Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 31 of 143
Found at i:9134297 original size:23 final size:23
Alignment explanation
Indices: 9134254--9134299 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9134244 AAATTTGTTC
*
9134254 AAAATTGATAATTATTTTTAAAA
1 AAAATTGATAATTATTATTAAAA
*
9134277 AAAATT-ATTATTATATATTAAAA
1 AAAATTGATAATTAT-TATTAAAA
9134300 TTATAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAAATTGATAATTATTATTAAAA
Found at i:9134313 original size:19 final size:20
Alignment explanation
Indices: 9134277--9134319 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9134267 ATTTTTAAAA
*
9134277 AAAATTATTATTATATA-TT
1 AAAATTATAATTATATATTT
9134296 AAAATTATAATCTA-ATATTT
1 AAAATTATAAT-TATATATTT
9134316 AAAA
1 AAAA
9134320 AAATTCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTATAATTATATATTT
Found at i:9137236 original size:38 final size:38
Alignment explanation
Indices: 9137182--9137266 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
9137172 TTAATTTGTT
*
9137182 AGTAAGTAATTTTATTTTGTTAGTTGTAGTTAGTAAGTA
1 AGTAAGT-ATTTTATTTTGTTAGTGGTAGTTAGTAAGTA
9137221 AGTAAGTATTTTATTTTGTTAGTGGTAGTTAGTAAGTA
1 AGTAAGTATTTTATTTTGTTAGTGGTAGTTAGTAAGTA
9137259 AGTAAGTA
1 AGTAAGTA
9137267 ATATAAATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 38 0.84
39 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (38 bp):
AGTAAGTATTTTATTTTGTTAGTGGTAGTTAGTAAGTA
Found at i:9138660 original size:43 final size:43
Alignment explanation
Indices: 9138608--9138712 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
9138598 ATGTTATTCA
* * *
9138608 TTGACATGTTATTAAATTATATTACTTGATTCGTGTTAATATGG
1 TTGACATGTTATTAAATTATATTACTTGACTCGTATTAATAT-C
* *
9138652 TTG-CATGTTACTAAATTATATTACTTGACTCTTATTAATATC
1 TTGACATGTTATTAAATTATATTACTTGACTCGTATTAATATC
9138694 TTGACATGTTATT-AATTAT
1 TTGACATGTTATTAAATTAT
9138713 GCAGTTTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 9 0.17
43 42 0.78
44 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (43 bp):
TTGACATGTTATTAAATTATATTACTTGACTCGTATTAATATC
Found at i:9163240 original size:27 final size:27
Alignment explanation
Indices: 9163206--9163295 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
9163196 TCTTATGAGC
*
9163206 CCAGAATCAGAATAATGCTATTTCGAG
1 CCAGAATCAGAATAACGCTATTTCGAG
* * *
9163233 CTAGAATCAGAATAACGCTGTTTCGAT
1 CCAGAATCAGAATAACGCTATTTCGAG
*
9163260 CCAGAATCAGAATAACGCTTTTTCGAG
1 CCAGAATCAGAATAACGCTATTTCGAG
9163287 CCAGAATCA
1 CCAGAATCA
9163296 AATTACTCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (27 bp):
CCAGAATCAGAATAACGCTATTTCGAG
Found at i:9166271 original size:18 final size:17
Alignment explanation
Indices: 9166248--9166290 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
9166238 TGTCTCAAGA
*
9166248 AATATATAAAAAGAAAAT
1 AATATATAAAAA-AAAAG
*
9166266 AATATAATAAATAAAAAG
1 AATAT-ATAAAAAAAAAG
9166284 AATATAT
1 AATATAT
9166291 GTATGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
AATATATAAAAAAAAAG
Found at i:9166792 original size:19 final size:19
Alignment explanation
Indices: 9166765--9166807 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9166755 CCACGTCAGC
* *
9166765 AAATGAATTTAAACTTAAA
1 AAATTAATTAAAACTTAAA
*
9166784 AAATTAATTAAAATTTAAA
1 AAATTAATTAAAACTTAAA
9166803 AAATT
1 AAATT
9166808 TAAAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATTAATTAAAACTTAAA
Found at i:9166868 original size:10 final size:9
Alignment explanation
Indices: 9166839--9166872 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9166829 AATTCACACT
*
9166839 ATTAAAATA
1 ATTAAAAAA
9166848 ATTAAAAAA
1 ATTAAAAAA
9166857 ATTAAAACAA
1 ATTAAAA-AA
9166867 ATTAAA
1 ATTAAA
9166873 CACTAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:9171363 original size:24 final size:24
Alignment explanation
Indices: 9171328--9171382 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
9171318 CGCATGATCT
9171328 CCAGAATAGTTAGCTCTTACGAGC
1 CCAGAATAGTTAGCTCTTACGAGC
*
9171352 CCAGAATGGTTAGCTCTTACGAGC
1 CCAGAATAGTTAGCTCTTACGAGC
9171376 CCAGAAT
1 CCAGAAT
9171383 CAGAATAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (24 bp):
CCAGAATAGTTAGCTCTTACGAGC
Found at i:9171412 original size:27 final size:27
Alignment explanation
Indices: 9171376--9171440 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
9171366 TCTTACGAGC
* *
9171376 CCAGAATCAGAATAATGCTCTTTTAAG
1 CCAGAATCAGAATAACGCTCTTTCAAG
*
9171403 CCAGAATCAGAATAACGCTCTTTCGAG
1 CCAGAATCAGAATAACGCTCTTTCAAG
*
9171430 CCAAAATCAGA
1 CCAGAATCAGA
9171441 TTACTTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (27 bp):
CCAGAATCAGAATAACGCTCTTTCAAG
Found at i:9174229 original size:14 final size:16
Alignment explanation
Indices: 9174210--9174246 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9174200 ATTATGTCTC
9174210 AAGAAAT-ATATAA-A
1 AAGAAATAATATAACA
9174224 AAGAAAATAATATAACA
1 AAG-AAATAATATAACA
9174241 AAGAAA
1 AAGAAA
9174247 AAAGAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 4 0.20
16 9 0.45
17 4 0.20
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (16 bp):
AAGAAATAATATAACA
Found at i:9174238 original size:16 final size:16
Alignment explanation
Indices: 9174213--9174247 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9174203 ATGTCTCAAG
9174213 AAATATATAA-AAAGA
1 AAATATATAACAAAGA
9174228 AAATAATATAACAAAGA
1 AAAT-ATATAACAAAGA
9174245 AAA
1 AAA
9174248 AAGAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 6 0.33
17 8 0.44
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATATATAACAAAGA
Found at i:9176108 original size:15 final size:14
Alignment explanation
Indices: 9176069--9176111 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
9176059 TTGCAACAAG
*
9176069 ATTTGTTTTACTTT
1 ATTTGTTTTATTTT
*
9176083 ATTTATTTTATTTT
1 ATTTGTTTTATTTT
*
9176097 GCTTTGTTTTATTTT
1 -ATTTGTTTTATTTT
9176112 TAGTTTAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (14 bp):
ATTTGTTTTATTTT
Found at i:9179859 original size:21 final size:21
Alignment explanation
Indices: 9179815--9179861 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9179805 GTTGAGATGG
* **
9179815 TTCTACCGATACAAGAGTTAC
1 TTCTACCGAAACAAGACATAC
*
9179836 TTCTACCGAAACAAGACATGC
1 TTCTACCGAAACAAGACATAC
9179857 TTCTA
1 TTCTA
9179862 TCGATACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGAAACAAGACATAC
Found at i:9180512 original size:41 final size:40
Alignment explanation
Indices: 9180432--9180522 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
9180422 AAGTCGTAAA
* ** *
9180432 TCTTCCTCTTTAAACGATCTTATGCTTCACTGAGTCATAAG
1 TCTTCCT-TTTAAACAATCTTATGCTTCACCAAGGCATAAG
9180473 TCTTCCTTTTCAAACAATCTTATGC-TCTACCAAGGCATAAG
1 TCTTCCTTTT-AAACAATCTTATGCTTC-ACCAAGGCATAAG
*
9180514 TTTTCCTTT
1 TCTTCCTTT
9180523 ATACATGTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 5 0.12
41 38 0.88
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.41
Consensus pattern (40 bp):
TCTTCCTTTTAAACAATCTTATGCTTCACCAAGGCATAAG
Found at i:9180626 original size:41 final size:42
Alignment explanation
Indices: 9180471--9180682 Score: 178
Period size: 41 Copynumber: 5.1 Consensus size: 42
9180461 CTGAGTCATA
* * * * ** * *
9180471 AGTCTTCCTTTTCAAACAATCTTATGCTC-TACCAAGGCATA
1 AGTCTTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
* * ** *
9180512 AGTTTTCCTTTATACATGTTCTCATGCTCTTTCCAAGACATG
1 AGTCTTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
* * *
9180554 AGTTTTCCTTTA-ACATAGTCTCATGCCCTTTTCAAGACATG
1 AGTCTTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
* * *
9180595 AGTCTTCCTTTA-ACATAATCTCATGCTCTTTTCGAGTCACG
1 AGTCTTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
* * * * *
9180636 AGTCTTTCATTCACACATAATCTCATGCTCATCTCGAGACATG
1 AGTC-TTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
9180679 AGTC
1 AGTC
9180683 CCCCATTTAT
Statistics
Matches: 141, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
41 85 0.60
42 27 0.19
43 29 0.21
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (42 bp):
AGTCTTCCTTTACACATAATCTCATGCTCTTTTCAAGACATG
Found at i:9180662 original size:43 final size:42
Alignment explanation
Indices: 9180515--9180682 Score: 187
Period size: 41 Copynumber: 4.0 Consensus size: 42
9180505 AGGCATAAGT
** *
9180515 TTTCCTTTATACATGTTCTCATGCTCTTTCCAAGACATGAGT-
1 TTTCCTTTA-ACATAATCTCATGCTCTTTTCAAGACATGAGTC
* *
9180557 TTTCCTTTAACATAGTCTCATGCCCTTTTCAAGACATGAGTC
1 TTTCCTTTAACATAATCTCATGCTCTTTTCAAGACATGAGTC
* * *
9180599 -TTCCTTTAACATAATCTCATGCTCTTTTCGAGTCACGAGTC
1 TTTCCTTTAACATAATCTCATGCTCTTTTCAAGACATGAGTC
* * * * *
9180640 TTTCATTCACACATAATCTCATGCTCATCTCGAGACATGAGTC
1 TTTCCTTTA-ACATAATCTCATGCTCTTTTCAAGACATGAGTC
9180683 CCCCATTTAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 64 0.59
42 15 0.14
43 29 0.27
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (42 bp):
TTTCCTTTAACATAATCTCATGCTCTTTTCAAGACATGAGTC
Found at i:9180663 original size:84 final size:83
Alignment explanation
Indices: 9180516--9180696 Score: 193
Period size: 84 Copynumber: 2.2 Consensus size: 83
9180506 GGCATAAGTT
** * * * *
9180516 TTCCTTTATACATGTTCTCATGCTCTTTCCAAGACATGAGTTTTCCTTTAACATAGTCTCATGCC
1 TTCCTTTATACATAATCTCATGCTCTTTCCAAGACACGAGTTTTCATTCAACATAATCTCATGCC
* *
9180581 CTTTTCAAGACATGAGTC
66 CATCTCAAGACATGAGTC
* * *
9180599 TTCCTTTA-ACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTTCATTCACACATAATCTCATG
1 TTCCTTTATACATAATCTCATGCTCTTTCCAAGACACGAGT-TTTCATTCA-ACATAATCTCATG
* *
9180663 CTCATCTCGAGACATGAGTC
64 CCCATCTCAAGACATGAGTC
**
9180683 CCCCATTTATACAT
1 TTCC-TTTATACAT
9180697 CAAGTGACTC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
82 26 0.33
83 15 0.19
84 30 0.38
85 4 0.05
86 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (83 bp):
TTCCTTTATACATAATCTCATGCTCTTTCCAAGACACGAGTTTTCATTCAACATAATCTCATGCC
CATCTCAAGACATGAGTC
Found at i:9182000 original size:29 final size:29
Alignment explanation
Indices: 9181958--9182016 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
9181948 GGAACTGAGA
9181958 AAAAATAGCTTTTAAAT-AGTCTTTCTTGC
1 AAAAATAGCTTTTAAATCA-TCTTTCTTGC
*
9181987 AAAAATAGCTTTTAAATCATCTTTTTTGC
1 AAAAATAGCTTTTAAATCATCTTTCTTGC
9182016 A
1 A
9182017 TCTACCGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (29 bp):
AAAAATAGCTTTTAAATCATCTTTCTTGC
Found at i:9183368 original size:63 final size:63
Alignment explanation
Indices: 9183247--9183432 Score: 227
Period size: 65 Copynumber: 2.9 Consensus size: 63
9183237 TTTTTCTCCA
* * * *
9183247 TCTTCTTCGATTCTCTCTTTTGA-AAA-ATAAAAAGTCTGGAGATTTTTAGAGAATTAATC-ACT
1 TCTTCTTCGATTC-CTTTTTTGAGAAACA-AAAAACTCTAGAGATTTTTAGAGAAATAATCTACT
*
9183309 TCTTCTTCGATTCCATTTTTTGAGAAACAAAAAACTCTAGAGATTTTTAGAGAAATAATCTCTTC
1 TCTTCTTCGATTCC-TTTTTTGAGAAACAAAAAACTCTAGAGATTTTTAGAGAAATAA--TCTAC
9183374 T
63 T
* *
9183375 TCTTCTTCGATTCCTTCTTTTGAGAAGC-AAAAACTCTAGAGATTTTTAGAAAAATAAT
1 TCTTCTTCGATTCCTT-TTTTGAGAAACAAAAAACTCTAGAGATTTTTAGAGAAATAAT
9183433 TGACAATGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
61 1 0.01
62 20 0.18
63 30 0.27
64 1 0.01
65 32 0.29
66 26 0.24
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (63 bp):
TCTTCTTCGATTCCTTTTTTGAGAAACAAAAAACTCTAGAGATTTTTAGAGAAATAATCTACT
Found at i:9185860 original size:22 final size:21
Alignment explanation
