Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008357.1 Hibiscus syriacus cultivar Beakdansim tig00111096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1459476
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:992471 original size:32 final size:31
Alignment explanation
Indices: 992381--992499 Score: 161
Period size: 32 Copynumber: 3.8 Consensus size: 31
992371 TCTTGAGACA
*
992381 GTTTCTCTTG-AA-AAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACAAAAAACCTTTGAAATT
*
992410 GTTTCTCTTGAAACAAAAAAAAACATTTGAAATT
1 GTTTCTCTTGAAAC---AAAAAACCTTTGAAATT
*
992444 GTTTCTCTTGAAACACAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACA-AAAAACCTTTGAAATT
992476 GTTTCTCTTGAAACAAAAAACCTT
1 GTTTCTCTTGAAACAAAAAACCTT
992500 CGAGTTCGAC
Statistics
Matches: 80, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
29 10 0.12
30 2 0.03
31 10 0.12
32 29 0.36
34 29 0.36
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (31 bp):
GTTTCTCTTGAAACAAAAAACCTTTGAAATT
Found at i:993117 original size:2 final size:2
Alignment explanation
Indices: 993112--993144 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
993102 TTATTTTTAT
993112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
993145 GTTTTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:993201 original size:37 final size:39
Alignment explanation
Indices: 993131--993219 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 39
993121 ATATATATAT
*
993131 ATATATATATTATAGTTTTTAAAAATATTTTTTTGAAA-TAC
1 ATATA-ATA-TATAGATTTTAAAAATA-TTTTTTGAAACTAC
*
993172 ATATAATATATAGATTTTAAAAATATTTTTTGAAACTAT
1 ATATAATATATAGATTTTAAAAATATTTTTTGAAACTAC
993211 ATATAATAT
1 ATATAATAT
993220 GGTTTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 10 0.22
39 27 0.60
40 3 0.07
41 5 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (39 bp):
ATATAATATATAGATTTTAAAAATATTTTTTGAAACTAC
Found at i:993238 original size:39 final size:37
Alignment explanation
Indices: 993131--993238 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 37
993121 ATATATATAT
* *
993131 ATATATATATTATAGTTTTTAAAAA-TATTTTTTTGAA
1 ATATATATAATATAGATTTTAAAAATTA-TTTTTTGAA
*
993168 ATACATATAATATATAGATTTTAAAAA-TATTTTTTGAA
1 ATATATAT-A-ATATAGATTTTAAAAATTATTTTTTGAA
*
993206 ACTATATATAATAT-GGTTTTAAAACATTTATTT
1 A-TATATATAATATAGATTTTAAAA-A-TTATTT
993239 ATTTATTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
36 9 0.15
37 12 0.20
38 12 0.20
39 27 0.45
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (37 bp):
ATATATATAATATAGATTTTAAAAATTATTTTTTGAA
Found at i:1006066 original size:18 final size:18
Alignment explanation
Indices: 1006045--1006080 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1006035 TTATATTTTG
1006045 ATACATTTG-TATATATGA
1 ATAC-TTTGATATATATGA
1006063 ATACTTTGATATATATGA
1 ATACTTTGATATATATGA
1006081 TATGTGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
ATACTTTGATATATATGA
Found at i:1006516 original size:144 final size:144
Alignment explanation
Indices: 1006244--1006516 Score: 375
Period size: 144 Copynumber: 1.9 Consensus size: 144
1006234 AAGATAGAGC
* * * * * *
1006244 AATTAGCACATCTGATGTCTTTGTGATGGTGTTGTTTCTATCGATGATAATTAGCACGTCTGACA
1 AATTAGCACATCTGACGTCTGTGTGATGATGGTGCTACTATCGATGATAATTAGCACGTCTGACA
* * * * * * *
1006309 TCTGTGTGACGGTGGTTCTACTATCGATGATATTTAGCACGTCTGACGTCTGTGTGACGGTGGTG
66 TCTGTGTGACGATGGTGCTACTATCGATGATAATTAGCAAGTCTGACGTCTATGTAACAGTGGTG
1006374 CTACTATTTATGAT
131 CTACTATTTATGAT
* * *
1006388 AATTAGCACATCTGACGTCTGTGTGATGATGGTGCTACTATTGATGATAATTAGCACGTGTGACG
1 AATTAGCACATCTGACGTCTGTGTGATGATGGTGCTACTATCGATGATAATTAGCACGTCTGACA
* * *
1006453 TCTGTGTGACGATGGTGCTATTATTGATGATAATTAGCAAGTTTGACGTCTATGTAACAGTGGT
66 TCTGTGTGACGATGGTGCTACTATCGATGATAATTAGCAAGTCTGACGTCTATGTAACAGTGGT
1006517 ACTATTTATG
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
144 110 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (144 bp):
AATTAGCACATCTGACGTCTGTGTGATGATGGTGCTACTATCGATGATAATTAGCACGTCTGACA
TCTGTGTGACGATGGTGCTACTATCGATGATAATTAGCAAGTCTGACGTCTATGTAACAGTGGTG
CTACTATTTATGAT
Found at i:1006522 original size:48 final size:48
Alignment explanation
Indices: 1006244--1006503 Score: 331
Period size: 48 Copynumber: 5.4 Consensus size: 48
1006234 AAGATAGAGC
* * * * * * * *
1006244 AATTAGCACATCTGATGTCTTTGTGATGGTGTTGTTTCTATCGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * *
1006292 AATTAGCACGTCTGACATCTGTGTGACGGTGGTTCTACTATCGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* *
1006340 ATTTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTTATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * *
1006388 AATTAGCACATCTGACGTCTGTGTGATGATGGTGCTACTATTGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * *
1006436 AATTAGCACGTGTGACGTCTGTGTGACGATGGTGCTATTATTGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* *
1006484 AATTAGCAAGTTTGACGTCT
1 AATTAGCACGTCTGACGTCT
1006504 ATGTAACAGT
Statistics
Matches: 187, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 187 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (48 bp):
AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
Found at i:1006699 original size:30 final size:31
Alignment explanation
Indices: 1006623--1006710 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
1006613 AATGAAAACA
** *
1006623 AATGATACAAACTATGAAATGAATTAAA-TG
1 AATGATACATGCTATGAAATGAATTAAAGCG
*
1006653 AATGATACATGATATGAAAT-AATTAAAGCG
1 AATGATACATGCTATGAAATGAATTAAAGCG
*
1006683 AATGA-AGGATGCTATGAAATGAA-TAAAG
1 AATGATA-CATGCTATGAAATGAATTAAAG
1006711 TGAAAAGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.16
30 39 0.80
31 2 0.04
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (31 bp):
AATGATACATGCTATGAAATGAATTAAAGCG
Found at i:1008714 original size:40 final size:40
Alignment explanation
Indices: 1008635--1008714 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
1008625 ATAGAAGTCA
* *
1008635 AATATTGCACCGTAGTGCTAAGGTCGAGCCTTGCTCACCT
1 AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
* * * *
1008675 AATAATGCATCGTAGTGCTGAGGTCGGGCCTTTCCCACCT
1 AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
1008715 TATACACCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
Found at i:1015260 original size:10 final size:10
Alignment explanation
Indices: 1015245--1015275 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1015235 TATTTTGGAA
1015245 ATCAATTTAG
1 ATCAATTTAG
1015255 ATCAATTTAG
1 ATCAATTTAG
*
1015265 ATCCATTTAG
1 ATCAATTTAG
1015275 A
1 A
1015276 AGCTTGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (10 bp):
ATCAATTTAG
Found at i:1015399 original size:22 final size:22
Alignment explanation
Indices: 1015358--1015402 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1015348 TAGAGTGTTT
1015358 ATGCTGAATTTTAATATTAGAA
1 ATGCTGAATTTTAATATTAGAA
*
1015380 ATGCTGGAATTTTAA-GTTAGAA
1 ATGCT-GAATTTTAATATTAGAA
1015402 A
1 A
1015403 GTTGATTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
ATGCTGAATTTTAATATTAGAA
Found at i:1018465 original size:96 final size:96
Alignment explanation
Indices: 1018317--1018574 Score: 284
Period size: 96 Copynumber: 2.7 Consensus size: 96
1018307 ATCTGATGTT
*
1018317 TGTGTGAAGGTGGTGCTACTATCGATGATAATTAGTACGTATGACTTATGTGTAACGGTGGTGCT
1 TGTGTGAAGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTATGTGTAACGGTGGTGCT
*
1018382 ATTATCGATGATAATTAGTACGACTGACCTA
66 ACTATCGATGATAATTAGTACGACTGACCTA
* * * *
1018413 TGTGTGACA-GTGGTGCTACTATCGATGATAATTAGTGCGTCTGACGTCTGTGTGACGGTGGTGC
1 TGTGTGA-AGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTATGTGTAACGGTGGTGC
** * * * ** *
1018477 TACTATTTATGATAATTAGCACGCCTAATGTC
65 TACTATCGATGATAATTAGTACGACTGACCTA
* * * ** * * ** *
1018509 TATGTGATGGTGGTGCTATTATTAATGATAATTAGTATGTTTTTCGTATGTGTAACAGTGGTGCT
1 TGTGTGAAGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTATGTGTAACGGTGGTGCT
1018574 A
66 A
1018575 TTTATGTATA
Statistics
Matches: 133, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
96 132 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.37
Consensus pattern (96 bp):
TGTGTGAAGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTATGTGTAACGGTGGTGCT
ACTATCGATGATAATTAGTACGACTGACCTA
Found at i:1018559 original size:144 final size:143
Alignment explanation
Indices: 1018308--1018574 Score: 331
Period size: 144 Copynumber: 1.9 Consensus size: 143
1018298 AATTAGCACA
* * *
1018308 TCTGATGTTTGTGTGAAGGTGGTGCTACTATCGATGATAATTAGTACGTATGACTTATGTGTAAC
1 TCTGACGTCTGTGTGAAGGTGGTGCTACTATCGATGATAATTAGCACGTATGACTTATGTG-AAC
* *
1018373 GGTGGTGCTATTATCGATGATAATTAGTACGACTGACCTATGTGTGACAGTGGTGCTACTATCGA
65 GGTGGTGCTATTATCAATGATAATTAGTACGACTGACCTATGTGTAACAGTGGTGCTACTATCGA
1018438 TGATAATTAGTGCG
130 TGATAATTAGTGCG
* ** *
1018452 TCTGACGTCTGTGTGACGGTGGTGCTACTATTTATGATAATTAGCACGCCTAATGTC-TATGTG-
1 TCTGACGTCTGTGTGAAGGTGGTGCTACTATCGATGATAATTAGCACG--T-ATGACTTATGTGA
* * * ** ** *
1018515 ATGGTGGTGCTATTATTAATGATAATTAGTATGTTTTTCGTATGTGTAACAGTGGTGCTA
63 ACGGTGGTGCTATTATCAATGATAATTAGTACGACTGACCTATGTGTAACAGTGGTGCTA
1018575 TTTATGTATA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
144 92 0.89
146 7 0.07
147 4 0.04
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.37
Consensus pattern (143 bp):
TCTGACGTCTGTGTGAAGGTGGTGCTACTATCGATGATAATTAGCACGTATGACTTATGTGAACG
GTGGTGCTATTATCAATGATAATTAGTACGACTGACCTATGTGTAACAGTGGTGCTACTATCGAT
GATAATTAGTGCG
Found at i:1018576 original size:48 final size:48
Alignment explanation
Indices: 1018317--1018574 Score: 238
Period size: 48 Copynumber: 5.4 Consensus size: 48
1018307 ATCTGATGTT
*
1018317 TGTGTGAA-GGTGGTGCTACTATCGATGATAATTAGTACGTATGACTTA
1 TGTGT-AACGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTA
* *
1018365 TGTGTAACGGTGGTGCTATTATCGATGATAATTAGTACG-ACTGACCTA
1 TGTGTAACGGTGGTGCTACTATCGATGATAATTAGTACGTA-TGACGTA
* * * * *
1018413 TGTGTGACAGTGGTGCTACTATCGATGATAATTAGTGCGTCTGACGTC
1 TGTGTAACGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTA
* ** * *
1018461 TGTGTGACGGTGGTGCTACTATTTATGATAATTAGCACGCCTAATGTC-TA
1 TGTGTAACGGTGGTGCTACTATCGATGATAATTAGTACG--T-ATGACGTA
* * ** * * **
1018511 TGTG--ATGGTGGTGCTATTATTAATGATAATTAGTATGTTTTTCGTA
1 TGTGTAACGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTA
*
1018557 TGTGTAACAGTGGTGCTA
1 TGTGTAACGGTGGTGCTA
1018575 TTTATGTATA
Statistics
Matches: 175, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 7 0.04
47 3 0.02
48 153 0.87
50 6 0.03
51 3 0.02
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.37
Consensus pattern (48 bp):
TGTGTAACGGTGGTGCTACTATCGATGATAATTAGTACGTATGACGTA
Found at i:1018712 original size:30 final size:30
Alignment explanation
Indices: 1018676--1018767 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
1018666 AATGAAAGCA
*
1018676 AATGATACAAGCTATGAAATGAATTAAATG
1 AATGATACATGCTATGAAATGAATTAAATG
* * *
1018706 AATGATACATGCTATGAAATAAATGAAGTG
1 AATGATACATGCTATGAAATGAATTAAATG
*
1018736 AATGA-AGCATGCTATGTAATGAA-TAAAGTG
1 AATGATA-CATGCTATGAAATGAATTAAA-TG
1018766 AA
1 AA
1018768 AAGTACAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
29 3 0.06
30 49 0.94
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.26
Consensus pattern (30 bp):
AATGATACATGCTATGAAATGAATTAAATG
Found at i:1026778 original size:27 final size:27
Alignment explanation
Indices: 1026740--1026833 Score: 188
Period size: 27 Copynumber: 3.5 Consensus size: 27
1026730 CCTCTCATCC
1026740 TAAAAAATGAAAATGAGAAAATATATA
1 TAAAAAATGAAAATGAGAAAATATATA
1026767 TAAAAAATGAAAATGAGAAAATATATA
1 TAAAAAATGAAAATGAGAAAATATATA
1026794 TAAAAAATGAAAATGAGAAAATATATA
1 TAAAAAATGAAAATGAGAAAATATATA
1026821 TAAAAAATGAAAA
1 TAAAAAATGAAAA
1026834 GGAAACAATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (27 bp):
TAAAAAATGAAAATGAGAAAATATATA
Found at i:1027147 original size:31 final size:31
Alignment explanation
Indices: 1027072--1027138 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
1027062 ATGATGGTAG
* * * *
1027072 AGTGAACATTTTGTGATAAATCGGTAATGTT
1 AGTGACCATTTTGTTACAAATCGATAATGTT
1027103 AGTGACCATTTTGTTACAAATCGATAATGTT
1 AGTGACCATTTTGTTACAAATCGATAATGTT
1027134 AGTGA
1 AGTGA
1027139 TGTATTTGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (31 bp):
AGTGACCATTTTGTTACAAATCGATAATGTT
Found at i:1028476 original size:23 final size:23
Alignment explanation
Indices: 1028446--1028489 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1028436 GGCTCGATTT
*
1028446 TCTTCCAACAGTCAGACCTTTAA
1 TCTTCCAACAGTCAAACCTTTAA
1028469 TCTTCCAACAGTCAAACCTTT
1 TCTTCCAACAGTCAAACCTTT
1028490 TAAAATTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.32
Consensus pattern (23 bp):
