Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:1087003 original size:237 final size:238
Alignment explanation
Indices: 1086562--1087006 Score: 657
Period size: 237 Copynumber: 1.9 Consensus size: 238
1086552 CCCCAATTAT
** * * ** *
1086562 GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGA
1 GAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGA
* * **
1086627 GTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAAT
66 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGAAAAAAATTGGTGTTTTTGGAAAT
* *
1086692 AAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATTGGAGTTGG
131 AAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGGAGTTGG
*
1086757 AGTATCCCCGATTAAGAGAAATTAATGTTTTGGAAATGAAACC
196 AATATCCCCGATTAAGAGAAATTAATGTTTTGGAAATGAAACC
1086800 GAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGA
1 GAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGA
* *
1086865 GTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGA-TGAAAAAAATTGGTGTTTTTTGGAAA
66 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGAAAAAAATTGGTG-TTTTTGGAAA
* *
1086928 TAAAATTGGAGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTT-GAAAATAAAATCGGAG-
130 TAAAATCGGAGTTGGAGTATCCCCGATTATGA-AAAATGAGTGTTTTAG-AAATAAAATCGGAGT
1086990 TGAGAATATCCCCGATT
193 TG-GAATATCCCCGATT
1087007 GCGGAGAATT
Statistics
Matches: 185, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
236 17 0.09
237 99 0.54
238 69 0.37
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (238 bp):
GAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGA
GTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGAAAAAAATTGGTGTTTTTGGAAAT
AAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGGAGTTGG
AATATCCCCGATTAAGAGAAATTAATGTTTTGGAAATGAAACC
Found at i:1089371 original size:21 final size:21
Alignment explanation
Indices: 1089345--1089401 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
1089335 GTAAACTTCC
1089345 TAGATGTATCGATACAAAGAA
1 TAGATGTATCGATACAAAGAA
*
1089366 TAGATGTATCGATACACAGAA
1 TAGATGTATCGATACAAAGAA
*
1089387 -AAATGTATCGATACA
1 TAGATGTATCGATACA
1089402 TTTCCTTGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (21 bp):
TAGATGTATCGATACAAAGAA
Found at i:1089443 original size:13 final size:13
Alignment explanation
Indices: 1089425--1089476 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1089415 AGCTTCCTAG
1089425 CGATACATTGTAT
1 CGATACATTGTAT
1089438 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1089457 CGATACATTGTAT
1 CGATACATTGTAT
1089470 CGATACA
1 CGATACA
1089477 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1089457 original size:19 final size:18
Alignment explanation
Indices: 1089433--1089495 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1089423 AGCGATACAT
1089433 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1089452 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1089465 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
1089484 TGTATCGTTACA
1 TGTATCGATACA
1089496 TTTTCTGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1089466 original size:32 final size:32
Alignment explanation
Indices: 1089425--1089497 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
1089415 AGCTTCCTAG
1089425 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1089457 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1089489 CGTTACATT
1 CGATACATT
1089498 TTCTGAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1089886 original size:63 final size:63
Alignment explanation
Indices: 1089802--1089940 Score: 242
Period size: 63 Copynumber: 2.2 Consensus size: 63
1089792 ACTTTTCATA
1089802 ATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGGCTCAATGTAGCGATACATTTCTCC
1 ATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGGCTCAATGTAGCGATACATTTCTCC
** *
1089865 ATGTATCGATACATGTGTTTGAAATTTATAGTCGTTGGGCTCAATGTAGCGATACATTTCTCC
1 ATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGGCTCAATGTAGCGATACATTTCTCC
*
1089928 ATATATCGATACA
1 ATGTATCGATACA
1089941 ATTCATCATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGGCTCAATGTAGCGATACATTTCTCC
Found at i:1096669 original size:2 final size:2
Alignment explanation
Indices: 1096662--1096689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1096652 GGTATGTGTT
1096662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1096690 CATAGCCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1098426 original size:25 final size:26
Alignment explanation
Indices: 1098392--1098442 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1098382 AATTTAGTCA
1098392 TTTTTCAATTTAATA-CT-TAATTTT
1 TTTTTCAATTTAATATCTATAATTTT
*
1098416 TTTTATCAATTTAGTATCTATAATTTT
1 TTTT-TCAATTTAATATCTATAATTTT
1098443 ATTCTATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 10 0.43
26 2 0.09
27 7 0.30
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTTCAATTTAATATCTATAATTTT
Found at i:1101184 original size:21 final size:22
Alignment explanation
Indices: 1101142--1101185 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1101132 TGATATATAG
*
1101142 AAATACTTATTAAAAATTATTT
1 AAATACTTATTAAAAATAATTT
1101164 AAATA-TTATTTAAAAA-AATTT
1 AAATACTTA-TTAAAAATAATTT
1101185 A
1 A
1101186 TTTAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATACTTATTAAAAATAATTT
Found at i:1101187 original size:25 final size:25
Alignment explanation
Indices: 1101153--1101200 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1101143 AATACTTATT
*
1101153 AAAAATTATTTAA-ATATTATTTAA
1 AAAAATTATTTAATACATTATTTAA
1101177 AAAAATTTATTTAATACATTATTT
1 AAAAA-TTATTTAATACATTATTT
1101201 TTATTGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 8 0.38
26 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAAATTATTTAATACATTATTTAA
Found at i:1106168 original size:14 final size:13
Alignment explanation
Indices: 1106160--1106196 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
1106150 GAAAAAACAT
1106160 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
1106173 AAGAAAAAAGAAAG
1 AA-AAAAAAAAAAG
1106187 AAAAAAAAAA
1 AAAAAAAAAA
1106197 GTAAATGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1106173 original size:36 final size:38
Alignment explanation
Indices: 1106119--1106192 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 38
1106109 TAGCTTTCAG
* *
1106119 ATAAGAAAAAAACTAAAG-AGCAAACAAGATAGAAAAAAC
1 ATAAGAAAAAAAC-AAAGAAG-AAAAAAGAAAGAAAAAAC
1106158 ATAA-AAAAAAA-AAAGAAGAAAAAAGAAAGAAAAAA
1 ATAAGAAAAAAACAAAGAAGAAAAAAGAAAGAAAAAA
1106193 AAAAGTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.59
37 2 0.06
38 7 0.22
39 4 0.12
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.05
Consensus pattern (38 bp):
ATAAGAAAAAAACAAAGAAGAAAAAAGAAAGAAAAAAC
Found at i:1106177 original size:25 final size:26
Alignment explanation
Indices: 1106144--1106197 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
1106134 AAGAGCAAAC
1106144 AAGATAGAAAAAACATAA-AAAAAAAA
1 AAGATAGAAAAAACA-AAGAAAAAAAA
*
1106170 AAGA-AGAAAAAAGAAAGAAAAAAAA
1 AAGATAGAAAAAACAAAGAAAAAAAA
1106195 AAG
1 AAG
1106198 TAAATGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 2 0.08
25 20 0.77
26 4 0.15
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (26 bp):
AAGATAGAAAAAACAAAGAAAAAAAA
Found at i:1107013 original size:58 final size:57
Alignment explanation
Indices: 1106945--1107237 Score: 202
Period size: 58 Copynumber: 5.1 Consensus size: 57
1106935 TCTTAAGGTT
* * * *
1106945 ATTTTTGTAATTTTTCATGATTTAAAGATTATCATGTAATTTCATGCATTTTTGCATC
1 ATTTTAGTAATTTGTCATGTTTTAAAGATTAT-ATGTAATTTCATGCATTTTAGCATC
** * * ** *
1107003 ATTTTAGTAATTTACCATGTTTTAAGACCATT-TATGTAATTTCATGTATTTTAGGGTT
1 ATTTTAGTAATTTGTCATGTTTTAA-A-GATTATATGTAATTTCATGCATTTTAGCATC
* * *
1107061 ATTTTAGTAATTTGTCATGTTTT-AGGATCATATATGCAATGTCATGCATTTTAGGGC-T-
1 ATTTTAGTAATTTGTCATGTTTTAAAGAT--TATATGTAATTTCATGCATTTTA--GCATC
** * ** *
1107119 ATTTTAGTAATTTGTCATGTTTTATGGATTTTTAT-TAATTTCATATATTTTAGGATC
1 ATTTTAGTAATTTGTCATGTTTTAAAGA-TTATATGTAATTTCATGCATTTTAGCATC
* * ** * * * *
1107176 ATTTTAGTCATTT-TCTATATTTTATGGACTATTATGCAATTCCATGCATTTTAGCACC
1 ATTTTAGTAATTTGTC-ATGTTTTAAAGATTA-TATGTAATTTCATGCATTTTAGCATC
1107234 ATTT
1 ATTT
1107238 AAATATTTTC
Statistics
Matches: 186, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
55 3 0.02
56 4 0.02
57 41 0.22
58 127 0.68
59 6 0.03
60 5 0.03
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (57 bp):
ATTTTAGTAATTTGTCATGTTTTAAAGATTATATGTAATTTCATGCATTTTAGCATC
Found at i:1107064 original size:29 final size:28
Alignment explanation
Indices: 1106911--1107179 Score: 99
Period size: 29 Copynumber: 9.3 Consensus size: 28
1106901 AAGTTTAAAG
* * * *
1106911 GGATCATTTATGCAATTGCATGTATCTTAA
1 GGATTATTTATGTAATTTCATG-AT-TTTA
* *
1106941 GG-TTATTTTTGTAATTTTTCATGATTTAA
1 GGATTATTTATGTAA--TTTCATGATTTTA
* * *
1106970 AGATTA-TCATGTAATTTCATGCATTTTT
1 GGATTATTTATGTAATTTCATG-ATTTTA
* *
1106998 GCATCATTT-TAGTAATTTACCATG-TTTTA
1 GGATTATTTAT-GTAATTT--CATGATTTTA
* **
1107027 AGACCATTTATGTAATTTCATGTATTTTA
1 GGATTATTTATGTAATTTCATG-ATTTTA
*
1107056 GGGTTATTT-TAGTAATTTGTCATG-TTTTA
1 GGATTATTTAT-GTAA-TT-TCATGATTTTA
* * * *
1107085 GGATCATATATGCAATGTCATGCATTTTA
1 GGATTATTTATGTAATTTCATG-ATTTTA
**
1107114 GGGCTATTT-TAGTAATTTGTCATG-TTTTA
1 GGATTATTTAT-GTAA-TT-TCATGATTTTA
*
1107143 TGGATT-TTTAT-TAATTTCATATATTTTA
1 -GGATTATTTATGTAATTTCAT-GATTTTA
*
1107171 GGATCATTT
1 GGATTATTT
1107180 TAGTCATTTT
Statistics
Matches: 178, Mismatches: 36, Indels: 52
0.67 0.14 0.20
Matches are distributed among these distances:
26 4 0.02
27 22 0.12
28 22 0.12
29 94 0.53
30 16 0.09
31 20 0.11
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (28 bp):
GGATTATTTATGTAATTTCATGATTTTA
Found at i:1107123 original size:116 final size:115
Alignment explanation
Indices: 1106915--1107229 Score: 295
Period size: 116 Copynumber: 2.7 Consensus size: 115
1106905 TTAAAGGGAT
* * * * * * *
1106915 CATTTATGCAATTGCATGTATCTTAAGGTTATTTTTGTAATTTTTCATGATTTAAAGAT-TATCA
1 CATTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAA-TTTTCATG-TTTTAGGATCTAT-A
* *
1106979 TGTAATTTCATGCATTTT--TGCATCATTTTAGTAATTTACCATGTTTTA-AGA
63 TGCAA-TTCATGCATTTTAGGGCATCATTTTAGTAATTTACCATGTTTTATAGA
1107030 CCATTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAATTTGTCATGTTTTAGGATCATATA
1 -CATTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAATTT-TCATGTTTTAGGATC-TATA
** *
1107095 TGCAATGTCATGCATTTTAGGGC-T-ATTTTAGTAATTTGTCATGTTTTATGGA
63 TGCAAT-TCATGCATTTTAGGGCATCATTTTAGTAATTTACCATGTTTTATAGA
** * * * * *
1107147 TTTTTAT-TAATTTCATATATTTTAGGATCATTTTAGTCATTTTCTATATTTTATGGA-CTATTA
1 CATTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAATTTTC-ATGTTTTA-GGATCTA-TA
1107210 TGCAATTCCATGCATTTTAG
63 TGCAATT-CATGCATTTTAG
1107230 CACCATTTAA
Statistics
Matches: 169, Mismatches: 19, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
114 5 0.03
115 70 0.41
116 86 0.51
117 6 0.04
118 2 0.01
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.50
Consensus pattern (115 bp):
CATTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAATTTTCATGTTTTAGGATCTATATGC
AATTCATGCATTTTAGGGCATCATTTTAGTAATTTACCATGTTTTATAGA
Found at i:1107267 original size:115 final size:116
Alignment explanation
Indices: 1107033--1107250 Score: 261
Period size: 115 Copynumber: 1.9 Consensus size: 116
1107023 TTTAAGACCA
* * * *
1107033 TTTATGTAATTTCATGTATTTTAGGGTTATTTTAGTAATTTGTCATGTTTTAGGATCATATATGC
1 TTTATGTAATTTCATATATTTTAGGATCATTTTAGTAATTTGTCATATTTTAGGATCATATATGC
** * * *
1107098 AATGTCATGCATTTTAGGGCTATTTTAGTAATTTGTCATGTTTTATGGATT