Indices: 9185834--9185883 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
9185824 AAAAACCAAC
9185834 AAAAAAAC-AAATAAAACAAAA
1 AAAAAAACAAAAT-AAACAAAA
* *
9185855 ACAAAAACCAAAATAAATAAAA
1 A-AAAAAACAAAATAAACAAAA
9185877 AAAAAAA
1 AAAAAAA
9185884 TTTAAGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAAAAACAAAATAAACAAAA
Found at i:9186199 original size:22 final size:22
Alignment explanation
Indices: 9186174--9186218 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9186164 CAAAGACGAG
*
9186174 AAACAGAAGACAGAGAAGAAAA
1 AAACAAAAGACAGAGAAGAAAA
* * *
9186196 AAACAAAATAGAGAGAAGTAAA
1 AAACAAAAGACAGAGAAGAAAA
9186218 A
1 A
9186219 TGTAATGGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.20, T:0.04
Consensus pattern (22 bp):
AAACAAAAGACAGAGAAGAAAA
Found at i:9186997 original size:27 final size:27
Alignment explanation
Indices: 9186967--9187018 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9186957 TTTTAGCCCC
* *
9186967 TATATTTTCTATTTTGTTT-TATTTTAG
1 TATAATTTC-ATTTTATTTCTATTTTAG
9186994 TATAATTTCATTTTATTTCTATTTT
1 TATAATTTCATTTTATTTCTATTTT
9187019 TTTATTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (27 bp):
TATAATTTCATTTTATTTCTATTTTAG
Found at i:9187283 original size:28 final size:29
Alignment explanation
Indices: 9187252--9187306 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9187242 AATTCTCTGA
9187252 TTCT-TTTTTTT-TTAAATTAATCCTTTTG
1 TTCTATTTTTTTATT-AATTAATCCTTTTG
*
9187280 TTCTATTTTTTTATTATTTAATCCTTT
1 TTCTATTTTTTTATTAATTAATCCTTT
9187307 AAATTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 18 0.75
30 2 0.08
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (29 bp):
TTCTATTTTTTTATTAATTAATCCTTTTG
Found at i:9192680 original size:98 final size:97
Alignment explanation
Indices: 9192559--9193023 Score: 335
Period size: 98 Copynumber: 4.8 Consensus size: 97
9192549 GACCAACGAA
* * *
9192559 ACACCAAATCCTATATCTTTGAAGTTGCAAGGATTGGATTAAAACTAACATTGGCAAATCTTTAT
1 ACACCAAATCCTATTTC-CTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTAT
* *
9192624 CTCCCTGAAATTGCAATGGAGCAAGATGAAGCC
65 CTCCCTGAAATTGCAGTGGAGCAAGATGAAACC
* * * * * *
9192657 ACACCAAATCCTATCTTTCTGAAGTTG-TAGTAAAGT-GGATTCAAA-T---AGTAGCAAATCTT
1 ACACCAAATCCTAT-TTCCTGAAGTTGCAAG--GA-TCGGATTAAAACTAACATTGGCAAATCTT
* * **
9192716 TATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAAATATA
62 TATCTCCCTGAAATTGCAGTGGAGCAAGATG--AA-ACC
* * * *
9192755 ACACCAAATCCTATATCCTTGAGGTTGTAAGGATCGGATTAAAACTAACATTGGCAGATCTTTAT
1 ACACCAAATCCTATTTCC-TGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTAT
* * * * * *
9192820 CTCCTTGAAGTTGCAGTTGAGCAAGGTGAAGCG
65 CTCCCTGAAATTGCAGTGGAGCAAGATGAAACC
* * * * * *
9192853 ACACCAAATCCTATCTTCCTGAAGCTGC-AGTGAAGCGAATTAAAACT----GTAGCAAATATTT
1 ACACCAAATCCTAT-TTCCTGAAGTTGCAAG-G-ATCGGATTAAAACTAACATTGGCAAATCTTT
*
9192913 ATCTCCCT-AAAGTTGCAGTGGAGCAAGATTAAACTAC
63 ATCTCCCTGAAA-TTGCAGTGGAGCAAGATGAAAC--C
* * * * * *
9192950 AAAACCAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATC-CTA
1 -ACACCAAATCCTATTTCC-TGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTA
*
9193014 TATCCCTGAA
64 TCTCCCTGAA
9193024 GTTGTAGGGA
Statistics
Matches: 281, Mismatches: 58, Indels: 53
0.72 0.15 0.14
Matches are distributed among these distances:
94 2 0.01
95 73 0.26
96 1 0.00
97 33 0.12
98 86 0.31
99 31 0.11
100 9 0.03
101 46 0.16
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (97 bp):
ACACCAAATCCTATTTCCTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTATC
TCCCTGAAATTGCAGTGGAGCAAGATGAAACC
Found at i:9192739 original size:95 final size:95
Alignment explanation
Indices: 9192612--9192941 Score: 310
Period size: 95 Copynumber: 3.4 Consensus size: 95
9192602 ACTAACATTG
* * * *
9192612 GCAAATCTTTATCTCCCTGAAATTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTTCT
1 GCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCAACACCAAATCCTATCTTCCT
*
9192677 GAAGTTGTAGTAAAGTGGATTCAAA-TAGTA
66 GAAG-TGTAGTAAAGTGGATTAAAACTAGTA
* ** *
9192707 GCAAATCTTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAAATATAACACCAAATCCTAT-AT
1 GCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATG--AA-GCAACACCAAATCCTATCTT
* * * *
9192771 CCTTG-AG-GTTGTAAGGATCGGATTAAAACTAACATTG
63 CC-TGAAGTGTAGTAAAG-T-GGATTAAAACT---AGTA
* * * * *
9192808 GCAGATCTTTATCTCCTTGAAGTTGCAGTTGAGCAAGGTGAAGCGACACCAAATCCTATCTTCCT
1 GCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCAACACCAAATCCTATCTTCCT
* * * *
9192873 GAAGCTGCAGTGAAGCGAATTAAAACT-GTA
66 GAAG-TGTAGTAAAGTGGATTAAAACTAGTA
* *
9192903 GCAAATATTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT
1 GCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGAT
9192942 TAAACTACAA
Statistics
Matches: 185, Mismatches: 36, Indels: 28
0.74 0.14 0.11
Matches are distributed among these distances:
95 78 0.42
96 1 0.01
97 14 0.08
98 33 0.18
99 17 0.09
101 42 0.23
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (95 bp):
GCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCAACACCAAATCCTATCTTCCT
GAAGTGTAGTAAAGTGGATTAAAACTAGTA
Found at i:9192906 original size:196 final size:195
Alignment explanation
Indices: 9192558--9193027 Score: 638
Period size: 196 Copynumber: 2.4 Consensus size: 195
9192548 GGACCAACGA
* *
9192558 AACACCAAATCCTATATCTTTGAAGTTGCAAGGATTGGATTAAAACTAACATTGGCAAATCTTTA
1 AACACCAAATCCTATATCCTTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTA
* * * *
9192623 TCTCCCTGAAATTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTTCTGAAGTTGTAGT
66 TCT-CCTGAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGCTGCAGT
* * * * * *
9192688 AAAGTGGATTCAAATAGTAGCAAATCTTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAAATA
130 AAAGCGAATTAAAATAGTAGCAAATATTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAAATA
*
9192753 T
195 C
* * *
9192754 AACACCAAATCCTATATCCTTGAGGTTGTAAGGATCGGATTAAAACTAACATTGGCAGATCTTTA
1 AACACCAAATCCTATATCCTTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTA
* * * *
9192819 TCTCCTTGAAGTTGCAGTTGAGCAAGGTGAAGCGACACCAAATCCTATCTTCCTGAAGCTGCAGT
66 TCTCC-TGAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGCTGCAGT
* * *
9192884 GAAGCGAATTAAAACT-GTAGCAAATATTTATCTCCCTAAAGTTGCAGTGGAGCAAGATTAAACT
130 AAAGCGAATTAAAA-TAGTAGCAAATATTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAAAT
9192948 AC
194 AC
* * * * *
9192950 AAAACCAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTGGCAAATCCTAT
1 AACACCAAATCCTATATCCTTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAAT-CTTT
9193015 ATC-CCTGAAGTTG
65 ATCTCCTGAAGTTG
9193028 TAGGGATCGA
Statistics
Matches: 240, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
195 10 0.04
196 223 0.93
197 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (195 bp):
AACACCAAATCCTATATCCTTGAAGTTGCAAGGATCGGATTAAAACTAACATTGGCAAATCTTTA
TCTCCTGAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGCTGCAGTA
AAGCGAATTAAAATAGTAGCAAATATTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAAATAC
Found at i:9193009 original size:50 final size:50
Alignment explanation
Indices: 9192955--9193081 Score: 182
Period size: 50 Copynumber: 2.5 Consensus size: 50
9192945 ACTACAAAAC
*
9192955 CAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTGG
1 CAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTAG
* * ** *
9193005 CAAATCCTATATCCCTGAAGTTGTAGGGATCGAATTAAAACTAACATTAG
1 CAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTAG
*
9193055 CAAATCTTTATTTCCTTGAAGTTACAA
1 CAAATC-TTATATCCTTGAAGTTACAA
9193082 TGGAGCAAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 50 0.78
51 14 0.22
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (50 bp):
CAAATCTTATATCCTTGAAGTTACAAGGATCGAATTAAAACTAACATTAG
Found at i:9193560 original size:81 final size:80
Alignment explanation
Indices: 9193256--9193633 Score: 404
Period size: 81 Copynumber: 4.7 Consensus size: 80
9193246 TGAAACCACT
* * * * * * *
9193256 ATCCAATCTTTTACCCCAACTAGAAGGCAGACTAAAGACCATCTAATCTTTTACCCTAACTAGAG
1 ATCCAATCTTTTACCCCAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCCAACCAAAG
* *
9193321 GACAAATTGAAGACACC
66 GGCAGATTGAAG--ACC
* ** * *
9193338 ATCCAATCTTTTA-CCCAACCAGA-GG-AGATTGAAGACCATCCAATCTTTTACCTTAAACAGAG
1 ATCCAATCTTTTACCCCAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCCAACCAAAG
*
9193400 GGAAGATTGAAGACC
66 GGCAGATTGAAGACC
* * *
9193415 ATCCAAT-TCTTTACCCTAGCTAGAGGGCAGATTGAAGACACCATCCAATTTTTTACCCCAACCA
1 ATCCAATCT-TTTACCCCAACTAGAGGGCAGATTGAAG--ACCATCCAATCTTTTACCCCAACCA
9193479 AAGGGCAGATTGAAGACC
63 AAGGGCAGATTGAAGACC
* * * *
9193497 ATCCAATCTTTTACCCCCAACTAGAGGGAAAATTGAAGATCATCCAATTTTTTACCCCAACCAAA
1 ATCCAATCTTTTA-CCCCAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCCAACCAAA
*
9193562 GGGCAGATTGAACACC
65 GGGCAGATTGAAGACC
* * * * * * *
9193578 ATCCAATCTTTCACCCTAATTAGAGGGTAAATTGAAGACCATCCAGTCTTATACCC
1 ATCCAATCTTTTACCCCAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCC
9193634 TAAATTTAAA
Statistics
Matches: 255, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
76 1 0.00
77 14 0.05
78 7 0.03
79 42 0.16
80 47 0.18
81 62 0.24
82 61 0.24
83 21 0.08
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (80 bp):
ATCCAATCTTTTACCCCAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCCAACCAAAG
GGCAGATTGAAGACC
Found at i:9193634 original size:40 final size:40
Alignment explanation
Indices: 9193256--9193678 Score: 372
Period size: 40 Copynumber: 10.4 Consensus size: 40
9193246 TGAAACCACT
* * * * *
9193256 ATCCAATCTTTTACCCCAACTAGAAGGCAGACTAAAGACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
* *
9193296 ATCTAATCTTTTACCCTAACTAGAGGACAAATTGAAGACACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAG--ACC
* *
9193338 ATCCAATCTTTTACCC-AACCAGA-GG-AGATTGAAGACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
*
9193375 ATCCAATCTTTTACCTTAAAC-AGAGGG-AAGATTGAAGACC
1 ATCCAATCTTTTACCCT-AACTAGAGGGCAA-ATTGAAGACC
* *
9193415 ATCCAAT-TCTTTACCCTAGCTAGAGGGCAGATTGAAGACACC
1 ATCCAATCT-TTTACCCTAACTAGAGGGCAAATTGAAG--ACC
* * * * *
9193457 ATCCAATTTTTTACCCCAACCAAAGGGCAGATTGAAGACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
* * *
9193497 ATCCAATCTTTTACCCCCAACTAGAGGGAAAATTGAAGATC
1 ATCCAATCTTTTA-CCCTAACTAGAGGGCAAATTGAAGACC
* * * * * *
9193538 ATCCAATTTTTTACCCCAACCAAAGGGCAGATTGAACACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
* * *
9193578 ATCCAATCTTTCACCCTAATTAGAGGGTAAATTGAAGACC
1 ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
* * * * *
9193618 ATCCAGTCTTATACCCTAAATTTAAAGAGGAAAATTGAAGCCACC
1 ATCCAATCTTTTACCCT-AA-CTAGAG-GGCAAATTGAAG--ACC
*
9193663 ATCCAATCTTATACCC
1 ATCCAATCTTTTACCC
9193679 CAAATTCAAA
Statistics
Matches: 317, Mismatches: 48, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
37 18 0.06
38 3 0.01
39 17 0.05
40 149 0.47
41 43 0.14
42 57 0.18
43 12 0.04
45 18 0.06
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (40 bp):
ATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACC
Found at i:9193747 original size:47 final size:42
Alignment explanation
Indices: 9193242--9193795 Score: 220
Period size: 40 Copynumber: 13.2 Consensus size: 42
9193232 TAAGAGGGAT
* * * * *
9193242 AGATTGAAACCACTATCCAATCTTTTACCCCAA-CTAGAAGGC
1 AGATTGAAGCCAC-ATCCAATCTTATACCCAAATCCAGAGGGC
* * * * * * * *
9193284 AGACTAAAGAC-CATCTAATCTTTTACCCTAA-CTAGAGGAC
1 AGATTGAAGCCACATCCAATCTTATACCCAAATCCAGAGGGC
