Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 91
Found at i:8912632 original size:16 final size:16
Alignment explanation
Indices: 8912611--8912647 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
8912601 GGTTACTGTA
8912611 AATTAAAAGAACTTTG
1 AATTAAAAGAACTTTG
8912627 AATTAAAAGAACTTTG
1 AATTAAAAGAACTTTG
8912643 AATTA
1 AATTA
8912648 TTTTTGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (16 bp):
AATTAAAAGAACTTTG
Found at i:8912697 original size:29 final size:31
Alignment explanation
Indices: 8912665--8912724 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
8912655 AAATTTTGAA
*
8912665 TAAATTTAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
8912694 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
8912725 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:8914006 original size:19 final size:19
Alignment explanation
Indices: 8913963--8914010 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8913953 TCTAAATCCT
*
8913963 TTTTCAAAATTTCATTTTG
1 TTTTCAAAATCTCATTTTG
8913982 TCTTTCAAAATCT-ATTTTTG
1 T-TTTCAAAATCTCA-TTTTG
8914002 TTTTCAAAA
1 TTTTCAAAA
8914011 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATCTCATTTTG
Found at i:8915249 original size:21 final size:21
Alignment explanation
Indices: 8915223--8915264 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8915213 CCAGAATGGG
*
8915223 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
8915244 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
8915265 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:8915508 original size:34 final size:29
Alignment explanation
Indices: 8915440--8915499 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
8915430 AAATTTTGAA
* *
8915440 TAAATTCAATTACGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
8915469 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
8915500 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:8921257 original size:29 final size:28
Alignment explanation
Indices: 8921224--8921388 Score: 89
Period size: 29 Copynumber: 5.7 Consensus size: 28
8921214 TTTTTTTAAA
*
8921224 TAATTACCAAAATAGCACACTTTTCGAAT
1 TAATTACCAAAATAGCAC-CATTTCGAAT
* *
8921253 TAATTCCCAAAATAGCACCAATTTCTAAT
1 TAATTACCAAAATAGCACC-ATTTCGAAT
* * *** * *
8921282 TAATT-CTCAGAATATCATTTTTTTCAAAAAA
1 TAATTAC-CAAAATAGCA-CCATTTC--GAAT
8921313 TAATTACCAAAATAGCACCCATTTCGAAT
1 TAATTACCAAAATAGCA-CCATTTCGAAT
* ** * ***
8921342 TAATTCCCCGAATAGCACTAAACCGAAT
1 TAATTACCAAAATAGCACCATTTCGAAT
* *
8921370 TAATTCCCAAAATAACACC
1 TAATTACCAAAATAGCACC
8921389 GGTTAATGGT
Statistics
Matches: 101, Mismatches: 29, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
28 24 0.24
29 57 0.56
31 19 0.19
32 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (28 bp):
TAATTACCAAAATAGCACCATTTCGAAT
Found at i:8921414 original size:13 final size:13
Alignment explanation
Indices: 8921396--8921431 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
8921386 ACCGGTTAAT
8921396 GGTCAACGGGTCG
1 GGTCAACGGGTCG
8921409 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
8921421 GGTCAACGGGT
1 GGTCAACGGGT
8921432 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:8924771 original size:126 final size:130
Alignment explanation
Indices: 8924631--8924885 Score: 331
Period size: 134 Copynumber: 2.0 Consensus size: 130
8924621 CTAGATAATA
**
8924631 AATGTCCTTGTAACTCTTTTAATTA-T-TTTTT-A-TTTTACAATCTCCTTCAATCAATTTCACT