66 AATGTCATGCATTTTAGCACCATTTAAATAATTTGTCATGTTTTATGGATT
*
1107149 TTTAT-TAATTTCATATATTTTAGGATCATTTTAGTCATTT-TCTATATTTTATGGA-C-TATTA
1 TTTATGTAATTTCATATATTTTAGGATCATTTTAGTAATTTGTC-ATATTTTA-GGATCATA-TA
1107210 TGCAAT-TCCATGCATTTTAGCACCATTTAAAT-ATTT-TCATG
63 TGCAATGT-CATGCATTTTAGCACCATTTAAATAATTTGTCATG
1107251 CATTTTAGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
113 5 0.06
114 9 0.10
115 66 0.75
116 8 0.09
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (116 bp):
TTTATGTAATTTCATATATTTTAGGATCATTTTAGTAATTTGTCATATTTTAGGATCATATATGC
AATGTCATGCATTTTAGCACCATTTAAATAATTTGTCATGTTTTATGGATT
Found at i:1108657 original size:33 final size:34
Alignment explanation
Indices: 1108615--1108718 Score: 104
Period size: 33 Copynumber: 3.0 Consensus size: 34
1108605 GCCTTTCTTG
*
1108615 TATATAAAATAAATATATAAATATGTT-AAAATT
1 TATATAAAATAAATATATAAATATATTAAAAATT
* *
1108648 TATATAAAATAAAT-TATTAATGTATTAAAAATT
1 TATATAAAATAAATATATAAATATATTAAAAATT
* *
1108681 TAAATAAATATATAATACTTTAAATATAATTATAAAAT
1 TATATAAA-ATA-AATA-TATAAATAT-ATTA-AAAAT
1108719 AAAAATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
32 9 0.16
33 27 0.47
34 3 0.05
35 3 0.05
37 6 0.11
38 4 0.07
39 5 0.09
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (34 bp):
TATATAAAATAAATATATAAATATATTAAAAATT
Found at i:1108714 original size:22 final size:20
Alignment explanation
Indices: 1108679--1108719 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1108669 GTATTAAAAA
*
1108679 TTTAAATAAATATATAATAC
1 TTTAAATAAATATAAAATAC
1108699 TTTAAATATAATTATAAAATA
1 TTTAAATA-AA-TATAAAATA
1108720 AAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAATAAATATAAAATAC
Found at i:1109867 original size:28 final size:28
Alignment explanation
Indices: 1109827--1109891 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
1109817 TAAATGATTA
* *
1109827 TTTCTCTTTCTTT-TCCTTTCCTTGTCTT-
1 TTTCTTTTTCTTTCT-CTTTCCTTAT-TTC
1109855 TTTCTTTTTCTTTCTCTTTCCTTATTTC
1 TTTCTTTTTCTTTCTCTTTCCTTATTTC
1109883 TTTCTTTTT
1 TTTCTTTTT
1109892 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.91
29 1 0.03
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTCTTTTTCTTTCTCTTTCCTTATTTC
Found at i:1109872 original size:18 final size:19
Alignment explanation
Indices: 1109824--1109891 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 19
1109814 GAATAAATGA
1109824 TTATTTCTCTT-TCTTTTCC
1 TTATTTCT-TTCTCTTTTCC
*
1109843 -T-TTCCTTGTCT-TTTT-C
1 TTATTTCTT-TCTCTTTTCC
1109859 TT-TTTCTTTCTC-TTTCC
1 TTATTTCTTTCTCTTTTCC
1109876 TTATTTCTTTCT-TTTT
1 TTATTTCTTTCTCTTTT
1109892 ATAAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.20
17 18 0.45
18 14 0.35
ACGTcount: A:0.03, C:0.24, G:0.01, T:0.72
Consensus pattern (19 bp):
TTATTTCTTTCTCTTTTCC
Found at i:1110724 original size:2 final size:2
Alignment explanation
Indices: 1110717--1110747 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1110707 ATACATCACC
1110717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1110748 AAATAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1112283 original size:2 final size:2
Alignment explanation
Indices: 1112272--1112304 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1112262 AAGGTCTTGT
1112272 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1112305 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1112309 original size:2 final size:2
Alignment explanation
Indices: 1112304--1112342 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1112294 ATATATATAT
1112304 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1112343 TTTAAGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1113605 original size:2 final size:2
Alignment explanation
Indices: 1113600--1113657 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
1113590 ATATATATGT
1113600 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
1113642 AG AG AG GG AG AC AG AG
1 AG AG AG AG AG AG AG AG
1113658 TAAAAACGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1113812 original size:20 final size:20
Alignment explanation
Indices: 1113779--1113817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1113769 GGGAGGACAT
* *
1113779 AATTTCATAATGTTTCAAGG
1 AATTTAATAATGTTACAAGG
*
1113799 AATTTAATAGTGTTACAAG
1 AATTTAATAATGTTACAAG
1113818 ACATTACGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (20 bp):
AATTTAATAATGTTACAAGG
Found at i:1115026 original size:24 final size:25
Alignment explanation
Indices: 1114980--1115027 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1114970 ACATAATTAA
*
1114980 AAGCATTAAACATAGTTACAAACAC
1 AAGCATTAAACATAATTACAAACAC
* *
1115005 AAGCA-TAATCATAATTATAAACA
1 AAGCATTAAACATAATTACAAACA
1115028 AAATGGTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (25 bp):
AAGCATTAAACATAATTACAAACAC
Found at i:1115415 original size:17 final size:18
Alignment explanation
Indices: 1115395--1115435 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1115385 ACAAGGGATT
1115395 TATTAATAATATT-ATAA
1 TATTAATAATATTAATAA
*
1115412 TATTATTAATATTAATAA
1 TATTAATAATATTAATAA
1115430 T-TTAAT
1 TATTAAT
1115436 TTATCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAATAATATTAATAA
Found at i:1115434 original size:8 final size:9
Alignment explanation
Indices: 1115395--1115435 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
1115385 ACAAGGGATT
1115395 TATTAATAA
1 TATTAATAA
1115404 TATT-ATAA
1 TATTAATAA
*
1115412 TATTATTAA
1 TATTAATAA
1115421 TATTAATAA
1 TATTAATAA
1115430 T-TTAAT
1 TATTAAT
1115436 TTATCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TATTAATAA
Found at i:1122170 original size:13 final size:13
Alignment explanation
Indices: 1122152--1122189 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1122142 AAAACTCAAA
1122152 TGTATCGATACAT
1 TGTATCGATACAT
*
1122165 TGTATCGATTCAT
1 TGTATCGATACAT
*
1122178 TGTATTGATACA
1 TGTATCGATACA
1122190 AGGCTACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1126687 original size:45 final size:44
Alignment explanation
Indices: 1126547--1126674 Score: 177
Period size: 45 Copynumber: 2.9 Consensus size: 44
1126537 GTTTTATTAT
* *
1126547 TTTTTAATTAGATTTTAATTGGGTTTGTGTTTAAATTTATATAGA
1 TTTTTAGTTAGATTTTAATTGGGTTTG-GTTTAAGTTTATATAGA
* *
1126592 TTTTTAGTTAGATTTTAATTGAGTTTGGGTTTAAGTTTATATAGC
1 TTTTTAGTTAGATTTTAATTGGGTTT-GGTTTAAGTTTATATAGA
*
1126637 TTTTTAGTT-GGTTTTAATTGGGTTTAGGTTTAAGTTTA
1 TTTTTAGTTAGATTTTAATTGGGTTT-GGTTTAAGTTTA
1126675 AATTTATATT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
44 26 0.35
45 48 0.64
46 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.20, T:0.55
Consensus pattern (44 bp):
TTTTTAGTTAGATTTTAATTGGGTTTGGTTTAAGTTTATATAGA
Found at i:1126865 original size:17 final size:18
Alignment explanation
Indices: 1126830--1126865 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1126820 ACTGATTAAA
*
1126830 TTAAATTTAATCAATTTT
1 TTAAATTAAATCAATTTT
1126848 TTAAATTAAATCAATTTT
1 TTAAATTAAATCAATTTT
1126866 AATTAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTAAATCAATTTT
Found at i:1127573 original size:6 final size:6
Alignment explanation
Indices: 1127562--1127611 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
1127552 ATTTTAGAGT
** *
1127562 TTTTTA TTTTTA -TTTT- TTTAGA TTTTT- TATTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1127607 TTTTT
1 TTTTT
1127612 TAAATTTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:1127595 original size:48 final size:44
Alignment explanation
Indices: 1127543--1127684 Score: 112
Period size: 48 Copynumber: 3.1 Consensus size: 44
1127533 AGATTTAAAT
1127543 TTTATGTGGATTTTAGAGTTTTTTATTTTTATTTTTTTAGATTTTTTA
1 TTTATGT--ATTTTAGA-TTTTTTATTTTTA-TTTTTTAGATTTTTTA
* * * *
1127591 TTTATTTTTATTTT-TATTTTTTAAATTTTCAGATTTTTA-ATTTTTTA
1 TTTA--TGTATTTTAGATTTTTT--ATTTTTA-TTTTTTAGATTTTTTA
** *
1127638 AATA-GT-TTTTAGATTTTTTATTTGTATTTTTTAGATTTTTTA
1 TTTATGTATTTTAGATTTTTTATTTTTATTTTTTAGATTTTTTA
1127680 TTTAT
1 TTTAT
1127685 TTTTATATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
41 6 0.08
42 15 0.21
43 4 0.05
44 8 0.11
46 6 0.08
47 11 0.15
48 21 0.29
50 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.08, T:0.70
Consensus pattern (44 bp):
TTTATGTATTTTAGATTTTTTATTTTTATTTTTTAGATTTTTTA
Found at i:1127702 original size:13 final size:13
Alignment explanation
Indices: 1127667--1127707 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1127657 ATTTGTATTT
1127667 TTTAGATTTTT-TA
1 TTTA-ATTTTTATA
1127680 TTT-ATTTTTATA
1 TTTAATTTTTATA
*
1127692 TTTAATTTTTAAA
1 TTTAATTTTTATA
1127705 TTT
1 TTT
1127708 TTTTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 6 0.24
12 5 0.20
13 14 0.56
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTAATTTTTATA
Found at i:1129076 original size:16 final size:16
Alignment explanation
Indices: 1129055--1129097 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1129045 TTCAAGCCAT
* *
1129055 ATCATCAAGCCACATC
1 ATCATCAAGCAACAAC
1129071 ATCATCAATG-AACAAC
1 ATCATCAA-GCAACAAC
1129087 ATCATCAAGCA
1 ATCATCAAGCA
1129098 TGTCATCAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.44, C:0.30, G:0.07, T:0.19
Consensus pattern (16 bp):
ATCATCAAGCAACAAC
Found at i:1135903 original size:19 final size:18
Alignment explanation
Indices: 1135879--1135946 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1135869 CAGTAGCTAA
1135879 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1135898 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1135913 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
1135930 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1135947 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 27 0.63
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1135919 original size:13 final size:13
Alignment explanation
Indices: 1135901--1135925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1135891 ACAATACTTA
1135901 TGTATCGATACAT
1 TGTATCGATACAT
1135914 TGTATCGATACA
1 TGTATCGATACA
1135926 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1135923 original size:32 final size:32
Alignment explanation
Indices: 1135882--1135944 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1135872 TAGCTAATTA
*
1135882 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
1135914 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
1135945 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:1136863 original size:11 final size:11
Alignment explanation
Indices: 1136847--1136872 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1136837 AAGATATCCT
1136847 ATATTGTCAGC
1 ATATTGTCAGC
1136858 ATATTGTCAGC
1 ATATTGTCAGC
1136869 ATAT
1 ATAT
1136873 CTTTGATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (11 bp):
ATATTGTCAGC
Found at i:1137034 original size:19 final size:19
Alignment explanation
Indices: 1136996--1137035 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1136986 TTCCTCTTAT
* * *
1136996 ATTCTGAATCTTTCTTTTC
1 ATTCTGAAACTCTCTCTTC
1137015 ATTCTGAAACTCTCTCTTC
1 ATTCTGAAACTCTCTCTTC
1137034 AT
1 AT
1137036 AGAAGGCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTCTGAAACTCTCTCTTC
Found at i:1138853 original size:11 final size:11
Alignment explanation
Indices: 1138837--1138866 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1138827 TATATATGTG
1138837 TAATAATATGA
1 TAATAATATGA
1138848 TAATAATATGA
1 TAATAATATGA
*
1138859 AAATAATA
1 TAATAATA
1138867 CAAATACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (11 bp):
TAATAATATGA
Found at i:1140409 original size:68 final size:68