* * *
9193324 AAATTGAAGACACCATCCAATCTTTTACCC-AA-CCAGA-GG-
1 AGATTGAAGCCA-CATCCAATCTTATACCCAAATCCAGAGGGC
* * * *
9193363 AGATTGAAGAC-CATCCAATCTTTTACCTTAAA--CAGAGGGA
1 AGATTGAAGCCACATCCAATCTTATACC-CAAATCCAGAGGGC
* * * *
9193403 AGATTGAAGAC-CATCCAATTCTT-TACCC-TAGCTAGAGGGC
1 AGATTGAAGCCACATCCAA-TCTTATACCCAAATCCAGAGGGC
* * * * *
9193443 AGATTGAAGACACCATCCAATTTTTTACCCCAA-CCAAAGGGC
1 AGATTGAAGCCA-CATCCAATCTTATACCCAAATCCAGAGGGC
* * * * *
9193485 AGATTGAAGAC-CATCCAATCTTTTACCCCCAA-CTAGAGGGA
1 AGATTGAAGCCACATCCAATCTTATA-CCCAAATCCAGAGGGC
* * * * *
9193526 AAATTGAAG--ATCATCCAATTTTTTACCCCAA-CCAAAGGGC
1 AGATTGAAGCCA-CATCCAATCTTATACCCAAATCCAGAGGGC
* * *
9193566 AGATTGAA--CACCATCCAATCTT-TCACCCTAAT-TAGAGGGT
1 AGATTGAAGCCA-CATCCAATCTTAT-ACCCAAATCCAGAGGGC
* * * ** * *
9193606 AAATTGAAGAC-CATCCAGTCTTATACCCTAAATTTAAAGAGGA
1 AGATTGAAGCCACATCCAATCTTATACCC-AAATCCAGAG-GGC
* * * * *
9193649 AAATTGAAGCCACCATCCAATCTTATACCCCAAATTCAAATTGAC
1 AGATTGAAGCCA-CATCCAATCTTATA-CCCAAATCCAGA-GGGC
*
9193694 AAATTGAAGTCATCACATCCAATCTTATATCCCAAATCCAGAGCGGC
1 AGATTGAAG-C--CACATCCAATCTTATA-CCCAAATCCAGAG-GGC
* * *
9193741 AGATTGAAGCCACTATCCAATTTTATACCTTAAATCTAGAGGGTC
1 AGATTGAAGCCAC-ATCCAATCTTATACC-CAAATCCAGAGGG-C
9193786 AGATTGAAGC
1 AGATTGAAGC
9193796 TATAAAAGCG
Statistics
Matches: 416, Mismatches: 60, Indels: 69
0.76 0.11 0.13
Matches are distributed among these distances:
37 16 0.04
38 5 0.01
39 15 0.04
40 147 0.35
41 51 0.12
42 58 0.14
43 13 0.03
44 7 0.02
45 63 0.15
46 5 0.01
47 34 0.08
48 2 0.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (42 bp):
AGATTGAAGCCACATCCAATCTTATACCCAAATCCAGAGGGC
Found at i:9193776 original size:45 final size:45
Alignment explanation
Indices: 9193651--9193795 Score: 125
Period size: 45 Copynumber: 3.2 Consensus size: 45
9193641 AAAGAGGAAA
* * * * ** * *
9193651 ATTGAAGCCACCATCCAATCTTATACCCCAAATTCAAATTGACAA
1 ATTGAAGCCACTATCCAATCTTATATCCCAAATCCAGAGGGTCAG
9193696 ATTGAAGTCATCAC-ATCCAATCTTATATCCCAAATCCAGAGCGG-CAG
1 ATTGAAG-C--CACTATCCAATCTTATATCCCAAATCCAGAG-GGTCAG
* * *
9193743 ATTGAAGCCACTATCCAATTTTATA-CCTTAAATCTAGAGGGTCAG
1 ATTGAAGCCACTATCCAATCTTATATCC-CAAATCCAGAGGGTCAG
9193788 ATTGAAGC
1 ATTGAAGC
9193796 TATAAAAGCG
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
44 7 0.08
45 39 0.46
46 2 0.02
47 32 0.38
48 4 0.05
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (45 bp):
ATTGAAGCCACTATCCAATCTTATATCCCAAATCCAGAGGGTCAG
Found at i:9195564 original size:25 final size:25
Alignment explanation
Indices: 9195536--9195590 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
9195526 TTGTTTATCC
*
9195536 TTTTTAAATTAAATTCTTTTATTCTT-
1 TTTTTAAATT-AATCCTTTT-TTCTTA
9195562 TTTTTAAATTAATCCTTTTTTC-TA
1 TTTTTAAATTAATCCTTTTTTCTTA
9195586 TTTTT
1 TTTTT
9195591 TTATTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 1 0.04
24 8 0.30
25 8 0.30
26 10 0.37
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTAAATTAATCCTTTTTTCTTA
Found at i:9195591 original size:25 final size:26
Alignment explanation
Indices: 9195536--9195591 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
9195526 TTGTTTATCC
*
9195536 TTTTTAAATTAAATTCTTTTATTCTT
1 TTTTTAAATTAAATCCTTTTATTCTT
9195562 TTTTTAAATT-AATCCTTTT-TTCTAT
1 TTTTTAAATTAAATCCTTTTATTCT-T
9195587 TTTTT
1 TTTTT
9195592 TATTATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTAAATTAAATCCTTTTATTCTT
Found at i:9195994 original size:109 final size:109
Alignment explanation
Indices: 9195803--9196004 Score: 280
Period size: 109 Copynumber: 1.9 Consensus size: 109
9195793 AAAATCAAGA
* * * * *
9195803 CAATGCTCTTTTATTTTAGGGAATTCGAGAAATTGTGCTATATCGTGTTAGGTATGGTTTTTCTT
1 CAATGCTCTTTTATTTTAGGGAATTCGAAAAATTGTGCCATAACGTGCTAGGTATGATTTTTCTT
* *
9195868 TGAACTTAAATAATTGAATATCCTATTTATAGCCGATAAATGTT
66 TGAACCTAAATAATTGAACATCCTATTTATAGCCGATAAATGTT
* * * *
9195912 CAATGGTCTTTTATTTTAGGG-ATCTCGAAAAATTGTGCCCTAACGTGCTGGGTATGATTTTTTT
1 CAATGCTCTTTTATTTTAGGGAAT-TCGAAAAATTGTGCCATAACGTGCTAGGTATGATTTTTCT
*
9195976 TTGAACCTAAGTAATTGAACATCCTATTT
65 TTGAACCTAAATAATTGAACATCCTATTT
9196005 GAAATCGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 2 0.03
109 78 0.98
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (109 bp):
CAATGCTCTTTTATTTTAGGGAATTCGAAAAATTGTGCCATAACGTGCTAGGTATGATTTTTCTT
TGAACCTAAATAATTGAACATCCTATTTATAGCCGATAAATGTT
Found at i:9201021 original size:92 final size:93
Alignment explanation
Indices: 9200852--9201031 Score: 260
Period size: 92 Copynumber: 1.9 Consensus size: 93
9200842 AGATTCTGAC
* *
9200852 GTGTTATCGGGGGAGAATATTTAGCCTATGGGCTTTGCACTACATGCAACTAGCGTCTTATCGGA
1 GTGTTATCAGGGGAGAATATTTAGCCTACGGGCTTTGCACTACATGCAACTAGCGTCTTATCGGA
9200917 CGGACAAACTCTTATGAG-AAATCTGGT
66 CGGACAAACTCTTATGAGCAAATCTGGT
* *
9200944 GTGTTATCAGGGGAGAATGTTTAGCCTACGGGCTTTGCACTACGTGCAACT-G-GTGCGTTATCG
1 GTGTTATCAGGGGAGAATATTTAGCCTACGGGCTTTGCACTACATGCAACTAGCGT-C-TTATCG
*
9201007 GATGGA-AAAGCTCTTATGAGCAAAT
64 GACGGACAAA-CTCTTATGAGCAAAT
9201032 TGACATGTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
90 2 0.03
91 5 0.06
92 68 0.86
93 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (93 bp):
GTGTTATCAGGGGAGAATATTTAGCCTACGGGCTTTGCACTACATGCAACTAGCGTCTTATCGGA
CGGACAAACTCTTATGAGCAAATCTGGT
Found at i:9204026 original size:58 final size:58
Alignment explanation
Indices: 9203964--9204083 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 58
9203954 ACTCATTAAC
*
9203964 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTATTAAAAAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTAAAAAACACTCAT
* * * *
9204022 AAACTAAACCCAAATATTTTTAAATCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTAAAAAACACTCAT
9204080 AAAC
1 AAAC
9204084 AACTCTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTAAAAAACACTCAT
Found at i:9205625 original size:21 final size:18
Alignment explanation
Indices: 9205590--9205632 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 18
9205580 ATTATAAATC
9205590 TTTATTTGTTCAAATATT
1 TTTATTTGTTCAAATATT
9205608 TTTATTATGTTCGAAAATATT
1 TTTATT-TGTTC--AAATATT
9205629 TTTA
1 TTTA
9205633 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
21 11 0.50
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (18 bp):
TTTATTTGTTCAAATATT
Found at i:9233138 original size:17 final size:18
Alignment explanation
Indices: 9233090--9233143 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
9233080 CTTTTACAAC
*
9233090 TTTTTAGTAATTAT-TAATA
1 TTTTTAATAATT-TCTAA-A
9233109 TTTTTAATAATTTCTAAA
1 TTTTTAATAATTTCTAAA
*
9233127 TTTTTTAT-ATTTCTAAA
1 TTTTTAATAATTTCTAAA
9233144 CTTATTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.28
18 9 0.28
19 14 0.44
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTAATAATTTCTAAA
Found at i:9233487 original size:19 final size:21
Alignment explanation
Indices: 9233449--9233488 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9233439 TATACACATT
*
9233449 ATTATCTTTTAAAATAATTTA
1 ATTATCTTTAAAAATAATTTA
9233470 ATTAT-TTTAAAAAT-ATTTA
1 ATTATCTTTAAAAATAATTTA
9233489 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATCTTTAAAAATAATTTA
Found at i:9235387 original size:15 final size:16
Alignment explanation
Indices: 9235367--9235404 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9235357 TCCCTATTCA
9235367 TTATTTTT-ATATAAT
1 TTATTTTTAATATAAT
*
9235382 TTATTTTTAATATCAT
1 TTATTTTTAATATAAT
*
9235398 TAATTTT
1 TTATTTT
9235405 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTAATATAAT
Found at i:9238028 original size:24 final size:24
Alignment explanation
Indices: 9237967--9238029 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
9237957 TAGACTAATA
* * *
9237967 AGAGTTTGACTCAAACAAATAATC
1 AGAGTTTAACTGAAACAAATAAAC
*
9237991 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
9238015 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
9238030 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:9251975 original size:24 final size:21
Alignment explanation
Indices: 9251948--9252024 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 21
9251938 CGAAGTACTT
*
9251948 AACAGAGGGCACATAAGTGCTGG
1 AACAGA-GGCACAAAAGTGCT-G
9251971 CAACAGTAGGCACACAAAGTGCTG
1 -AACAG-AGGCACA-AAAGTGCTG
* *
9251995 AACAGAAGCACACACAGTGCTG
1 AACAGAGGCACA-AAAGTGCTG
9252017 AACAGAGG
1 AACAGAGG
9252025 GCACGAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 22 0.47
23 5 0.11
24 12 0.26
25 8 0.17
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (21 bp):
AACAGAGGCACAAAAGTGCTG
Found at i:9252008 original size:22 final size:22
Alignment explanation
Indices: 9251957--9252022 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 22
9251947 TAACAGAGGG
*
9251957 CACATAAGTGCTGGCAACAGTAGGCA
1 CACA-AAGTGCT-G-AACAG-AAGCA
9251983 CACAAAGTGCTGAACAGAAGCA
1 CACAAAGTGCTGAACAGAAGCA
*
9252005 CACACAGTGCTGAACAGA
1 CACAAAGTGCTGAACAGA
9252023 GGGCACGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 21 0.55
23 5 0.13
24 1 0.03
25 7 0.18
26 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (22 bp):
CACAAAGTGCTGAACAGAAGCA
Found at i:9266336 original size:3 final size:3
Alignment explanation
Indices: 9266328--9266361 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9266318 GCCTCTCCAT
9266328 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9266362 ATTGCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9283968 original size:2 final size:2
Alignment explanation
Indices: 9283961--9283991 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9283951 TGGGGTACTA
9283961 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 A
9283992 ATTTTTCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9284478 original size:17 final size:19
Alignment explanation
Indices: 9284443--9284489 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
9284433 TATTTTCAAG
*
9284443 TTTTATTTTTGAATCTTTA
1 TTTTATTTTTAAATCTTTA
9284462 TTTT-TTTTTAAAT-TTTA
1 TTTTATTTTTAAATCTTTA
* *
9284479 ATCTATTTTTA
1 TTTTATTTTTA
9284490 TTGTTAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATTTTTAAATCTTTA
Found at i:9289920 original size:384 final size:385
Alignment explanation
Indices: 9288825--9290000 Score: 1994
Period size: 388 Copynumber: 3.0 Consensus size: 385
9288815 TTGAAAAAAT
* * *
9288825 AATTTTTCAGTTAAATTTTATTTTTTTATTCAATTAAATTTTGATTAGTTTAGATTATTTTATTA
1 AATTTTTCAGTTAAATTCTA-TTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTA
* * *
9288890 TTATTTGATTTATGAATTAAGATTTTTTATTTTTCGGGTTTCAAGGTTTTTTAATTTCTCAATTT
65 TTATTTGATTTATGAATTAAGGTTTTTT-GTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAA-TT
*
9288955 CTCAATTTTTTCCGTTTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCTCCAACACTTTCAAA
128 -TC----TTTT-C--TTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAA
9289020 AGCATACTTTAAGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGT
185 AGCATACTTTAAGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGT
*
9289085 ATTCACAATCCCGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTTCTTT
250 ATTCACAATCCCGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTACTTT
* *
9289150 TTAGAAGCATTTTTTGATATGAAACACACTTTTGAAACAAAAATAATGCTAAACAAGCAATTTTT
315 TTAGAAGCATTTTTTGATATGAAACACACTTTTGAAACAAAAGTAATGCTAAACAAGCAACTTTT
9289215 GAAAGA
380 GAAAGA
*