TCTTCCAACAGTCAAACCTTTAA
Found at i:1028498 original size:24 final size:23
Alignment explanation
Indices: 1028448--1028500 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1028438 CTCGATTTTC
* **
1028448 TTCCAACAGTCAGACCTTTAATC
1 TTCCAACAGTCAAACCTTTAAAA
1028471 TTCCAACAGTCAAACCTTTTAAAA
1 TTCCAACAGTCAAACC-TTTAAAA
1028495 TTCCAA
1 TTCCAA
1028501 TTACTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (23 bp):
TTCCAACAGTCAAACCTTTAAAA
Found at i:1028860 original size:24 final size:26
Alignment explanation
Indices: 1028833--1028891 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
1028823 TCCTACATGG
*
1028833 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
1028857 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
1028886 TTAATT
1 TTAATT
1028892 GTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:1029049 original size:20 final size:20
Alignment explanation
Indices: 1028989--1029051 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
1028979 ACTTGTTATT
1028989 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
1029010 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
1029033 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
1029052 GAATTTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:1043089 original size:12 final size:12
Alignment explanation
Indices: 1043072--1043121 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
1043062 TTCAAAGAGG
1043072 TTTTATATTTAA
1 TTTTATATTTAA
1043084 TTTTATA-TT-A
1 TTTTATATTTAA
*
1043094 TTTGAT-TTTAA
1 TTTTATATTTAA
1043105 TTTTA-ATATTAA
1 TTTTATAT-TTAA
1043117 TTTTA
1 TTTTA
1043122 AATAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 8 0.25
11 8 0.25
12 16 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:1043178 original size:60 final size:60
Alignment explanation
Indices: 1043079--1043229 Score: 200
Period size: 60 Copynumber: 2.5 Consensus size: 60
1043069 AGGTTTTATA
* * *
1043079 TTTAATTTTATATTATTTGATTTTAATTTTAATATTAA-TTTTAAATAAATTAAATATTAA-TT
1 TTTAATATTATATTA-TAGATATTAATTTTAATATTAATTTTTAAAT-AA--AAATATTAATTT
1043141 TTTAATATTATATTATAGATATT-ATTTTAATATTAATTTTTTAAATAAAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAAAATATTAATTT
1043201 TTTAATATTATATTATAGATATTTAATTT
1 TTTAATATTATATTATAGATA-TTAATTT
1043230 ATATCATATA
Statistics
Matches: 81, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
59 9 0.11
60 36 0.44
61 10 0.12
62 26 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (60 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAAAATATTAATTT
Found at i:1043184 original size:14 final size:12
Alignment explanation
Indices: 1043105--1043181 Score: 52
Period size: 13 Copynumber: 6.3 Consensus size: 12
1043095 TTGATTTTAA
*
1043105 TTTTAATATTAA
1 TTTTAATATTAT
*
1043117 TTTTAA-A-TAA
1 TTTTAATATTAT
* *
1043127 ATTAAATATTAAT
1 TTTTAATATT-AT
1043140 TTTTAATATTAT
1 TTTTAATATTAT
*
1043152 ATTATAGATATTA-
1 -TTTTA-ATATTAT
1043165 TTTTAATATTAAT
1 TTTTAATATT-AT
1043178 TTTT
1 TTTT
1043182 TAAATAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
10 7 0.14
11 7 0.14
12 14 0.27
13 17 0.33
14 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
TTTTAATATTAT
Found at i:1043255 original size:60 final size:55
Alignment explanation
Indices: 1043131--1043274 Score: 139
Period size: 60 Copynumber: 2.4 Consensus size: 55
1043121 AAATAAATTA
*
1043131 AATATTAATTTTTAATATTATATTATAGATATTATTTTAATATTAATTTTTTAAAT
1 AATATTAATTTTTAATATTATATTATAGATATTATTTTAATATAAATTTTTT-AAT
1043187 AAAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTATATCATATAAATTATTTTATA
1 ---AATATTAA-TTTTTAATATTATATTATAGATA-TT-ATTT-TA--ATATAAATT-TTTTA-A
1043252 T
55 T
* *
1043253 ATTATTAAATTTT-ATATT-TATT
1 AATATTAATTTTTAATATTATATT
1043275 TTAATTATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
59 8 0.11
60 27 0.36
61 7 0.09
62 8 0.11
63 9 0.12
65 9 0.12
66 6 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (55 bp):
AATATTAATTTTTAATATTATATTATAGATATTATTTTAATATAAATTTTTTAAT
Found at i:1043763 original size:30 final size:31
Alignment explanation
Indices: 1043727--1043785 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1043717 GTAGTTGTAG
* *
1043727 AATTA-TTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
1043757 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
1043786 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:1047330 original size:5 final size:5
Alignment explanation
Indices: 1047320--1047511 Score: 120
Period size: 5 Copynumber: 37.6 Consensus size: 5
1047310 AGGACTCTTT
*
1047320 TTATA TTATA -TAGTA TTATA TTATATA TTATA GTATA -TAT- TTATA
1 TTATA TTATA TTA-TA TTATA -T-TATA TTATA TTATA TTATA TTATA
1047365 TTATACA TTATA -TAT- TATATA TTACATA TTATA TATATA TATATA TTATA
1 TTAT--A TTATA TTATA T-TATA TT--ATA TTATA T-TATA T-TATA TTATA
*
1047415 TTATA TGT-TA -TATA TTATA TTATA TTATA TTATG TTATA -TATTA TTATGA
1 TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA TTAT-A
* *
1047465 --ATA TTATA GTATTA TTATA ATATA TTATTA TTAGT- TTATA TT-TA
1 TTATA TTATA TTA-TA TTATA TTATA TTA-TA TTA-TA TTATA TTATA
1047509 TTA
1 TTA
1047512 ATATGTTTTT
Statistics
Matches: 153, Mismatches: 8, Indels: 52
0.72 0.04 0.24
Matches are distributed among these distances:
3 2 0.01
4 22 0.14
5 85 0.56
6 30 0.20
7 14 0.09
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:1047346 original size:7 final size:7
Alignment explanation
Indices: 1047321--1047497 Score: 151
Period size: 7 Copynumber: 26.0 Consensus size: 7
1047311 GGACTCTTTT
1047321 TATATTA
1 TATATTA
*
1047328 TATAGTA
1 TATATTA
1047335 TTATATTA
1 -TATATTA
1047343 TATA-T-
1 TATATTA
*
1047348 TATAGTA
1 TATATTA
1047355 TATATT-
1 TATATTA
1047361 TATATTA
1 TATATTA
*
1047368 TACATTA
1 TATATTA
1047375 TATATTA
1 TATATTA
1047382 TATATTA
1 TATATTA
*
1047389 CATATTA
1 TATATTA
1047396 TATA-TA
1 TATATTA
1047402 TATATATA
1 TATAT-TA
1047410 TTATATTA
1 -TATATTA
*
1047418 TATGTTA
1 TATATTA
1047425 TATA-T-
1 TATATTA
1047430 TATATTA
1 TATATTA
1047437 TAT-TATA
1 TATAT-TA
*
1047444 TTATGTTA
1 -TATATTA
1047452 TATATTA
1 TATATTA
*
1047459 T-TATGA
1 TATATTA
1047465 -ATATTA
1 TATATTA
1047471 TAGTATTA
1 TA-TATTA
*
1047479 T-TATAA
1 TATATTA
1047485 TATATTA
1 TATATTA
1047492 T-TATTA
1 TATATTA
1047498 GTTTATATTT
Statistics
Matches: 140, Mismatches: 14, Indels: 33
0.75 0.07 0.18
Matches are distributed among these distances:
5 8 0.06
6 35 0.25
7 70 0.50
8 21 0.15
9 6 0.04
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (7 bp):
TATATTA
Found at i:1047358 original size:27 final size:25
Alignment explanation
Indices: 1047320--1047497 Score: 161
Period size: 25 Copynumber: 6.8 Consensus size: 25
1047310 AGGACTCTTT
1047320 TTATATTATATAGTATTATATTATATA
1 TTATA-TATATA-TATTATATTATATA
*
1047347 TTATAGTATATAT-TTATATTATACA
1 TTATA-TATATATATTATATTATATA
*
1047372 TTATATATTATATATTACA-TAT-TA
1 TTATATA-TATATATTATATTATATA
*
1047396 TATATATATATATATTATATTATATG
1 T-TATATATATATATTATATTATATA
1047422 TTATATAT-TATATTATATTATATTA
1 TTATATATATATATTATATTATA-TA
*
1047447 TGT-TATATATTATTATGAATATTATAGTA
1 T-TATATATA-TA-TAT-TATATTATA-TA
1047476 TTAT-TATAATATATTATTATTA
1 TTATATAT-ATATATTA-TATTA
1047498 GTTTATATTT
Statistics
Matches: 127, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
24 28 0.22
25 47 0.37
26 9 0.07
27 21 0.17
28 9 0.07
29 13 0.10
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATATATATATTATATTATATA
Found at i:1050148 original size:15 final size:15
Alignment explanation
Indices: 1050128--1050161 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1050118 ATAAAGAAAA
1050128 TAAAAG-GCATAAAT
1 TAAAAGTGCATAAAT
1050142 GTAAAAGTGCATAAAT
1 -TAAAAGTGCATAAAT
1050158 TAAA
1 TAAA
1050162 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (15 bp):
TAAAAGTGCATAAAT
Found at i:1050456 original size:14 final size:14
Alignment explanation
Indices: 1050432--1050473 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
1050422 CGTTCGTGAA
*
1050432 CGTTCAGTTATGTT
1 CGTTCATTTATGTT
1050446 CGTTCGA-TTATGTT
1 CGTTC-ATTTATGTT
1050460 CGTTCATTTATGTT
1 CGTTCATTTATGTT
1050474 TAACCTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.52
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:1051482 original size:23 final size:23
Alignment explanation
Indices: 1051449--1051506 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1051439 AGCGGTTAGT
* *
1051449 AATTAGTGGTTAGCTGTTAGAAA
1 AATTAGCGGTTAGCAGTTAGAAA
*
1051472 AGTTAGCGGTTAGCAGTTAGAAA
1 AATTAGCGGTTAGCAGTTAGAAA
1051495 AATTAGCGGTTA
1 AATTAGCGGTTA
1051507 ATGGTTAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (23 bp):
AATTAGCGGTTAGCAGTTAGAAA
Found at i:1051622 original size:29 final size:29
Alignment explanation
Indices: 1051589--1051648 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
1051579 TATCAATGAT
* * *
1051589 AAATAAATGTAAGTGGTTAATATGAAATA
1 AAATAAAAGTAAGTAGTTAACATGAAATA
*
1051618 AAATAAAAGTTAGTAGTTAACATGAAATA
1 AAATAAAAGTAAGTAGTTAACATGAAATA
1051647 AA
1 AA
1051649 TAACATAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.15, T:0.28
Consensus pattern (29 bp):
AAATAAAAGTAAGTAGTTAACATGAAATA
Found at i:1053257 original size:139 final size:139
Alignment explanation
Indices: 1053046--1053458 Score: 551
Period size: 139 Copynumber: 3.0 Consensus size: 139
1053036 GTCATATCTG
** * * * *
1053046 GAGATAACATGGAGACATCACGGCTCCTTCGTGTTGAGGATGTCTAATTGTCTGAGGATGACACT
1 GAGATAATTTGGAGACAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTGAGGATGACACT
* * * *
1053111 ACTCCTTTGCGTTGAGGAGATATGGTCGGTGGACAACATTGTTTCTTTGTGTTGAGGACGTCTAG
66 GCTCCTTTGCGTTGAGGAAATCTGGTCGGTGGATAACATTGTTTCTTTGTGTTGAGGACGTCTAG
1053176 CCGTATTTA
131 CCGTATTTA
* * *
1053185 GAGATAATTTGGAGACAACACGGTTCCTTCATGTTAAGGAAGTCTGATTGTCTAAGGATGACACT
1 GAGATAATTTGGAGACAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTGAGGATGACACT
* * *
1053250 GCTCCTTTGCGTTGAGGAAATCTAGTCGGTGGATGACATTGTTTCTTCGTGTTGAGGACGTCTAG
66 GCTCCTTTGCGTTGAGGAAATCTGGTCGGTGGATAACATTGTTTCTTTGTGTTGAGGACGTCTAG
*
1053315 CCATATTTA
131 CCGTATTTA
* * * *
1053324 GAGATAATTTGGAGACAACACAGTTCCTTCGTGTTGAGGAACTCTGATTGTCTGAGAATGA-AAT
1 GAGATAATTTGGAGACAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTGAGGATGACACT
* * * * **
1053388 AGCTCCTTTACGTTGAAGAAATCTGGTCGGTGGATAACATTATTCCTTCT-TGTTGAGGATTTCT
66 -GCTCCTTTGCGTTGAGGAAATCTGGTCGGTGGATAACATTGTTTCTT-TGTGTTGAGGACGTCT
1053452 AGCCGTA
129 AGCCGTA
1053459 ATTTGACGGT
Statistics
Matches: 238, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
138 2 0.01
139 236 0.99
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (139 bp):
GAGATAATTTGGAGACAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTGAGGATGACACT
GCTCCTTTGCGTTGAGGAAATCTGGTCGGTGGATAACATTGTTTCTTTGTGTTGAGGACGTCTAG
CCGTATTTA
Found at i:1054023 original size:102 final size:104
Alignment explanation
Indices: 1053808--1054034 Score: 280
Period size: 102 Copynumber: 2.2 Consensus size: 104
1053798 AATGAGTGGA
* ** * * * *
1053808 AAGAAATTTGTTTCCAGAGAAGCT-ATCTTAGGTGAGATAAAATTTTGTTTCGAGTGAAACAATT
1 AAGAAATTTGTTTCGAGAGAAAATAATATCAAGTGAGATAAAATTTTGTTTCAAGTGAAACAATT
* * *
1053872 TCAAAATTTGCGTTTCAAGGGAAATTTATCTCAAGCGTG
66 TCAAAATTTGCGTTCCAAGGGAAAATTATCTCAAGCGAG
* * * *
1053911 AATAACTTTGTTTTGAG-GAAAATAATATCAAGTGAGAT-CAATTTTGTTTCAAGTGAAACAATT
1 AAGAAATTTGTTTCGAGAGAAAATAATATCAAGTGAGATAAAATTTTGTTTCAAGTGAAACAATT
* *
1053974 TCAAAATTTGTGTTCCGAGGGAAAATTATCTCAAGCGAG
66 TCAAAATTTGCGTTCCAAGGGAAAATTATCTCAAGCGAG
*
1054013 ACGAAATTTGTTTCGAGAGAAA
1 AAGAAATTTGTTTCGAGAGAAA
1054035 CAATCTCAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
102 74 0.73
103 28 0.27
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (104 bp):
AAGAAATTTGTTTCGAGAGAAAATAATATCAAGTGAGATAAAATTTTGTTTCAAGTGAAACAATT
TCAAAATTTGCGTTCCAAGGGAAAATTATCTCAAGCGAG
Found at i:1056480 original size:17 final size:16
Alignment explanation
Indices: 1056459--1056498 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
1056449 TTAAAAAAGC
1056459 ATAAAATTAAATAAAA
1 ATAAAATTAAATAAAA
*
1056475 AGTAAAATTCAATAAAA
1 A-TAAAATTAAATAAAA
1056492 ATAAAAT
1 ATAAAAT
1056499 GTCAGTGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
ATAAAATTAAATAAAA
Found at i:1056656 original size:16 final size:16
Alignment explanation
Indices: 1056637--1056689 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
1056627 GTAATTAGTG
*
1056637 GTTAGAAAGGTTAGCT
1 GTTAGAAAAGTTAGCT
*
1056653 GTTAGAAAAGTTAGTT
1 GTTAGAAAAGTTAGCT
* *
1056669 GTTAGAAAAATTAGCG
1 GTTAGAAAAGTTAGCT
1056685 GTTAG
1 GTTAG
1056690 TGGTTAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (16 bp):