Alignment explanation
Indices: 1140295--1140430 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
1140285 TTAAAGAAAT
*
1140295 GTGAGTCTAAGATTAATAGTTGTAGAATTGATATTTATACATAGTAGAATTCACAACTTTAAGAT
1 GTGAATCTAAGATTAATAGTTGTAGAATTGATATTTATACATAGTAGAATTCACAACTTTAAGAT
1140360 TTA
66 TTA
* *
1140363 GTGAATCTAAGATTGATAGTTGTAGAATTGATATTTATATATAGTAGAATTCACAACTTTAAGAT
1 GTGAATCTAAGATTAATAGTTGTAGAATTGATATTTATACATAGTAGAATTCACAACTTTAAGAT
1140428 TTA
66 TTA
1140431 ATTGAGCTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (68 bp):
GTGAATCTAAGATTAATAGTTGTAGAATTGATATTTATACATAGTAGAATTCACAACTTTAAGAT
TTA
Found at i:1144328 original size:21 final size:22
Alignment explanation
Indices: 1144302--1144347 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
1144292 ATATTAAAGA
1144302 AATCTTGAAATATT-AGAAAAC
1 AATCTTGAAATATTAAGAAAAC
1144323 AATCTTGAAATATTAAGAAAAC
1 AATCTTGAAATATTAAGAAAAC
1144345 AAT
1 AAT
1144348 TTTTCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
AATCTTGAAATATTAAGAAAAC
Found at i:1145362 original size:20 final size:19
Alignment explanation
Indices: 1145337--1145383 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
1145327 GAAGATTTTC
1145337 AAATAAATCAAAATACACAT
1 AAATAAATCAAAATA-ACAT
*
1145357 AAATAAA-C-AAATAATAT
1 AAATAAATCAAAATAACAT
1145374 AAA-AAATCAA
1 AAATAAATCAA
1145384 CTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 6 0.25
19 1 0.04
20 7 0.29
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATAAATCAAAATAACAT
Found at i:1147106 original size:42 final size:42
Alignment explanation
Indices: 1147051--1147921 Score: 166
Period size: 42 Copynumber: 20.5 Consensus size: 42
1147041 CTCTAGGATT
*
1147051 AAAGCCGACAGGCAGACTGAGAGTAGAAAAGTCTCCAAGGTC
1 AAAGCCGATAGGCAGACTGAGAGTAGAAAAGTCTCCAAGGTC
* * ** *
1147093 AAAACCGATAGGCAGACTTTAGA-T-GAGGTAGTCTCCAGGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
** * * *
1147135 AAAGCTAATAGGCAGACTGAAGGGTAGGAAAGTTTCCAAGGTC
1 AAAGCCGATAGGCAGACTG-AGAGTAGAAAAGTCTCCAAGGTC
* * * * *
1147178 AAAGCCGATAGGCAAACTTAGGGATAGGAAAGTCT-CTAGAGTC
1 AAAGCCGATAGGCAGACTGAGAG-TAGAAAAGTCTCCAAG-GTC
* * ** * * *
1147221 AAAGCCGAAAGGCAGACTTTAGA-T-GAGGCAGTTTCTAGGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * * * * **
1147263 AAAGCCGACAGGCAAACTAAAGGGTAGGAAAGTCTTTAAGGTC
1 AAAGCCGATAGGCAGACT-GAGAGTAGAAAAGTCTCCAAGGTC
* * ** * *
1147306 AAAGCCGACAGGCAGACTTTAGA-TA-AGGCAGTTTCTAAGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * * * * * * *
1147348 AAAACCAACAGGCAAACTGAAGGGTAGGAAAGTCTTCAGGGTC
1 AAAGCCGATAGGCAGACTG-AGAGTAGAAAAGTCTCCAAGGTC
* * * * * ** **
1147391 AAAGCTGACAGACAAACTTTAGA-TA-AGGCAGTCTTTAAGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
** * * * * * *
1147433 AAAGCTAACAGGTAAACTAAAGGGTA-AGAAAGTCTTC-AGGTC
1 AAAGCCGATAGGCAGACT-GAGAGTAGA-AAAGTCTCCAAGGTC
* * * * ** * **
1147475 AAAGTCGACAAGCAGACTTTAGA-T-GAGGCAGTTTTTAAGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * * * *
1147517 AAAGTCGATAGACAGACTGAGGGTAAAAAAGTCTCCAGGGTC
1 AAAGCCGATAGGCAGACTGAGAGTAGAAAAGTCTCCAAGGTC
* * * * * * *
1147559 AAAGCTGACAGGCAAACTTTAGA-T-GAGACAGTCTCAAAGATC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * * * *
1147601 AAAGCTGACAGGCAGACTGAAGGGTAGGAAAGTCTCCAGGGTC
1 AAAGCCGATAGGCAGACTG-AGAGTAGAAAAGTCTCCAAGGTC
* ** * * * * ** *
1147644 AAAGCCGACAAACAGATTTAGGGATAGGAAAGTCTGTAGGGTC
1 AAAGCCGATAGGCAGACTGAGAG-TAGAAAAGTCTCCAAGGTC
* * ** * *
1147687 AAAGCCGACAGGCAGACTTTAGA-T-GAGGCAGTCTCTAGGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * * * ** **
1147729 AGAGCTGACAGGCAGACTTTAGA-T-GAGGCAGTCTTTAAGGTC
1 AAAGCCGATAGGCAGAC-TGAGAGTAGA-AAAGTCTCCAAGGTC
* * *
1147771 AAAGCCGATAGGTAGACTGA-AGGATAGGAAAGTCTCTAAGGTC
1 AAAGCCGATAGGCAGACTGAGA-G-TAGAAAAGTCTCCAAGGTC
* * * * *
1147814 AAA-CTTGAGATGGCAGACTTAAAGGT-GAAGAAGTCTCCAGGGTC
1 AAAGC-CGATA-GGCAGACTGAGA-GTAGAA-AAGTCTCCAAGGTC
* * * * *
1147858 AAAGCCGATAGGTAGACTTAGGAATAGGAAAGTCTCCAGGGTC
1 AAAGCCGATAGGCAGACTGA-GAGTAGAAAAGTCTCCAAGGTC
* *
1147901 AAAGTCGATAGGCAAACTGAG
1 AAAGCCGATAGGCAGACTGAG
1147922 GGCATAAAAA
Statistics
Matches: 613, Mismatches: 170, Indels: 92
0.70 0.19 0.11
Matches are distributed among these distances:
40 1 0.00
41 23 0.04
42 293 0.48
43 248 0.40
44 44 0.07
45 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (42 bp):
AAAGCCGATAGGCAGACTGAGAGTAGAAAAGTCTCCAAGGTC
Found at i:1147148 original size:84 final size:85
Alignment explanation
Indices: 1147005--1147196 Score: 251
Period size: 84 Copynumber: 2.3 Consensus size: 85
1146995 AATTCTCTCG
* * * * *
1147005 GGTCAAAGCCGACAAGCAAACTTTAGATGAGGCAGTCTCTAGGATTAAAGCCGACAGGCAGACTG
1 GGTCAAAGCCGATAGGCAAACTTTAGATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGACTG
1147070 -AGAGTAGAAAAGTCTCCAA
66 AAGAGTAGAAAAGTCTCCAA
* * * * * *
1147089 GGTCAAAACCGATAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCTAATAGGCAGACTG
1 GGTCAAAGCCGATAGGCAAACTTTAGATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGACTG
* * *
1147154 AAGGGTAGGAAAGTTTCCAA
66 AAGAGTAGAAAAGTCTCCAA
1147174 GGTCAAAGCCGATAGGCAAACTT
1 GGTCAAAGCCGATAGGCAAACTT
1147197 AGGGATAGGA
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 54 0.59
85 37 0.41
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (85 bp):
GGTCAAAGCCGATAGGCAAACTTTAGATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGACTG
AAGAGTAGAAAAGTCTCCAA
Found at i:1147245 original size:128 final size:127
Alignment explanation
Indices: 1147051--1147918 Score: 371
Period size: 128 Copynumber: 6.8 Consensus size: 127
1147041 CTCTAGGATT
* *
1147051 AAAGCCGACAGGCAGACTGAGAGTAGAAAAGTCTCCAAGGTCAAAACCGATAGGCAGACTTTAGA
1 AAAGCCGACAGGCAGACTTAGAGTAGAAAAGTCTCCAAGGTCAAAACCGAAAGGCAGACTTTAGA
* * * * *
1147116 TGAGGTAGTCTCCAGGGTCAAAGCTAATAGGCAGACTGAAGGGTAGGAAAGT-TTCCAAGGTC
66 TGAGGCAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGTAGGAAAGTCTT-CAAGGTC
* * * * * *
1147178 AAAGCCGATAGGCAAACTTAGGGATAGGAAAGTCT-CTAGAGTCAAAGCCGAAAGGCAGACTTTA
1 AAAGCCGACAGGCAGACTTAGAG-TAGAAAAGTCTCCAAG-GTCAAAACCGAAAGGCAGACTTTA
* * * *
1147242 GATGAGGCAGTTTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAAGTCTTTAAGGTC
64 GATGAGGCAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGTAGGAAAGTCTTCAAGGTC
** * * * **
1147306 AAAGCCGACAGGCAGACTTTAGA-TA-AGGCAGTTTCTAAGGTCAAAACC-AACAGGCAAACTGA
1 AAAGCCGACAGGCAGAC-TTAGAGTAGA-AAAGTCTCCAAGGTCAAAACCGAA-AGGCAGACTTT
* * * ** * ** * * *
1147368 AG-GGTAGGAAAGTCTTCAGGGTCAAAGCTGACAGACAAACTTTA-GATAAGG-CAGTCTTTAAG
63 AGATG-AGG-CAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGT-AGGAAAGTCTTCAAG
1147430 GTC
125 GTC
** * * * * * **
1147433 AAAGCTAACAGGTAAACTAAAGGGTA-AGAAAGTCTTC-AGGTCAAAGTCGACAA-GCAGACTTT
1 AAAGCCGACAGGCAGACT-TAGAGTAGA-AAAGTCTCCAAGGTCAAAACCGA-AAGGCAGACTTT
* ** * * * * * * * ** * *
1147495 AGATGAGGCAGTTTTTAAGGTCAAAGTCGATAGACAGACT-GAGGGTAAAAAAGTCTCCAGGGTC
63 AGATGAGGCAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGTAGGAAAGTCTTCAAGGTC
* * * * * * * * **
1147559 AAAGCTGACAGGCAAACTTTAGA-T-GAGACAGTCTCAAAGATCAAAGCTGACAGGCAGACTGAA
1 AAAGCCGACAGGCAGAC-TTAGAGTAGA-AAAGTCTCCAAGGTCAAAACCGAAAGGCAGACTTTA
* * * ** * ** *
1147622 G-GGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAACAGA-TTTAGGGATAGGAAAGTCTGT-AGG
64 GATG-AGG-CAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGG-TAGGAAAGTCT-TCAAG
1147684 GTC
125 GTC
** * * * * * *
1147687 AAAGCCGACAGGCAGACTTTAGA-T-GAGGCAGTCTCTAGGGTCAGAGCTGACAGGCAGACTTTA
1 AAAGCCGACAGGCAGAC-TTAGAGTAGA-AAAGTCTCCAAGGTCAAAACCGAAAGGCAGACTTTA
** * * * * * * *
1147750 GATGAGGCAGTCTTTAAGGTCAAAGCCGATAGGTAGACTGAAGGATAGGAAAGTC-TCTAAGGTC
64 GATGAGGCAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGTAGGAAAGTCTTC-AAGGTC
* * * * * * *
1147814 AAA-CTTGAGATGGCAGACTTAAAGGT-GAAGAAGTCTCCAGGGTCAAAGCCGATAGGTAGAC-T
1 AAAGC-CGACA-GGCAGACTTAGA-GTAGAA-AAGTCTCCAAGGTCAAAACCGAAAGGCAGACTT
* * * *
1147876 TAGGAAT-AGGAAAGTCTCCAGGGTCAAAGTCGATAGGCAAACT
62 TA-G-ATGAGG-CAGTCTCCAGGGTCAAAGCCAACAGGCAAACT
1147919 GAGGGCATAA
Statistics
Matches: 564, Mismatches: 139, Indels: 73
0.73 0.18 0.09
Matches are distributed among these distances:
125 14 0.02
126 81 0.14
127 173 0.31
128 229 0.41
129 40 0.07
130 27 0.05
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (127 bp):
AAAGCCGACAGGCAGACTTAGAGTAGAAAAGTCTCCAAGGTCAAAACCGAAAGGCAGACTTTAGA
TGAGGCAGTCTCCAGGGTCAAAGCCAACAGGCAAACTAAAGGGTAGGAAAGTCTTCAAGGTC
Found at i:1147254 original size:85 final size:84
Alignment explanation
Indices: 1147165--1147914 Score: 570
Period size: 85 Copynumber: 8.8 Consensus size: 84
1147155 AGGGTAGGAA
* * * * *
1147165 AGTTTCCAAGGTCAAAGCCGATAGGCAAACTTAGGGATAGGAAAGTCTCTAGAGTCAAAGCCGAA
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACTAAGGG-TAGGAAAGTCTCTAGGGTCAAAGCCGAA
1147230 AGGCAGACTTTAGATGAGGC
65 AGGCAGACTTTAGATGAGGC
* * * * *
1147250 AGTTTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAAGTCTTTAAGGTCAAAGCCGAC
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGAA
*
1147315 AGGCAGACTTTAGATAAGGC
65 AGGCAGACTTTAGATGAGGC
* * * *
1147335 AGTTTCTAAGGTCAAAACCAACAGGCAAACTGAAGGGTAGGAAAGTCT-TCAGGGTCAAAGCTGA
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCT-AGGGTCAAAGCCGA
* * * *
1147399 CAGACAAACTTTAGATAAGGC
64 AAGGCAGACTTTAGATGAGGC
** * * * *
1147420 AGTCTT-TAAGGTCAAAGCTAACAGGTAAACTAAAGGGTAAGAAAGTCT-TCA-GGTCAAAGTCG
1 AGT-TTCTAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCT-AGGGTCAAAGCCG
1147482 ACAA-GCAGACTTTAGATGAGGC
63 A-AAGGCAGACTTTAGATGAGGC
* * * * * ** * * *
1147504 AGTTTTTAAGGTCAAAGTCGATAGACAGACTGAGGGTAAAAAAGTCTCCAGGGTCAAAGCTGACA
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGAAA
* *
1147569 GGCAAACTTTAGATGAGAC
66 GGCAGACTTTAGATGAGGC
* * * * *
1147588 AGTCTCAAAGATCAAAGCTGACAGGCAGACTGAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGAC
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGA-
* *
1147653 AA-ACAGA-TTTAGGGAT-AGGAA
64 AAGGCAGACTTTA--GATGAGG-C
* * * * * * * *
1147674 AGTCTGTAGGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG-CAGTCTCTAGGGTCAGAGCTGA
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGAC-TAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGA
*
1147737 CAGGCAGACTTTAGATGAGGC
64 AAGGCAGACTTTAGATGAGGC
* * * * *
1147758 AGTCTT-TAAGGTCAAAGCCGATAGGTAGACTGAAGGATAGGAAAGTCTCTAAGGTCAAA-CTTG
1 AGT-TTCTAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGC-CG
* * * * *
1147821 AGATGGCAGACTTAAAGGTGAAGA
63 A-AAGGCAGACTT-TAGATGAGGC
* * * * * * * * * *
1147845 AGTCTCCAGGGTCAAAGCCGATAGGTAGACTTAGGAATAGGAAAGTCTCCAGGGTCAAAGTCGAT
1 AGTTTCTAAGGTCAAAGCCGACAGGCAGACTAAGG-GTAGGAAAGTCTCTAGGGTCAAAGCCGAA
1147910 AGGCA
65 AGGCA
1147915 AACTGAGGGC
Statistics
Matches: 539, Mismatches: 98, Indels: 55
0.78 0.14 0.08
Matches are distributed among these distances:
83 19 0.04
84 133 0.25
85 271 0.50
86 60 0.11
87 56 0.10
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (84 bp):
AGTTTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGAAA
GGCAGACTTTAGATGAGGC
Found at i:1147348 original size:170 final size:170
Alignment explanation
Indices: 1147164--1147918 Score: 708
Period size: 170 Copynumber: 4.4 Consensus size: 170
1147154 AAGGGTAGGA
* * * *
1147164 AAGTTTCCAAGGTCAAAGCCGATAGGCAAACTTAGGGATAGGAAAGTCTCTAGAGTCAAAGCCGA
1 AAGTTTCTAAGGTCAAAGCCGATAGGCAGACTTAGGGATAGGAAAGTCTCTAGGGTCAAAGCTGA
* * *
1147229 AAGGCAGACTTTAGATGAGGCAGT-TTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAA
66 CAGGCAAACTTTAGATGAGGCAGTCTT-TAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAA
* *
1147293 AGTCTTTAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