9289221 AATTTTTCAGTTAAATTCTGTTTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTA
1 AATTTTTCAGTTAAATTCT-ATTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTA
9289286 TTATTTGATTTATGAATTAAGGTTTTTTGTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAATTTC
65 TTATTTGATTTATGAATTAAGGTTTTTTGTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAATTTC
*
9289351 TTCCTTTTTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAAAGCATACT
130 TT--TTCTTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAAAGCATACT
9289416 TTAAGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGTATTCACAA
193 TTAAGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGTATTCACAA
9289481 TCCCGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTACTTTTTAGAAGC
258 TCCCGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTACTTTTTAGAAGC
*
9289546 ATTTTTTGATATGAAACACATTTTTGAAACAAAAGTAATGCTAAACAAGCAACTTTTGAAAGA
323 ATTTTTTGATATGAAACACACTTTTGAAACAAAAGTAATGCTAAACAAGCAACTTTTGAAAGA
9289609 AATTTTTCAGTTAAATTCTATTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTAT
1 AATTTTTCAGTTAAATTCTATTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTAT
9289674 TATTTGATTTATGAATTAAGGTTTTTTGTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAATTTC-
66 TATTTGATTTATGAATTAAGGTTTTTTGTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAATTTCT
* *
9289738 TTTCTTTTTTGATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAAAACATACTTTA
131 TTTCTTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAAAGCATACTTTA
**
9289803 AGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGTATTCACAATAT
196 AGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGTATTCACAATCC
* *
9289868 CGGCACAACATAATACGGGAAAACAAATACTAAGATTGTGTTTTGTAGTACTTTTTAAAAGCATT
261 CGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTACTTTTTAGAAGCATT
* * * * *
9289933 TTTTTATATGAAACACACTTTTAAAATAAAAGTAATGCTAAACAAGTAACTTTTTGAAATA
326 TTTTGATATGAAACACACTTTTGAAACAAAAGTAATGCTAAACAAGCAAC-TTTTGAAAGA
9289994 AATTTTT
1 AATTTTT
9290001 GGTTTTTTAA
Statistics
Matches: 749, Mismatches: 27, Indels: 19
0.94 0.03 0.02
Matches are distributed among these distances:
384 232 0.31
385 16 0.02
386 1 0.00
387 109 0.15
388 265 0.35
389 2 0.00
391 2 0.00
393 2 0.00
394 2 0.00
395 31 0.04
396 87 0.12
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (385 bp):
AATTTTTCAGTTAAATTCTATTTTTTATTCAATTAAACTCTGATTAGTTTAGATTATTTTATTAT
TATTTGATTTATGAATTAAGGTTTTTTGTTTTCGGGTTTCAGGGTTTTTTAATTTCTCAATTTCT
TTTCTTTTTTTATTTGTTCGTTGATTAATTGGGTCGATCCCCAACACTTTCAAAAGCATACTTTA
AGATGACAAAACCTTGAATGACTGATAAACAACCAAAAAATGATATCAATTTGTATTCACAATCC
CGGCACAACATAATACGGGAAAACAAATACTAAGGTTGTGTTTTGTAGTACTTTTTAGAAGCATT
TTTTGATATGAAACACACTTTTGAAACAAAAGTAATGCTAAACAAGCAACTTTTGAAAGA
Found at i:9293943 original size:4 final size:4
Alignment explanation
Indices: 9293934--9293977 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
9293924 TACCTGTAAG
*
9293934 CATA CATA CATA CATA CATA CATA CACA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9293978 TATTGAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:9298745 original size:3 final size:3
Alignment explanation
Indices: 9298737--9298763 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9298727 CTTCTTATGG
9298737 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
9298764 TATCTGTGTC
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:9306014 original size:21 final size:20
Alignment explanation
Indices: 9305976--9306015 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9305966 AACACTTTGA
**
9305976 AAATAATTTTAAGGATTTAT
1 AAATAATTTTAAAAATTTAT
9305996 AAATAATTTTTAAAAATTTA
1 AAATAA-TTTTAAAAATTTA
9306016 AGTAGGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATAATTTTAAAAATTTAT
Found at i:9307979 original size:16 final size:16
Alignment explanation
Indices: 9307946--9308048 Score: 62
Period size: 16 Copynumber: 5.8 Consensus size: 16
9307936 TCTAAAATAG
* * *
9307946 ATATATATATATATAT
1 ATATATATAAAAAAAT
*
9307962 ATATATGTAAAAAAAT
1 ATATATATAAAAAAAT
9307978 ATATGTATATAAAATAGATAAGT
1 ATA--TATAT-AAA-A-A-AA-T
9308001 ATATATATAAAAAACAAT
1 ATATATAT-AAAAA-AAT
9308019 ATATATTTATAAAAAAAT
1 ATATA--TATAAAAAAAT
*
9308037 ATATGTATAAAA
1 ATATATATAAAA
9308049 TATACAATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
16 22 0.31
18 17 0.24
19 11 0.15
20 5 0.07
21 10 0.14
22 2 0.03
23 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (16 bp):
ATATATATAAAAAAAT
Found at i:9315935 original size:58 final size:60
Alignment explanation
Indices: 9315755--9315957 Score: 203
Period size: 58 Copynumber: 3.4 Consensus size: 60
9315745 TGCTGGCCAT
* * * * * *
9315755 TAGATGGTCGACACCACCTTTTCCAAGACTCGAGAAAGTTTTTTTTCTAGTGTTTTGGCCTA
1 TAGATGGTTGGCACCACATTTTTCAAAACTCGAGAAA--TTTTTTCCTAGTGTTTTGGCCTA
* * * * * * * * *
9315817 TAGATGGCTGACATCACTTTTTTCAAAACCCGAAAAAATTTTTCCTAGTATTTTGACCTA
1 TAGATGGTTGGCACCACATTTTTCAAAACTCGAGAAATTTTTTCCTAGTGTTTTGGCCTA
** *
9315877 TAGATGGTTGGCA-CACATTTTT-AGTACTCGAGAAATTTTTTCCTAATGTTTTGGCCTA
1 TAGATGGTTGGCACCACATTTTTCAAAACTCGAGAAATTTTTTCCTAGTGTTTTGGCCTA
*
9315935 TAGATGGTTGGCACCACCTTTTT
1 TAGATGGTTGGCACCACATTTTT
9315958 TGGAACAAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
58 41 0.35
59 16 0.14
60 30 0.26
62 29 0.25
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (60 bp):
TAGATGGTTGGCACCACATTTTTCAAAACTCGAGAAATTTTTTCCTAGTGTTTTGGCCTA
Found at i:9315971 original size:118 final size:118
Alignment explanation
Indices: 9315782--9316007 Score: 269
Period size: 118 Copynumber: 1.9 Consensus size: 118
9315772 CTTTTCCAAG
* * *
9315782 ACTCGAGAAAGTTTTTTTTCTAGTGTTTTGGCCTATAGATGGCTGACATCACTTTTTTCAAAACC
1 ACTCGAGAAAG-TTTTTTCCTAATGTTTTGGCCTATAGATGGCTGACACCACTTTTTTCAAAA-C
** ** *
9315847 CGAAAAAATTTTTCCT-AGTATTTTGACCTATAGATGGTTGGCACACATTTTTAGT
64 AAAAAAAAAATTTCCTAAGT-TTTTGACCTATAGATAGTTGGCACACATTTTTAGT
* * **
9315902 ACTCGAGAAA-TTTTTTCCTAATGTTTTGGCCTATAGATGGTTGGCACCACCTTTTTT-GGAACA
1 ACTCGAGAAAGTTTTTTCCTAATGTTTTGGCCTATAGATGGCTGACACCA-CTTTTTTCAAAACA
* *
9315965 AAAAAAAAATTTCCTAAGTTTTTGGCCTCTAGATAGTTGGCAC
65 AAAAAAAAATTTCCTAAGTTTTTGACCTATAGATAGTTGGCAC
9316008 CAACTTTATC
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
117 34 0.38
118 39 0.43
119 7 0.08
120 10 0.11
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (118 bp):
ACTCGAGAAAGTTTTTTCCTAATGTTTTGGCCTATAGATGGCTGACACCACTTTTTTCAAAACAA
AAAAAAAATTTCCTAAGTTTTTGACCTATAGATAGTTGGCACACATTTTTAGT
Found at i:9319841 original size:27 final size:27
Alignment explanation
Indices: 9319735--9319847 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
9319725 AGCAATAAGC
*
9319735 GATATTTTGTATTTGGCTCAAATG-G-
1 GATATTCTGTATTTGGCTCAAATGAGT
* *
9319760 GCATATTCTGTATCTGGCTCAAATGAGC
1 G-ATATTCTGTATTTGGCTCAAATGAGT
* **
9319788 AATATTCTGTATTTGGCTTGAATGAGT
1 GATATTCTGTATTTGGCTCAAATGAGT
*
9319815 GATATTCTGTATTTGGCTCAATTGAGT
1 GATATTCTGTATTTGGCTCAAATGAGT
9319842 GATATT
1 GATATT
9319848 ATGTTATTGC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.01
26 21 0.28
27 52 0.70
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (27 bp):
GATATTCTGTATTTGGCTCAAATGAGT
Found at i:9321816 original size:37 final size:37
Alignment explanation
Indices: 9321766--9321839 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
9321756 TTTTAAAACT
*
9321766 CTAAACGTTTTTCTTTTTGGCTC-AAATCTTCTTAACC
1 CTAAACGTTTTTCTTTTTGGCTCTAAAT-TTCCTAACC
* *
9321803 CTAAATGTTTTTCTTTTTTGCTCTAAATTTCCTAACC
1 CTAAACGTTTTTCTTTTTGGCTCTAAATTTCCTAACC
9321840 TTAAGTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 29 0.88
38 4 0.12
ACGTcount: A:0.22, C:0.23, G:0.07, T:0.49
Consensus pattern (37 bp):
CTAAACGTTTTTCTTTTTGGCTCTAAATTTCCTAACC
Found at i:9322890 original size:14 final size:17
Alignment explanation
Indices: 9322850--9322891 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
9322840 TAATGTAATC
9322850 TTAATAATTAATTATAT
1 TTAATAATTAATTATAT
9322867 TTAATTAATTAATT-T-T
1 TTAA-TAATTAATTATAT
9322883 TTAA-AATTA
1 TTAATAATTA
9322892 TACATATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
16 5 0.21
17 5 0.21
18 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAATTAATTATAT
Found at i:9331892 original size:4 final size:4
Alignment explanation
Indices: 9331883--9331911 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
9331873 TAAGTTGAGA
9331883 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
9331912 TGAAGCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:9333985 original size:20 final size:20
Alignment explanation
Indices: 9333960--9333999 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9333950 CGGGATTCGG
*
9333960 TACCAATATTTTTTTATTGA
1 TACCAATACTTTTTTATTGA
*
9333980 TACCAATGCTTTTTTATTGA
1 TACCAATACTTTTTTATTGA
9334000 ATTATATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (20 bp):
TACCAATACTTTTTTATTGA
Found at i:9335316 original size:21 final size:21
Alignment explanation
Indices: 9335290--9335331 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9335280 CGTAATGAAA
*
9335290 TTGATGGCTAGTTGACTCAAG
1 TTGATGACTAGTTGACTCAAG
9335311 TTGATGACTAGTTGACTCAAG
1 TTGATGACTAGTTGACTCAAG
9335332 GCACCAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGATGACTAGTTGACTCAAG
Found at i:9335752 original size:28 final size:27
Alignment explanation
Indices: 9335708--9335774 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
9335698 GGGACCAAAA
*
9335708 AAAATATTTTTAAACTTTTAAAG-GCC
1 AAAATTTTTTTAAACTTTTAAAGAGCC
*
9335734 AAAATTTTTTTACCAACTTTTAAGGAGCC
1 AAAATTTTTTTA--AACTTTTAAAGAGCC
*
9335763 CAAATTTATTTT
1 AAAATTT-TTTT
9335775 TTTTAGCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.32
28 10 0.29
29 9 0.26
30 4 0.12
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTTTTTTAAACTTTTAAAGAGCC
Found at i:9335766 original size:30 final size:30
Alignment explanation
Indices: 9335708--9335819 Score: 81
Period size: 30 Copynumber: 3.8 Consensus size: 30
9335698 GGGACCAAAA
*
9335708 AAAATATTTTTA--AACTTTTAA--AGGCC
1 AAAATATTTTTACCAACTTTTAAGGAGCCC
*
9335734 AAAATTTTTTTACCAACTTTTAAGGAGCCC
1 AAAATATTTTTACCAACTTTTAAGGAGCCC
* *** * * *
9335764 AAATTTATTTTTTTTAGCTTTTAAGG-TCCAA
1 AAA-ATATTTTTACCAACTTTTAAGGAGCC-C
*
9335795 AAAAGATTTTTACCAACTTTTAAGG
1 AAAATATTTTTACCAACTTTTAAGG
9335820 GAGATAAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
26 11 0.17
28 9 0.14
30 25 0.39
31 19 0.30
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (30 bp):
AAAATATTTTTACCAACTTTTAAGGAGCCC
Found at i:9338205 original size:195 final size:194
Alignment explanation
Indices: 9337808--9338254 Score: 467
Period size: 195 Copynumber: 2.3 Consensus size: 194
9337798 ACCAGTACTT
* * *
9337808 GATGCTGCTCACACGAA-CTGTCGAGGACTCGCAACGTATGCA-GTACCCCAACCATCGATACGG
1 GATGCTGCTCACAC-AAGCTGTCGAGGACTCGCAACATAT-CAGGTACCTCAGCCATCGATACGG
* * * * * * *
9337871 TGCCTGTCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACATGAGTTGTCGAGAGTATGCAT
64 TACCTG-CTGCACTATAAACTGTTCCCTAACGAAGCTGCTCACACGAGCTATCGAGAATATGCAT
* * *
9337936 AAAGCATAGTCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCCCAGGTC
128 AAAGCATAATCCCAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCTTTCCCAGCTC
9338001 AC
193 AC
* ** *
9338003 AATGCTGCTCACACAAGCTGTCGAGGACTCGTGACATATTAGGTACCTCAGCCATCGATACGGTA
1 GATGCTGCTCACACAAGCTGTCGAGGACTCGCAACATATCAGGTACCTCAGCCATCGATACGGTA