GTTAGAAAAGTTAGCT
Found at i:1060726 original size:5 final size:5
Alignment explanation
Indices: 1060716--1060745 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
1060706 TTCGTTCTAT
1060716 TTTTA TTTTA TTTTA TTTTCA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT
1060746 TTTAACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:1060732 original size:16 final size:16
Alignment explanation
Indices: 1060713--1060745 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1060703 CATTTCGTTC
*
1060713 TATTTTTATTTTATTT
1 TATTTTCATTTTATTT
1060729 TATTTTCATTTTATTT
1 TATTTTCATTTTATTT
1060745 T
1 T
1060746 TTTAACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTTCATTTTATTT
Found at i:1062840 original size:76 final size:76
Alignment explanation
Indices: 1062676--1062946 Score: 462
Period size: 76 Copynumber: 3.6 Consensus size: 76
1062666 ATTTATTTTG
*
1062676 CTTTGTTTTA-GTATTTTAG-TTAAATAGGTTTTAGTATTTTAATTAAGTT-TAGGATATTA-TT
1 CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
1062737 TTATATTTTAT
66 TTATATTTTAT
1062748 CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
1 CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
1062813 TTATATTTTAT
66 TTATATTTTAT
*
1062824 CTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
1 CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
1062889 TTATATTTTAT
66 TTATATTTTAT
* *
1062900 CTTTGTTTTAGGTATTTTAATTTAAATA-GTTTTAAGTGTTTTAATTA
1 CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTA
1062947 GGATTTAAGA
Statistics
Matches: 190, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
72 10 0.05
73 9 0.05
74 30 0.16
75 14 0.07
76 127 0.67
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.58
Consensus pattern (76 bp):
CTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTATAAGATATTATTT
TTATATTTTAT
Found at i:1063620 original size:16 final size:16
Alignment explanation
Indices: 1063599--1063660 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
1063589 ATCCCCTTTT
*
1063599 ATATTTATTACTATTA
1 ATATTTATTATTATTA
1063615 ATATTTATTATTTATT-
1 ATATTTATTA-TTATTA
* *
1063631 ATATTTTTTTTTA-TA
1 ATATTTATTATTATTA
1063646 ATATTTATT-TTATTA
1 ATATTTATTATTATTA
1063661 TACTTTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.10
15 13 0.33
16 18 0.46
17 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTATTATTATTA
Found at i:1065437 original size:14 final size:14
Alignment explanation
Indices: 1065420--1065447 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1065410 ACAGTTTATG
1065420 ATTCTTTATAGACC
1 ATTCTTTATAGACC
1065434 ATTCTTTATAGACC
1 ATTCTTTATAGACC
1065448 GAACAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
ATTCTTTATAGACC
Found at i:1068833 original size:42 final size:42
Alignment explanation
Indices: 1068782--1068864 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
1068772 CTTCTATTCG
1068782 CGACTGTCTTCTACTCTTCTCTTCTTCCCAAATTTCTTCCAA
1 CGACTGTCTTCTACTCTTCTCTTCTTCCCAAATTTCTTCCAA
* *
1068824 CGACTGTCTTCTACTTTTCTCTTCTTCCCAAGTTTCTTCCA
1 CGACTGTCTTCTACTCTTCTCTTCTTCCCAAATTTCTTCCA
1068865 GCGGCTGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.14, C:0.35, G:0.06, T:0.45
Consensus pattern (42 bp):
CGACTGTCTTCTACTCTTCTCTTCTTCCCAAATTTCTTCCAA
Found at i:1068964 original size:15 final size:15
Alignment explanation
Indices: 1068944--1068989 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1068934 TTTAATCAAC
1068944 TTGTTGAATATTTAT
1 TTGTTGAATATTTAT
*
1068959 TTGTTGAATATTGA-
1 TTGTTGAATATTTAT
* *
1068973 ATATTGAATATTTAT
1 TTGTTGAATATTTAT
1068988 TT
1 TT
1068990 ATATTTGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
TTGTTGAATATTTAT
Found at i:1069356 original size:13 final size:13
Alignment explanation
Indices: 1069338--1069362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1069328 ATCTTGGAAC
1069338 ACAAAACTACAAT
1 ACAAAACTACAAT
1069351 ACAAAACTACAA
1 ACAAAACTACAA
1069363 AAAAATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (13 bp):
ACAAAACTACAAT
Found at i:1069472 original size:20 final size:20
Alignment explanation
Indices: 1069447--1069485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1069437 TAAACTTTTA
*
1069447 TTTATATTTGTTGAAAATTG
1 TTTATATTTGTTAAAAATTG
*
1069467 TTTATATTTTTTAAAAATT
1 TTTATATTTGTTAAAAATT
1069486 TCAGTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTATATTTGTTAAAAATTG
Found at i:1073732 original size:490 final size:493
Alignment explanation
Indices: 1072760--1073754 Score: 1730
Period size: 490 Copynumber: 2.0 Consensus size: 493
1072750 TTAAATGATA
1072760 TTCAGTTTTAATTGATAATTTTTTTATGAAATGATATTGATAATTTTTTAATGATTTGTTTATCT
1 TTCAGTTTTAATTGATAA-TTTTTTATGAAATGATATTGATAATTTTTTAATGATTTGTTTATCT
* *
1072825 TTTCTTAACAAAGTTTTTAGCTACCGTGTCAACAATTCGAATAGCATATATCATTTAATTATTTT
65 TTTCTTAACAAAGTTTTTAACTACCGTGTCAACAATTCGAATAGCATATAACATTTAATTATTTT
1072890 GATTGAAATAATATTAGAAGTTCAATAATCTAATTGATATTTTTTTTTTGTTCAGATCAAAACAA
130 GATTGAAATAATATTAGAAGTTCAATAATCTAATTGATATTTTTTTTTTGTTCAGATCAAAACAA
* *
1072955 ACTCAATCAAATAGTTTATTGATTTTGAAAGGTTATACCTAGGATTGTAGATGAGTTGAGATAGA
195 ACTCAATCAAATAGTTTATTGATTTTGAAAGGTTATAACTAGGATTGTAGATGAGTTGAGACAGA
1073020 TCGAGAGATACTTGAGATCGACTCGGTCAAAGCTCGATATATACTGAACTCGAATGGACTAGACT
260 TCGAGAGATACTTGAGATCGACTCGGTCAAAGCTCGATATATACTGAACTCGAATGGACTAGACT
* * *
1073085 CGAGCTTGAGCTCGCTCGAGTTCTTAACGAGTCGAAACAAACTACTTAATACTCGGACTCGAAAA
325 CGAGCTTGAGCTCACTCGAGTTCTTAACGAGTCGAAACAAACTACTTAATACTCGAACTCAAAAA
* *
1073150 TATAATTTATTAAAATTTTATTTTTAAAATAAATTATTAATAATATTAAACATTTGTATTGTTTT
390 TATAATATATTAAAATTCTATTTTTAAAATAAATTATTAATAATATTAAACATTTGTATTGTTTT
* * *
1073215 TTAAAATAGTATAAGGTTTTCATGTATTTAAGGTTTATG
455 TTAAAACAATATAAGGTTTTCATGTATTTAAGGTTCATG
1073254 TTCAGTTTTAATTGATAA-TTTTTATG-AATGATATTGATAA-TTTTTAATGATTTGTTTATCTT
1 TTCAGTTTTAATTGATAATTTTTTATGAAATGATATTGATAATTTTTTAATGATTTGTTTATCTT
1073316 TTCTTAACAAAGTTTTTAACTACCGTGTCAACAATTCGAATAGCATATAACATTTAATTATTTTG
66 TTCTTAACAAAGTTTTTAACTACCGTGTCAACAATTCGAATAGCATATAACATTTAATTATTTTG
* *
1073381 ATTGAAATAATATTAGAAGTTCAATAATCTAATTGATATTTTTTTTTTGTTCTGATCAAAACAGA
131 ATTGAAATAATATTAGAAGTTCAATAATCTAATTGATATTTTTTTTTTGTTCAGATCAAAACAAA
* *
1073446 CTCAATCACATAGTTTATTGATTTTGAAAGGTTATAACTAGGGTTGTAGATGAGTTGAGACAGAT
196 CTCAATCAAATAGTTTATTGATTTTGAAAGGTTATAACTAGGATTGTAGATGAGTTGAGACAGAT
**
1073511 CTTGAGATACTTGAGATCGACTCGGTCAAAGCTCGATATATACTGAACTCGAATGGACTAGACTC
261 CGAGAGATACTTGAGATCGACTCGGTCAAAGCTCGATATATACTGAACTCGAATGGACTAGACTC
*
1073576 GAGCTTGAGCTCACTCGAGTTCTTAACGAGTCGAAACAAGCTACTTAATACTCGAACTCAAAAAT
326 GAGCTTGAGCTCACTCGAGTTCTTAACGAGTCGAAACAAACTACTTAATACTCGAACTCAAAAAT
*
1073641 TTAATATATTAAAATTCTATTTTTAAAATAAATTATTAATAATATT-AACATTTGTATTGGTTTT
391 ATAATATATTAAAATTCTATTTTTAAAATAAATTATTAATAATATTAAACATTTGTATT-GTTTT
*
1073705 TTAAATACAATATAA-GTTTTTATGTATTTAAGGTTCATG
455 TTAAA-ACAATATAAGGTTTTCATGTATTTAAGGTTCATG
*
1073744 TTCAATTTTAA
1 TTCAGTTTTAA
1073755 AGCTCCAATC
Statistics
Matches: 477, Mismatches: 22, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
489 12 0.03
490 418 0.88
491 21 0.04
492 8 0.02
494 18 0.04
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (493 bp):
TTCAGTTTTAATTGATAATTTTTTATGAAATGATATTGATAATTTTTTAATGATTTGTTTATCTT
TTCTTAACAAAGTTTTTAACTACCGTGTCAACAATTCGAATAGCATATAACATTTAATTATTTTG
ATTGAAATAATATTAGAAGTTCAATAATCTAATTGATATTTTTTTTTTGTTCAGATCAAAACAAA
CTCAATCAAATAGTTTATTGATTTTGAAAGGTTATAACTAGGATTGTAGATGAGTTGAGACAGAT
CGAGAGATACTTGAGATCGACTCGGTCAAAGCTCGATATATACTGAACTCGAATGGACTAGACTC
GAGCTTGAGCTCACTCGAGTTCTTAACGAGTCGAAACAAACTACTTAATACTCGAACTCAAAAAT
ATAATATATTAAAATTCTATTTTTAAAATAAATTATTAATAATATTAAACATTTGTATTGTTTTT
TAAAACAATATAAGGTTTTCATGTATTTAAGGTTCATG
Found at i:1076745 original size:29 final size:29
Alignment explanation
Indices: 1076712--1076770 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1076702 CTATTTAATA
1076712 AATCGCATATAATCATAAAATAATAATTT
1 AATCGCATATAATCATAAAATAATAATTT
*
1076741 AATCGCGTATAATCATAAAATAATAATTT
1 AATCGCATATAATCATAAAATAATAATTT
1076770 A
1 A
1076771 TCATCCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (29 bp):
AATCGCATATAATCATAAAATAATAATTT
Found at i:1081414 original size:17 final size:18
Alignment explanation
Indices: 1081382--1081415 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1081372 ATCGACGCAC
*
1081382 AACAATAGCTACAACATT
1 AACAATAGCCACAACATT
1081400 AACAATA-CCACAACAT
1 AACAATAGCCACAACAT
1081416 CACTATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (18 bp):
AACAATAGCCACAACATT
Found at i:1088637 original size:17 final size:18
Alignment explanation
Indices: 1088605--1088638 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1088595 ATCGACGCAC
*
1088605 AACAATAGCTACAACATT
1 AACAATAGCCACAACATT
1088623 AACAATA-CCACAACAT
1 AACAATAGCCACAACAT
1088639 CACTATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (18 bp):
AACAATAGCCACAACATT
Found at i:1092899 original size:8 final size:8
Alignment explanation
Indices: 1092888--1092954 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
1092878 CTTTTTATTT
1092888 TTATTTTA
1 TTATTTTA
1092896 TTA-TTT-
1 TTATTTTA
1092902 TTA-TTT-
1 TTATTTTA
1092908 TTATTTTA
1 TTATTTTA
1092916 TTATTTTA
1 TTATTTTA
1092924 TTA-TTT-
1 TTATTTTA
1092930 TTATTTT-
1 TTATTTTA
1092937 TATATTTTA
1 T-TATTTTA
1092946 TTAGTTTTA
1 TTA-TTTTA
1092955 CTTTCTTTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.23
7 13 0.25
8 22 0.42
9 6 0.11
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:1092899 original size:14 final size:14
Alignment explanation
Indices: 1092882--1092936 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
1092872 GTTTAACTTT
1092882 TTATTTTTATTTTA
1 TTATTTTTATTTTA
1092896 TTATTTTTATTTTTA
1 TTATTTTTA-TTTTA
*
1092911 TT-TTATTATTTTA
1 TTATTTTTATTTTA
1092924 TTATTTTTATTTT
1 TTATTTTTATTTT
1092937 TATATTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.19
14 23 0.62
15 7 0.19
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:1092920 original size:28 final size:29
Alignment explanation
Indices: 1092879--1092954 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
1092869 TTAGTTTAAC
1092879 TTTTTA-TTT-TTATTTTATTATTTTTA-
1 TTTTTATTTTATTATTTTATTATTTTTAT
1092905 TTTTTATTTTATTATTTTATTATTTTTAT
1 TTTTTATTTTATTATTTTATTATTTTTAT
1092934 TTTTATATTTTATTAGTTTTA
1 TTTT-TATTTTATTA-TTTTA
1092955 CTTTCTTTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
26 6 0.13
27 3 0.07
28 17 0.38
29 4 0.09
30 10 0.22
31 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTATTTTATTATTTTATTATTTTTAT
Found at i:1092930 original size:22 final size:22
Alignment explanation
Indices: 1092882--1092954 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
1092872 GTTTAACTTT
1092882 TTATTTTTATTTTATTA-TTT-
1 TTATTTTTATTTTATTATTTTA
1092902 TTATTTTTATTTTATTATTTTA
1 TTATTTTTATTTTATTATTTTA
1092924 TTATTTTTATTTT-TATATTTTA
1 TTATTTTTATTTTAT-TATTTTA
*
1092946 TTAGTTTTA
1 TTATTTTTA
1092955 CTTTCTTTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 17 0.35
21 4 0.08
22 28 0.57
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (22 bp):
TTATTTTTATTTTATTATTTTA
Found at i:1092942 original size:14 final size:13
Alignment explanation
Indices: 1092879--1092944 Score: 73
Period size: 14 Copynumber: 4.8 Consensus size: 13
1092869 TTAGTTTAAC
1092879 TTTT-TATTTTTA
1 TTTTATATTTTTA
1092891 TTTTATTATTTTTA
1 TTTTA-TATTTTTA
1092905 TTTT-TATTTTATTA
1 TTTTATA-TTT-TTA
1092919 TTTTATTATTTTTA
1 TTTTA-TATTTTTA
1092933 TTTTTATATTTT
1 -TTTTATATTTT
1092945 ATTAGTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.13
13 3 0.06
14 28 0.60
15 8 0.17
16 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATATTTTTA
Found at i:1093659 original size:44 final size:43
Alignment explanation
Indices: 1093594--1093739 Score: 202
Period size: 44 Copynumber: 3.3 Consensus size: 43
1093584 AAGAAAAAAG
* * *
1093594 GGAATAAGTTGGAAAAGCTGGTAATAGCTCCAATATAGTCTTA
1 GGAATAAGTTGGAAAGGCTGGTAATAGCTTCAACATAGTCTTA
*
1093637 GGAAATAAGTTGGAAAGGCTGGTAATAACTTCAACATAGTCTTA
1 GG-AATAAGTTGGAAAGGCTGGTAATAGCTTCAACATAGTCTTA
* * *
1093681 GGGAATAAGTTGGAAAGGTTGGTAATAGTTTCAACATAGTCTTT
1 -GGAATAAGTTGGAAAGGCTGGTAATAGCTTCAACATAGTCTTA
1093725 GTGAATAAGTTGGAA
1 G-GAATAAGTTGGAA
1093740 TGCTGAAAAG
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
43 3 0.03
44 87 0.95
45 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (43 bp):
GGAATAAGTTGGAAAGGCTGGTAATAGCTTCAACATAGTCTTA
Found at i:1100531 original size:12 final size:12
Alignment explanation
Indices: 1100499--1100532 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1100489 TAATTAATAA
*