130 AGTCTCTAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGG
* * * * * *
1147334 CAGTTTCTAAGGTCAAAACCAACAGGCAAACTGAAGGG-TAGGAAAGTCT-TCAGGGTCAAAGCT
1 AAGTTTCTAAGGTCAAAGCCGATAGGCAGACT-TAGGGATAGGAAAGTCTCT-AGGGTCAAAGCT
* * ** * *
1147397 GACAGACAAACTTTAGATAAGGCAGTCTTTAAGGTCAAAGCTAACAGGTAAACTAAAGGGTAAGA
64 GACAGGCAAACTTTAGATGAGGCAGTCTTTAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGA
* * *
1147462 AAGTCT-TCAGGTCAAAGTCGACAAGCAGACTTTAGATGAGG
129 AAGTCTCTAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGG
* * * * * ** *
1147503 CAGTTTTTAAGGTCAAAGTCGATAGACAGACTGAGGG-TAAAAAAGTCTCCAGGGTCAAAGCTGA
1 AAGTTTCTAAGGTCAAAGCCGATAGGCAGACTTAGGGATAGGAAAGTCTCTAGGGTCAAAGCTGA
* ** * * * *
1147567 CAGGCAAACTTTAGATGAGACAGTCTCAAAGATCAAAGCTGACAGGCAGACTGAAGGGTAGGAAA
66 CAGGCAAACTTTAGATGAGGCAGTCTTTAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAA
* * *
1147632 GTCTCCAGGGTCAAAGCCGACAAACAGA-TTTAGGGAT-AGG
131 GTCTCTAAGGTCAAAGCCGACAAGCAGACTTTA--GATAAGG
* * * * * *
1147672 AAAGTCTGTAGGGTCAAAGCCGACAGGCAGACTTTA--GATGAGG-CAGTCTCTAGGGTCAGAGC
1 -AAGTTTCTAAGGTCAAAGCCGATAGGCAGAC-TTAGGGAT-AGGAAAGTCTCTAGGGTCAAAGC
* * * * * *
1147734 TGACAGGCAGACTTTAGATGAGGCAGTCTTTAAGGTCAAAGCCGATAGGTAGACTGAAGGATAGG
63 TGACAGGCAAACTTTAGATGAGGCAGTCTTTAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGG
* * * * *
1147799 AAAGTCTCTAAGGTCAAA-CTTGAGATGGCAGACTTAAAGGTGAA-G
128 AAAGTCTCTAAGGTCAAAGC-CGACA-AGCAGACTT-TAGAT-AAGG
* * * * * *
1147844 AAGTCTCCAGGGTCAAAGCCGATAGGTAGACTTAGGAATAGGAAAGTCTCCAGGGTCAAAG-TCG
1 AAGTTTCTAAGGTCAAAGCCGATAGGCAGACTTAGGGATAGGAAAGTCTCTAGGGTCAAAGCT-G
*
1147908 ATAGGCAAACT
65 ACAGGCAAACT
1147919 GAGGGCATAA
Statistics
Matches: 476, Mismatches: 88, Indels: 40
0.79 0.15 0.07
Matches are distributed among these distances:
168 89 0.19
169 80 0.17
170 229 0.48
171 46 0.10
172 30 0.06
173 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (170 bp):
AAGTTTCTAAGGTCAAAGCCGATAGGCAGACTTAGGGATAGGAAAGTCTCTAGGGTCAAAGCTGA
CAGGCAAACTTTAGATGAGGCAGTCTTTAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAA
GTCTCTAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGG
Found at i:1162412 original size:33 final size:33
Alignment explanation
Indices: 1162318--1162414 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
1162308 ATGTAGATGT
* *
1162318 ATCGATACAAATTGCTAAGTATTGATATATTGA
1 ATCGATACAAATTGCTAAGTATCGATACATTGA
* *
1162351 ATCGATACAAATTGCTAACTATCCATACATTGA
1 ATCGATACAAATTGCTAAGTATCGATACATTGA
*
1162384 ATCGATACAAATTGCCT-TGTATCGATACATT
1 ATCGATACAAATTG-CTAAGTATCGATACATT
1162415 TGGCCCAACG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (33 bp):
ATCGATACAAATTGCTAAGTATCGATACATTGA
Found at i:1164515 original size:21 final size:21
Alignment explanation
Indices: 1164477--1164516 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1164467 TGATACCCTT
* *
1164477 GAAAAGAAATTAATTGAATCA
1 GAAAAGAAAATAAGTGAATCA
*
1164498 GAAAAGAAAATGAGTGAAT
1 GAAAAGAAAATAAGTGAAT
1164517 TACAAAGTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAGTGAATCA
Found at i:1166938 original size:15 final size:15
Alignment explanation
Indices: 1166918--1166952 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1166908 GTTATGTTGA
1166918 AAATCCTCTACTTTC
1 AAATCCTCTACTTTC
1166933 AAATCCTCTACTTTC
1 AAATCCTCTACTTTC
1166948 AAATC
1 AAATC
1166953 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATCCTCTACTTTC
Found at i:1168418 original size:20 final size:20
Alignment explanation
Indices: 1168393--1168430 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1168383 GGATTTTTTT
1168393 CAAAATATATCGATACATTG
1 CAAAATATATCGATACATTG
*
1168413 CAAAATGTATCGATACAT
1 CAAAATATATCGATACAT
1168431 CTGGGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (20 bp):
CAAAATATATCGATACATTG
Found at i:1168483 original size:13 final size:13
Alignment explanation
Indices: 1168465--1168492 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1168455 ACAATGCAAT
1168465 TTGTATCGATACA
1 TTGTATCGATACA
1168478 TTGTATCGATACA
1 TTGTATCGATACA
1168491 TT
1 TT
1168493 AAAATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1168490 original size:33 final size:32
Alignment explanation
Indices: 1168444--1168507 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1168434 GGTTTTCTAG
* *
1168444 ATTGTATCAATACAATGCAATTTGTATCGATAC
1 ATTGTATCAATAC-ATGAAAATTGTATCGATAC
* *
1168477 ATTGTATCGATACATTAAAATTGTATCGATA
1 ATTGTATCAATACATGAAAATTGTATCGATA
1168508 TATCAGGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
ATTGTATCAATACATGAAAATTGTATCGATAC
Found at i:1171067 original size:20 final size:18
Alignment explanation
Indices: 1171024--1171071 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
1171014 CATATGCAGA
1171024 TGTATCGATACAAATTGC
1 TGTATCGATACAAATTGC
1171042 --TATCGATACAAATTGCC
1 TGTATCGATACAAATTG-C
1171059 TTGTATCGATACA
1 -TGTATCGATACA
1171072 TTATGGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 15 0.58
17 1 0.04
20 10 0.38
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAATTGC
Found at i:1171187 original size:21 final size:21
Alignment explanation
Indices: 1171132--1171197 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
1171122 TATCGATACA
1171132 ACATTATG-A-TTGTATCGAT
1 ACATTATGAAGTTGTATCGAT
* *
1171151 ACATGT-TTAAGATGTATCGAT
1 ACAT-TATGAAGTTGTATCGAT
* *
1171172 ATATTATGAAGTTGTATTGAT
1 ACATTATGAAGTTGTATCGAT
1171193 ACATT
1 ACATT
1171198 TGGCCCAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 28 0.78
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (21 bp):
ACATTATGAAGTTGTATCGAT
Found at i:1173898 original size:15 final size:15
Alignment explanation
Indices: 1173868--1174599 Score: 254
Period size: 15 Copynumber: 50.3 Consensus size: 15
1173858 TACCTGTGTT
* *
1173868 AAAGTTCCTGTGCCA
1 AAAGTACCTATGCCA
*
1173883 AAAATACCTATGCCA
1 AAAGTACCTATGCCA
* * * *
1173898 AAGGTACTTGTGACA
1 AAAGTACCTATGCCA
*
1173913 AAAGTTCCTATGCCA
1 AAAGTACCTATGCCA
* *
1173928 AAAGTACTTGTGCCA
1 AAAGTACCTATGCCA
*
1173943 AAAGTATTCGTAT--C-
1 AAAGTA--CCTATGCCA
* * * *
1173957 AAAGCACTTGTGCTA
1 AAAGTACCTATGCCA
* * *
1173972 TAAA-TGCCTGTG-CT
1 -AAAGTACCTATGCCA
* * *
1173986 AAAGTACTTGTACC-
1 AAAGTACCTATGCCA
*
1174000 AAAGCACCTATGCCA
1 AAAGTACCTATGCCA
* *
1174015 AAAGCACCTGTGCC-
1 AAAGTACCTATGCCA
* **
1174029 AAAGTGCCTATATCA
1 AAAGTACCTATGCCA
* *
1174044 AAGGTACTTATGCCA
1 AAAGTACCTATGCCA
* *
1174059 AAA-TACTTGTGCC-
1 AAAGTACCTATGCCA
* *
1174072 AAAGCACTTATGCCA
1 AAAGTACCTATGCCA
* *
1174087 AAAGTACTTATGTCA
1 AAAGTACCTATGCCA
* *
1174102 AAGGTACTTATGCC-
1 AAAGTACCTATGCCA
* * *
1174116 AAAGCACTTGTGCCA
1 AAAGTACCTATGCCA
* * *
1174131 AAAATGCCAATGCCA
1 AAAGTACCTATGCCA
* * * * *
1174146 AAACTGCATGTGCTA
1 AAAGTACCTATGCCA
*
1174161 AAAGTACCTATG-CT
1 AAAGTACCTATGCCA
* *
1174175 AAAGTACTTGTGCC-
1 AAAGTACCTATGCCA
* *
1174189 AAAGTACTTATACCA
1 AAAGTACCTATGCCA
* * *
1174204 AAATTACTTAAGCCA
1 AAAGTACCTATGCCA
* *
1174219 AAAGTACCTGTGTC-
1 AAAGTACCTATGCCA
1174233 AAAGTACCTATGCC-
1 AAAGTACCTATGCCA
*
1174247 AAAGTACTTATGCCA
1 AAAGTACCTATGCCA
* *
1174262 AAAGTACTTGTGCCA
1 AAAGTACCTATGCCA
* * *
1174277 AAGGTACCTGTGTC-
1 AAAGTACCTATGCCA
*
1174291 AAAGTACCTATG-CT
1 AAAGTACCTATGCCA
*
1174305 AAAGTACTTATGCCA
1 AAAGTACCTATGCCA
* * *
1174320 AAAGTACTTGTGCTA
1 AAAGTACCTATGCCA
* ** * *
1174335 AAGGTATTTGTGTC-
1 AAAGTACCTATGCCA
1174349 AAAGTACCTATGCC-
1 AAAGTACCTATGCCA
*
1174363 AAAGTACTTATGCCA
1 AAAGTACCTATGCCA
* * *
1174378 AAAGAACTTGTGCCA
1 AAAGTACCTATGCCA
* * **
1174393 AAGGTACCTGTATC-
1 AAAGTACCTATGCCA
* * *
1174407 AAAGTACCTGT-ACT
1 AAAGTACCTATGCCA
1174421 AAAGTACCTATGCCA
1 AAAGTACCTATGCCA
* *
1174436 AAAGTACTTGTGCCA
1 AAAGTACCTATGCCA
* * *
1174451 AAGGTACCTGTGTC-
1 AAAGTACCTATGCCA
*
1174465 AAAGTACCTATGCGA
1 AAAGTACCTATGCCA
* * *
1174480 AAGGTACATGTGCC-
1 AAAGTACCTATGCCA
*
1174494 AAAGCACCTATGCCA
1 AAAGTACCTATGCCA
* * * *
1174509 CAGGTGCCTATG-CT
1 AAAGTACCTATGCCA
* * *
1174523 AAAGTTCCTGTGCTA
1 AAAGTACCTATGCCA
**
1174538 AAA-TACCCGTGCCA
1 AAAGTACCTATGCCA
* * * *
1174552 AAGGTACTTGTGCTA
1 AAAGTACCTATGCCA
* * *
1174567 AAAGTGCTTGTGCC-
1 AAAGTACCTATGCCA
*
1174581 AAAGTACCTGTGCCA
1 AAAGTACCTATGCCA
1174596 AAAG
1 AAAG
1174600 GTATTATGGC
Statistics
Matches: 531, Mismatches: 160, Indels: 52
0.71 0.22 0.07
Matches are distributed among these distances:
12 3 0.01
13 8 0.02
14 218 0.41
15 296 0.56
16 3 0.01
17 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (15 bp):
AAAGTACCTATGCCA
Found at i:1174015 original size:14 final size:14
Alignment explanation
Indices: 1173986--1174508 Score: 267
Period size: 15 Copynumber: 36.1 Consensus size: 14
1173976 TGCCTGTGCT
* *
1173986 AAAGTACTTGTACC
1 AAAGTACTTATGCC
* *
1174000 AAAGCACCTATGCC
1 AAAGTACTTATGCC
* * *
1174014 AAAAGCACCTGTGCC
1 -AAAGTACTTATGCC
* * **
1174029 AAAGTGCCTATATC
1 AAAGTACTTATGCC
1174043 AAAGGTACTTATGCC
1 AAA-GTACTTATGCC
* *
1174058 AAAATACTTGTGCC
1 AAAGTACTTATGCC
*
1174072 AAAGCACTTATGCC
1 AAAGTACTTATGCC
*
1174086 AAAAGTACTTATGTC
1 -AAAGTACTTATGCC
1174101 AAAGGTACTTATGCC
1 AAA-GTACTTATGCC
* *
1174116 AAAGCACTTGTGCC
1 AAAGTACTTATGCC
* * **
1174130 AAAAATGCCAATGCC
1 -AAAGTACTTATGCC
* * * * *
1174145 AAAACTGCATGTGCTA
1 -AAAGTACTTATGC-C
* *
1174161 AAAGTACCTATGCT
1 AAAGTACTTATGCC
*
1174175 AAAGTACTTGTGCC
1 AAAGTACTTATGCC
*
1174189 AAAGTACTTATACC
1 AAAGTACTTATGCC
* *
1174203 AAAATTACTTAAGCC
1 -AAAGTACTTATGCC
* * *
1174218 AAAAGTACCTGTGTC
1 -AAAGTACTTATGCC
*
1174233 AAAGTACCTATGCC
1 AAAGTACTTATGCC
1174247 AAAGTACTTATGCC
1 AAAGTACTTATGCC
*
1174261 AAAAGTACTTGTGCC
1 -AAAGTACTTATGCC
* * *
1174276 AAAGGTACCTGTGTC
1 AAA-GTACTTATGCC
* *
1174291 AAAGTACCTATGCT
1 AAAGTACTTATGCC
1174305 AAAGTACTTATGCC
1 AAAGTACTTATGCC
* *
1174319 AAAAGTACTTGTGCT
1 -AAAGTACTTATGCC
* * *
1174334 AAAGGTATTTGTGTC
1 AAA-GTACTTATGCC
*
1174349 AAAGTACCTATGCC
1 AAAGTACTTATGCC
1174363 AAAGTACTTATGCC
1 AAAGTACTTATGCC
* *
1174377 AAAAGAACTTGTGCC
1 -AAAGTACTTATGCC
1174392 AAAGGTACCTGTAT--C
1 AAA-GTA-CT-TATGCC
* * * *
1174407 AAAGTACCTGTACT
1 AAAGTACTTATGCC
*
1174421 AAAGTACCTATGCC
1 AAAGTACTTATGCC
*
1174435 AAAAGTACTTGTGCC
1 -AAAGTACTTATGCC
* * *
1174450 AAAGGTACCTGTGTC
1 AAA-GTACTTATGCC
* *
1174465 AAAGTACCTATGCG
1 AAAGTACTTATGCC
* *
1174479 AAAGGTACATGTGCC
1 AAA-GTACTTATGCC
* *
1174494 AAAGCACCTATGCC
1 AAAGTACTTATGCC
1174508 A
1 A
1174509 CAGGTGCCTA
Statistics
Matches: 392, Mismatches: 97, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
14 188 0.48
15 197 0.50
16 2 0.01
17 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (14 bp):
AAAGTACTTATGCC
Found at i:1174366 original size:116 final size:116
Alignment explanation
Indices: 1174227--1174597 Score: 476
Period size: 116 Copynumber: 3.2 Consensus size: 116
1174217 CAAAAGTACC
*
1174227 TGTGTCAAAGTACCTATGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCA
1 TGTGTCAAAGTACCTATGCCAAAGTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTGTCA
* * *
1174292 AAGTACCTATGCTAAAGTACTTATGCCAAAAGTACTTGTGCTAAAGGTATT
66 AAGTACCTGTGCTAAAGTACCTATGCCAAAAGTACTTGTGCTAAAGGTACT
*
1174343 TGTGTCAAAGTACCTATGCCAAAGTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTATCA
1 TGTGTCAAAGTACCTATGCCAAAGTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTGTCA
* * *
1174408 AAGTACCTGTACTAAAGTACCTATGCCAAAAGTACTTGTGCCAAAGGTACC
66 AAGTACCTGTGCTAAAGTACCTATGCCAAAAGTACTTGTGCTAAAGGTACT
* * * * * * * * *
1174459 TGTGTCAAAGTACCTATGCGAAAGGTACATGTGCC-AAAGCACCTATGCCACAGGTGCCTATG-C
1 TGTGTCAAAGTACCTATGCCAAA-GTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTGTC
* * ** * * *
1174522 TAAAGTTCCTGTGCTAAAATACCCGTGCCAAAGGTACTTGTGCTAAAAGTGCT
65 -AAAGTACCTGTGCTAAAGTACCTATGCCAAAAGTACTTGTGCTAAAGGTACT
* *
1174575 TGTGCCAAAGTACCTGTGCCAAA
1 TGTGTCAAAGTACCTATGCCAAA
1174598 AGGTATTATG
Statistics
Matches: 222, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
115 1 0.00
116 212 0.95
117 9 0.04
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (116 bp):
TGTGTCAAAGTACCTATGCCAAAGTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTGTCA
AAGTACCTGTGCTAAAGTACCTATGCCAAAAGTACTTGTGCTAAAGGTACT
Found at i:1174491 original size:29 final size:29
Alignment explanation
Indices: 1173848--1174602 Score: 283
Period size: 29 Copynumber: 25.9 Consensus size: 29
1173838 AAAAGTACTC
* ** *
1173848 GTGCCGAAAGTACCTGTGTTAAA-GTTCCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* *
1173877 GTGCCAAAAATACCTATGCCAAAGGTACTT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* * * *
1173907 GTGACAAAAGTTCCTATGCCAAAAGTACTT
1 GTG-CCAAAGTACCTATGCCAAAGGTACCT
* * *
1173937 GTGCCAAAAGTATTCGTAT--CAAA-GCACTT
1 GTGCC-AAAGTA--CCTATGCCAAAGGTACCT
* * * * * *
1173966 GTGCTATAAATGCCTGTGCTAAA-GTACTT
1 GTGCCA-AAGTACCTATGCCAAAGGTACCT
* * * *
1173995 GTACCAAAGCACCTATGCCAAAAGCACCT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* ** *
1174024 GTGCCAAAGTGCCTATATCAAAGGTACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * * *
1174053 ATGCCAAAATACTTGTGCCAAA-GCACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * *
1174081 ATGCCAAAAGTACTTATGTCAAAGGTACTT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* * * * ** * *
1174111 ATGCCAAAGCACTTGTGCCAAAAATGCCA
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * * * *
1174140 ATGCCAAAACTGCATGTGCTAAAAGTACCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* * * * *
1174170 ATGCTAAAGTACTTGTGCCAAA-GTACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * * *
1174198 ATACCAAAATTACTTAAGCCAAAAGTACCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* *
1174228 GTGTCAAAGTACCTATGCCAAA-GTACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * *
1174256 ATGCCAAAAGTACTTGTGCCAAAGGTACCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* * *
1174286 GTGTCAAAGTACCTATGCTAAA-GTACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * **
1174314 ATGCCAAAAGTACTTGTGCTAAAGGTATTT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* *
1174344 GTGTCAAAGTACCTATGCCAAA-GTACTT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * *
1174372 ATGCCAAAAGAACTTGTGCCAAAGGTACCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
** * * *
1174402 GTATCAAAGTACCTGTACTAAA-GTACCT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * *
1174430 ATGCCAAAAGTACTTGTGCCAAAGGTACCT
1 GTGCC-AAAGTACCTATGCCAAAGGTACCT
* * *
1174460 GTGTCAAAGTACCTATGCGAAAGGTACAT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * *
1174489 GTGCCAAAGCACCTATGCCACAGGTGCCT
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * * * *
1174518 ATGCTAAAGTTCCTGTGCTAAA-ATACCC
1 GTGCCAAAGTACCTATGCCAAAGGTACCT
* * * * * *
1174546 GTGCCAAAGGTACTTGTGCTAAAAGTGCTT
1 GTGCCAAA-GTACCTATGCCAAAGGTACCT
*
1174576 GTGCCAAAGTACCTGTGCCAAAAGGTA
1 GTGCCAAAGTACCTATGCC-AAAGGTA
1174603 TTATGGCAAT
Statistics
Matches: 540, Mismatches: 161, Indels: 49
0.72 0.21 0.07
Matches are distributed among these distances:
27 3 0.01
28 71 0.13
29 337 0.62
30 124 0.23
31 1 0.00
32 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (29 bp):
GTGCCAAAGTACCTATGCCAAAGGTACCT
Found at i:1174508 original size:58 final size:58
Alignment explanation
Indices: 1174068--1174496 Score: 473
Period size: 58 Copynumber: 7.4 Consensus size: 58
1174058 AAAATACTTG
* * * * * * * * *
1174068 TGCCAAAGCACTTATGCCAAAAGTACTTATGTCAAAGGTACTTATGCCAAAGCACTTG
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
* * ** * * * * * * * *
1174126 TGCCAAAAATGCCAATGCCAAAACTGCATGTGCTAAAAGTACCTATG-CTAAAGTACTTG
1 TGCC-AAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTC-AAAGTACCTA
* * ** *
1174185 TGCCAAAGTACTTATACCAAAATTACTTAAGCCAAAAGTACCTGTGTCAAAGTACCTA
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
1174243 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
* * **
1174301 TGCTAAAGTACTTATGCCAAAAGTACTTGTGCTAAAGGTATTTGTGTCAAAGTACCTA
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
* * *
1174359 TGCCAAAGTACTTATGCCAAAAGAACTTGTGCCAAAGGTACCTGTATCAAAGTACCTG
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
* * *
1174417 TACTAAAGTACCTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
1 TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
* * *
1174475 TGCGAAAGGTACATGTGCCAAA
1 TGCCAAA-GTACTTATGCCAAA
1174497 GCACCTATGC
Statistics
Matches: 313, Mismatches: 54, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
58 258 0.82
59 55 0.18
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (58 bp):
TGCCAAAGTACTTATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTA
Found at i:1174593 original size:58 final size:58
Alignment explanation
Indices: 1174080--1174589 Score: 432
Period size: 58 Copynumber: 8.8 Consensus size: 58
1174070 CCAAAGCACT
* * * * * * * * * * *
1174080 TATGCCAAAAGTACTTATGTCAAAGGTACTTATGCCAAAGCACTTGTGCCAAAAATGCC
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATG-CTAAAGTACC
* * * * * * * * * * *
1174139 AATGCCAAAACTGCATGTGCTAAAAGTACCTATG-CTAAAGTACTTGTGCCAAAGTACT
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTC-AAAGTACCTATGCTAAAGTACC
* * ** * * *
1174197 TATACCAAAATTACTTAAGCCAAAAGTACCTGTGTCAAAGTACCTATGCCAAAGTACT
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACC
*
1174255 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACT
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACC
* ** * *
1174313 TATGCCAAAAGTACTTGTGCTAAAGGTATTTGTGTCAAAGTACCTATGCCAAAGTACT
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACC
* * * *
1174371 TATGCCAAAAGAACTTGTGCCAAAGGTACCTGTATCAAAGTACCTGTACTAAAGTACC
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACC
* *
1174429 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCGAAAGGTACA
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAA-GTACC
* * * * * * * * * *
1174488 TGTGCC-AAAGCACCTATGCCACAGGTGCCTATG-CTAAAGTTCCTGTGCTAAAATACC
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTC-AAAGTACCTATGCTAAAGTACC
** * * * * * *
1174545 CGTGCCAAAGGTACTTGTGCTAAAAGTGCTTGTGCCAAAGTACCT
1 TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCT
1174590 GTGCCAAAAG
Statistics
Matches: 372, Mismatches: 73, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
57 9 0.02
58 316 0.85
59 47 0.13
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (58 bp):
TATGCCAAAAGTACTTGTGCCAAAGGTACCTGTGTCAAAGTACCTATGCTAAAGTACC
Found at i:1176013 original size:28 final size:30
Alignment explanation
Indices: 1175981--1176038 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
1175971 TTTTGATGCA
*
1175981 TTATTGT-TTTTGTGTCATATTT-AATTTT
1 TTATTGTATTTTATGTCATATTTCAATTTT
* *
1176009 TTATTGTATTTTATGTTATGTTTCAATTTT
1 TTATTGTATTTTATGTCATATTTCAATTTT
1176039 AGTTGCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 12 0.48
30 6 0.24
ACGTcount: A:0.19, C:0.03, G:0.10, T:0.67
Consensus pattern (30 bp):
TTATTGTATTTTATGTCATATTTCAATTTT
Found at i:1176262 original size:27 final size:27
Alignment explanation
Indices: 1176224--1176277 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1176214 CTTGGATTAT
1176224 TATCTAGTTCTTATACTATTTTCTAGA
1 TATCTAGTTCTTATACTATTTTCTAGA
1176251 TATCTAGTTCTTATACTATTTTCTAGA
1 TATCTAGTTCTTATACTATTTTCTAGA
1176278 CCTAACAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (27 bp):
TATCTAGTTCTTATACTATTTTCTAGA
Found at i:1176424 original size:32 final size:31
Alignment explanation
Indices: 1176388--1176448 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
1176378 ATTGATGTAT
*
1176388 TAAAATTTAT-ATAAATATAAAATACTTTAAAC
1 TAAAA-TTATGAT-AATATAAAATACATTAAAC
*
1176420 TAAAATTATGATATTATAAAATACATTAA
1 TAAAATTATGATAATATAAAATACATTAA
1176449 TGTTACACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (31 bp):
TAAAATTATGATAATATAAAATACATTAAAC
Found at i:1178590 original size:51 final size:51
Alignment explanation
Indices: 1178514--1178611 Score: 196
Period size: 51 Copynumber: 1.9 Consensus size: 51
1178504 GAAACAACCT
1178514 CTTATCTTTATTGTTTACATCTCAAAATCTAAGCCAATAAAAATTCGCTTC
1 CTTATCTTTATTGTTTACATCTCAAAATCTAAGCCAATAAAAATTCGCTTC
1178565 CTTATCTTTATTGTTTACATCTCAAAATCTAAGCCAATAAAAATTCG
1 CTTATCTTTATTGTTTACATCTCAAAATCTAAGCCAATAAAAATTCG
1178612 GTTAAGTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (51 bp):
CTTATCTTTATTGTTTACATCTCAAAATCTAAGCCAATAAAAATTCGCTTC
Found at i:1179964 original size:8 final size:7
Alignment explanation
Indices: 1179937--1179970 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
1179927 AAAAAAAGTA
1179937 TTTTATT
1 TTTTATT
1179944 TTTTATT
1 TTTTATT
1179951 TTTTATT
1 TTTTATT
1179958 TTATTATT
1 TT-TTATT
1179966 TTTTA
1 TTTTA
1179971 AAGAAGCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:1179966 original size:15 final size:14
Alignment explanation
Indices: 1179937--1179970 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
1179927 AAAAAAAGTA
1179937 TTTTATTTTTTATT
1 TTTTATTTTTTATT
1179951 TTTTATTTTATTATT
1 TTTTATTTT-TTATT
1179966 TTTTA
1 TTTTA
1179971 AAGAAGCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:1180363 original size:114 final size:112
Alignment explanation
Indices: 1180211--1180668 Score: 437
Period size: 114 Copynumber: 4.2 Consensus size: 112
1180201 GCCCGAGTAT
* * ** *
1180211 TATGTAATTAATGC--AAAA-AAATGAATTGTCCTATATAAAAGGCATTTATATGGTATTTTATG
1 TATGTAATTAATGCAAAAAATAAATGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATG
* *
1180273 ACTCTAGATGATGACCTATTTCGGGGCCAATCTTTTGGTGCTCGAATC
66 ACTCTAGACGATGACCTATTTCAGGGCCAATCTTTTGGTGC-CGAATC
* *
1180321 TATGTAATTAATGCAAAAAATGAAATGAATTATCCTATATAAAGGGCATTCGTATGCCACTTTAT
1 TATGTAATTAATGCAAAAAAT-AAATGAATTATCCTATATAAAAGGCATTCATATGCCACTTTAT
* * * * *
1180386 AACTCTAGACGAAGACCTATTTCAAGGTCAGTCTTTTGGTGACCGAATC
65 GACTCTAGACGATGACCTATTTCAGGGCCAATCTTTTGGTG-CCGAATC
* * * * *
1180435 TACGTAA-TAAT---ACAAA-AAATGAATCATCCTACATAAAAGGCGTTC----GCCACTTTATG
1 TATGTAATTAATGCAAAAAATAAATGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATG
* * * * *
1180491 ATTCTAGATGATGACTTATTTCAGGGCTAAT-TCTTTGGTGCCCGAATT
66 ACTCTAGACGATGACCTATTTCAGGGCCAATCT-TTTGGTG-CCGAATC
* * * *
1180539 TACGTAATTAATGTAAAAAAT--A--AATTGTCCTATATAAAAGGCATTCATATGCCATTTTATG
1 TATGTAATTAATGCAAAAAATAAATGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATG
* * * ** *
1180600 ACTCTAGACAATGAACTATTTTAGGGTTAATCTTTTGGTTACCGAATC
66 ACTCTAGACGATGACCTATTTCAGGGCCAATCTTTTGG-TGCCGAATC
1180648 TATGTAATTAATGCAAAAAAT
1 TATGTAATTAATGCAAAAAAT
1180669 GAATTATTCT
Statistics
Matches: 283, Mismatches: 48, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
103 1 0.00
104 53 0.19
105 24 0.08
107 1 0.00
108 29 0.10
109 64 0.23
110 20 0.07
112 4 0.01
113 4 0.01
114 82 0.29
115 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (112 bp):
TATGTAATTAATGCAAAAAATAAATGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATG
ACTCTAGACGATGACCTATTTCAGGGCCAATCTTTTGGTGCCGAATC
Found at i:1180646 original size:213 final size:216
Alignment explanation
Indices: 1180267--1180672 Score: 543
Period size: 213 Copynumber: 1.9 Consensus size: 216
1180257 TATATGGTAT
* * *
1180267 TTTATGACTCTAGATGATGACCTATTTCGGGGCCAATCTTTTGGTGCTCGAATCTATGTAATTAA
1 TTTATGACTCTAGATGATGACCTATTTCAGGGCCAATCTTTTGGTGCCCGAATCTACGTAATTAA
* *