* * *
9338068 TCTG-TGCA-TAT-AACTGTTCCCTATCGAAGCTGCTCACACGAGCTATCGAGAATATGCACTTA
66 CCTGCTGCACTATAAACTGTTCCCTAACGAAGCTGCTCACACGAGCTATCGAGAATATGCA-TAA
* * * * * * * * * *
9338130 TGTATAAATCTCAGCCATCTTAAGGCTTGTAATCTATTCTTGGATCCTTTTCTCATTTCCC-GAC
130 AGCAT-AATCCCAGCCATCGTAAGGCCTATAATCCATT-TAGGATCCATATCTC-TTTCCCAG-C
9338194 TCAC
191 TCAC
* * *
9338198 GATGCTGCTCACACTAGCTGTCGAGGACTCACAACATATGC-GGTACCTCAGTCATCG
1 GATGCTGCTCACACAAGCTGTCGAGGACTCGCAACATAT-CAGGTACCTCAGCCATCG
9338255 CGTCGGTTTC
Statistics
Matches: 207, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
191 41 0.20
192 8 0.04
193 28 0.14
194 16 0.08
195 114 0.55
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (194 bp):
GATGCTGCTCACACAAGCTGTCGAGGACTCGCAACATATCAGGTACCTCAGCCATCGATACGGTA
CCTGCTGCACTATAAACTGTTCCCTAACGAAGCTGCTCACACGAGCTATCGAGAATATGCATAAA
GCATAATCCCAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCTTTCCCAGCTCAC
Found at i:9341684 original size:17 final size:17
Alignment explanation
Indices: 9341661--9341754 Score: 82
Period size: 17 Copynumber: 5.4 Consensus size: 17
9341651 CCAAACCCAT
9341661 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* * *
9341678 CTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAG
*
9341696 TTTAAATTTCA-TTTGAG
1 TTTAAATTT-ATTTTAAG
*
9341713 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAG
* * *
9341731 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAG
9341748 TTTAAAT
1 TTTAAAT
9341755 AAATAAAGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
16 1 0.02
17 34 0.56
18 26 0.43
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:9341752 original size:35 final size:34
Alignment explanation
Indices: 9341661--9341754 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
9341651 CCAAACCCAT
* *
9341661 TTTAAATTTATTTTAAGCTTAAATTTGTTTTAAAA
1 TTTAAATTTA-TTTAAGTTTAAATTTATTTTAAAA
* *
9341696 TTTAAATTTCATTTGAGTTTAAATTTATTTTCAAA
1 TTTAAATTT-ATTTAAGTTTAAATTTATTTTAAAA
* *
9341731 TTTAAAATTATTATAAATTTAAAT
1 TTTAAATTTATT-TAAGTTTAAAT
9341755 AAATAAAGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 3 0.06
35 46 0.92
36 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTAAGTTTAAATTTATTTTAAAA
Found at i:9342447 original size:21 final size:20
Alignment explanation
Indices: 9342415--9342471 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
9342405 AACAGTCATA
9342415 ATAACATTAATAATAATACT
1 ATAACATTAATAATAATACT
9342435 ATAACATTGAATAATAATA-T
1 ATAACATT-AATAATAATACT
9342455 AGT-A-ATTAATAATAATA
1 A-TAACATTAATAATAATA
9342472 TTAATAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.29
19 3 0.09
20 11 0.31
21 11 0.31
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAACATTAATAATAATACT
Found at i:9342465 original size:18 final size:19
Alignment explanation
Indices: 9342415--9342472 Score: 75
Period size: 18 Copynumber: 3.0 Consensus size: 19
9342405 AACAGTCATA
9342415 ATAACATTAATAATAATACT
1 ATAACATTAATAATAATA-T
9342435 ATAACATTGAATAATAATAT
1 ATAACATT-AATAATAATAT
9342455 AGT-A-ATTAATAATAATAT
1 A-TAACATTAATAATAATAT
9342473 TAATAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.31
19 3 0.08
20 11 0.31
21 11 0.31
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAACATTAATAATAATAT
Found at i:9343595 original size:30 final size:30
Alignment explanation
Indices: 9343533--9343661 Score: 124
Period size: 29 Copynumber: 4.4 Consensus size: 30
9343523 CCCTAAATTA
* **
9343533 TCCAAAAATTACATTTTT-ACTCTC-GGACT
1 TCCAAAAATTACATTTTTGAC-CCCAAAACT
**
9343562 TCCAAAAATTTTATTTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
*
9343592 TCCAAAAATTACATTTTT-ACCCTC-GAACT
1 TCCAAAAATTACATTTTTGACCC-CAAAACT
* *
9343621 TTCAAAAATTCCATTTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
*
9343651 TTC-AAAATTAC
1 TCCAAAAATTAC
9343662 CATATTACCC
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
29 50 0.60
30 33 0.40
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAAATTACATTTTTGACCCCAAAACT
Found at i:9343627 original size:59 final size:59
Alignment explanation
Indices: 9343533--9343731 Score: 203
Period size: 59 Copynumber: 3.4 Consensus size: 59
9343523 CCCTAAATTA
* * **
9343533 TCCAAAAATTACATTTTTACTCTCGGACTTCCAAAAATTTTATTTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACT
*
9343592 TCCAAAAATTACATTTTTACCCTCGAACTTTCAAAAATTCCATTTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACT
* * * * * *
9343651 TTC-AAAATTACCA-TATTACCC-CTTAA-TGTCCAAAAACTCTATTTTT-ATCCCTAAAACT
1 TCCAAAAATTA-CATTTTTACCCTC-GAACT-TCCAAAAATTCCATTTTTGA-CCCCAAAACT
*
9343709 TTCAAAAATTACCA-TTTTACCCT
1 TCCAAAAATTA-CATTTTTACCCT
9343732 TGGATGTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
57 3 0.02
58 43 0.36
59 75 0.62
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACT
Found at i:9343657 original size:29 final size:30
Alignment explanation
Indices: 9343559--9343726 Score: 125
Period size: 30 Copynumber: 5.7 Consensus size: 30
9343549 TTACTCTCGG
* **
9343559 ACTTCCAAAAATTTTATTTTTGACCCCAAA
1 ACTTTCAAAAATTCCATTTTTGACCCCAAA
* * *
9343589 ACTTCCAAAAATTACATTTTT-ACCCTC-GA
1 ACTTTCAAAAATTCCATTTTTGACCC-CAAA
9343618 ACTTTCAAAAATTCCATTTTTGACCCCAAA
1 ACTTTCAAAAATTCCATTTTTGACCCCAAA
* **
9343648 ACTTTC-AAAATTACCA-TATT-ACCCCTTA
1 ACTTTCAAAAATT-CCATTTTTGACCCCAAA
* * * *
9343676 A-TGTCCAAAAACTCTATTTTT-ATCCCTAAA
1 ACT-TTCAAAAATTCCATTTTTGA-CCCCAAA
9343706 ACTTTCAAAAATTACCATTTT
1 ACTTTCAAAAATT-CCATTTT
9343727 ACCCTTGGAT
Statistics
Matches: 109, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.01
28 11 0.10
29 43 0.39
30 47 0.43
31 7 0.06
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
ACTTTCAAAAATTCCATTTTTGACCCCAAA
Found at i:9343741 original size:29 final size:28
Alignment explanation
Indices: 9343709--9343869 Score: 98
Period size: 29 Copynumber: 5.6 Consensus size: 28
9343699 CCCTAAAACT
*
9343709 TTCAAAAATTACCATTTTACCCTTGGATG
1 TTCAAAAATTACCATTTTA-CCTTGAATG
* * **
9343738 TTCAAAAACT-CCATTTTTACCTTAAAAC
1 TTCAAAAATTACCA-TTTTACCTTGAATG
** * *
9343766 TTTTAAAATTACCATTTTACCCCTGAATA
1 TTCAAAAATTACCATTTTA-CCTTGAATG
* * *
9343795 TTCGAAAA-TACCATTTTTGATCC-TGATTT
1 TTCAAAAATTACCA-TTTT-A-CCTTGAATG
9343824 TTCTAAAAATTACCATTTTACCTTCGAATG
1 TTC-AAAAATTACCATTTTACCTT-GAATG
*
9343854 -TCTAAAATT-CCATTTT
1 TTCAAAAATTACCATTTT
9343870 TAACCCCAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
27 7 0.07
28 33 0.32
29 43 0.42
30 14 0.14
31 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (28 bp):
TTCAAAAATTACCATTTTACCTTGAATG
Found at i:9343746 original size:59 final size:59
Alignment explanation
Indices: 9343574--9343900 Score: 282
Period size: 58 Copynumber: 5.6 Consensus size: 59
9343564 CAAAAATTTT
* * *
9343574 ATTTTTGACCCCAAAACTTCCAAAAATTA-CATTTTTACCCTCGAACT-TTCAAAAATTCC
1 ATTTTTGACCCCAAAACTTTCAAAAATTACCA-TTTTACCCTTGAA-TGTTCAAAAACTCC
* * *
9343633 ATTTTTGACCCCAAAACTTTC-AAAATTACCATATTACCCCTT-AATGTCCAAAAACTCT
1 ATTTTTGACCCCAAAACTTTCAAAAATTACCATTTTA-CCCTTGAATGTTCAAAAACTCC
* *
9343691 ATTTTT-ATCCCTAAAACTTTCAAAAATTACCATTTTACCCTTGGATGTTCAAAAACTCC
1 ATTTTTGA-CCCCAAAACTTTCAAAAATTACCATTTTACCCTTGAATGTTCAAAAACTCC
** * * * *
9343750 ATTTTT-ACCTTAAAACTTT-TAAAATTACCATTTTACCCCTGAATATTCGAAAA-TACC
1 ATTTTTGACCCCAAAACTTTCAAAAATTACCATTTTACCCTTGAATGTTCAAAAACT-CC
* ** ** * *
9343807 ATTTTTGA-TCCTGATTTTTCTAAAAATTACCATTTTA-CCTTCGAATG-TCTAAAATTCC
1 ATTTTTGACCCCAAAACTTTC-AAAAATTACCATTTTACCCTT-GAATGTTCAAAAACTCC
* **
9343865 ATTTTTAACCCCAAAA-TTTCCCGAAATTACCATTTT
1 ATTTTTGACCCCAAAACTTT-CAAAAATTACCATTTT
9343901 GCCTCTGCGA
Statistics
Matches: 219, Mismatches: 35, Indels: 29
0.77 0.12 0.10
Matches are distributed among these distances:
56 1 0.00
57 43 0.20
58 91 0.42
59 84 0.38
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (59 bp):
ATTTTTGACCCCAAAACTTTCAAAAATTACCATTTTACCCTTGAATGTTCAAAAACTCC
Found at i:9348252 original size:23 final size:23
Alignment explanation
Indices: 9348208--9348252 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9348198 ACCATTCTTC
*
9348208 TCATTCGTTCATACCATAATTAA
1 TCATTCGTTCATACAATAATTAA
* * *
9348231 TCATTCTTTCATTCAATTATTA
1 TCATTCGTTCATACAATAATTA
9348253 TTTGGATCCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (23 bp):
TCATTCGTTCATACAATAATTAA
Found at i:9350160 original size:40 final size:38
Alignment explanation
Indices: 9350092--9350226 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
9350082 ACCAGAATGG
* *
9350092 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
9350132 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
9350169 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
9350210 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9350227 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:9350224 original size:41 final size:38
Alignment explanation
Indices: 9350124--9350227 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
9350114 TTCGAAGCAA
* *
9350124 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
9350161 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
9350199 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
9350228 CTCGAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:9351126 original size:11 final size:12
Alignment explanation
Indices: 9351093--9351151 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
9351083 ATATTAGTTA
9351093 ATAATAATAA-T
1 ATAATAATAATT
*
9351104 ATAATACTAATT
1 ATAATAATAATT
9351116 A-AATAATAATTT
1 ATAATAATAA-TT
* *
9351128 ATATTATTATATT
1 ATAATAATA-ATT
*
9351141 ATAATATTAAT
1 ATAATAATAAT
9351152 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.41
12 7 0.18
13 15 0.38
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:9351765 original size:13 final size:13
Alignment explanation
Indices: 9351747--9351791 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
9351737 ATGAACAAAG
9351747 GAAAAAAGAGAAA
1 GAAAAAAGAGAAA
9351760 G-AAAAA-AGAAA
1 GAAAAAAGAGAAA
*
9351771 -ACAAAAGA-AAA
1 GAAAAAAGAGAAA
9351782 GAAAAAAGAG
1 GAAAAAAGAG
9351792 GAAAAATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 12 0.46
12 13 0.50
13 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAGAAA
Found at i:9351805 original size:22 final size:21
Alignment explanation
Indices: 9351745--9351809 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 21
9351735 CAATGAACAA
9351745 AGGAAAAAAGAGAAAGAAAAAAG
1 AGGAAAAAA-AG-AAGAAAAAAG
9351768 A--AAACAAAAGAAAAGAAAAAAG
1 AGGAAA-AAAAG--AAGAAAAAAG
9351790 AGGAAAAATAAGAAGAAAAA
1 AGGAAAAA-AAGAAGAAAAA
9351810 CAAAAATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
21 5 0.14
22 23 0.62
23 3 0.08
24 6 0.16
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (21 bp):
AGGAAAAAAAGAAGAAAAAAG
Found at i:9353098 original size:49 final size:48
Alignment explanation
Indices: 9353042--9353425 Score: 282
Period size: 49 Copynumber: 7.9 Consensus size: 48
9353032 GAAGACATAA
** * *
9353042 GGGAAAGATCTAAGTTGCAACTGTGGATCTAGTACCACGAAAATACGAC
1 GGGAAAGATCTAAGCCGCAACTGCGGATCCAGTACCACGAAAATA-GAC
* **
9353091 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTGAAGACATA-A-
1 GGGAAAGATCTAAG-CCGCAACTGCGGATCCAGTACCACGAA-A-ATAGAC
*
9353140 GGGAAAGATCTAAGCCGTAA-TGACGGATCCAGTACCACGAAAATATGAC
1 GGGAAAGATCTAAGCCGCAACTG-CGGATCCAGTACCACGAAAATA-GAC
* * *
9353189 GGGAAAGATCTAAGACCGTAACGGCGAATCCAGTACCACGAAGACATA-A-