1100499 TAATAATAATAT
1 TAATAATATTAT
*
1100511 TATTAATATTAT
1 TAATAATATTAT
1100523 TAATAATATT
1 TAATAATATT
1100533 TATAACCCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATAATATTAT
Found at i:1100532 original size:9 final size:9
Alignment explanation
Indices: 1100482--1100537 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
1100472 GCAAATGTAA
1100482 AATA-TAAT
1 AATATTAAT
*
1100490 AATTAATAAT
1 AA-TATTAAT
*
1100500 AATAATAAT
1 AATATTAAT
*
1100509 ATTATTAAT
1 AATATTAAT
*
1100518 ATTATTAAT
1 AATATTAAT
*
1100527 AATATTTAT
1 AATATTAAT
1100536 AA
1 AA
1100538 CCCGAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
8 2 0.05
9 34 0.81
10 6 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATATTAAT
Found at i:1100749 original size:55 final size:55
Alignment explanation
Indices: 1100680--1103336 Score: 2450
Period size: 55 Copynumber: 48.8 Consensus size: 55
1100670 TCGACCAGCA
* * * * *
1100680 GGTTCGCTCCCTCTTGCTTTAGGAAGTATGGAACTCGAACAATCTTCTGTCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * *
1100735 GGTTCATTTCCTCTTGCTTCAGGGAG--TAGAACTCGATCAATCTTCTGCCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* *
1100788 GGTTCGCTCTCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * ** *
1100841 AGTTCGCTCCCTTTTGCTTCAAAGAG--TAGAACTCGAACAATATTCTGCCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *
1100894 GGTTCGCTACCTCTTGCTTCAGGGAG-A-AGAACTCGAACAATTTTCGGCCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * *
1100947 AGTTCACTCCCTCTTTCTTCAAGGAG--TAGAACTCGAACAATTTTCTACCTACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * * *
1101000 GGTTCGCTCCCTCTAGCTTCAGGGAG--TAGAACTCGAATAGTCTTTTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * ** *
1101053 GGTTCACTCCCTCTTGCTTTAGGGAGTATAGAACTCGAACCATCTTCTTACAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *** *
1101108 GGTTCTCTTCCTCTTGGTTCAGGGAGTATAGAACTCGAACAATCTTCTGTGAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * * * *
1101163 GGTTTACTCCCTCTTGTTTTAGGGATTATAGAACTCCAACAATCTTTTG-CTAACC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * *
1101218 GGTTCACTCCCTCTTGCTTCAGGTAGTATAGAACTCGAATAATCTTCTGCCAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
*
1101273 GGTTCACTCCCTCTTG-TATCAAGGAGTATAGAACTCGAACAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCT-TCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * *
1101328 GGTTCACTCCCTCTTGTTTCAGGGAGTATACG-ACTCGAATAATCTTATGCC-A--
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATA-GAACTCGAACAATCTTCTGCCTACG
* * *
1101380 -----A-T-CCTCCTGCTTCAGGGAG--T-G---T--AACAATCTT-TGTCTAACA
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * *
1101420 AGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCAAATAATCTTCTACCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
*
1101475 GGTTCACTCCCT-TTAGCTTCAGGGAGTATAGAACTCGAACAATCTTCT-ACTAACG
1 GGTTCACTCCCTCTT-GCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
*
1101530 GGTTCACTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * * *
1101585 GGTTCACTACCTCTTGCTTAAGAGAGTATAGAACTCAAATAATCTTCTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* ** * *
1101640 GGTTCGCTCTATCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTG-CTAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
*** * * * *
1101695 GGTTTGTTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATGTTCT-TCTAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
** * * * * ***
1101750 ACTTCGCTCCTTCTTGCTTCAGGGAGTATAGAAATCGAATAATCTTCTGTGAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *
1101805 GGTTCGCTCCCTCTTGCTTCAGGTAGTATAGAACTCGAACAATCTTCTGCCAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
** * *
1101860 GGTTTGCTCCCTCTTGCTTCAGGGAATATAGAACTCGAACAATCTTCTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * * *
1101915 GGTTCGCTCTCTCTTACTTCAGGGAGTGTAGAACTCGAACAATATTCT-CCTAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * ****
1101970 GGTTCGCAT-CCTCTTGCTTCAGGGAGTATAGAATTCGAACAATCTTCTATGAACG
1 GGTTCAC-TCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* ** * *
1102025 AGTTCGTTCCCTCTTGCTTCAAGGAGTGTAGAACTCGAACAATCTTCTG-CTAATC-
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-A-CG
* * * * * *
1102080 GGTTCGCTCCCTCTTGCTTTAGGTAGTATAGAACTCGAATAATCTGCTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *
1102135 GGTTCGCTTCCTCTTGCTTCAGGGAGTATTGAACTCGAATAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * * * * *
1102190 AGTTCGCTCCCTCTTTCTTTAGGGAGTATACAACTCGAATAATCTTCTGCCAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * * *
1102245 GATTCGCTCCCTCCTT-CTTCAGTGAATGTAGAACTCGAACAATCTTCTG-CTAACA
1 GGTTCACTCCCT-CTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * *
1102300 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGTCAACT
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* *** * *
1102355 GCTTGGTTCCCTCTTACTTCAGGGAGTATAGAACTCGAACAATCTTCT-ACTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * *
1102410 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTG-CTAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * * * *
1102465 GGTTCGCTCCCTCTTACTTCAGGGAGTATAGAACTCAAATAATCTTCTTCCAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * *
1102520 GGTTCGCTCCCTCTTGCTTTAGGGAGTATAGTACTCAAACATTCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* *
1102575 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * * *
1102630 GGTT-AGCTCCTTATTGCTTCAGGAAGTATAGAACTCGAATAATCTTCTGTCAACG
1 GGTTCA-CTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* ** * *
1102685 GGTTCGCTCCCTCTTATTTCAGGCAGTATAGAACTCGAACAATCTTCTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *
1102740 GGTTCACTCCCTCTTGCTTCATGGAATACAGAACAT-GAACAATCTTCTGCCAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAAC-TCGAACAATCTTCTGCCTACG
* * * * **
1102795 GGTTCGCTCCCTCTTGCTTCATGGAATACAGAACTCGAACAATCTTCT-AATAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * ** *
1102850 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTTAAACAATCTTCTG-TTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * *
1102905 AGTTCACTCCTTCTTTCTTCAGGGAGTATAGAACTTGAACAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * ** * *
1102960 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTTAAACAATCTTCTG-TTAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * * * * * * *
1103015 GGTTCGCTCCCTCTTGCTTCAGTGAGTATAGATCTCGAATAATTTTTTTCCAATG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * *
1103070 AGTTCGA-TCCCTCTTGCTTTAGGAAGTATAGAACTCGAACAATCTTCTACCAACG
1 GGTTC-ACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * * *
1103125 AGG-GCGCTCCCTCTTGCTTTAGGAAGTATAGAACTCGAACAATCTTCTG-TTAACG
1 -GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* *
1103180 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTG-CTAACG
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCT-ACG
* * * *
1103235 GGTT-AGTTTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATG
1 GGTTCA--CTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
* * * *
1103291 GGTTCGCTCCCTCTTGCTTCAAGGAGTATAGAACTAGAATAATCTT
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTT
1103337 GATTTGCTTC
Statistics
Matches: 2181, Mismatches: 347, Indels: 148
0.82 0.13 0.06
Matches are distributed among these distances:
36 3 0.00
37 8 0.00
38 1 0.00
39 1 0.00
41 1 0.00
43 1 0.00
45 16 0.01
46 2 0.00
47 17 0.01
49 1 0.00
50 1 0.00
53 275 0.13
54 21 0.01
55 1764 0.81
56 68 0.03
57 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (55 bp):
GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTACG
Found at i:1101193 original size:110 final size:110
Alignment explanation
Indices: 1100680--1101381 Score: 639
Period size: 106 Copynumber: 6.5 Consensus size: 110
1100670 TCGACCAGCA
* * * * * * * * * *
1100680 GGTTCGCTCCCTCTTGCTTTAGGAAGTATGGAACTCGAACAATCTTCTGTCTACGGGTTCATTTC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* * * *
1100745 CTCTTGCTTCAGGGAG--TAGAACTCGATCAATCTTCTGCCT-ACG
66 CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTCT-ACTAACG
* * * * * * *
1100788 GGTTCGCTCTCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTACGAGTTCGCTCC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* * * ** * *
1100851 CTTTTGCTTCAAAGAG--TAGAACTCGAACAATATTCTGCCT-ACG
66 CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTCT-ACTAACG
* * * * * * * *
1100894 GGTTCGCTACCTCTTGCTTCAGGGAG-A-AGAACTCGAACAATTTTCGGCCTACGAGTTCACTCC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* * *
1100957 CTCTT-TCTTCAAGGAG--TAGAACTCGAACAATTTTCTACCT-ACG
66 CTCTTGT-TTTAGGGAGTATAGAACTCGAACAATCTTCTA-CTAACG
* * * * *
1101000 GGTTCGCTCCCTCTAGCTTCAGGGAG--TAGAACTCGAATAGTCTTTTGCCAACGGGTTCACTCC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* *
1101063 CTCTTGCTTTAGGGAGTATAGAACTCGAACCATCTTCTTAC-AACG
66 CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTC-TACTAACG
* * * * ** *
1101108 GGTTCTCTTCCTCTTGGTTCAGGGAGTATAGAACTCGAACAATCTTCTGTGAATGGGTTTACTCC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* * * * *
1101173 CTCTTGTTTTAGGGATTATAGAACTCCAACAATCTTTTGCTAACC
66 CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTCTACTAACG
*
1101218 GGTTCACTCCCTCTTGCTTCAGGTAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
* * * *
1101283 CTCTTGTATCAAGGAGTATAGAACTCGAACAATCTTCTGCTAACG
66 CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTCTACTAACG
* *
1101328 GGTTCACTCCCTCTTGTTTCAGGGAGTATACG-ACTCGAATAATCTTATGCCAAT
1 GGTTCACTCCCTCTTGCTTCAGGGAGTATA-GAACTCGAATAATCTTCTGCCAAT
1101382 CCTCCTGCTT
Statistics
Matches: 507, Mismatches: 74, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
106 227 0.45
108 66 0.13
109 4 0.01
110 209 0.41
111 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (110 bp):
GGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCC
CTCTTGTTTTAGGGAGTATAGAACTCGAACAATCTTCTACTAACG
Found at i:1101224 original size:165 final size:164
Alignment explanation
Indices: 1100680--1103336 Score: 2717
Period size: 165 Copynumber: 16.3 Consensus size: 164
1100670 TCGACCAGCA
* * * ** *
1100680 GGTTCGCTCCCTCTTGCTTTAGGAAGTATGGAACTCGAACAATCTTCTGTCT-ACGGGTTCATTT
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTG-CTAACGGGTTCGCTC
* * * *
1100744 CCTCTTGCTTCAGGGAG--TAGAACTCGATCAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTT
1100807 CAGGGAG--TAGAACTCGAACAATCTTCTGCCT-ACG
130 CAGGGAGTATAGAACTCGAACAATCTTCTG--TAACG
* * ** * *
1100841 AGTTCGCTCCCTTTTGCTTCAAAGAG--TAGAACTCGAACAATATTCTGCCT-ACGGGTTCGCTA
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTG-CTAACGGGTTCGCTC
* ** * * * *
1100903 CCTCTTGCTTCAGGGAG-A-AGAACTCGAACAATTTTCGGCCTACGAGTTCACTCCCTCTTTCTT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTT
* * *
1100966 CAAGGAG--TAGAACTCGAACAATTTTCTACCT-ACG
130 CAGGGAGTATAGAACTCGAACAATCTTCT--GTAACG
* * * * * *
1101000 GGTTCGCTCCCTCTAGCTTCAGGGAG--TAGAACTCGAATAGTCTTTTGCCAACGGGTTCACTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * * *
1101063 CTCTTGCTTTAGGGAGTATAGAACTCGAACCATCTTCTTACAACGGGTTCTCTTCCTCTTGGTTC
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
*
1101128 AGGGAGTATAGAACTCGAACAATCTTCTGTGAATG
131 AGGGAGTATAGAACTCGAACAATCTTCTGT-AACG
** * * * * * * *
1101163 GGTTTACTCCCTCTTGTTTTAGGGATTATAGAACTCCAACAATCTTTTGCTAACCGGTTCACTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * *
1101228 CTCTTGCTTCAGGTAGTATAGAACTCGAATAATCTTCTGCCAATGGGTTCACTCCCTCTTG-TAT
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCT-T
*
1101292 CAAGGAGTATAGAACTCGAACAATCTTCTGCTAACG
130 CAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * * * *
1101328 GGTTCACTCCCTCTTGTTTCAGGGAGTATACG-ACTCGAATAATCTTATGCCAA-----TC-CT-
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATA-GAACTCGAACAATCTTCTGCTAACGGGTTCGCTC
* ** *
1101385 -C-C-TGCTTCAGGGAG--T-G---T--AACAATCTT-TGTCTAACAAGTTCACTCCCTCTTGCT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCT-TCCAACGGGTTCGCTCCCTCTTGCT
* * **
1101438 TCAGGGAGTATAGAACTCAAATAATCTTCTACCAACG
129 TCAGGGAGTATAGAACTCGAACAATCTTCT-GTAACG
* * *
1101475 GGTTCACTCCCT-TTAGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACTAACGGGTTCACTC
1 GGTTCGCTCCCTCTT-GCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTC
* * * * *
1101539 CCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTGCTAACGGGTTCACTACCTCTTGCTT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTT
* * * * *
1101604 AAGAGAGTATAGAACTCAAATAATCTTCTGCCAACG
130 CAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
** * * * *
1101640 GGTTCGCTCTATCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAATGGGTTTGTTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * ** *