1180332 TGCAAAAAATGAAATGAATTATCCTATATAAAGGGCATTCGTATGCCACTTTATAACTCTAGACG
66 TGCAAAAAAT--AA-GAATTATCCTATATAAAAGGCATTCATATGCCACTTTATAACTCTAGACG
* *
1180397 AAGACCTATTTCAAGGTCAGTCTTTTGGTGACCGAATCTACGTAA-TAATACAAAAAATGAATCA
128 AAGAACTATTTCAAGGTCAATCTTTTGGTGACCGAATCTACGTAATTAATACAAAAAATGAATCA
1180461 TCCTACATAAAAGGCGTTCGCCAC
193 TCCTACATAAAAGGCGTTCGCCAC
* * * *
1180485 TTTATGATTCTAGATGATGACTTATTTCAGGGCTAAT-TCTTTGGTGCCCGAATTTACGTAATTA
1 TTTATGACTCTAGATGATGACCTATTTCAGGGCCAATCT-TTTGGTGCCCGAATCTACGTAATTA
* * * *
1180549 ATGTAAAAAAT-A-AATTGTCCTATATAAAAGGCATTCATATGCCATTTTATGACTCTAGAC-AA
65 ATGCAAAAAATAAGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATAACTCTAGACGAA
* * * * * *
1180611 TGAACTATTTTAGGGTTAATCTTTTGGTTACCGAATCTATGTAATTAATGCAAAAAATGAAT
130 -GAACTATTTCAAGGTCAATCTTTTGGTGACCGAATCTACGTAATTAATACAAAAAATGAAT
1180673 TATTCTATAC
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
212 2 0.01
213 79 0.48
214 16 0.10
215 1 0.01
217 1 0.01
218 65 0.40
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (216 bp):
TTTATGACTCTAGATGATGACCTATTTCAGGGCCAATCTTTTGGTGCCCGAATCTACGTAATTAA
TGCAAAAAATAAGAATTATCCTATATAAAAGGCATTCATATGCCACTTTATAACTCTAGACGAAG
AACTATTTCAAGGTCAATCTTTTGGTGACCGAATCTACGTAATTAATACAAAAAATGAATCATCC
TACATAAAAGGCGTTCGCCAC
Found at i:1181278 original size:22 final size:22
Alignment explanation
Indices: 1181250--1181315 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
1181240 CGCTACCTCA
*
1181250 CTTTCTTTGTTTTTTCCTTCTT
1 CTTTCTTTCTTTTTTCCTTCTT
* *
1181272 CTTTCTTTTTTTTTTCTTTCTT
1 CTTTCTTTCTTTTTTCCTTCTT
*
1181294 C-TTCTTTCTTTCTTCCTTCTT
1 CTTTCTTTCTTTTTTCCTTCTT
1181315 C
1 C
1181316 GCCCTTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 18 0.46
22 21 0.54
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.73
Consensus pattern (22 bp):
CTTTCTTTCTTTTTTCCTTCTT
Found at i:1181288 original size:18 final size:18
Alignment explanation
Indices: 1181252--1181314 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
1181242 CTACCTCACT
* *
1181252 TTCTTTGTTTTTTCCTTC
1 TTCTTTCTTTTTTCTTTC
*
1181270 TTCTTTCTTTTTTTTTTC
1 TTCTTTCTTTTTTCTTTC
*
1181288 TT-TCTTCTTCTTTCTTTC
1 TTCT-TTCTTTTTTCTTTC
*
1181306 TTCCTTCTT
1 TTCTTTCTT
1181315 CGCCCTTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (18 bp):
TTCTTTCTTTTTTCTTTC
Found at i:1181313 original size:25 final size:25
Alignment explanation
Indices: 1181266--1181314 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1181256 TTGTTTTTTC
* **
1181266 CTTCTTCTTTCTTTTTTTTTTCTTT
1 CTTCTTCTTTCTTTCTTCCTTCTTT
1181291 CTTCTTCTTTCTTTCTTCCTTCTT
1 CTTCTTCTTTCTTTCTTCCTTCTT
1181315 CGCCCTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (25 bp):
CTTCTTCTTTCTTTCTTCCTTCTTT
Found at i:1181326 original size:4 final size:4
Alignment explanation
Indices: 1181250--1181307 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
1181240 CGCTACCTCA
* * *
1181250 CTTT CTTT GTTT -TTT CCTT C-TT CTTT CTTT -TTT TTTT CTTT C-TT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1181294 C-TT CTTT CTTT CTT
1 CTTT CTTT CTTT CTT
1181308 CCTTCTTCGC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
3 15 0.32
4 32 0.68
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:1182119 original size:4 final size:4
Alignment explanation
Indices: 1182085--1182153 Score: 60
Period size: 4 Copynumber: 18.8 Consensus size: 4
1182075 GGCCACCCCA
* * *
1182085 TTTC TTT- TTT- TTTC CTTC -TTC TTTT TTTC TTTC TTTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
1182130 -TTC -TTC TTTC -TTC TTTC CTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1182154 TCCCTTTCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
3 18 0.33
4 36 0.67
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:1182133 original size:30 final size:29
Alignment explanation
Indices: 1182085--1182155 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
1182075 GGCCACCCCA
*
1182085 TTTCTTTTTTT-TTCCTTCTTCTTTTTTTC
1 TTTCTTTTTTTCTTCCTTCTTC-TTTCTTC
*
1182114 TTTCTTTTTTTCTTTCTTCTTCTTTCTTC
1 TTTCTTTTTTTCTTCCTTCTTCTTTCTTC
*
1182143 TTTCCTTCTTTTC
1 TTT-CTTTTTTTC
1182156 CCTTTCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTCTTTTTTTCTTCCTTCTTCTTTCTTC
Found at i:1182139 original size:22 final size:21
Alignment explanation
Indices: 1182103--1182167 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
1182093 TTTTTCCTTC
1182103 TTCTTT-TTTTCTTTCTTTTT
1 TTCTTTCTTTTCTTTCTTTTT
*
1182123 TTCTTTCTTCTTCTTTC-TTCT
1 TTCTTTCTT-TTCTTTCTTTTT
*
1182144 TTCCTTCTTTTCCCTTTCTTTTT
1 TTCTTTCTTTT--CTTTCTTTTT
1182167 T
1 T
1182168 GGTTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.22
21 13 0.35
22 12 0.32
23 4 0.11
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
TTCTTTCTTTTCTTTCTTTTT
Found at i:1184283 original size:15 final size:15
Alignment explanation
Indices: 1184260--1184290 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1184250 ATCAAAGATA
1184260 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
1184275 ATGATGATAATGATG
1 ATGAAGATAATGATG
1184290 A
1 A
1184291 AGTTGACTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:1190784 original size:19 final size:19
Alignment explanation
Indices: 1190760--1190807 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
1190750 ATCGATACAA
1190760 TGTATCGATATATGTTTAT
1 TGTATCGATATATGTTTAT
1190779 TGTATCGATATATGTTTAT
1 TGTATCGATATATGTTTAT
1190798 TGTATCGATA
1 TGTATCGATA
1190808 CATAAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (19 bp):
TGTATCGATATATGTTTAT
Found at i:1190872 original size:13 final size:13
Alignment explanation
Indices: 1190854--1190886 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1190844 ATCGATATAT
1190854 GATACATTGTATC
1 GATACATTGTATC
*
1190867 GATACAATGTATC
1 GATACATTGTATC
1190880 GATACAT
1 GATACAT
1190887 AACAAATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:1190883 original size:33 final size:33
Alignment explanation
Indices: 1190841--1190905 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1190831 TATCACTGTT
* * * *
1190841 TGTATCGATATATGATACATTGTATCGATACAA
1 TGTATCGATACATAACAAATTGTATCGATACAA
1190874 TGTATCGATACATAACAAATTGTATCGATACA
1 TGTATCGATACATAACAAATTGTATCGATACA
1190906 TTATCCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAACAAATTGTATCGATACAA
Found at i:1192352 original size:45 final size:45
Alignment explanation
Indices: 1192301--1192390 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
1192291 CCAGAGCCAA
* *
1192301 AAGGAAATCAATTCAAAACAGAGCTCCTTTTTTAAATCTATGGAG
1 AAGGAAATCAATTCAAAAAAGAGCTCATTTTTTAAATCTATGGAG
*
1192346 AAGGAAATCAATTCAAAAAAGAGCTTATTTTTTAAATCTATGGAG
1 AAGGAAATCAATTCAAAAAAGAGCTCATTTTTTAAATCTATGGAG
1192391 TTTGTTCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (45 bp):
AAGGAAATCAATTCAAAAAAGAGCTCATTTTTTAAATCTATGGAG
Found at i:1193282 original size:20 final size:20
Alignment explanation
Indices: 1193250--1193304 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
1193240 ATGTATCCAG
*
1193250 ATGTATC-ATTACATTTTTCA
1 ATGTATCGA-TACATTTCTCA
* *
1193270 ATGTATCGATACATGTCTGA
1 ATGTATCGATACATTTCTCA
*
1193290 ATCTATCGATACATT
1 ATGTATCGATACATT
1193305 CTGTCTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCA
Found at i:1194971 original size:10 final size:11
Alignment explanation
Indices: 1194956--1194984 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1194946 CTAATAGATG
1194956 ATTTTTCAAA-
1 ATTTTTCAAAT
1194966 ATTTTTCAAAT
1 ATTTTTCAAAT
1194977 ATTTTTCA
1 ATTTTTCA
1194985 TAAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTCAAAT
Found at i:1195611 original size:96 final size:98
Alignment explanation
Indices: 1195490--1195717 Score: 275
Period size: 96 Copynumber: 2.4 Consensus size: 98
1195480 TCGGGGATAC
* * * *
1195490 TCCAACCCTGTTCCTCCGAGAGGATACTCCAACCCT-GCTTTTAAACACATCAAATTTTCAATCT
1 TCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTCGCTTTTAAACACATCAAAGTTTAAATCT
* *
1195554 TATTCTCACTTAAAGTGTTACCATC-AGGTCACT
66 TATTCTCACTTAAAGTGTCACCATCGAGGACA-T
* * ** * *
1195587 T-CAACCCTATTCCTCTGAGGGGATACTCTAA-CCTCGCTTTTAAATGCATCAGAGTTTAAATTT
1 TCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTCGCTTTTAAACACATCAAAGTTTAAATCT
* *
1195650 TATTCTCACTTAAATTGTCATCATCGAGGACAT
66 TATTCTCACTTAAAGTGTCACCATCGAGGACAT
* *
1195683 TCCAACCCCATTCCTCCGAAGGGATACTCCAACCC
1 TCCAACCCTATTCCTCCGAGGGGATACTCCAACCC
1195718 CATTTTTCAA
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
95 3 0.03
96 72 0.66
97 32 0.29
98 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (98 bp):
TCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTCGCTTTTAAACACATCAAAGTTTAAATCT
TATTCTCACTTAAAGTGTCACCATCGAGGACAT
Found at i:1200520 original size:17 final size:15
Alignment explanation
Indices: 1200484--1200526 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
1200474 AGTTGAAACC
1200484 AAAAGCACAAAAAATG
1 AAAAGCA-AAAAAATG
*
1200500 AAAAGGAAAAAAAGTG
1 AAAAGCAAAAAAA-TG
1200516 CAAAAGCAAAA
1 -AAAAGCAAAA
1200527 TGAAAAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAGCAAAAAAATG
Found at i:1201923 original size:27 final size:27
Alignment explanation
Indices: 1201880--1202013 Score: 196
Period size: 27 Copynumber: 4.9 Consensus size: 27
1201870 TGGCATTTCT
* *
1201880 TTTTAAAGTCCATAACTCTGTTGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
*
1201908 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
1201935 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
*
1201963 TTTTAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
**
1201990 TTTTAAGTATACAACTCTGTGGCA
1 TTTTAAGTCCACAACTCTGTGGCA
1202014 ACACCCTTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 67 0.69
28 30 0.31
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCATCC
Found at i:1201952 original size:55 final size:55
Alignment explanation
Indices: 1201880--1202013 Score: 207
Period size: 55 Copynumber: 2.5 Consensus size: 55
1201870 TGGCATTTCT
* *
1201880 TTTTAAAGTCCATAACTCTGTTGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
* *
1201935 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
**
1201990 TTTT-AAGTATACAACTCTGTGGCA
1 TTTTAAAGTCCACAACTCTGTGGCA
1202014 ACACCCTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 18 0.25
55 55 0.75
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (55 bp):
TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
Found at i:1202111 original size:58 final size:57
Alignment explanation
Indices: 1202019--1202898 Score: 618
Period size: 58 Copynumber: 14.8 Consensus size: 57
1202009 TGGCAACACC
* * *
1202019 CTTTT-AAAGCCCATAAGTTAGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAA
* * *
1202074 CTTTTCAAAGCCCACAAGTCGGTGGTAACCCATTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGG-CACCCATTTCAAAGCCCACAAGTCAGTGGCAA
* ** * * **
1202132 CATTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGCAA
* * * * *
1202194 CCTATTCCAAAGCCCACAAGTTAGTGGCA-TCATTTCAAAACACACACAAGTCGGTGGCAA
1 -CT-TTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGC-C-CACAAGTCAGTGGCAA
* * *
1202254 CTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAT
1 CT--TTTCAAAG-CC-CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGCAA
* * * ** * *
1202318 CATCTCAAAGCCCACACAAGTC-GCTAGCAACTTATTTGAAAGCCCACACAAGTC-GATGGTAA
1 CTTTTCAAAG-CC-CACAAGTCAG-TGGC-ACCCATTTCAAAG-CC-CACAAGTCAG-TGGCAA
* * *
1202380 CCTATTTCAAAGCCCACAAAAGTCGGTGCCAACCCATTTCAAAGCCCACAAGTCAGTGGCATC
1 -CT-TTTCAAAGCCCAC--AAGTCAGTGGC-ACCCATTTCAAAGCCCACAAGTCAGTGGCA-A
* * * *