1 GGGAAAGATCTAAG-CCGCAACTGCGGATCCAGTACCACGAA-A-ATAGAC
* * * * * * *
9353238 GGGAAAGATCTAAGACCGTAACGGCGGATCTAATACTACGAAAACACAAC
1 GGGAAAGATCTAAG-CCGCAACTGCGGATCCAGTACCACGAAAATA-GAC
** * * * * *
9353288 GAAAAAGATCTAAGACCGCAA-TGGCGGATCCAATACCGCGAAAACATAA
1 GGGAAAGATCTAAG-CCGCAACT-GCGGATCCAGTACCACGAAAATAGAC
* * * *
9353337 AGGAAAGATCTAAGCCGCGA-TAGTGGATCCAGTACCACGAAGGAACA-A-
1 GGGAAAGATCTAAGCCGCAACT-GCGGATCCAGTACCACGAA--AATAGAC
* *
9353385 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACTACGAA
1 GGGAAAGATCTAAGCCGCAACTGCGGATCCAGTACCACGAA
9353426 GATTTGAAGG
Statistics
Matches: 277, Mismatches: 40, Indels: 37
0.78 0.11 0.10
Matches are distributed among these distances:
46 3 0.01
47 4 0.01
48 80 0.29
49 94 0.34
50 87 0.31
51 3 0.01
52 6 0.02
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (48 bp):
GGGAAAGATCTAAGCCGCAACTGCGGATCCAGTACCACGAAAATAGAC
Found at i:9353201 original size:98 final size:98
Alignment explanation
Indices: 9353031--9353455 Score: 448
Period size: 98 Copynumber: 4.3 Consensus size: 98
9353021 CTCAGCACCA
** * * *
9353031 CGAAGACATAAGGGAAAGATCTAAGTTGCAACTG-TGGATCTAGTACCACGAAAATACGACGGGA
1 CGAAGACATAAGGGAAAGATCTAAGCCGCAA-TGACGGATCCAGTACCACGAAAACACGACGGGA
9353095 AAGATCTAAGACCGCAACGGCGGATCCAGTACCG
65 AAGATCTAAGACCGCAACGGCGGATCCAGTACCG
* * * *
9353129 TGAAGACATAAGGGAAAGATCTAAGCCGTAATGACGGATCCAGTACCACGAAAATATGACGGGAA
1 CGAAGACATAAGGGAAAGATCTAAGCCGCAATGACGGATCCAGTACCACGAAAACACGACGGGAA
* * *
9353194 AGATCTAAGACCGTAACGGCGAATCCAGTACCA
66 AGATCTAAGACCGCAACGGCGGATCCAGTACCG
* * * * * * * **
9353227 CGAAGACATAAGGGAAAGATCTAAGACCGTAACGGCGGATCTAATACTACGAAAACACAACGAAA
1 CGAAGACATAAGGGAAAGATCTAAG-CCGCAATGACGGATCCAGTACCACGAAAACACGACGGGA
* *
9353292 AAGATCTAAGACCGCAATGGCGGATCCAATACCG
65 AAGATCTAAGACCGCAACGGCGGATCCAGTACCG
* * * *
9353326 CGAAAACATAAAGGAAAGATCTAAGCCGCGAT-AGTGGATCCAGTACCACGAAGGAACA--A-GG
1 CGAAGACATAAGGGAAAGATCTAAGCCGCAATGA-CGGATCCAGTACCACGAA--AACACGACGG
**
9353387 GAAAGATCTAAG-CCGCAACGGCGGATCCAGTACTA
63 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCG
** * * *
9353422 CGAAGATTTGAAGGGAAAGGTTTAAGTCGCAATG
1 CGAAGACAT-AAGGGAAAGATCTAAGCCGCAATG
9353456 TCGAACCCGG
Statistics
Matches: 270, Mismatches: 50, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
96 25 0.09
97 32 0.12
98 128 0.47
99 81 0.30
100 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (98 bp):
CGAAGACATAAGGGAAAGATCTAAGCCGCAATGACGGATCCAGTACCACGAAAACACGACGGGAA
AGATCTAAGACCGCAACGGCGGATCCAGTACCG
Found at i:9353367 original size:197 final size:193
Alignment explanation
Indices: 9353027--9353427 Score: 518
Period size: 197 Copynumber: 2.1 Consensus size: 193
9353017 AGGTCTCAGC
** * * * * *
9353027 ACCACGAAGACATAAGGGAAAGATCTAAGTTGCAACTGTGGATCTAGTACCACGAAAATACGACG
1 ACCACGAAGACATAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAATACCACGAAAACACAACG
** * * * *
9353092 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTGAAGACATAAGGGAAAGATCTAAGCCG
66 AAAAAGATCTAAGACCGCAACGGCGGATCCAATACCGCGAAAACATAAAGGAAAGATCTAAGCCG
* * *
9353157 TAATGACGGATCCAGTACCACGAA-AATATGACGGGAAAGATCTAAGACCGTAACGGCGAATCCA
131 CAATGACGGATCCAGTACCACGAAGAACA--A-GGGAAAGATCTAAG-CCGCAACGGCGAATCCA
9353221 GT
192 GT
* *
9353223 ACCACGAAGACATAAGGGAAAGATCTAAGACCGTAACGGCGGATCTAATACTACGAAAACACAAC
1 ACCACGAAGACATAAGGGAAAGATCTAAG-CCGCAACGGCGGATCTAATACCACGAAAACACAAC
*
9353288 GAAAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCGAAAACATAAAGGAAAGATCTAAGCC
65 GAAAAAGATCTAAGACCGCAACGGCGGATCCAATACCGCGAAAACATAAAGGAAAGATCTAAGCC
* * *
9353353 GCGAT-AGTGGATCCAGTACCACGAAGGAACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAG
130 GCAATGA-CGGATCCAGTACCACGAA-GAACAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAG
9353417 T
193 T
*
9353418 ACTACGAAGA
1 ACCACGAAGA
9353428 TTTGAAGGGA
Statistics
Matches: 178, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
195 26 0.15
196 44 0.25
197 105 0.59
199 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (193 bp):
ACCACGAAGACATAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAATACCACGAAAACACAACG
AAAAAGATCTAAGACCGCAACGGCGGATCCAATACCGCGAAAACATAAAGGAAAGATCTAAGCCG
CAATGACGGATCCAGTACCACGAAGAACAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGT
Found at i:9353770 original size:39 final size:39
Alignment explanation
Indices: 9353716--9353820 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
9353706 TCATCAACCA
* *
9353716 ATCTCTTACCCCGAGCTTGGGGCAGATTGAAGTCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTG
9353755 ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTG
9353794 ATCTCTTACCCCGAGCCTGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
9353821 CATCATCAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTG
Found at i:9353837 original size:39 final size:37
Alignment explanation
Indices: 9353706--9353861 Score: 118
Period size: 39 Copynumber: 4.0 Consensus size: 37
9353696 TGAAGTTACA
*
9353706 TCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
1 TCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* ****
9353743 TGAAGTCATTTGATCTCTTACCCCGAGCCTGGGGCAGAT
1 T-CA-TCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* *
9353782 TGA--AGCCATTTGATCTCTTACCCCGAGCCTGGGGCAGAT
1 TCATCAACCA----ATCTCTTACCCCGAGCCTGGGGCAGAT
* * *
9353821 CATCATCAACCAATCTCCTACCCCAAGCCTAGGGGTAGAT
1 --TCATCAACCAATCTCTTACCCCGAGCCT-GGGGCAGAT
9353861 T
1 T
9353862 ATAGTTATCC
Statistics
Matches: 92, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
35 1 0.01
37 1 0.01
38 3 0.03
39 73 0.79
40 8 0.09
41 2 0.02
43 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (37 bp):
TCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
Found at i:9354226 original size:206 final size:206
Alignment explanation
Indices: 9353872--9354737 Score: 1205
Period size: 206 Copynumber: 4.2 Consensus size: 206
9353862 ATAGTTATCC
* *
9353872 GAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAAAAGACCAAATCAAACCCACGCT
1 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
*
9353937 CGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAACCAGGTCGAAGCAATA
66 CGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* * * * *
9354002 GAATGGTTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCTTTTTCCTGATAAGATATAG
131 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAG
9354067 AGAAGCGGAAT
196 AGAAGCGGAAT
9354078 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
1 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
* * * * * *
9354143 CGATGTGAGCGAATCTTTGAACCCCAGCTTCTTGATAAGATACTGAGAAGCAGGTCAAAGTAATA
66 CGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* *
9354208 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAG
131 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAG
*
9354273 AGAAGCGGATT
196 AGAAGCGGAAT
**
9354284 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTAACGCT
1 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
* * *
9354349 CGATGTGAGCGAATCTTCGAACCCTAGCTTCCTGATGTGATACTGAGAAGCAGGTCGAAGCAATA
66 CGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* * * * * *
9354414 AAATGGTTAGCTTCCTGATGAGATACTGAGAACTAGACTAAATTCGTCTTCTTGATGAGATATAG
131 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAG
*
9354479 AGAAGCGGATT
196 AGAAGCGGAAT
* * *** *
9354490 GAAACAAGTGATGCGGTCACCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATAGG
1 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA--ACCCACG
* * * * *
9354555 CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGTTGAGATACCGAGAAGCAGGTCGAAGCAA
64 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * * * * * * * *
9354620 TAAAGTAGTTACCTTCCTGATAAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAA-ACA
129 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAT-AAGATA
*
9354684 CAGAGAAGTGG-AT
193 CAGAGAAGCGGAAT
* *
9354697 CAAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGA
1 --GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGA
9354738 AAATAAGGCC
Statistics
Matches: 591, Mismatches: 64, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
206 434 0.73
207 1 0.00
208 119 0.20
209 37 0.06
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (206 bp):
GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
CGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAG
AGAAGCGGAAT
Found at i:9355123 original size:12 final size:12
Alignment explanation
Indices: 9355106--9355160 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
9355096 TATTTTAAGA
9355106 TTAAATTTTATT
1 TTAAATTTTATT
9355118 TTAAA-TTTATAT
1 TTAAATTTTAT-T
* *
9355130 TT-AATTTAAGT
1 TTAAATTTTATT
9355141 TTAAA-TTTATT
1 TTAAATTTTATT
9355152 TTCAAATTT
1 TT-AAATTT
9355161 AAAATTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
11 16 0.47
12 16 0.47
13 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TTAAATTTTATT
Found at i:9355161 original size:12 final size:11
Alignment explanation
Indices: 9355106--9355161 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 11
9355096 TATTTTAAGA
9355106 TTAAATTTTATT
1 TTAAA-TTTATT
9355118 TTAAATTTATAT
1 TTAAATTTAT-T
*
9355130 TT-AATTTAAGT
1 TTAAATTT-ATT
9355141 TTAAATTTATT
1 TTAAATTTATT
9355152 TTCAAATTTA
1 TT-AAATTTA
9355162 AAATTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 17 0.45
12 21 0.55
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTAAATTTATT
Found at i:9355177 original size:17 final size:17
Alignment explanation
Indices: 9355088--9355181 Score: 109
Period size: 17 Copynumber: 5.4 Consensus size: 17
9355078 CCAAACCCAT
9355088 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
9355106 -TTAAATTTTATTTTAAA
1 TTTAAA-TTTATTTTAAA
* * *
9355123 TTTATATTTAATTTAAG
1 TTTAAATTTATTTTAAA
9355140 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
9355158 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
9355175 TTTAAAT
1 TTTAAAT
9355182 AAATAAAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
17 36 0.56
18 28 0.44
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:9355179 original size:35 final size:34
Alignment explanation
Indices: 9355088--9355181 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
9355078 CCAAACCCAT
*
9355088 TTTAAATTTATTTTAAGATTAAATTTTATTTTAAA
1 TTTAAATTTA-TTTAAGTTTAAATTTTATTTTAAA
*
9355123 TTTATATTTAATTTAAGTTTAAA-TTTATTTTCAAA
1 TTTAAATTT-ATTTAAGTTTAAATTTTATTTT-AAA
* *
9355158 TTTAAAATTATTATAAATTTAAAT
1 TTTAAATTTATT-TAAGTTTAAAT
9355182 AAATAAAGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 11 0.22
35 38 0.76
36 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (34 bp):
TTTAAATTTATTTAAGTTTAAATTTTATTTTAAA
Found at i:9355859 original size:21 final size:20
Alignment explanation
Indices: 9355827--9355883 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
9355817 AACAGTCATA
9355827 ATAACATTAATAATAATACT
1 ATAACATTAATAATAATACT
9355847 ATAACATTGAATAATAATA-T
1 ATAACATT-AATAATAATACT
9355867 AGT-A-ATTAATAATAATA
1 A-TAACATTAATAATAATA
9355884 ATATTAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.29
19 3 0.09
20 11 0.31
21 11 0.31
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAACATTAATAATAATACT
Found at i:9355877 original size:18 final size:17
Alignment explanation
Indices: 9355832--9355902 Score: 76
Period size: 15 Copynumber: 4.1 Consensus size: 17