1101705 CTCTTGCTTCAGGGAGTGTAGAACTCGAACAATGTTCTTCTAATGACTTCGCTCCTTCTTGCTTC
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
* *
1101770 AGGGAGTATAGAAATCGAATAATCTTCTGTGAACG
131 AGGGAGTATAGAACTCGAACAATCTTCTGT-AACG
* * * *
1101805 GGTTCGCTCCCTCTTGCTTCAGGTAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTTGCTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * *
1101870 CTCTTGCTTCAGGGAATATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCTCTCTTACTTC
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
* * * *
1101935 AGGGAGTGTAGAACTCGAACAATATTCTCCTAATG
131 AGGGAGTATAGAACTCGAACAATCTTCT-GTAACG
* * * *
1101970 GGTTCGCAT-CCTCTTGCTTCAGGGAGTATAGAATTCGAACAATCTTCT-ATGAACGAGTTCGTT
1 GGTTCGC-TCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCT-AACGGGTTCGCT
* * * *
1102033 CCCTCTTGCTTCAAGGAGTGTAGAACTCGAACAATCTTCTGCTAATC-GGTTCGCTCCCTCTTGC
64 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAA-CGGGTTCGCTCCCTCTTGC
* * * * *
1102097 TTTAGGTAGTATAGAACTCGAATAATCTGCTGCCAACG
128 TTCAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * * *
1102135 GGTTCGCTTCCTCTTGCTTCAGGGAGTATTGAACTCGAATAATCTTCTGCTAACGAGTTCGCTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * * * *
1102200 CTCTTTCTTTAGGGAGTATACAACTCGAATAATCTTCTGCCAATGGATTCGCTCCCTCCTT-CTT
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCT-CTTGCTT
* * * *
1102264 CAGTGAATGTAGAACTCGAACAATCTTCTGCTAACA
130 CAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * * * *
1102300 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTG-TCAACTGCTTGGTTC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCT-AACGGGTTCGCTC
* * *
1102364 CCTCTTACTTCAGGGAGTATAGAACTCGAACAATCTTCTACTAACGGGTTCGCTCCCTCTTGCTT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTT
* *
1102429 CAGGGAGTGTAGAACTCGAACAATCTTCTGCTAATG
130 CAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * * * * *
1102465 GGTTCGCTCCCTCTTACTTCAGGGAGTATAGAACTCAAATAATCTTCTTCCAATGGGTTCGCTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * * *
1102530 CTCTTGCTTTAGGGAGTATAGTACTCAAACATTCTTCTGCTAACGGGTTCGCTCCCTCTTGCTTC
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
*
1102595 AGGGAGTGTAGAACTCGAACAATCTTCTGCTAACG
131 AGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * * * *
1102630 GGTTAGCTCCTTATTGCTTCAGGAAGTATAGAACTCGAATAATCTTCTG-TCAACGGGTTCGCTC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCT-AACGGGTTCGCTC
** * * *
1102694 CCTCTTATTTCAGGCAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCACTCCCTCTTGCTT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTT
* * * *
1102759 CATGGAATACAGAACAT-GAACAATCTTCTGCCAACG
130 CAGGGAGTATAGAAC-TCGAACAATCTTCTG-TAACG
* * * **
1102795 GGTTCGCTCCCTCTTGCTTCATGGAATACAGAACTCGAACAATCTTCTAATAACGGGTTCGCTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* ** * * * * *
1102860 CTCTTGCTTCAGGGAGTGTAGAACTTAAACAATCTTCTGT-TAACGAGTTCACTCCTTCTTTCTT
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCT-TCCAACGGGTTCGCTCCCTCTTGCTT
*
1102924 CAGGGAGTATAGAACTTGAACAATCTTCTGCTAACG
130 CAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* ** * *
1102960 GGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTTAAACAATCTTCTGTTAATGGGTTCGCTCC
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
* * * * * * * * *
1103025 CTCTTGCTTCAGTGAGTATAGATCTCGAATAATTTTTTTCCAATGAGTTCGATCCCTCTTGCTTT
66 CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
* **
1103090 AGGAAGTATAGAACTCGAACAATCTTCTACCAACG
131 AGGGAGTATAGAACTCGAACAATCTTCT-GTAACG
* * * *
1103125 AGG-GCGCTCCCTCTTGCTTTAGGAAGTATAGAACTCGAACAATCTTCTGTTAACGGGTTCGCTC
1 -GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTC
* * * * *
1103189 CCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTGCTAACGGGTTAGTTTCCCTCTTGCT
65 CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCG-CTCCCTCTTGCT
* * *
1103254 TCAGGGAGTATAGAACTCGAATAATCTTCTGCCAATG
129 TCAGGGAGTATAGAACTCGAACAATCTTCTG-TAACG
* * *
1103291 GGTTCGCTCCCTCTTGCTTCAAGGAGTATAGAACTAGAATAATCTT
1 GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTT
1103337 GATTTGCTTC
Statistics
Matches: 2097, Mismatches: 334, Indels: 125
0.82 0.13 0.05
Matches are distributed among these distances:
146 4 0.00
147 100 0.05
148 1 0.00
149 1 0.00
152 3 0.00
153 3 0.00
155 12 0.01
156 2 0.00
157 13 0.01
158 1 0.00
159 181 0.09
160 4 0.00
161 61 0.03
163 42 0.02
164 8 0.00
165 1566 0.75
166 95 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (164 bp):
GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCC
CTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTC
AGGGAGTATAGAACTCGAACAATCTTCTGTAACG
Found at i:1104207 original size:18 final size:18
Alignment explanation
Indices: 1104184--1104222 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1104174 ACCGGTCACA
1104184 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1104202 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1104220 ACC
1 ACC
1104223 ATTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.51, G:0.21, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1106751 original size:24 final size:24
Alignment explanation
Indices: 1106724--1106818 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
1106714 ATTTCCGACT
** *
1106724 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATATCTGATC
*
1106748 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* *
1106772 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* *
1106796 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
1106819 ATCTTCGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:1106762 original size:12 final size:12
Alignment explanation
Indices: 1106747--1106816 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
1106737 GATAAATGAC
1106747 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1106759 CTGATTTCTGAT
1 CTGAATTCTGTT
*
1106771 CTGGATTCTGTT
1 CTGAATTCTGTT
1106783 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
1106795 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1106807 TTGATTTCTG
1 CTGAATTCTG
1106817 ATATCTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1106815 original size:48 final size:48
Alignment explanation
Indices: 1106710--1106818 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
1106700 TAAATATTTA
* *
1106710 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATAAATGACCTGAATTCTGT
** **
1106758 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
*
1106806 TTTGATTTCTGAT
1 TCTGATTTCTGAT
1106819 ATCTTCGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:1108739 original size:23 final size:22
Alignment explanation
Indices: 1108705--1108750 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
1108695 GGTGAAGCGG
1108705 TCAAAGTTTCCGACGTTTCAAAA
1 TCAAAGTTTCCGACG-TTCAAAA
*
1108728 TCAAA-TTCTCCGCCGTTCAAAA
1 TCAAAGTT-TCCGACGTTCAAAA
1108750 T
1 T
1108751 TGTGAACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (22 bp):
TCAAAGTTTCCGACGTTCAAAA
Found at i:1108957 original size:18 final size:18
Alignment explanation
Indices: 1108934--1109003 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
1108924 ACCGGTCACA
1108934 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
1108952 ACCCGACCCAACCCGTTT
1 ACCCGACCCGACCCGTTG
*
1108970 ACCC-A----ACCCGATG
1 ACCCGACCCGACCCGTTG
*
1108983 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
1109001 ACC
1 ACC
1109004 ATTGACCGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
17 1 0.02
18 29 0.71
ACGTcount: A:0.21, C:0.49, G:0.17, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1109010 original size:7 final size:7
Alignment explanation
Indices: 1108992--1109025 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1108982 GACCCGACCC
1108992 GACCTGTT
1 GACC-GTT
*
1109000 GACCATT
1 GACCGTT
1109007 GACCGTT
1 GACCGTT
1109014 GACCGTT
1 GACCGTT
1109021 GACCG
1 GACCG
1109026 ACGTTGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1111551 original size:12 final size:12
Alignment explanation
Indices: 1111536--1111605 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
1111526 GATAAATGAC
1111536 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1111548 CTGATTTCTGAT
1 CTGAATTCTGTT
*
1111560 CTGGATTCTGTT
1 CTGAATTCTGTT
*
1111572 ATG-ATATCTGTT
1 CTGAAT-TCTGTT
1111584 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1111596 TTGATTTCTG
1 CTGAATTCTG
1111606 ATATCTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1111567 original size:24 final size:24
Alignment explanation
Indices: 1111513--1111607 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
1111503 ATTTCCGACT
** *
1111513 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATATCTGATC
*
1111537 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
1111561 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* *
1111585 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
1111608 ATCTTCGTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:1111568 original size:48 final size:48
Alignment explanation
Indices: 1111516--1111607 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
1111506 TCCGACTTGA
*
1111516 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
** ** *
1111564 ATTCTGTTATGATATCTGTTCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATAAATGACCTGAATTCTGTTCTGATTTCTGAT
1111608 ATCTTCGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:1120618 original size:3 final size:3
Alignment explanation
Indices: 1120610--1120643 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1120600 AATCTAAAAT
1120610 ATA ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
1120644 TTTATAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1120885 original size:55 final size:55
Alignment explanation
Indices: 1120815--1121996 Score: 1193
Period size: 55 Copynumber: 21.9 Consensus size: 55
1120805 GTTCGACCAG
* *
1120815 CGGGTTCGCTCCCTCTTGCTTCATGGAGTATAGAACTTGAACAATCTTCTTCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * *
1120870 CGAGTTCGTTCCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * *
1120923 CAGGTTCGCTCCCTCTTGCTTCAGGGA-T-TAGACCTCGAACAATCTTCTACCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * * * * * *
1120976 CGAGTTCGCTCTCTCTTGCTTCAAGGAG--TAGAACTCAAACAATCTTGTACTTG
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
*
1121029 CGGGTTCGCTCCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTTTTCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * * * *
1121082 TGAGTTCGCTCCTTCTTGCTTCAAGGAG--TAGAACTCGAACAATCTTCTGCGTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* *
1121135 CGGGTTCACTCCCTCTTGCTTCAGGGAG--TAGAACTCGAAAAATCTT-TTACC-A
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTT-CCTA
* * **
1121187 GCGGGTTCTCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCGAA
1 -CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * * * *
1121243 CAGGTTCGTTCCCTCATGCTTCATGGAGTGTAGAACTCGAACAATCTTC-TGCTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
* * * * * *
1121298 CGGGTTCGCTCCCTCTTGCTTCAGGTACTATAGAACTCCAATAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* *
1121353 CGGGTTCGCTCCCTCTTACTTCAGGGAGTATAGAACTCGAACAATCTTC-TGCTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
* * * * * *
1121408 CGGGTTCGCTCCCTCTTGCTTCAGGTAGTATACAACTCAAATAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * *
1121463 CGGGTTCGCTCCCTCTTGCTTTAAGGAGTATAGAACTCGAACAATCTTC-TGCTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
* * * * * *
1121518 CGGGTTCACTCCCTCTTGCTTCAGGTACTATACAACTCGAATAATCTTCTGCC-A
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * *
1121572 --------ATCCCTCTTGCTTCAAGGAGTGTAGAACTCGAACAATCTTC-TGCTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
** * * * * * * * **
1121619 CATGTTCGCTCCATCTTTCTTTAGAGAGTATAGAACTCGAATATTCTTCTGCAAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * * *
1121674 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATGTTATGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
1121729 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTT-CTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
** * * * *
1121784 CATGTTCGCTCCCTCTTGCTTTAGGGAGTGTAGAACTCGAATAATCTTC-TGCTAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCT-A
* * *
1121839 CGGGTTCGCTCCCTCTTGCTTCAGGAAGTATAGAACTCGAATAATCTTC-TACTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
* * * * *
1121893 GTGGGTTTGCTCCCTCTTGTTTCAGGGAGTATAGAACTCGAATAATCTTCTAT-CAA
1 -CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCT-TCCTA