1202443 CTTCTCAAAGCCCGCAAGTCAGTGGCATCC-TTCTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATT-TCAAAGCCCACAAGTCAGTGGCAA
* * *
1202500 CGTTTTCAAAGCCCATACAAGTCGGTGGCA-TCATTTCAAAGCCCACACAAGTCAGTGGAAA
1 C-TTTTCAAAGCCC--ACAAGTCAGTGGCACCCATTTCAAAG-CC-CACAAGTCAGTGGCAA
* * * *
1202561 CTCATTTGAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACACAAGTCAATGGCAA
1 CT--TTTCAAAG-CC-CACAAGTCAGTGG-CACCCATTTCAAAG-CC-CACAAGTCAGTGGCAA
* * * *
1202625 CCCATTTCAAAGCCCACAAG--AGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATC
1 --CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCA-A
* * * * * * *
1202682 CTTCTCAAAGCCCGCAGGTCAGTGGCATCC-TTCTTAAAGCCCATAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATT-TCAAAGCCCACAAGTCAGTGGCA-A
* * * * *
1202740 CTTCTCAAAGCCCACAAGTCAGTGGCATCC-TTCTCAAAGCCTACACAAATTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATT-TCAAAGCC--CACAAGTCAGTGGCAA
* * * * *
1202799 CTTTTCAAAGCCCGCAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAA
* *
1202855 CCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGCCCACA
1202899 TAAGTCTATG
Statistics
Matches: 682, Mismatches: 94, Indels: 97
0.78 0.11 0.11
Matches are distributed among these distances:
55 19 0.03
56 81 0.12
57 19 0.03
58 150 0.22
59 51 0.07
60 89 0.13
61 33 0.05
62 128 0.19
63 15 0.02
64 94 0.14
65 2 0.00
66 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (57 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:1202460 original size:29 final size:28
Alignment explanation
Indices: 1201902--1202898 Score: 694
Period size: 32 Copynumber: 33.7 Consensus size: 28
1201892 TAACTCTGTT
* * * *
1201902 GCATCCTTT-TAAGTCCACAACTCCGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
1201929 GCATCCTTTTAAAGTCCACAACTCTGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * * *
1201957 GCATCCTTT-TAAGTCCATAACTCTGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *** * *
1201984 GCATCCTTT-TAAGTATACAACTCTGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
1202011 GCAACACCCTTTTAAAGCCCATAAGTTAGTG
1 G---CATCCTTTCAAAGCCCACAAGTCAGTG
*
1202042 GCATCATTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * *
1202070 GCAACTTTTCAAAGCCCACAAGTCGGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
1202098 GTAACCCATTTCAAAGCCCACAAGTCAGTG
1 G-CATCC-TTTCAAAGCCCACAAGTCAGTG
* **
1202128 GCATCATTTCAAAGCCCACACAAGTTGGTG
1 GCATCCTTTCAAAG-CC-CACAAGTCAGTG
* * **
1202158 GCAACTCATTTGAAAGCCCACACAAGTTGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTG
* *
1202190 GCAACCTATTCCAAAGCCCACAAGTTAGTG
1 GCATCCT-TT-CAAAGCCCACAAGTCAGTG
* * *
1202220 GCATCATTTCAAAACACACACAAGTCGGTG
1 GCATCCTTTCAAAGC-C-CACAAGTCAGTG
* * *
1202250 GCAACTCATTTGAAAGCCCACACAAGTCGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTG
*
1202282 GCAACCCATTTCAAAGCCCACACAAGTCAGTG
1 GC-ATCC-TTTCAAAG-CC-CACAAGTCAGTG
* * *
1202314 GCATCATCTCAAAGCCCACACAAGTC-GCTA
1 GCATCCTTTCAAAG-CC-CACAAGTCAG-TG
** *
1202344 GCAACTTATTTGAAAGCCCACACAAGTC-GATG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAG-TG
* * *
1202376 GTAACCTATTTCAAAGCCCACAAAAGTCGGTG
1 GCATCC--TTTCAAAGCCCAC--AAGTCAGTG
* *
1202408 CCAACCCATTTCAAAGCCCACAAGTCAGTG
1 GC-ATCC-TTTCAAAGCCCACAAGTCAGTG
*
1202438 GCATCCTTCTCAAAGCCCGCAAGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
1202467 GCATCCTTCTCAAAGCCCACAAGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
* *
1202496 GCATCGTTTTCAAAGCCCATACAAGTCGGTG
1 GCATC-CTTTCAAAGCCC--ACAAGTCAGTG
*
1202527 GCATCATTTCAAAGCCCACACAAGTCAGTG
1 GCATCCTTTCAAAG-CC-CACAAGTCAGTG
* * * *
1202557 GAAACTCATTTGAAAGCCCACACAAGTCGGTG
1 G-CA-TCCTTTCAAAG-CC-CACAAGTCAGTG
* * *
1202589 GTAACCCATTTCAAAGCCCACACAAGTCAATG
1 G-CATCC-TTTCAAAG-CC-CACAAGTCAGTG
*
1202621 GCAACCCATTTCAAAGCCCACAAG--AGTG
1 GC-ATCC-TTTCAAAGCCCACAAGTCAGTG
*
1202649 GCATCCTTTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
1202677 GCATCCTTCTCAAAGCCCGCAGGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
* *
1202706 GCATCCTTCTTAAAGCCCATAAGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
1202735 GCATCCTTCTCAAAGCCCACAAGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
* *
1202764 GCATCCTTCTCAAAGCCTACACAAATTAGTG
1 GCATCCTT-TCAAAGCC--CACAAGTCAGTG
* *
1202795 GCATCTTTTCAAAGCCCGCAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
1202823 GCATCTTTTCAAAGCCCACAAGTCAATG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
1202851 GCATCCTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
1202879 GCATCCTTTCAAAGCCCACA
1 GCATCCTTTCAAAGCCCACA
1202899 TAAGTCTATG
Statistics
Matches: 821, Mismatches: 106, Indels: 85
0.81 0.10 0.08
Matches are distributed among these distances:
26 16 0.02
27 53 0.06
28 186 0.23
29 160 0.19
30 140 0.17
31 63 0.08
32 198 0.24
33 5 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
GCATCCTTTCAAAGCCCACAAGTCAGTG
Found at i:1203108 original size:49 final size:47
Alignment explanation
Indices: 1203046--1203139 Score: 134
Period size: 49 Copynumber: 2.0 Consensus size: 47
1203036 GGCACCTTTA
* *
1203046 TTAACCCATTGTCACTGGCCTTGAATTAACACATTGGTCCATTTTTCCC
1 TTAACCCAATGTCACTGGCCATGAATTAACACATTGG--CATTTTTCCC
* *
1203095 TTAACCCAATGTCACTGGCCATGAATTAGCATATTGGCATTTTTC
1 TTAACCCAATGTCACTGGCCATGAATTAACACATTGGCATTTTTC
1203140 TCATCCTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 8 0.20
49 33 0.80
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (47 bp):
TTAACCCAATGTCACTGGCCATGAATTAACACATTGGCATTTTTCCC
Found at i:1206218 original size:97 final size:96
Alignment explanation
Indices: 1206059--1206304 Score: 350
Period size: 97 Copynumber: 2.6 Consensus size: 96
1206049 AATTTTATTT
* * * *
1206059 ATCGGGGATACTCCAACCCTATTCCT-TCGAGGGGATACTCGAACCCCGCTTTTAAACACATCAA
1 ATCGAGGACACTCCAACCCCATTCCTCT-GAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
1206123 AGTTTAAATCTTATTTTCACTTAAATTGTCACC
65 AGTTTAAATCTTA-TTTCACTTAAATTGTCACC
* * *
1206156 ATCGAGGACACTTCAACCCCATTCCTCTGAGGGAATACTCCAACCCCGCTTTTAAACGCATCAAA
1 ATCGAGGACACTCCAACCCCATTCCTCTGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
1206221 GTTTAAATTTTATTTCACTTAAATTGTCATC
66 GTTTAAATCTTATTTCACTTAAATTGTCACC
* * * *
1206252 ATCGGGGACACTCCAAACCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 ATCGAGGACACTCCAACCCCATTCCTCTGAGGGGATACTCCAACCCCGCTTTT
1206305 CAATTAAAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
96 65 0.49
97 67 0.50
98 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (96 bp):
ATCGAGGACACTCCAACCCCATTCCTCTGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTTCACTTAAATTGTCACC
Found at i:1206290 original size:96 final size:97
Alignment explanation
Indices: 1206059--1206304 Score: 361
Period size: 96 Copynumber: 2.5 Consensus size: 97
1206049 AATTTTATTT
* * *
1206059 ATCGGGGATACTCC-AACCCTATTCCTTCGAGGGGATACTCGAACCCCGCTTTTAAACACATCAA
1 ATCGGGGACACTCCAAACCC-ATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
1206123 AGTTTAAATCTTATTTTCACTTAAATTGTCACC
65 AGTTTAAATCTTATTTTCACTTAAATTGTCACC
* * * * * *
1206156 ATCGAGGACACTTCAACCCCATTCCTCTGAGGGAATACTCCAACCCCGCTTTTAAACGCATCAAA
1 ATCGGGGACACTCCAAACCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
1206221 GTTTAAATTTTA-TTTCACTTAAATTGTCATC
66 GTTTAAATCTTATTTTCACTTAAATTGTCACC
*
1206252 ATCGGGGACACTCCAAACCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 ATCGGGGACACTCCAAACCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
1206305 CAATTAAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
96 65 0.50
97 62 0.47
98 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (97 bp):
ATCGGGGACACTCCAAACCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTTTCACTTAAATTGTCACC
Found at i:1207824 original size:19 final size:20
Alignment explanation
Indices: 1207784--1207835 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
1207774 AATTGCTTGC
*
1207784 ATGTATCGATACATTGAAAA
1 ATGTATCGATACAATGAAAA
1207804 ATGTATCGATACAAT-AAAA
1 ATGTATCGATACAATGAAAA
1207823 ATGTATCGATACA
1 ATGTATCGATACA
1207836 TTGTATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAA
Found at i:1207891 original size:21 final size:20
Alignment explanation
Indices: 1207784--1207897 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
1207774 AATTGCTTGC
**
1207784 ATGTATCGATACATTGAA-AA
1 ATGTATCGATACATT-AACTT
* **
1207804 ATGTATCGATACAATAA-AA
1 ATGTATCGATACATTAACTT
*
1207823 ATGTATCGATACATTGTA-TGT
1 ATGTATCGATACATT-AACT-T
*
1207844 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTAACTT
*
1207864 ATGTATCGATGCATTAACTT
1 ATGTATCGATACATTAACTT
1207884 AGTGTATCGATACA
1 A-TGTATCGATACA
1207898 AATTGTAGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
19 18 0.22
20 36 0.44
21 27 0.33
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:1220995 original size:21 final size:21
Alignment explanation
Indices: 1220969--1221008 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1220959 CATGTTCCAA
1220969 TCTCATCACTACATCTACGTT
1 TCTCATCACTACATCTACGTT
1220990 TCTCATCACTACATCTACG
1 TCTCATCACTACATCTACG
1221009 ACGTCACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (21 bp):
TCTCATCACTACATCTACGTT
Found at i:1227365 original size:21 final size:21
Alignment explanation
Indices: 1227339--1227384 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1227329 AAATGTTAAT
1227339 AAATT-ATAATAAAAATTATTA
1 AAATTAATAAT-AAAATTATTA
* *
1227360 AAATTAATAATTAATTTATTA
1 AAATTAATAATAAAATTATTA
1227381 AAAT
1 AAAT
1227385 ATTAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTAATAATAAAATTATTA
Found at i:1227390 original size:20 final size:21
Alignment explanation
Indices: 1227354--1227392 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1227344 ATAATAAAAA
1227354 TTATTAAAATTAATAATTAAT
1 TTATTAAAATTAATAATTAAT
*
1227375 TTATTAAAA-TATTAATTA
1 TTATTAAAATTAATAATTA
1227393 TAATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTAAAATTAATAATTAAT
Found at i:1227415 original size:26 final size:27
Alignment explanation
Indices: 1227361--1227412 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
1227351 AAATTATTAA
*
1227361 AATTAATAATTAATTTATTAAAATATT
1 AATTAATAATTAAATTATTAAAATATT
1227388 AATT-ATAATTAAATTA-TAAAATATT
1 AATTAATAATTAAATTATTAAAATATT
1227413 TAAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 11 0.46
27 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTAATAATTAAATTATTAAAATATT
Found at i:1228327 original size:2 final size:2
Alignment explanation
Indices: 1228322--1228361 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1228312 ATATATGTGC
1228322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1228362 TATTGTTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1228614 original size:19 final size:19
Alignment explanation
Indices: 1228576--1228614 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1228566 TATTTATATA
* * *
1228576 TTTATATTATATTTATATT
1 TTTATATCATAATTAAATT
1228595 TTTATATCATAATTAAATT
1 TTTATATCATAATTAAATT
1228614 T
1 T
1228615 AAAGTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATCATAATTAAATT
Found at i:1230351 original size:13 final size:13
Alignment explanation
Indices: 1230333--1230359 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1230323 ACATTATGCT
1230333 TTGTATCGATACA
1 TTGTATCGATACA
1230346 TTGTATCGATACA
1 TTGTATCGATACA
1230359 T
1 T
1230360 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1230356 original size:33 final size:32
Alignment explanation
Indices: 1230314--1230375 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1230304 ACACCCCAAA
*
1230314 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