1 AATGTCCTCATAACTCTTTTAATTATTATTTTTAACTTTTACAATCTCCTTCAATCAATTTCACT
* * *
8924692 AATGGATGGTTTAGTCCCATTAATTTTGTCTTC-TATTAATTATGCACATAATTTCTAAGAGAAT
66 AATGGATGGTCTAATCCCATTAATTTTGTC-TCATATTAACTATGCACATAATTTCTAAGAGAAT
8924756 T
130 T
* *
8924757 AATGTCCTCATAACTCTTTTAATTATTTTTTATTTTTAACTTTTACAATCTTCTTTAATCAATTT
1 AATGTCCTCATAACTCTTTTAATTA----TTATTTTTAACTTTTACAATCTCCTTCAATCAATTT
** * *
8924822 CACTAATGGATGGTCTAATTTCATTAATTTTGTCTCATATTAACTATGTATATAATTTCTAAGA
62 CACTAATGGATGGTCTAATCCCATTAATTTTGTCTCATATTAACTATGCACATAATTTCTAAGA
8924886 AATAATTTGA
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
126 23 0.21
131 1 0.01
132 5 0.05
133 3 0.03
134 77 0.71
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (130 bp):
AATGTCCTCATAACTCTTTTAATTATTATTTTTAACTTTTACAATCTCCTTCAATCAATTTCACT
AATGGATGGTCTAATCCCATTAATTTTGTCTCATATTAACTATGCACATAATTTCTAAGAGAATT
Found at i:8927206 original size:50 final size:50
Alignment explanation
Indices: 8927044--8927208 Score: 140
Period size: 50 Copynumber: 3.3 Consensus size: 50
8927034 GTACGGCTAG
* * *
8927044 TTTTAAT-TTTTGGGTTTCAATATTGATATCATATATGGTATCGGTACCA
1 TTTTAATATTTTGGGTTTCAGTATCGATATCATATATCGTATCGGTACCA
* * * * *
8927093 TTTTAACATTTT-GTTTTGCCAGTATCGGTATTGCCTCA-A-CAGTATCGGTACTA
1 TTTTAATATTTTGGGTTT--CAGTATCGATA-T-CAT-ATATC-GTATCGGTACCA
* * *
8927146 CTTCATTATTTTGGGTTTCAGTATCGATATCATATATCGTATCGGTACCA
1 TTTTAATATTTTGGGTTTCAGTATCGATATCATATATCGTATCGGTACCA
*
8927196 TTTTAGTATTTTG
1 TTTTAATATTTTG
8927209 TTTTGACAGT
Statistics
Matches: 87, Mismatches: 19, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
49 11 0.13
50 28 0.32
51 10 0.11
52 11 0.13
53 22 0.25
54 5 0.06
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (50 bp):
TTTTAATATTTTGGGTTTCAGTATCGATATCATATATCGTATCGGTACCA
Found at i:8927227 original size:83 final size:82
Alignment explanation
Indices: 8927131--8927304 Score: 278
Period size: 82 Copynumber: 2.1 Consensus size: 82
8927121 TATTGCCTCA
* * *
8927131 ACAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATCGTATCGGTACCA
1 ACAGTATCGGTACTACTTCATTATTTTAGGTTTCAGTATCGA-AACATATATCGTATCGATACCA
*
8927196 TTTTAGT-ATTTTGTTTTG
65 TTTTA-TCATTCTGTTTTG
*
8927214 ACAGTATCGGTACTACTTCATTATTTTAGGTTTCAGTATCGAAACATATATGGTATCGATACCAT
1 ACAGTATCGGTACTACTTCATTATTTTAGGTTTCAGTATCGAAACATATATCGTATCGATACCAT
8927279 TTTATCATTCTGTTTTG
66 TTTATCATTCTGTTTTG
8927296 ACAGTATCG
1 ACAGTATCG
8927305 ATATTGCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
81 1 0.01
82 43 0.51
83 41 0.48
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (82 bp):
ACAGTATCGGTACTACTTCATTATTTTAGGTTTCAGTATCGAAACATATATCGTATCGATACCAT
TTTATCATTCTGTTTTG
Found at i:8933994 original size:2 final size:2
Alignment explanation
Indices: 8933989--8934018 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8933979 TTTTTTTATC
*
8933989 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8934019 AATTATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8934063 original size:37 final size:36
Alignment explanation
Indices: 8934012--8934290 Score: 199
Period size: 35 Copynumber: 7.9 Consensus size: 36
8934002 ATATATATAC
*
8934012 ATATATA-AAT-TATAG-TTTGAAAACATTTTTAAAAA
1 ATATATATAATATATAGTTTTAAAAACA-TTTT-AAAA
*
8934047 ATATATATAATATATAGTTTTGAAAACATGTTTAAAA
1 ATATATATAATATATAGTTTTAAAAACAT-TTTAAAA
* * * *
8934084 ACGTTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 A--TATATATAATATATAGTTTTAAAAACATTTTAAAA