* * * *
1121949 TGGGTTCGCTCCCTCTTCCTTCATGGAGTATAGAACTCGAATAATCTT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTT
1121997 GATTTGCTTC
Statistics
Matches: 938, Mismatches: 159, Indels: 60
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.00
46 34 0.04
47 1 0.00
52 2 0.00
53 272 0.29
54 6 0.01
55 614 0.65
56 7 0.01
57 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (55 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCCTA
Found at i:1121330 original size:110 final size:109
Alignment explanation
Indices: 1120815--1121996 Score: 1316
Period size: 110 Copynumber: 10.9 Consensus size: 109
1120805 GTTCGACCAG
* * * * *
1120815 CGGGTTCGCTCCCTCTTGCTTCATGGAGTATAGAACTTGAACAATCTTCTTCCT-ACGAGTTCGT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTC-TGCTAACGGGTTCGC
* *
1120879 TCCCTCTTGCTTCAGG-G-AGTAGAACTCGAACAATCTTCTGCCTA
65 TCCCTCTTGCTTCAGGAGTA-TAGAACTCGAATAATCTTCTGCCAA
* * * *
1120923 CAGGTTCGCTCCCTCTTGCTTCAGGGA-T-TAGACCTCGAACAATCTTCTACCT-ACGAGTTCGC
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCT-GCTAACGGGTTCGC
* * * * * ***
1120985 TCTCTCTTGCTTCAAGGAG--TAGAACTCAAACAATCTTGTACTTG
65 TCCCTCTTGCTTC-AGGAGTATAGAACTCGAATAATCTTCTGCCAA
* * * *
1121029 CGGGTTCGCTCCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTTTTCCT-ATGAGTTCGC
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATC-TTCTGCTAACGGGTTCGC
* * **
1121091 TCCTTCTTGCTTCAAGGAG--TAGAACTCGAACAATCTTCTGCGTA
65 TCCCTCTTGCTTC-AGGAGTATAGAACTCGAATAATCTTCTGCCAA
* * * * * * *
1121135 CGGGTTCACTCCCTCTTGCTTCAGGGAG--TAGAACTCGAAAAATCTTTTACCAGCGGGTTCTCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* *
1121198 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCGAA
66 CCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTTCTGCCAA
* * * * *
1121243 CAGGTTCGTTCCCTCATGCTTCATGGAGTGTAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* *
1121308 CCCTCTTGCTTCAGGTACTATAGAACTCCAATAATCTTCTGCCAA
66 CCCTCTTGCTTCAGG-AGTATAGAACTCGAATAATCTTCTGCCAA
*
1121353 CGGGTTCGCTCCCTCTTACTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* *
1121418 CCCTCTTGCTTCAGGTAGTATACAACTCAAATAATCTTCTGCCAA
66 CCCTCTTGCTTCAGG-AGTATAGAACTCGAATAATCTTCTGCCAA
* * *
1121463 CGGGTTCGCTCCCTCTTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCACT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* *
1121528 CCCTCTTGCTTCAGGTACTATACAACTCGAATAATCTTCTGCCAA
66 CCCTCTTGCTTCAGG-AGTATAGAACTCGAATAATCTTCTGCCAA
* * **
1121573 ---------TCCCTCTTGCTTCAAGGAGTGTAGAACTCGAACAATCTTCTGCTAACATGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* * * * *
1121629 CCATCTTTCTTTAGAGAGTATAGAACTCGAATATTCTTCTGCAAA
66 CCCTCTTGCTTCAG-GAGTATAGAACTCGAATAATCTTCTGCCAA
* * * *
1121674 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATGTTATGCCAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* * *
1121739 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAA
66 CCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTTCTGCCAA
** * * *
1121784 CATGTTCGCTCCCTCTTGCTTTAGGGAGTGTAGAACTCGAATAATCTTCTGCTAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
* * *
1121849 CCCTCTTGCTTCAGGAAGTATAGAACTCGAATAATCTTCTACTAG
66 CCCTCTTGCTTCAGG-AGTATAGAACTCGAATAATCTTCTGCCAA
* * * * * *
1121894 TGGGTTTGCTCCCTCTTGTTTCAGGGAGTATAGAACTCGAATAATCTTCT-ATCAATGGGTTCGC
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCT-AACGGGTTCGC
*
1121958 TCCCTCTTCCTTCATGGAGTATAGAACTCGAATAATCTT
65 TCCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTT
1121997 GATTTGCTTC
Statistics
Matches: 939, Mismatches: 109, Indels: 50
0.86 0.10 0.05
Matches are distributed among these distances:
101 87 0.09
102 1 0.00
105 7 0.01
106 215 0.23
107 7 0.01
108 73 0.08
109 5 0.01
110 541 0.58
111 3 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (109 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCT
CCCTCTTGCTTCAGGAGTATAGAACTCGAATAATCTTCTGCCAA
Found at i:1121394 original size:165 final size:164
Alignment explanation
Indices: 1120815--1121996 Score: 1316
Period size: 165 Copynumber: 7.3 Consensus size: 164
1120805 GTTCGACCAG
* * * * * *
1120815 CGGGTTCGCTCCCTCTTGCTTCATGGAGTATAGAACTTGAACAATCTTCTTCCTACGAGTTCGTT
1 CGGGTTCGCTCCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
*
1120880 CCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTCCCTCTTGCT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
* *
1120943 TCAGGGA-T-TAGACCTCGAACAATCTTCTACCT-A
130 TCAGGGAGTATAGAACTCGAACAATCTTCT-GCTAA
* * * * * * ***
1120976 CGAGTTCGCTCTCTCTTGCTTCAAGGAG--TAGAACTCAAACAATCTTGTACTTGCGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTC-AGGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * * * *
1121039 CCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTTTTCCTA-TGAGTTCGCTCCTTCTTGC
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAG-GTTCGCTCCCTCTTGC
*
1121101 TTCAAGGAG--TAGAACTCGAACAATCTTCTGCGT-A
129 TTCAGGGAGTATAGAACTCGAACAATCTTCTGC-TAA
* * * * * *
1121135 CGGGTTCACTCCCTCTTGCTTCAGG-G-AGTAGAACTCGAAAAATCTTTTACCAGCGGGTTCTCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGAGTA-TAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * *
1121198 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCGAACAGGTTCGTTCCCTCATGCT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
* *
1121263 TCATGGAGTGTAGAACTCGAACAATCTTCTGCTAA
130 TCAGGGAGTATAGAACTCGAACAATCTTCTGCTAA
* *
1121298 CGGGTTCGCTCCCTCTTGCTTCAGGTACTATAGAACTCCAATAATCTTCTGCCAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAGG-AGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * *
1121363 CCCTCTTACTTCAGGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCGCTCCCTCTTGCT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
* * * * *
1121428 TCAGGTAGTATACAACTCAAATAATCTTCTGCCAA
130 TCAGGGAGTATAGAACTCGAACAATCTTCTGCTAA
* * * *
1121463 CGGGTTCGCTCCCTCTTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTGCTAACGGGTTCACT
1 CGGGTTCGCTCCCTCTTGC-TTCAGGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * * *
1121528 CCCTCTTGCTTCAGGTACTATACAACTCGAATAATCTTCTGCC-A-A-------TCCCTCTTGCT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
* *
1121584 TCAAGGAGTGTAGAACTCGAACAATCTTCTGCTAA
130 TCAGGGAGTATAGAACTCGAACAATCTTCTGCTAA
** * * * * *
1121619 CATGTTCGCTCCATCTTTCTTTAGAGAGTATAGAACTCGAATATTCTTCTGCAAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCAG-GAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * * *
1121684 CCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATGTTATGCCAACGGGTTCGCTCCCTCTTGCT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
*
1121749 TCAGGGAGTATAGAACTCGAACAATCTTCTTCTAA
130 TCAGGGAGTATAGAACTCGAACAATCTTCTGCTAA
** * * *
1121784 CATGTTCGCTCCCTCTTGCTTTAGGGAGTGTAGAACTCGAATAATCTTCTGCTAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCT
* * * * *** * *
1121849 CCCTCTTGCTTCAGGAAGTATAGAACTCGAATAATCTTCTACTAGTGGGTTTGCTCCCTCTTGTT
65 CCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCT
* *
1121914 TCAGGGAGTATAGAACTCGAATAATCTTCT-ATCAA
130 TCAGGGAGTATAGAACTCGAACAATCTTCTGCT-AA
* *
1121949 TGGGTTCGCTCCCTCTTCCTTCATGGAGTATAGAACTCGAATAATCTT
1 CGGGTTCGCTCCCTCTTGCTTCA-GGAGTATAGAACTCGAATAATCTT
1121997 GATTTGCTTC
Statistics
Matches: 877, Mismatches: 116, Indels: 52
0.84 0.11 0.05
Matches are distributed among these distances:
155 4 0.00
156 128 0.15
157 2 0.00
158 5 0.01
159 177 0.20
161 66 0.08
162 3 0.00
163 47 0.05
164 2 0.00
165 436 0.50
166 7 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (164 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCTC
CCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTGCTT
CAGGGAGTATAGAACTCGAACAATCTTCTGCTAA
Found at i:1121601 original size:46 final size:46
Alignment explanation
Indices: 1121527--1121615 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
1121517 ACGGGTTCAC
*
1121527 TCCCTCTTGCTTCAGGTACTATACAACTCGAATAATCTTCTGCCAA
1 TCCCTCTTGCTTCAGGTACTATACAACTCGAACAATCTTCTGCCAA
* * *
1121573 TCCCTCTTGCTTCAAGG-AGTGTAGAACTCGAACAATCTTCTGC
1 TCCCTCTTGCTTC-AGGTACTATACAACTCGAACAATCTTCTGC
1121616 TAACATGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 35 0.92
47 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (46 bp):
TCCCTCTTGCTTCAGGTACTATACAACTCGAACAATCTTCTGCCAA
Found at i:1144842 original size:14 final size:15
Alignment explanation
Indices: 1144823--1144862 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1144813 TCTCTTTCTA
*
1144823 TATGCAGAGATTT-T
1 TATGCAGGGATTTAT
1144837 TATGCAGGGATTTAT
1 TATGCAGGGATTTAT
1144852 T-TGCAGGGATT
1 TATGCAGGGATT
1144863 ACTCCCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (15 bp):
TATGCAGGGATTTAT
Found at i:1144901 original size:13 final size:13
Alignment explanation
Indices: 1144883--1144908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1144873 ACAGACGAGC
1144883 ATATGAAGACTGT
1 ATATGAAGACTGT
1144896 ATATGAAGACTGT
1 ATATGAAGACTGT
1144909 TCAACTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:1145468 original size:20 final size:20
Alignment explanation
Indices: 1145430--1145495 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
1145420 ATAAAGTTAA
*
1145430 TGATTAATTTATAACAA-TT
1 TGATAAATTTATAACAATTT
*
1145449 TGATAAATTTAATAATAATTT
1 TGATAAATTT-ATAACAATTT
* * *
1145470 TTATAAATTT-TAAAAACTT
1 TGATAAATTTATAACAATTT
1145489 TGATAAA
1 TGATAAA
1145496 GTAAATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 22 0.56
20 6 0.15
21 11 0.28
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TGATAAATTTATAACAATTT
Found at i:1146025 original size:32 final size:32
Alignment explanation
Indices: 1145938--1146026 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 32
1145928 TAAACACAAG
*
1145938 CATGCTAAAGACATGGTACTAAGAAATAGGTA
1 CATGCTAAAGACATGGTACTAAGCAATAGGTA
* * *
1145970 CATG-T-ATGACCTCG-ACTAAGCAATAGGTA
1 CATGCTAAAGACATGGTACTAAGCAATAGGTA
1145999 CATGCTAAAGACATGGTACTAAGCAATA
1 CATGCTAAAGACATGGTACTAAGCAATA
1146027 AGTATATGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 18 0.38
30 7 0.15
31 7 0.15
32 15 0.32
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (32 bp):
CATGCTAAAGACATGGTACTAAGCAATAGGTA
Found at i:1146212 original size:32 final size:32
Alignment explanation
Indices: 1146167--1146248 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
1146157 CACTCATATA
* *
1146167 CATTA-TTCGAATGCAACATTGATTCT-ATTGTG
1 CATTATTTC-AATGCAACATCGACTCTCA-TGTG
*
1146199 CATTATTTCAATGCAAGATCGACTCTCATGTG
1 CATTATTTCAATGCAACATCGACTCTCATGTG
*
1146231 CATTATTTGAATGCAACA
1 CATTATTTCAATGCAACA
1146249 CTGACTAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
32 39 0.91
33 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (32 bp):
CATTATTTCAATGCAACATCGACTCTCATGTG
Found at i:1146615 original size:32 final size:32
Alignment explanation
Indices: 1146570--1146651 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
1146560 CACTCATATA
* *
1146570 CATTA-TTCTAATGCAACATTGATTCT-ATTGTG
1 CATTATTTC-AATGCAACATCGACTCTCA-TGTG
*
1146602 CATTATTTCAATGCAAGATCGACTCTCATGTG
1 CATTATTTCAATGCAACATCGACTCTCATGTG
*
1146634 CATTATTTGAATGCAACA
1 CATTATTTCAATGCAACA
1146652 CTGACTAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
32 39 0.91
33 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (32 bp):
CATTATTTCAATGCAACATCGACTCTCATGTG
Found at i:1146900 original size:403 final size:403
Alignment explanation
Indices: 1146148--1146955 Score: 1526
Period size: 403 Copynumber: 2.0 Consensus size: 403
1146138 TCTCTAAATA
1146148 CGACACTGACACTCATATACATTATTCGAATGCAACATTGATTCTATTGTGCATTATTTCAATGC
1 CGACACTGACACTCATATACATTATTCGAATGCAACATTGATTCTATTGTGCATTATTTCAATGC
1146213 AAGATCGACTCTCATGTGCATTATTTGAATGCAACACTGACTAGTTAACTAAGGGAACCCGATGT
66 AAGATCGACTCTCATGTGCATTATTTGAATGCAACACTGACTAGTTAACTAAGGGAACCCGATGT
*
1146278 CACATAACACCGGTGCAGTTCCCACTAAGCTACTGAATAATCTCCTGGTCCTCACTTAGCCATCA
131 CACATAACACCAGTGCAGTTCCCACTAAGCTACTGAATAATCTCCTGGTCCTCACTTAGCCATCA
1146343 GGTAGATCACGGAGGAAGAAACCGATGTCACATAGCATCAGTATGATTCCCACTCAACTGAAGCA
196 GGTAGATCACGGAGGAAGAAACCGATGTCACATAGCATCAGTATGATTCCCACTCAACTGAAGCA
*
1146408 TTAGCTCGCTCTCACATAGACATCAAGCCATGCTTTAAGTATATATATTGTACTAGACTAATGCA
261 TTAGCTCGCTCTCACATAGACATCAAGCCAAGCTTTAAGTATATATATTGTACTAGACTAATGCA
* *
1146473 ACTATACATACATATCTAAGGGCCCAATACCATACGACTCTGACATCACTAACACACTCCTCGCG
326 ACTATACATACATATCTAAGGGCCCAATACCACACAACTCTGACATCACTAACACACTCCTCGCG
*
1146538 AGTGTTTGAGCCT
391 AGTGTTCGAGCCT
* *
1146551 CGACTCTGACACTCATATACATTATTCTAATGCAACATTGATTCTATTGTGCATTATTTCAATGC
1 CGACACTGACACTCATATACATTATTCGAATGCAACATTGATTCTATTGTGCATTATTTCAATGC
1146616 AAGATCGACTCTCATGTGCATTATTTGAATGCAACACTGACTAGTTAACTAAGGGAACCCGATGT
