89 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (88 bp):
GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACAGT
Found at i:83471615 original size:29 final size:27
Alignment explanation
Indices: 83471578--83471694 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
83471568 ATTTTATTTT
*
83471578 TATAGTTTCTTTTAAATCTATTTAATATA
1 TATATTTTCTTTTAAATCTA-TT-ATATA
* * *
83471607 TATGTTTTCTTTTCAAATCTGTTATGTA
1 TATATTTTCTTTT-AAATCTATTATATA
* * *
83471635 AATATTTTCTTCTAAATTTATTATATA
1 TATATTTTCTTTTAAATCTATTATATA
*
83471662 TATATTTTCTTTAAAAT-TATTCATATA
1 TATATTTTCTTTTAAATCTATT-ATATA
83471689 TA-ATTT
1 TATATTT
83471695 GGCTTTCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.11
27 32 0.44
28 14 0.19
29 13 0.18
30 6 0.08
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTTTCTTTTAAATCTATTATATA
Found at i:83473759 original size:19 final size:18
Alignment explanation
Indices: 83473730--83473781 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
83473720 TCTTCTGACC
83473730 AAAATAGAAAATAT-ATCAA
1 AAAATA-AAAATATAAT-AA
83473749 AAAACTAAAAAGTATAATAA
1 AAAA-TAAAAA-TATAATAA
83473769 AAAATAATAAATA
1 AAAATAA-AAATA
83473782 AAAAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAAAAATATAATAA
Found at i:83483022 original size:17 final size:17
Alignment explanation
Indices: 83482992--83483025 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83482982 ATAATTAATT
* *
83482992 TAAATTTTATATAAATA
1 TAAATATTAAATAAATA
83483009 TAAATATTAAATAAATA
1 TAAATATTAAATAAATA
83483026 AAAACCCCAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATTAAATAAATA
Found at i:83485308 original size:19 final size:19
Alignment explanation
Indices: 83485246--83485293 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
83485236 TTAAAAAAAG
83485246 AAATTCAAAAAAATTACTA
1 AAATTCAAAAAAATTACTA
83485265 AAATTCAAAAAAATTACTA
1 AAATTCAAAAAAATTACTA
83485284 AAATTCAAAA
1 AAATTCAAAA
83485294 TATTTATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATTCAAAAAAATTACTA
Found at i:83485316 original size:18 final size:19
Alignment explanation
Indices: 83485246--83485319 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
83485236 TTAAAAAAAG
* *
83485246 AAATTCAAAAAAATTACT-A
1 AAATTCAAAATATTTA-TAA
* *
83485265 AAATTCAAAAAAATTACT-A
1 AAATTCAAAATATTTA-TAA
83485284 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
83485303 AAATTCCAAA-ATTTATA
1 AAATTCAAAATATTTATA
83485320 TTTTTATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.16
19 43 0.84
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Done.