1230347 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
1230376 TATGGACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:1230389 original size:20 final size:19
Alignment explanation
Indices: 1230343--1230399 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1230333 TTGTATCGAT
* *
1230343 ACATTGTATCGATACATGT
1 ACATTGTATCGATATATGG
*
1230362 TCATTGTATCGATATATGG
1 ACATTGTATCGATATATGG
1230381 ACAATTGTATCGATATATG
1 AC-ATTGTATCGATATATG
1230400 AAACTGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
ACATTGTATCGATATATGG
Found at i:1236799 original size:21 final size:22
Alignment explanation
Indices: 1236760--1236800 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1236750 AAACCCTAAC
*
1236760 ATTCTTTCTTCAAAATTCTTCA
1 ATTCTTTCTACAAAATTCTTCA
*
1236782 ATTCTTT-TACAAATTTCTT
1 ATTCTTTCTACAAAATTCTT
1236801 GTTTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTCTTTCTACAAAATTCTTCA
Found at i:1242979 original size:13 final size:13
Alignment explanation
Indices: 1242961--1242986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1242951 TGGGCTCACC
1242961 ATGTATCGATACA
1 ATGTATCGATACA
1242974 ATGTATCGATACA
1 ATGTATCGATACA
1242987 CTATATCAAT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1252552 original size:32 final size:32
Alignment explanation
Indices: 1252516--1252580 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1252506 TAAAACTCTA
* *
1252516 TAGAGATATAACTGATAGTGTTTAAACTTATC
1 TAGAGATAGAACTGATAGAGTTTAAACTTATC
**
1252548 TAGAGATAGAGTTGATAGAGTTTAAACTTATC
1 TAGAGATAGAACTGATAGAGTTTAAACTTATC
1252580 T
1 T
1252581 GGATTCTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (32 bp):
TAGAGATAGAACTGATAGAGTTTAAACTTATC
Found at i:1254758 original size:2 final size:2
Alignment explanation
Indices: 1254751--1254787 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1254741 AAGATAATTT
1254751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1254788 TAATCTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1256463 original size:51 final size:51
Alignment explanation
Indices: 1256400--1256518 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
1256390 GAAAATAACA
* * * *
1256400 GGGTTGGAGTATCCTTGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCG
1 GGGTTGGAGTATCCTTGATTATGA-AAAATCGATGCTTTAAAAATAAAACCG
* * * **
1256451 GGGTTGGAGTATCCCTGATTGTGAAAAATTGATGCTTTAAAAATAAGGCCG
1 GGGTTGGAGTATCCTTGATTATGAAAAATCGATGCTTTAAAAATAAAACCG
1256502 GGGTTGGAGTATCCTTG
1 GGGTTGGAGTATCCTTG
1256519 CAAAAATAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (51 bp):
GGGTTGGAGTATCCTTGATTATGAAAAATCGATGCTTTAAAAATAAAACCG
Found at i:1256536 original size:79 final size:79
Alignment explanation
Indices: 1256453--1256627 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 79
1256443 TAAAATCGGG
** * * * *
1256453 GTTGGAGTATCCCTGATTGTGAAAAATTGATGCTTTAAAAATAAGGCCGGGGTTGGAGTAT-CCT
1 GTTGGAGTATCCCTGATTGTGAAAAATCAATACTTTAAAAATAAAGCCGGGATTGGAGTATCCCC
1256517 TGCAAAAATAACGGA
66 T-CAAAAATAACGGA
* * * *
1256532 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGGAGTATCCCC
1 GTTGGAGTATCCCTGATTGTGAAAAATCAATACTTTAAAAATAAAGCCGGGATTGGAGTATCCCC
* *
1256597 TCGAAAATAACGGG
66 TCAAAAATAACGGA
*
1256611 GTTAGAGTATCCCTGAT
1 GTTGGAGTATCCCTGAT
1256628 GAAATAACGG
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 78 0.96
80 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCTGATTGTGAAAAATCAATACTTTAAAAATAAAGCCGGGATTGGAGTATCCCC
TCAAAAATAACGGA
Found at i:1256618 original size:28 final size:28
Alignment explanation
Indices: 1256587--1256649 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 28
1256577 GCCGGGATTG
1256587 GAGTATCCCCTCGA-AAATAACGGGGTTA
1 GAGTATCCCCT-GAGAAATAACGGGGTTA
1256615 GAGTAT-CCCTGATGAAATAACGGGGTTA
1 GAGTATCCCCTGA-GAAATAACGGGGTTA
1256643 GAGTATC
1 GAGTATC
1256650 GCTGATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.06
27 4 0.12
28 26 0.81
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (28 bp):
GAGTATCCCCTGAGAAATAACGGGGTTA
Found at i:1256654 original size:28 final size:28
Alignment explanation
Indices: 1256601--1256655 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
1256591 ATCCCCTCGA
1256601 AAATAACGGGGTTAGAGTATCCCTGATG
1 AAATAACGGGGTTAGAGTATCCCTGATG
*
1256629 AAATAACGGGGTTAGAGTATCGCTGAT
1 AAATAACGGGGTTAGAGTATCCCTGAT
1256656 TATGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (28 bp):
AAATAACGGGGTTAGAGTATCCCTGATG
Found at i:1256750 original size:51 final size:50
Alignment explanation
Indices: 1256637--1256755 Score: 114
Period size: 51 Copynumber: 2.3 Consensus size: 50
1256627 TGAAATAACG
* * * **
1256637 GGGTTAGAGTATCGCTGATTATGAAAAATTGGCGTTTTGAAAATAAAATT
1 GGGTTGGAGTATCCCTAATTATGAAAAATTGGCGTTTTGAAAATAAAACC
* * * *
1256687 GGAGTTGAAGTATCCCTAATTGTGGAAAATTGGTGTTTT-AGAAATAAAACC
1 GG-GTTGGAGTATCCCTAATTATGAAAAATTGGCGTTTTGA-AAATAAAACC
1256738 GAGGTTGGAGTATTCCCT
1 G-GGTTGGAGTA-TCCCT
1256756 CAGAAAAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
50 3 0.05
51 46 0.84
52 6 0.11
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (50 bp):
GGGTTGGAGTATCCCTAATTATGAAAAATTGGCGTTTTGAAAATAAAACC
Found at i:1256785 original size:237 final size:237
Alignment explanation
Indices: 1256392--1256833 Score: 554
Period size: 237 Copynumber: 1.9 Consensus size: 237
1256382 ATCCCCTCGA
* * *
1256392 AAATAACAGGGTTGGAGTATCCTTGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTG
1 AAATAACAGGGTTAGAGTATCCTTGATTATAGAAAATCGGCGTTTTGAAAATAAAATCGGAGTTG
* * ** * *
1256457 GAGTATCCCTGATTGTGAAAAATTGATGCTTTAAAAATAAGGCCGGGGTTGGAGTATCCTTGCAA
66 AAGTATCCCTAATTGTGAAAAATTGATGCTTTAAAAATAAAACCGAGGTTGGAGTATCCCTGCAA
* * * * *
1256522 AAATAACGGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC-GGGATT
131 AAATAACGGAGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGAG-TT
1256586 GGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATG
195 GGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATG
* * *
1256629 AAATAACGGGGTTAGAGTATCGC-TGATTAT-GAAAAATTGGCGTTTTGAAAATAAAATTGGAGT
1 AAATAACAGGGTTAGAGTATC-CTTGATTATAG-AAAATCGGCGTTTTGAAAATAAAATCGGAGT
* * * *
1256692 TGAAGTATCCCTAATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATTCCCT-
64 TGAAGTATCCCTAATTGTGAAAAATTGATGCTTTAAAAATAAAACCGAGGTTGGAGTA-TCCCTG
* ** * *
1256756 CAGAAAA-AATGG-GATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAG
128 CA-AAAATAACGGAG-TTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAG
1256819 AGTTGGAGTATCCCC
191 AGTTGGAGTATCCCC
1256834 GAGATGAAAA
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
236 2 0.01
237 160 0.92
238 11 0.06
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (237 bp):
AAATAACAGGGTTAGAGTATCCTTGATTATAGAAAATCGGCGTTTTGAAAATAAAATCGGAGTTG
AAGTATCCCTAATTGTGAAAAATTGATGCTTTAAAAATAAAACCGAGGTTGGAGTATCCCTGCAA
AAATAACGGAGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGAGTTG
GAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATG
Found at i:1259183 original size:49 final size:50
Alignment explanation
Indices: 1259130--1259253 Score: 178
Period size: 49 Copynumber: 2.5 Consensus size: 50
1259120 AAAAATGCCT
* * * * ** *
1259130 GAATGTATCGATACATTGAAAAATGTATCGATAGATCTGGGTAAACCTC-
1 GAATGTATCGATACAATGAACAATGTATCAATACATCCAGGTAAAACTCA
1259179 GAATGTATCGATACAATGAACAATGTATCAATACATCCAGGTAAAACTCA
1 GAATGTATCGATACAATGAACAATGTATCAATACATCCAGGTAAAACTCA
1259229 GAATGTATCGATACAATGAACAATG
1 GAATGTATCGATACAATGAACAATG
1259254 AACAATGCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
49 42 0.63
50 25 0.37
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (50 bp):
GAATGTATCGATACAATGAACAATGTATCAATACATCCAGGTAAAACTCA
Found at i:1259894 original size:61 final size:61
Alignment explanation
Indices: 1259789--1261055 Score: 1272
Period size: 61 Copynumber: 21.4 Consensus size: 61
1259779 AATGAAATGG
* * * *** **
1259789 GTCCTGCTCCTTGGGGACTA-AAAGGTGCCACAAACTTACATGGGCTTTGCAAGGAGAAA-GC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * * *
1259850 ATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGACAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * * * *
1259911 GTCCTACTCCTTGAAGACT-GAAAAATGCCACTAACTTATGTAGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1259972 GTCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1260033 ATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
1260094 ATCCCG-TTTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
** * * *
1260147 AACCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1260202 GTCCTACTCTTTGAGGGCTAGAAAATGCTACCAACTTGTGTGGGCTTT-----GAAAA-GC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1260257 ATCCTACTCTTTAAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1260312 GTCCTACTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1260373 GTCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * *
1260434 ATCCTACTCCTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1260495 GTCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1260550 GTCTTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTTGGTTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1260611 GTCCTACT-TCTTGAGGACT-GAAAAGTGCCACCAACTTGTATGGGTTTTAAAAGGAAAAGGC
1 GTCCTGCTCT-TTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1260672 GTCCTACTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1260733 ATCCTACTCTTTGAGGACTAGAAGGTGCCACCAATTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * **
1260788 GTCCTGCTCTTTAAGGACT-GAAAAGTGCCACCAACTTGTGTTGTTTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * **
1260849 GTCCTGCTCCTTGAGGACT-GAAAAGTGTCACCAACTTGTGTGATCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1260910 ATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1260971 GTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1261033 ATCCTGCTCTTTGAAGACT-GAAA
1 GTCCTGCTCTTTGAGGACTAGAAA
1261056 AGTGAAAGGA
Statistics
Matches: 1041, Mismatches: 127, Indels: 77
0.84 0.10 0.06
Matches are distributed among these distances:
53 9 0.01
54 20 0.02
55 259 0.25
56 3 0.00
59 27 0.03
60 19 0.02
61 643 0.62
62 61 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1260220 original size:28 final size:28
Alignment explanation
Indices: 1260188--1260327 Score: 69
Period size: 28 Copynumber: 5.1 Consensus size: 28
1260178 CAACTTGTGT
1260188 GGGCTTTGAAAGGCGTCCTACTCTTTGA
1 GGGCTTTGAAAGGCGTCCTACTCTTTGA
* * * * *
1260216 GGGC-TAGAAAATGC-TACCAACT-TGTGT
1 GGGCTTTG-AAAGGCGT-CCTACTCTTTGA
* * *
1260243 GGGCTTTGAAAAGCATCCTACTCTTTAA
1 GGGCTTTGAAAGGCGTCCTACTCTTTGA
* * * * *
1260271 GGAC--TAAAAGGTG-CC-ACCAACTTGTGT
1 GGGCTTTGAAAGGCGTCCTA-C-TCTT-TGA
1260298 GGGCTTTGAAAGGCGTCCTACTCTTTGA
1 GGGCTTTGAAAGGCGTCCTACTCTTTGA
1260326 GG
1 GG
1260328 ACTAAAAGGT
Statistics
Matches: 76, Mismatches: 24, Indels: 24
0.61 0.19 0.19
Matches are distributed among these distances:
24 1 0.01
25 3 0.04
26 8 0.11
27 24 0.32
28 26 0.34
29 10 0.13
30 3 0.04
31 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (28 bp):
GGGCTTTGAAAGGCGTCCTACTCTTTGA
Found at i:1260246 original size:27 final size:27
Alignment explanation
Indices: 1260167--1260247 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
1260157 TTGAGGACTG
* *
1260167 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCTACCAACTTGTGTGGGC-TA
* * * *
1260195 G-AAAGGCGT-CCTACTCTTTGAGGGCTA
1 GAAAATGC-TACCAACT-TGTGTGGGCTA
1260222 GAAAATGCTACCAACTTGTGTGGGCT
1 GAAAATGCTACCAACTTGTGTGGGCT
1260248 TTGAAAAGCA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (27 bp):
GAAAATGCTACCAACTTGTGTGGGCTA
Done.