9355822 TCATAATAAC
9355832 ATTAATAATAATACTATAA
1 ATTAATAATAATA-TAT-A
9355851 CATTGAATAATAATATAGTA
1 -ATT-AATAATAATATA-TA
9355871 ATTAATAATAATA-AT-
1 ATTAATAATAATATATA
9355886 ATTAATAAT-ATATATA
1 ATTAATAATAATATATA
9355902 A
1 A
9355903 AAAGAAGAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.06
15 11 0.23
16 2 0.04
17 1 0.02
18 10 0.21
19 3 0.06
20 6 0.13
21 11 0.23
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTAATAATAATATATA
Found at i:9356374 original size:29 final size:28
Alignment explanation
Indices: 9356330--9356484 Score: 125
Period size: 29 Copynumber: 5.3 Consensus size: 28
9356320 AAAATTCTAT
* *
9356330 TTTTAACCCTGAAACTTTTGAAAATTACA
1 TTTT-ACCCTAAAACTTTTAAAAATTACA
** * *
9356359 TTGTTACCCTCGAACTTCTAAAAATTCCA
1 TT-TTACCCTAAAACTTTTAAAAATTACA
*
9356388 TTTTGACCCTAAAAGTTTTAAAAATTACA
1 TTTT-ACCCTAAAACTTTTAAAAATTACA
** *
9356417 TTTTACCCCT-AAACTTCCAAAAATTCCA
1 TTTTA-CCCTAAAACTTTTAAAAATTACA
*
9356445 TTTTTGA-CCTCAAAACTTTCAAAAATTACCA
1 -TTTT-ACCCT-AAAACTTTTAAAAATTA-CA
9356476 TTTTACCCT
1 TTTTACCCT
9356485 CGAATATCCA
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
28 20 0.20
29 55 0.54
30 24 0.24
31 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (28 bp):
TTTTACCCTAAAACTTTTAAAAATTACA
Found at i:9356382 original size:59 final size:59
Alignment explanation
Indices: 9356316--9356712 Score: 356
Period size: 59 Copynumber: 6.8 Consensus size: 59
9356306 CCCCCAGACT
* * *
9356316 TCCAAAAATTCTATTTTTAACCCTGAAACTTTTGAAAATTA-CATTGTTACCCTCGAACT-
1 TCCAAAAATTCCATTTTTGACCCTGAAACTTTTAAAAATTACCATT-TTACCCTCGAA-TA
* * * *
9356375 TCTAAAAATTCCA-TTTTGACCCTAAAAGTTTTAAAAATTA-CATTTTACCC-CTAA-A
1 TCCAAAAATTCCATTTTTGACCCTGAAACTTTTAAAAATTACCATTTTACCCTCGAATA
* *
9356430 CTTCCAAAAATTCCATTTTTGA-CCTCAAAACTTTCAAAAATTACCATTTTACCCTCGAATA
1 --TCCAAAAATTCCATTTTTGACCCT-GAAACTTTTAAAAATTACCATTTTACCCTCGAATA
* * * *
9356491 TCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCATTTTACCC-CCAGATA
1 TCCAAAAATTCCATTTTTGACCCTGAAACTTTTAAAAATTACCATTTTACCCTCGA-ATA
* * *
9356550 TCCAAAAACTCCATTTTTTA-CCTCGAAACTTTT-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTCCATTTTTGACCCT-GAAACTTTTAAAAATTACCATTTTACCCTCGAATA
** * ** *
9356608 TCTGAAAATTCCATTTTTGATCCT-AATTTTTCTAAAAATTACCGTTTTACCCTCTG-ATA
1 TCCAAAAATTCCATTTTTGACCCTGAAACTTT-TAAAAATTACCATTTTACCCTC-GAATA
* * * * *
9356667 TTC-AAAATTCCA-TTTTAACCC-CAAATTTTTCCAAAATTACCATTTT
1 TCCAAAAATTCCATTTTTGACCCTGAAACTTTT-AAAAATTACCATTTT
9356713 GCCCCTGGGT
Statistics
Matches: 283, Mismatches: 37, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
56 4 0.01
57 52 0.18
58 98 0.35
59 122 0.43
60 6 0.02
61 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (59 bp):
TCCAAAAATTCCATTTTTGACCCTGAAACTTTTAAAAATTACCATTTTACCCTCGAATA
Found at i:9356468 original size:30 final size:29
Alignment explanation
Indices: 9356378--9356543 Score: 126
Period size: 29 Copynumber: 5.7 Consensus size: 29
9356368 TCGAACTTCT
* * *
9356378 AAAAATTCCATTTTGACCCTAAAAGTTTT
1 AAAAATTCCATTTTGACCCCAAAACTTTC
* * *
9356407 AAAAATTACATTTT-ACCCCTAAACTTCC
1 AAAAATTCCATTTTGACCCCAAAACTTTC
*
9356435 AAAAATTCCATTTTTGACCTCAAAACTTTC
1 AAAAATTCCA-TTTTGACCCCAAAACTTTC
* *
9356465 AAAAATTACCATTTT-ACCCTC-GAA-TATCC
1 AAAAATT-CCATTTTGACCC-CAAAACT-TTC
* ** *
9356494 AAAAACTCCATTTTTGACCCCGTAACTTTT
1 AAAAATTCCA-TTTTGACCCCAAAACTTTC
9356524 AAAAATTACCATTTT-ACCCC
1 AAAAATT-CCATTTTGACCCC
9356544 CAGATATCCA
Statistics
Matches: 109, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
28 22 0.20
29 40 0.37
30 40 0.37
31 7 0.06
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAATTCCATTTTGACCCCAAAACTTTC
Found at i:9356496 original size:29 final size:28
Alignment explanation
Indices: 9356350--9356624 Score: 95
Period size: 29 Copynumber: 9.5 Consensus size: 28
9356340 GAAACTTTTG
* *
9356350 AAAATTACATTGTTACCCTCGAACT-TCTA
1 AAAATTCCATT-TTACCCTCGAA-TATCCA
** **
9356379 AAAATTCCATTTTGACCCTAAAAGT-TTTA
1 AAAATTCCATTTT-ACCCTCGAA-TATCCA
* *
9356408 AAAATTACATTTTACCC-CTAA-ACTTCCA
1 AAAATTCCATTTTACCCTCGAATA--TCCA
* *
9356436 AAAATTCCATTTTTGA-CCTC-AAAACTTTCA
1 AAAATTCCA-TTTT-ACCCTCGAATA--TCCA
9356466 AAAATTACCATTTTACCCTCGAATATCCA
1 AAAATT-CCATTTTACCCTCGAATATCCA
* **
9356495 AAAACTCCATTTTTGACCC-CGTAACT-TTTA
1 AAAATTCCA-TTTT-ACCCTCG-AA-TATCCA
*
9356525 AAAATTACCATTTTACCC-CCAGATATCCA
1 AAAATT-CCATTTTACCCTCGA-ATATCCA
* ***
9356554 AAAACTCCATTTTTTA-CCTCGAA-ACTTTT
1 AAAATTCCA--TTTTACCCTCGAATA-TCCA
* **
9356583 AAAATTACCATTTTACCCTCGAATGTCTG
1 AAAATT-CCATTTTACCCTCGAATATCCA
9356612 AAAATTCCATTTT
1 AAAATTCCATTTT
9356625 TGATCCTAAT
Statistics
Matches: 191, Mismatches: 30, Indels: 51
0.70 0.11 0.19
Matches are distributed among these distances:
27 2 0.01
28 37 0.19
29 93 0.49
30 49 0.26
31 10 0.05
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTACCCTCGAATATCCA
Found at i:9356600 original size:117 final size:115
Alignment explanation
Indices: 9356301--9356712 Score: 423
Period size: 116 Copynumber: 3.5 Consensus size: 115
9356291 AAATTATATT
* *
9356301 TTTTACCCCCAGACTTCCAAAAATTCTATTTTTAACCCTGAAACTTTTGAAAATTA-CATTGTTA
1 TTTTACCCCCAGACTTCCAAAAATTCCATTTTTAACCC-GAAACTTTTCAAAATTACCATT-TTA
*
9356365 CCCTCGAACTTCTAAAAATTCCA-TTTTGA-CCCTAAAAGTTTTAAAAATTA-CA
64 CCCTCGAA-TTCTAAAAATTCCATTTTTGACCCCT--AACTTTTAAAAATTACCA
* * * *
9356417 TTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAAC-TTTCAAAAATTACCATTTTA
1 TTTTACCCCCAGACTTCCAAAAATTCCATTTTTAACC-CGAAACTTTTC-AAAATTACCATTTTA
* *
9356481 CCCTCGAATATCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCA
64 CCCTCGAAT-TCTAAAAATTCCATTTTTGACCCC-TAACTTTTAAAAATTACCA
* *
9356535 TTTTACCCCCAGA-TATCCAAAAACTCCATTTTTTACCTCGAAACTTTT-AAAATTACCATTTTA
1 TTTTACCCCCAGACT-TCCAAAAATTCCATTTTTAACC-CGAAACTTTTCAAAATTACCATTTTA
* * * *
9356598 CCCTCGAATGTCTGAAAATTCCATTTTTGA-TCCTAATTTTTCTAAAAATTACCG
64 CCCTCGAAT-TCTAAAAATTCCATTTTTGACCCCTAA-CTTT-TAAAAATTACCA
* * * * *
9356652 TTTTACCCTCTGA-TATTC-AAAATTCCA-TTTTAACCCCAAATTTTTCCAAAATTACCATTTT
1 TTTTACCCCCAGACT-TCCAAAAATTCCATTTTTAACCCGAAACTTTT-CAAAATTACCATTTT
9356713 GCCCCTGGGT
Statistics
Matches: 254, Mismatches: 28, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
114 8 0.03
115 14 0.06
116 93 0.37
117 93 0.37
118 42 0.17
119 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (115 bp):
TTTTACCCCCAGACTTCCAAAAATTCCATTTTTAACCCGAAACTTTTCAAAATTACCATTTTACC
CTCGAATTCTAAAAATTCCATTTTTGACCCCTAACTTTTAAAAATTACCA
Found at i:9356741 original size:117 final size:117
Alignment explanation
Indices: 9356301--9356712 Score: 387
Period size: 117 Copynumber: 3.5 Consensus size: 117
9356291 AAATTATATT
* * * *
9356301 TTTTACCCCCAGACT-TCCAAAAATTCTATTTTTAACCCTGAAACTTTTGAAAATTA-CATTGTT
1 TTTTACCCCCAGA-TATCCAAAAATTCCATTTTTAACCC-CAAAATTTTCAAAATTACCATT-TT
* * *** *
9356364 ACCCTCGAACT-TCTAAAAATTCCA-TTTTGACCCTAAAAGTTTTAAAAATTA-CA
63 ACCCTCGAA-TATCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCA
* * * * *
9356417 TTTTACCCCTAAACT-TCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAAATTACCATTTTA
1 TTTTACCCCCAGA-TATCCAAAAATTCCATTTTTAACCCCAAAATTTTC-AAAATTACCATTTTA
9356481 CCCTCGAATATCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCA
64 CCCTCGAATATCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCA
* * * *
9356535 TTTTACCCCCAGATATCCAAAAACTCCATTTTTTACCTCGAAACTTTT-AAAATTACCATTTTAC
1 TTTTACCCCCAGATATCCAAAAATTCCATTTTTAACC-CCAAAATTTTCAAAATTACCATTTTAC
* ** * * * *
9356599 CCTCGAATGTCTGAAAATTCCATTTTTGA-TCC-TAATTTTTCTAAAAATTACCG
65 CCTCGAATATCCAAAAACTCCATTTTTGACCCCGTAA-CTTT-TAAAAATTACCA
* * * *
9356652 TTTTACCCTCTGATATTC-AAAATTCCA-TTTTAACCCCAAATTTTTCCAAAATTACCATTTT
1 TTTTACCCCCAGATATCCAAAAATTCCATTTTTAACCCCAAAATTTT-CAAAATTACCATTTT
9356713 GCCCCTGGGT
Statistics
Matches: 248, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
114 8 0.03
115 17 0.07
116 89 0.36
117 95 0.38
118 33 0.13
119 6 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (117 bp):
TTTTACCCCCAGATATCCAAAAATTCCATTTTTAACCCCAAAATTTTCAAAATTACCATTTTACC
CTCGAATATCCAAAAACTCCATTTTTGACCCCGTAACTTTTAAAAATTACCA
Found at i:9366001 original size:14 final size:15
Alignment explanation
Indices: 9365984--9366017 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9365974 ACTAAATTTT
9365984 AATTCAATAATT-AA
1 AATTCAATAATTCAA
*
9365998 AATTCATTAATTCAA
1 AATTCAATAATTCAA
9366013 AATTC
1 AATTC
9366018 CATATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTCAATAATTCAA
Found at i:9368686 original size:11 final size:11
Alignment explanation
Indices: 9368670--9368694 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9368660 TTTACTATTT
9368670 TATCTATAATA
1 TATCTATAATA
9368681 TATCTATAATA
1 TATCTATAATA
9368692 TAT
1 TAT
9368695 ATAAAAATGT
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:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
TATCTATAATA
Found at i:9375960 original size:21 final size:22
Alignment explanation
Indices: 9375923--9375965 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9375913 ACTTTCATCA
*
9375923 TTAAGCTTTAATTAACC-ATTT
1 TTAACCTTTAATTAACCTATTT
9375944 TTAACCTTT-ATTAAACCTATTT
1 TTAACCTTTAATT-AACCTATTT
9375966 ATAATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAACCTTTAATTAACCTATTT
Found at i:9376719 original size:36 final size:36
Alignment explanation
Indices: 9376667--9376767 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
9376657 TCGTTATTCG
* * *
9376667 TTTTATTCCCTATTGACTC-AATGGTCATGATGCTCA
1 TTTTACTCCCTGTTGACCCGAA-GGTCATGATGCTCA
9376703 TTTTACTCCCTGTTGACCCGAAGGTCATGATGCTCA
1 TTTTACTCCCTGTTGACCCGAAGGTCATGATGCTCA
*
9376739 TTTTACTCCCTGTTGACCCTAAGGTCATG
1 TTTTACTCCCTGTTGACCCGAAGGTCATG
9376768 CTTGTTACCA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 58 0.97
37 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (36 bp):
TTTTACTCCCTGTTGACCCGAAGGTCATGATGCTCA
Found at i:9381418 original size:61 final size:58
Alignment explanation
Indices: 9381353--9381468 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
9381343 AATAATTATC
* * *
9381353 TTAATAATAAATTTAATTTAATATTTATTTTGTAGATAAGTATTCTATTAATTTAATAAAT
1 TTAATAATAAATTTAATCTAATATTTA-TCT-T-GATAAGTATTATATTAATTTAATAAAT
* *
9381414 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATGTTAATTTAATA
1 TTAATAATAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
9381469 TTAAAGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.44
59 1 0.02
60 2 0.04
61 25 0.50
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATAATAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAAAT
Found at i:9381481 original size:58 final size:60
Alignment explanation
Indices: 9381355--9381489 Score: 152
Period size: 58 Copynumber: 2.3 Consensus size: 60
9381345 TAATTATCTT
* * * * *
9381355 AATAATAAATTTAATTTAATATTTATTTTGTAGATAAGTATTCTATTAATTTAATAAATTT
1 AATATTAAATTTAATCTAATATTTATTCTGTAGATAAGTATTATATTAATTTAAT-AATTA
*
9381416 AATATTAAATTTAATCTAATATTTA-TCT-T-GATAAGTATTATGTTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATTCTGTAGATAAGTATTATATTAATTTAATAATTA
*
9381472 AAGTAATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
9381490 ATAGTTGAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 33 0.51
59 1 0.02
60 2 0.03
61 23 0.35
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATTCTGTAGATAAGTATTATATTAATTTAATAATTA
Found at i:9384971 original size:83 final size:82