66 AAGATCGACTCTCATGTGCATTATTTGAATGCAACACTGACTAGTTAACTAAGGGAACCCGATGT
*
1146681 CACATAACACCAGTGCAGTTCCCACTAAGCTACTGAATGATCTCCTGGTCCTCACTTAGCCATCA
131 CACATAACACCAGTGCAGTTCCCACTAAGCTACTGAATAATCTCCTGGTCCTCACTTAGCCATCA
*
1146746 GGTAGATCACGGAGGAAGAACCCGATGTCACATAGCATCAGTATGATTCCCACTCAACTGAAGCA
196 GGTAGATCACGGAGGAAGAAACCGATGTCACATAGCATCAGTATGATTCCCACTCAACTGAAGCA
1146811 TTAGCTCGCTCTCACATAGACATCAAGCCAAGCTTTAAGTATATATATTGTACTAGACTAATGCA
261 TTAGCTCGCTCTCACATAGACATCAAGCCAAGCTTTAAGTATATATATTGTACTAGACTAATGCA
*
1146876 ATTATACATACATATCTAAGGGCCCAATACCACACAACTCTGACATCACTAACACACTCCTCGCG
326 ACTATACATACATATCTAAGGGCCCAATACCACACAACTCTGACATCACTAACACACTCCTCGCG
1146941 AGTGTTCGAGCCT
391 AGTGTTCGAGCCT
1146954 CG
1 CG
1146956 CGCACTTACA
Statistics
Matches: 395, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
403 395 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (403 bp):
CGACACTGACACTCATATACATTATTCGAATGCAACATTGATTCTATTGTGCATTATTTCAATGC
AAGATCGACTCTCATGTGCATTATTTGAATGCAACACTGACTAGTTAACTAAGGGAACCCGATGT
CACATAACACCAGTGCAGTTCCCACTAAGCTACTGAATAATCTCCTGGTCCTCACTTAGCCATCA
GGTAGATCACGGAGGAAGAAACCGATGTCACATAGCATCAGTATGATTCCCACTCAACTGAAGCA
TTAGCTCGCTCTCACATAGACATCAAGCCAAGCTTTAAGTATATATATTGTACTAGACTAATGCA
ACTATACATACATATCTAAGGGCCCAATACCACACAACTCTGACATCACTAACACACTCCTCGCG
AGTGTTCGAGCCT
Found at i:1150357 original size:18 final size:19
Alignment explanation
Indices: 1150336--1150382 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
1150326 GTAAAAAGAT
*
1150336 ATTAAAAT-AATAAAAGCG
1 ATTAAAATAAATAAAAGCA
*
1150354 ATT-AACTAAATAAAAGCA
1 ATTAAAATAAATAAAAGCA
*
1150372 ATTAAAGTAAA
1 ATTAAAATAAA
1150383 AATAAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGCA
Found at i:1154949 original size:7 final size:6
Alignment explanation
Indices: 1154931--1154978 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
1154921 TGCTTGATCG
*
1154931 AATAAA AATAAA AAGTAAA AATAAA GATAAAA AATAAAA AATAAA AAT
1 AATAAA AATAAA AA-TAAA AATAAA AAT-AAA AAT-AAA AATAAA AAT
1154979 TTAACGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 20 0.53
7 18 0.47
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:1154951 original size:13 final size:12
Alignment explanation
Indices: 1154931--1154978 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
1154921 TGCTTGATCG
1154931 AATAAAAATAAA
1 AATAAAAATAAA
1154943 AAGTAAAAATAAA
1 AA-TAAAAATAAA
*
1154956 GATAAAAAATAAAA
1 AAT-AAAAAT-AAA
1154970 AATAAAAAT
1 AATAAAAAT
1154979 TTAACGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 3 0.10
13 23 0.74
14 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:1160502 original size:18 final size:19
Alignment explanation
Indices: 1160481--1160527 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
1160471 GTAAAAAGAT
*
1160481 ATTAAAAT-AATAAAAGCG
1 ATTAAAATAAATAAAAGCA
1160499 ATT-AAATAAATAAAAGCA
1 ATTAAAATAAATAAAAGCA
*
1160517 ATTAAAGTAAA
1 ATTAAAATAAA
1160528 AATTAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGCA
Found at i:1165627 original size:4 final size:5
Alignment explanation
Indices: 1165610--1165648 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
1165600 AATCCCGTTA
1165610 TATTT TATTT TA-TT TA-TT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
1165649 CAATTGAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:1165633 original size:18 final size:19
Alignment explanation
Indices: 1165610--1165647 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1165600 AATCCCGTTA
1165610 TATTTTATTTTA-TTTATT
1 TATTTTATTTTATTTTATT
1165628 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
1165647 T
1 T
1165648 TCAATTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TATTTTATTTTATTTTATT
Found at i:1168183 original size:18 final size:19
Alignment explanation
Indices: 1168152--1168189 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1168142 CTCTCTTATT
1168152 TTTATTTAAATTGCTTTTA
1 TTTATTTAAATTGCTTTTA
1168171 TTTATTT-AATTGCTTTTA
1 TTTATTTAAATTGCTTTTA
1168189 T
1 T
1168190 CACTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATTTAAATTGCTTTTA
Found at i:1180185 original size:60 final size:59
Alignment explanation
Indices: 1180098--1180320 Score: 333
Period size: 59 Copynumber: 3.8 Consensus size: 59
1180088 TGGCACTAAG
* *
1180098 TGTGCAAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCGTCTCGGGCACTCGA
1 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTCTTGGGCACTCGA
1180157 TGTGCAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCG-CATTGGGCACTCGA
1 TGTGC-AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTC-TTGGGCACTCGA
* * * **
1180217 TGTGCAAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCTTATTGGGCACTTTA
1 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTCTTGGGCACTCGA
* *
1180276 TGTGCAAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGT
1 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGT
1180321 ATGGGAAATA
Statistics
Matches: 150, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
58 31 0.21
59 64 0.43
60 55 0.37
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (59 bp):
TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTCTTGGGCACTCGA
Found at i:1180281 original size:119 final size:117
Alignment explanation
Indices: 1180098--1180319 Score: 345
Period size: 119 Copynumber: 1.9 Consensus size: 117
1180088 TGGCACTAAG
* * *
1180098 TGTGCAAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCGTCTCGGGCACTCGATGTGCA
1 TGTGCAAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATCGGGCACTCGATGTGC-
* *
1180163 AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGCATTGGGCACTCGA
65 AAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGCATTGGGCACTCGA
* * **
1180217 TGTGCAAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCTTATTGGGCACTTTATGTGCA
1 TGTGCAAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATCGGGCACTCGATGTGCA
1180282 AAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCG
66 AAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCG
1180320 TATGGGAAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
117 32 0.34
118 5 0.05
119 57 0.61
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (117 bp):
TGTGCAAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATCGGGCACTCGATGTGCA
AAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGCATTGGGCACTCGA
Found at i:1180622 original size:68 final size:68
Alignment explanation
Indices: 1180539--1180726 Score: 277
Period size: 68 Copynumber: 2.8 Consensus size: 68
1180529 AAATATTAAT
* *
1180539 AGGCTTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1180604 TTG
66 TTG
* * * * *
1180607 AGGCCTAACTCTGCATTTGACAAAAAGATGTCATTTATGCCAATTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1180672 TTG
66 TTG
* * * *
1180675 AGGCCTAACTGTGCAATTGGCAGGAAGGTGTCAATTATGCCAGTAAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1180727 CGGTTAAATA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1180993 original size:26 final size:26
Alignment explanation
Indices: 1180923--1180994 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 26
1180913 TACAATAATG
1180923 CATAACTAAAATGCATGAAAGGATG-
1 CATAACTAAAATGCATGAAAGGATGC
*
1180948 CAT---T--AAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGC
*
1180969 CATAACTAAAATGCATGAAATGATGC
1 CATAACTAAAATGCATGAAAGGATGC
1180995 ATTAAGGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 15 0.39
21 3 0.08
22 1 0.03
24 1 0.03
25 3 0.08
26 15 0.39
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (26 bp):
CATAACTAAAATGCATGAAAGGATGC
Found at i:1180994 original size:46 final size:46
Alignment explanation
Indices: 1180923--1181016 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1180913 TACAATAATG
1180923 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
1180969 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1181015 CA
1 CA
1181017 ATGCATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:1181043 original size:64 final size:64
Alignment explanation
Indices: 1180935--1181080 Score: 220
Period size: 64 Copynumber: 2.2 Consensus size: 64
1180925 TAACTAAAAT
* * *
1180935 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAA
1 GCATGAAAGGATGC--CAAGGCATAAAAGAATGCCATAACTAAAATGCATGAAATGATGCATTAA
1181000 G
64 G
* *
1181001 GCATGAAAGGATGCCAATGCATAAAAGAATGCCATAGCTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCAAGGCATAAAAGAATGCCATAACTAAAATGCATGAAATGATGCATTAAG
*
1181065 GCATTAAAGGATGCCA
1 GCATGAAAGGATGCCA
1181081 TAACTAAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
64 60 0.81
66 14 0.19
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (64 bp):
GCATGAAAGGATGCCAAGGCATAAAAGAATGCCATAACTAAAATGCATGAAATGATGCATTAAG
Found at i:1181088 original size:46 final size:46
Alignment explanation
Indices: 1181019--1181268 Score: 320
Period size: 46 Copynumber: 5.4 Consensus size: 46
1181009 GGATGCCAAT
* * *
1181019 GCATAAAAGAATGCCATAGCTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
* *
1181065 GCATTAAAGGATGCCATAACTAAAAGGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
* *
1181111 GCATGAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
* *
1181157 GCATGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
* * * * * ***
1181203 GCATGAATGGATGACATAAATGAAATGTATGAAATGGCACATTAAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATT-AAG
* *
1181250 GCGTGAAAGGGTGCCATAA
1 GCATGAAAGGATGCCATAA
1181269 ATGAAATTAA
Statistics
Matches: 181, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
46 163 0.90
47 18 0.10
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
Found at i:1181103 original size:26 final size:25
Alignment explanation
Indices: 1181019--1181196 Score: 125
Period size: 26 Copynumber: 7.6 Consensus size: 25
1181009 GGATGCCAAT
* * *
1181019 GCATAAAAGAATGCCATAGCTAAAAT
1 GCATGAAAGGATGCCATA-CTAAAAG
*
1181045 GCATGAAATGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATACTAAAAG
*
1181065 GCATTAAAGGATGCCATAACTAAAAG
1 GCATGAAAGGATGCCAT-ACTAAAAG
*
1181091 GCATGAAATGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATACTAAAAG
* *
1181111 GCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGATGCCAT-ACTAAAAG
1181137 GCATGAAAGGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATACTAAAAG
* *
1181157 GCATGAAAGGATGACATAACTAAAAT
1 GCATGAAAGGATGCCAT-ACTAAAAG
1181183 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1181197 ATTAAGGCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
20 42 0.35
21 9 0.08
22 3 0.03
24 3 0.03
25 9 0.08
26 53 0.45
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (25 bp):
GCATGAAAGGATGCCATACTAAAAG
Found at i:1181121 original size:110 final size:109
Alignment explanation
Indices: 1180919--1181122 Score: 363
Period size: 110 Copynumber: 1.9 Consensus size: 109
1180909 AATGTACAAT
*
1180919 AATGCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCA
1 AATGCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAGGCA
1180984 TGAAATGATGCATTAAGGCATGAAAGGATGCCAATGCATAAAAG
66 TGAAATGATGCATTAAGGCATGAAAGGATGCCAATGCATAAAAG
* * *
1181028 AATGCCATAGCTAAAATGCATGAAATGATGCATTAAGGCATTAAAGGATGCCATAACTAAAAGGC
1 AATG-CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAGGC
1181093 ATGAAATGATGCATTAAGGCATGAAAGGAT
65 ATGAAATGATGCATTAAGGCATGAAAGGAT
1181123 ACCATAACTA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 4 0.04
110 86 0.96
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (109 bp):
AATGCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAGGCA
TGAAATGATGCATTAAGGCATGAAAGGATGCCAATGCATAAAAG
Found at i:1184937 original size:20 final size:20
Alignment explanation
Indices: 1184888--1184943 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
1184878 TACCGGAAGG
* *
1184888 GGGTATCGGTACCATAGTAT
1 GGGTATCGATACCATAGTAA
*
1184908 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
1184930 GGGTATCGATACCA
1 GGGTATCGATACCA
1184944 GGCAACATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:1184953 original size:95 final size:95
Alignment explanation
Indices: 1184837--1185011 Score: 260
Period size: 95 Copynumber: 1.8 Consensus size: 95
1184827 CGACGAGGTA
* * * *
1184837 GTATCAATACCAAGCATCATCGAAGCTAAAATTGGTATCGATACCGGAAGGGGGTATCGGTACCA
1 GTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGATACCAGAAGGGGGTATCAGTACCA
* *
1184902 TAGTATGGTAGTATCGATACCATGGTAAGG
66 TAGTATAGAAGTATCGATACCATGGTAAGG
* * * *
1184932 GTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGATACCAGAATGGGGTATCAGTATCA
1 GTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGATACCAGAAGGGGGTATCAGTACCA
1184997 TAGTATAGAAGTATC
66 TAGTATAGAAGTATC
1185012 AGTACCAGGG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (95 bp):
GTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGATACCAGAAGGGGGTATCAGTACCA
TAGTATAGAAGTATCGATACCATGGTAAGG
Found at i:1185455 original size:60 final size:59
Alignment explanation
Indices: 1185367--1185592 Score: 319
Period size: 60 Copynumber: 3.8 Consensus size: 59
1185357 TGGTACTAAG
* * * * *
1185367 TGTGCAAAAATGTTAATAAATTAATACTAAGTGTATGAATTTTCGTATCGGGCACTCGA
1 TGTGCAAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGA
* * *
1185426 TGTGCAAATAATGTTAAGGAATTCATACTAACTGTATGAATTTCCGTATTGGGCACTCGA
1 TGTGCAAA-AATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGA
**
1185486 TGTGCAAAAATGATAAGAAATTCAATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
1 TGTGCAAAAATGATAAGAAATTC-ATACTAAGTGTATGAATTTCCGTATTGGGCACTCGA
* *
1185546 TGTGCAAAAA-GATAAAAAACTCATACTAAGTGTATGAATTTCCGTAT
1 TGTGCAAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1185593 GAGAAATATA
Statistics
Matches: 152, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
58 25 0.16
59 31 0.20
60 96 0.63
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (59 bp):
TGTGCAAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGA
Found at i:1185954 original size:68 final size:68
Alignment explanation
Indices: 1185810--1185994 Score: 282
Period size: 68 Copynumber: 2.7 Consensus size: 68
1185800 AGATTAATTA
* *
1185810 GCCTAACTGTGTATTTGATAGAAAGGTGTCAATTATGCCAGTTA-ATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1185874 GAG
66 GAG
* * *
1185877 GCCTAACTGTGCATTTGACAGAAAGATGTCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1185942 GAG
66 GAG
* * * *
1185945 GCCTAACTGTGCAATTGGCAGGAAGGTGTCAATTATGCCAGTAAGATGAA
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1185995 CGGTTAAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 39 0.37
68 66 0.63
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:1186222 original size:20 final size:20
Alignment explanation
Indices: 1186197--1186363 Score: 109
Period size: 20 Copynumber: 7.5 Consensus size: 20
1186187 CTAAAATGCA
1186197 AAAGGATGCATTAAGGCATG
1 AAAGGATGCATTAAGGCATG
*
1186217 AAAGGATGTCATAACTAAAATGCATG
1 AAAGGATG-CAT---T--AAGGCATG
*
1186243 AAACGATGCATTAAGGCATG
1 AAAGGATGCATTAAGGCATG
*
1186263 AAAGGATGTCATAACTAAAATGCATG
1 AAAGGATG-CAT---T--AAGGCATG
*
1186289 AAATGATGCATTAAGGCATG
1 AAAGGATGCATTAAGGCATG
**
1186309 AAAGGATGCCATAACTAAAATACATG
1 AAAGGATG-CAT---T--AAGGCATG
*
1186335 AAAGGATGCACTAAGGCATG
1 AAAGGATGCATTAAGGCATG
1186355 AAAGGATGC
1 AAAGGATGC
1186364 CATAACTAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
20 51 0.44
21 9 0.08
22 3 0.03
24 3 0.03
25 8 0.07
26 42 0.36
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (20 bp):
AAAGGATGCATTAAGGCATG
Found at i:1186250 original size:26 final size:25
Alignment explanation
Indices: 1186179--1186529 Score: 193
Period size: 26 Copynumber: 15.2 Consensus size: 25
1186169 TATAACAATA
1186179 ATGCATAACTAAAATGCA--AAAGG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186202 ATGCAT---T--AAGGCATGAAAGG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186222 ATGTCATAACTAAAATGCATGAAACG
1 ATG-CATAACTAAAATGCATGAAAGG
*
1186248 ATGCAT---T--AAGGCATGAAAGG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186268 ATGTCATAACTAAAATGCATGAAATG
1 ATG-CATAACTAAAATGCATGAAAGG
*
1186294 ATGCAT---T--AAGGCATGAAAGG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186314 ATGCCATAACTAAAATACATGAAAGG
1 ATG-CATAACTAAAATGCATGAAAGG
*
1186340 ATGC---ACT--AAGGCATGAAAGG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186360 ATGCCATAACTAAAATGCATGAAATG
1 ATG-CATAACTAAAATGCATGAAAGG
*
1186386 ATGC---ACT--AAGGCAT-AAGAGG
1 ATGCATAACTAAAATGCATGAA-AGG
* *
1186406 ATACCATAACTAAAATTCATGAAAGG
1 AT-GCATAACTAAAATGCATGAAAGG
* * *
1186432 ATG---AA-T-TAAGGTATGAAAGG
1 ATGCATAACTAAAATGCATGAAAGG
* *
1186452 ATAACATAACTAAAATGCATGAAATG
1 AT-GCATAACTAAAATGCATGAAAGG
* *
1186478 ATGCAT---T--AAGGCATGAAATG
1 ATGCATAACTAAAATGCATGAAAGG
*
1186498 ATGCCATAACTAAAATGCATGAAATG
1 ATG-CATAACTAAAATGCATGAAAGG
1186524 ATGCAT
1 ATGCAT
1186530 TAAGGTATGA
Statistics
Matches: 249, Mismatches: 33, Indels: 90
0.67 0.09 0.24
Matches are distributed among these distances:
18 5 0.02
19 2 0.01
20 88 0.35
21 15 0.06
22 11 0.04
23 6 0.02
24 12 0.05
25 15 0.06
26 93 0.37
27 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.22
Consensus pattern (25 bp):
ATGCATAACTAAAATGCATGAAAGG
Found at i:1186261 original size:46 final size:46
Alignment explanation
Indices: 1186182--1186599 Score: 556
Period size: 46 Copynumber: 9.1 Consensus size: 46
1186172 AACAATAATG
*
1186182 CATAACTAAAATGCA--AAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
1186226 CATAACTAAAATGCATGAAACGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
1186272 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
1186318 CATAACTAAAATACATGAAAGGATGCACTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
1186364 CATAACTAAAATGCATGAAATGATGCACTAAGGCAT-AAGAGGATAC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAA-AGGATGC
* * * **
1186410 CATAACTAAAATTCATGAAAGGATGAATTAAGGTATGAAAGGATAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
1186456 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
1186502 CATAACTAAAATGCATGAAATGATGCATTAAGGTATGAACGGATTC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *** *
1186548 CATAAAC-GAAATGCATGAAAGGGCACATTAAAGGCGTGAAAGGATGC
1 CAT-AACTAAAATGCATGAAAGGATGCATT-AAGGCATGAAAGGATGC
1186595 CATAA
1 CATAA
1186600 ATGAAATTAA
Statistics
Matches: 333, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
44 15 0.05
45 2 0.01
46 295 0.89
47 21 0.06
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:1186493 original size:20 final size:20
Alignment explanation
Indices: 1186468--1186540 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
1186458 TAACTAAAAT
1186468 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
*
1186488 GCATGAAATGATGCCATAACTAAAAT
1 GCATGAAATGATG-CAT---T--AAG
1186514 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
*
1186534 GTATGAA
1 GCATGAA
1186541 CGGATTCCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 21 0.48
21 3 0.07
22 1 0.02
24 1 0.02
25 3 0.07
26 15 0.34
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (20 bp):
GCATGAAATGATGCATTAAG
Found at i:1190987 original size:20 final size:20
Alignment explanation
Indices: 1190954--1191006 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1190944 AATGCAATTA
* * *
1190954 GTGCATCGATGCATCCTGCT
1 GTGCATCCATGCATCATACT
*
1190974 GTGTATCCATGCATCATACT
1 GTGCATCCATGCATCATACT
1190994 GTGCATCCATGCA
1 GTGCATCCATGCA
1191007 CCAAGACTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (20 bp):
GTGCATCCATGCATCATACT
Found at i:1192941 original size:19 final size:18
Alignment explanation
Indices: 1192910--1192949 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1192900 ACTAAAAAAT
*
1192910 AAAGAAAATTTGAGTTTG
1 AAAGAAAAGTTGAGTTTG
*
1192928 AAAGCAAAAGTTGATTTTG
1 AAAG-AAAAGTTGAGTTTG
1192947 AAA
1 AAA
1192950 ATCAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (18 bp):
AAAGAAAAGTTGAGTTTG
Found at i:1194151 original size:21 final size:20
Alignment explanation
Indices: 1194113--1194150 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1194103 AAACAATTGG
1194113 TAACATTGATATCATTTTGT
1 TAACATTGATATCATTTTGT
*
1194133 TAACAATTGGTATC-TTTT
1 TAAC-ATTGATATCATTTT
1194151 TCATTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TAACATTGATATCATTTTGT
Found at i:1194400 original size:21 final size:22
Alignment explanation
Indices: 1194374--1194434 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
1194364 AGGGTGTCAA
1194374 AGTGCATCCATGCACC-CCTAC-
1 AGTGCATCCATGCACCACC-ACT
1194395 AGTGCATCCATGCACCTACCACT
1 AGTGCATCCATGCACC-ACCACT
*
1194418 AGTGCATCGATGCACCA
1 AGTGCATCCATGCACCA
1194435 TGTACTGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 16 0.44
22 3 0.08
23 17 0.47
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (22 bp):
AGTGCATCCATGCACCACCACT
Found at i:1194498 original size:20 final size:20
Alignment explanation
Indices: 1194473--1194524 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1194463 ATGCAATTAG
1194473 TGCATCGATGCATCCTGCTA
1 TGCATCGATGCATCCTGCTA
* *
1194493 TGCATCGATGCATCCTGTTG
1 TGCATCGATGCATCCTGCTA
*
1194513 TGCATCCATGCA
1 TGCATCGATGCA
1194525 CTCCATTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (20 bp):
TGCATCGATGCATCCTGCTA
Found at i:1194500 original size:73 final size:73
Alignment explanation
Indices: 1194420--1194580 Score: 261
Period size: 73 Copynumber: 2.2 Consensus size: 73
1194410 CTACCACTAG
1194420 TGCATCGATGCACCATGTACTGCATCCATGCACTCCATTTCGAATGCAATTAGTGCATCGATGCA
1 TGCATCGATGCACCATGTACTGCATCCATGCACTCCATTTCGAATGCAATTAGTGCATCGATGCA
1194485 TCCTGCTA
66 TCCTGCTA
**
1194493 TGCATCGATGCATCC-TGTTGTGCATCCATGCACTCCATTTCGAATGCAATTAGTGCATCGATGC
1 TGCATCGATGCA-CCATGTACTGCATCCATGCACTCCATTTCGAATGCAATTAGTGCATCGATGC
* *
1194557 ATCCTGTTG
65 ATCCTGCTA
*
1194566 TGCATCCATGCACCA
1 TGCATCGATGCACCA
1194581 AGGCTGCAAC
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 2 0.02
73 77 0.95
74 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (73 bp):
TGCATCGATGCACCATGTACTGCATCCATGCACTCCATTTCGAATGCAATTAGTGCATCGATGCA
TCCTGCTA
Found at i:1205955 original size:18 final size:19
Alignment explanation
Indices: 1205916--1205956 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
1205906 TCTACAACTA
*
1205916 ATTTTATCAAAAACACAAG
1 ATTTTATCAAAAACAAAAG
1205935 ATTTT-TCAAAAA-AAAATG
1 ATTTTATCAAAAACAAAA-G
1205953 ATTT
1 ATTT
1205957 AAATTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 12 0.60
19 5 0.25
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (19 bp):
ATTTTATCAAAAACAAAAG
Found at i:1207420 original size:24 final size:24
Alignment explanation
Indices: 1207367--1207427 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
1207357 ATTGTTAAAC
*
1207367 ATTTTGATGATTTGGATGTTTGAAT
1 ATTTGGATG-TTTGGATGTTTGAAT
*
1207392 ATTTGGTTGTTTGGATTGTTT--AT
1 ATTTGGATGTTTGGA-TGTTTGAAT
1207415 ATTTTGGATGTTT
1 A-TTTGGATGTTT
1207428 AATTTTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 3 0.10
24 16 0.52
25 12 0.39
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (24 bp):
ATTTGGATGTTTGGATGTTTGAAT
Found at i:1207434 original size:14 final size:16
Alignment explanation
Indices: 1207401--1207434 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
1207391 TATTTGGTTG
1207401 TTTGGATTGTTTATAT
1 TTTGGATTGTTTATAT
1207417 TTTGGA-TGTTTA-AT
1 TTTGGATTGTTTATAT
1207431 TTTG
1 TTTG
1207435 AATAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 6 0.33
16 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (16 bp):
TTTGGATTGTTTATAT
Found at i:1208118 original size:18 final size:18
Alignment explanation
Indices: 1208091--1208140 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
1208081 ATGCAAAAGA
*
1208091 GGTACTGATACCCTATTG
1 GGTACCGATACCCTATTG
1208109 GGTACCGATACCCTATTG
1 GGTACCGATACCCTATTG
1208127 GGTACCGATACCCT
1 GGTACCGATACCCT
1208141 TATATAGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (18 bp):
GGTACCGATACCCTATTG
Found at i:1209405 original size:12 final size:11
Alignment explanation
Indices: 1209388--1209442 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
1209378 ATTTTCGTCT
1209388 ATATATTTATTA
1 ATATA-TTATTA
1209400 ATATATTATT-
1 ATATATTATTA
1209410 AT-TATTATTA
1 ATATATTATTA
* *
1209420 TTATAATAATTA
1 ATAT-ATTATTA
*
1209432 AAATATTATTA
1 ATATATTATTA
1209443 CAGTCCATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.20
10 3 0.09
11 12 0.34
12 13 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATTATTA
Found at i:1212418 original size:18 final size:18
Alignment explanation
Indices: 1212377--1212436 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
1212367 CACGAAGCGG
* *
1212377 GTTTCCTTGCATTAATCA
1 GTTTCCATGCATTAATGA
* * *
1212395 GGTTCCCTGCATTAATGT
1 GTTTCCATGCATTAATGA
*
1212413 GTTTCCAAGCATTAATGA
1 GTTTCCATGCATTAATGA
1212431 GTTTCC
1 GTTTCC
1212437 TGATTAAAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (18 bp):
GTTTCCATGCATTAATGA
Found at i:1213504 original size:13 final size:13
Alignment explanation
Indices: 1213486--1213511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1213476 CTTAATTGCG
1213486 AAAAAATAAAAAT
1 AAAAAATAAAAAT
1213499 AAAAAATAAAAAT
1 AAAAAATAAAAAT
1213512 TCAATTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Done.