Alignment explanation
Indices: 9384862--9385117 Score: 336
Period size: 83 Copynumber: 3.1 Consensus size: 82
9384852 GACTCGATTT
* * * *
9384862 GATTCTATTCGAAAAATTTTCAAATTGAGTTTGGTTGTTAAAATAGGATTCATCAACTTGACTAA
1 GATTCAATTCGAAAAAATTTCAAATTGAGTTCGGTTGTTAAAATAGGATTC-TCAACTCGACTAA
*
9384927 CTTG-AATTTTTTTGACTC
65 CTCGAAATTTTTTT-ACTC
* * * *
9384945 GATTCGATTCGAAAAAATTTCAAATTGAGTTCAGTTGCTAAAATAGGATTCGTGAACTCGACTAA
1 GATTCAATTCGAAAAAATTTCAAATTGAGTTCGGTTGTTAAAATAGGATTC-TCAACTCGACTAA
9385010 CTCGAAATTTTTTTACTC
65 CTCGAAATTTTTTTACTC
* * *
9385028 GATTCAATTCGAAAAAATTTCAGATTGAGTTCGGTTATT-AAATAAGGATTCGCTAACTCGACTA
1 GATTCAATTCGAAAAAATTTCAAATTGAGTTCGGTTGTTAAAAT-AGGATTCTC-AACTCGACTA
9385092 ACTCGAAATTTTTTTACTC
64 ACTCGAAATTTTTTTACTC
*
9385111 AATTCAA
1 GATTCAA
9385118 CTCAACTCGG
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
82 4 0.03
83 140 0.92
84 9 0.06
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (82 bp):
GATTCAATTCGAAAAAATTTCAAATTGAGTTCGGTTGTTAAAATAGGATTCTCAACTCGACTAAC
TCGAAATTTTTTTACTC
Found at i:9388780 original size:29 final size:28
Alignment explanation
Indices: 9388720--9388888 Score: 128
Period size: 29 Copynumber: 5.8 Consensus size: 28
9388710 TTAAGGGGTA
* * ** * *
9388720 AAAATGTTATTTTGGGAAAATTCAGGGT
1 AAAATGTAATTTTTGGAAGTTTGAGGGC
* *
9388748 AAAATTGTGATTTTTGGAAGTTTGGGGGC
1 AAAA-TGTAATTTTTGGAAGTTTGAGGGC
9388777 AAAATG-ATATTTTTGAGAAGTTTGAGGGC
1 AAAATGTA-ATTTTTG-GAAGTTTGAGGGC
* *
9388806 AAAATATAATTTTTGAGAAGTTTGAGGGTA
1 AAAATGTAATTTTTG-GAAGTTTGAGGG-C
*
9388836 AAAATATAATTTTTGGACAAGTTT-AGGGGTC
1 AAAATGTAATTTTTGG--AAGTTTGA-GGG-C
9388867 AAAATG-AATTTTTTGGAAGTTT
1 AAAATGTAA-TTTTTGGAAGTTT
9388889 AAGGACCTTC
Statistics
Matches: 119, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.11
29 65 0.55
30 19 0.16
31 22 0.18
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAGTTTGAGGGC
Found at i:9388842 original size:30 final size:30
Alignment explanation
Indices: 9388678--9388888 Score: 127
Period size: 29 Copynumber: 7.2 Consensus size: 30
9388668 AGTTTCGAAG
* * *
9388678 AGTTTG-GGGTTAAAATATAA-TTTTAAAA
1 AGTTTGAGGGTAAAAATATAATTTTTGAGA
* * * *
9388706 AGTTTTAAGGGGTAAAAATGTTA-TTTTGGGA
1 AG-TTTGA-GGGTAAAAATATAATTTTTGAGA
** * * * *
9388737 AAATTCAGGGTAAAATTGTGATTTTTG-GA
1 AGTTTGAGGGTAAAAATATAATTTTTGAGA
**
9388766 AGTTTG-GGGGCAAAATGAT-ATTTTTGAGA
1 AGTTTGAGGGTAAAAAT-ATAATTTTTGAGA
*
9388795 AGTTTGAGGG-CAAAATATAATTTTTGAGA
1 AGTTTGAGGGTAAAAATATAATTTTTGAGA
*
9388824 AGTTTGAGGGTAAAAATATAATTTTTGGACA
1 AGTTTGAGGGTAAAAATATAATTTTT-GAGA
* *
9388855 AGTTT-AGGGGTCAAAATGA-ATTTTTTG-GA
1 AGTTTGA-GGGTAAAAAT-ATAATTTTTGAGA
9388884 AGTTT
1 AGTTT
9388889 AAGGACCTTC
Statistics
Matches: 147, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
28 18 0.12
29 61 0.41
30 27 0.18
31 40 0.27
32 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
AGTTTGAGGGTAAAAATATAATTTTTGAGA
Found at i:9388889 original size:29 final size:29
Alignment explanation
Indices: 9388757--9388888 Score: 139
Period size: 29 Copynumber: 4.5 Consensus size: 29
9388747 TAAAATTGTG
*
9388757 ATTTTTGGAAGTTTG-GGGGCAAAATGAT-
1 ATTTTTGGAAGTTTGAGGGTCAAAAT-ATA
9388785 ATTTTTGAGAAGTTTGAGGG-CAAAATATA
1 ATTTTTG-GAAGTTTGAGGGTCAAAATATA
*
9388814 ATTTTTGAGAAGTTTGAGGGTAAAAATATA
1 ATTTTTG-GAAGTTTGAGGGTCAAAATATA
9388844 ATTTTTGGACAAGTTT-AGGGGTCAAAATGA-A
1 ATTTTTGG--AAGTTTGA-GGGTCAAAAT-ATA
*
9388875 TTTTTTGGAAGTTT
1 ATTTTTGGAAGTTT
9388889 AAGGACCTTC
Statistics
Matches: 93, Mismatches: 3, Indels: 15
0.84 0.03 0.14
Matches are distributed among these distances:
28 9 0.10
29 41 0.44
30 19 0.20
31 23 0.25
32 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
ATTTTTGGAAGTTTGAGGGTCAAAATATA
Found at i:9389899 original size:3 final size:3
Alignment explanation
Indices: 9389887--9389933 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
9389877 CTTCCTTTTT
*
9389887 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTT TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
9389934 ATATACTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9389947 original size:16 final size:14
Alignment explanation
Indices: 9389886--9389948 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 14
9389876 ACTTCCTTTT
9389886 TTTATTAATTAT-TA
1 TTTATT-ATTATATA
9389900 -TTATTATTAT-TA
1 TTTATTATTATATA
*
9389912 -TTATTATTATTTA
1 TTTATTATTATATA
9389925 TTT-TTATTAATATA
1 TTTATTATT-ATATA
9389939 CTTTATTATT
1 -TTTATTATT
9389949 TATTTATTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 17 0.40
13 12 0.28
14 6 0.14
15 3 0.07
16 5 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATTATATA
Found at i:9390544 original size:6 final size:6
Alignment explanation
Indices: 9390535--9390615 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
9390525 TTAATAAGAA
** *
9390535 TAAATT TAAATT TAAAAA TAAATT TAAACT TAAA-T TAAATT TAAATCT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAAT-T
* * * *
9390583 AAAATT TAAACT TAAA-A TAAATT TAAACT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
9390616 ATAAAATTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
5 9 0.15
6 47 0.77
7 5 0.08
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:9390556 original size:12 final size:12
Alignment explanation
Indices: 9390535--9390626 Score: 82
Period size: 11 Copynumber: 7.8 Consensus size: 12
9390525 TTAATAAGAA
*
9390535 TAAATTTAAATT
1 TAAAATTAAATT
*
9390547 TAAAAATAAATT
1 TAAAATTAAATT
*
9390559 TAAACTTAAA-T
1 TAAAATTAAATT
* *
9390570 TAAATTTAAATC
1 TAAAATTAAATT
*
9390582 TAAAATTTAAACT
1 TAAAA-TTAAATT
9390595 TAAAA-TAAATT
1 TAAAATTAAATT
* *
9390606 TAAACTTAAA-A
1 TAAAATTAAATT
9390617 TAAAATTAAA
1 TAAAATTAAA
9390627 AAATGGGTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
11 28 0.44
12 26 0.41
13 10 0.16
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAAATTAAATT
Found at i:9390569 original size:30 final size:30
Alignment explanation
Indices: 9390535--9390609 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
9390525 TTAATAAGAA
9390535 TAAATTTAAATTTAAAAAT-AAATTTAAACT
1 TAAA-TTAAATTTAAAAATAAAATTTAAACT
**
9390565 TAAATTAAATTTAAATCTAAAATTTAAACT
1 TAAATTAAATTTAAAAATAAAATTTAAACT
*
9390595 TAAAATAAATTTAAA
1 TAAATTAAATTTAAA
9390610 CTTAAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.29
30 29 0.71
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAATTAAATTTAAAAATAAAATTTAAACT
Found at i:9390575 original size:17 final size:17
Alignment explanation
Indices: 9390533--9390626 Score: 108
Period size: 17 Copynumber: 5.7 Consensus size: 17
9390523 TTTTAATAAG
*
9390533 AATAAATTTAAATTTAAA
1 AATAAATTTAAACTT-AA
9390551 AATAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
*
9390568 ATTAAATTTAAA-TCT--
1 AATAAATTTAAACT-TAA
9390583 -A-AAATTTAAACTTAA
1 AATAAATTTAAACTTAA
9390598 AATAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
*
9390615 AATAAAATTAAA
1 AATAAATTTAAA
9390627 AAATGGGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
13 10 0.15
14 1 0.02
16 2 0.03
17 39 0.59
18 14 0.21
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:9390616 original size:30 final size:29
Alignment explanation
Indices: 9390541--9390617 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 29
9390531 AGAATAAATT
* *
9390541 TAAATTTAAA-AATAAATTTAAACTTAAAT
1 TAAATTTAAATTA-AAATTTAAACTTAAAA
9390570 TAAATTTAAATCTAAAATTTAAACTTAAAA
1 TAAATTTAAAT-TAAAATTTAAACTTAAAA
9390600 TAAATTTAAACTTAAAAT
1 TAAATTTAAA-TTAAAAT
9390618 AAAATTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 10 0.23
30 31 0.72
31 2 0.05
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAATTTAAATTAAAATTTAAACTTAAAA
Found at i:9390626 original size:6 final size:6
Alignment explanation
Indices: 9390535--9390627 Score: 59
Period size: 6 Copynumber: 15.8 Consensus size: 6
9390525 TTAATAAGAA
* * * * * *
9390535 TAAATT TAAATT TAAAAA TAAATT TAAACT T-AAAT T-AAAT TTAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * *
9390581 CTAAAATT TAAACT TAAAA- TAAATT TAAACT TAAAA- TAAAAT TAAAA
1 -TAAAA-T TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
9390628 AATGGGTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 18 0.26
6 43 0.61
7 8 0.11
8 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAAAT
Found at i:9390630 original size:30 final size:29
Alignment explanation
Indices: 9390533--9390630 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 29
9390523 TTTTAATAAG
*
9390533 AATAAATTTAAATTTAAAAATAAATTTAAACTTA
1 AATAAATTTAAA-TT-AAAATAAAATTAAA---A
*
9390567 AATTAAATTTAAATCTAAAATTTAAACTT--AA
1 AA-TAAATTTAAAT-TAAAA--TAAAATTAAAA
9390598 AATAAATTTAAACTTAAAATAAAATTAAAA
1 AATAAATTTAAA-TTAAAATAAAATTAAAA
9390628 AAT
1 AAT
9390631 GGGTTTAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
28 6 0.11
30 20 0.36
31 4 0.07
34 8 0.15
35 11 0.20
36 6 0.11
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAAATTTAAATTAAAATAAAATTAAAA
Found at i:9394904 original size:20 final size:20
Alignment explanation
Indices: 9394863--9394911 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
9394853 TTTATGTTAC
9394863 TATAAAAAAAGAACAAAAATA
1 TATAAAAAAAG-ACAAAAATA
*
9394884 TATAATAAAAAG-CAAATATA
1 TATAA-AAAAAGACAAAAATA
*
9394904 TAGAAAAA
1 TATAAAAA
9394912 TATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 11 0.44
21 5 0.20
22 6 0.24
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (20 bp):
TATAAAAAAAGACAAAAATA
Found at i:9412568 original size:23 final size:23
Alignment explanation
Indices: 9412513--9412580 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
9412503 TTTTATGATA
* *
9412513 AAAAATATAATTTTATTA-TTTT
1 AAAAATTTAATTTTATAATTTTT
* *
9412535 AATGAACTTAATTTTATAATTTTT
1 AA-AAATTTAATTTTATAATTTTT
*
9412559 AAAAATTTAAATTTA-AATTTTT
1 AAAAATTTAATTTTATAATTTTT
9412581 TATTTTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 9 0.24
23 22 0.59
24 6 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
AAAAATTTAATTTTATAATTTTT
Found at i:9413546 original size:31 final size:29
Alignment explanation
Indices: 9413510--9413572 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
9413500 ATAATTTTTA
* *
9413510 AATAAAATTTTTATAATCTTTTACGATTTCT
1 AATAAAA-TTTTACAATATTTT-CGATTTCT
9413541 AAT-AAATTTTACAATATTTTCGATTTCT
1 AATAAAATTTTACAATATTTTCGATTTCT
9413569 AATA
1 AATA
9413573 TTTTAATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.38
29 12 0.41
30 3 0.10
31 3 0.10
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (29 bp):
AATAAAATTTTACAATATTTTCGATTTCT
Found at i:9413569 original size:28 final size:29
Alignment explanation
Indices: 9413518--9413572 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
9413508 TAAATAAAAT
* *
9413518 TTTTATAATCTTTTACGATTTCTAATAAA
1 TTTTACAATATTTTACGATTTCTAATAAA
9413547 TTTTACAATATTTT-CGATTTCTAATA
1 TTTTACAATATTTTACGATTTCTAATA
9413573 TTTTAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTTACAATATTTTACGATTTCTAATAAA
Found at i:9413679 original size:19 final size:19
Alignment explanation
Indices: 9413651--9413693 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9413641 TTTGTAAACA
9413651 ATTATATATATTTATAATTTT
1 ATTATATA-ATTT-TAATTTT
*
9413672 ATTATATAATTTTATTTTT
1 ATTATATAATTTTAATTTT
9413691 ATT
1 ATT
9413694 TTTTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATATAATTTTAATTTT
Done.