* * *** *
8934122 ATAAATATAATATATAATTTTTAAAATGTTTTTGAAA
1 ATATATATAATATAT-AGTTTTAAAAACATTTTAAAA
* *
8934159 ATGTATAT--TATATAGTTTTTAAAAACATTTTGAAA
1 ATATATATAATATATAG-TTTTAAAAACATTTTAAAA
*
8934194 ATA-A-AT-ATAGT-T--TTTTAAAAACATTTTGAAA
1 ATATATATAATA-TATAGTTTTAAAAACATTTTAAAA
* * *
8934225 ACATATAT-AT-TATAGTTTTGAAATCATTTTGAAAA
1 ATATATATAATATATAGTTTTAAAAACATTTT-AAAA
* *
8934260 CT-TATATAGTATATAGTTTTAAAAACATTTT
1 ATATATATAATATATAGTTTTAAAAACATTTT
8934291 TGAAAACTAT
Statistics
Matches: 198, Mismatches: 28, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
31 22 0.11
32 2 0.01
33 6 0.03
34 23 0.12
35 35 0.18
36 32 0.16
37 33 0.17
38 20 0.10
39 25 0.13
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTAAAAACATTTTAAAA
Found at i:8934137 original size:36 final size:36
Alignment explanation
Indices: 8934012--8934303 Score: 234
Period size: 36 Copynumber: 8.2 Consensus size: 36
8934002 ATATATATAC
*
8934012 ATATATA-AAT-TATAG-TTTGAAAACATTTTTAAAAA
1 ATATATATAATATATAGTTTTGAAAACA-TTTT-GAAA
*
8934047 ATATATATAATATATAGTTTTGAAAACATGTTTAAAA
1 ATATATATAATATATAGTTTTGAAAACAT-TTTGAAA
* * *
8934084 ACGTTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 A--TATATATAATATATAGTTTTGAAAACATTTTGAAA
* * * **
8934122 ATAAATATAATATATAATTTTTAAAATGTTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAA-CATTTTGAAA
* *
8934159 ATGTATAT--TATATAGTTTTTAAAAACATTTTGAAA
1 ATATATATAATATATAG-TTTTGAAAACATTTTGAAA
*
8934194 ATA-A-AT-ATAGT-T--TTTTAAAAACATTTTGAAA
1 ATATATATAATA-TATAGTTTTGAAAACATTTTGAAA
* *
8934225 ACATATAT-AT-TATAGTTTTGAAATCATTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTGAAA
* *
8934259 ACT-TATATAGTATATAGTTTTAAAAACATTTTTGAAA
1 A-TATATATAATATATAGTTTTGAAAACA-TTTTGAAA
8934296 ACTATATA
1 A-TATATA
8934304 GTTTTGAAAC
Statistics
Matches: 213, Mismatches: 24, Indels: 37
0.78 0.09 0.14
Matches are distributed among these distances:
31 22 0.10
32 2 0.01
33 6 0.03
34 27 0.13
35 25 0.12
36 46 0.22
37 36 0.17
38 24 0.11
39 25 0.12
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTGAAAACATTTTGAAA
Found at i:8934204 original size:30 final size:31
Alignment explanation
Indices: 8934168--8934225 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
8934158 AATGTATATT
8934168 ATATAG-TTTTTAAAAACATTTTGAAAATAA
1 ATATAGTTTTTTAAAAACATTTTGAAAATAA
8934198 ATATAGTTTTTTAAAAACATTTTGAAAA
1 ATATAGTTTTTTAAAAACATTTTGAAAA
8934226 CATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (31 bp):
ATATAGTTTTTTAAAAACATTTTGAAAATAA
Found at i:8934207 original size:101 final size:99
Alignment explanation
Indices: 8934096--8934382 Score: 291
Period size: 101 Copynumber: 2.8 Consensus size: 99
8934086 GTTTATATAT
*
8934096 TATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAATTTTTAAAATGTTTTTGAAAAT
1 TATATAGTTTTTAAAACATTTTGAAAA-AAATATAATATATAATTTTTAAAATCTTTTTGAAAAT
8934161 GTATATTATATAGTTTTTAAAAACA-TTTTGAAAA-
65 -TATATTATATAGTTTTTAAAAACATTTTTGAAAAC
* * * *
8934195 TAAATATAGTTTTTTAAAAACATTTTG-AAAACATAT-ATAT-TATAGTTTTGAAATCATTTTGA
1 T--ATATAG-TTTTT-AAAACATTTTGAAAAAAATATAATATATA-ATTTTTAAAATCTTTTTGA
8934257 AAACTTATATAGTATATAG-TTTTAAAAACATTTTTGAAAAC
61 AAA-TTATAT--TATATAGTTTTTAAAAACATTTTTGAAAAC
* * * * * *
8934298 TATATAG-TTTTGAAACATTTTTCAAAAAATAAATAATATATAATTTTAAAATATTTTTTTTAAA
1 TATATAGTTTTTAAAACA-TTTTGAAAAAA-ATATAATATATAATTTTTAAA-ATCTTTTTGAAA
8934362 ATATATATTATATAGATTTTT
63 AT-TATATTATATAG-TTTTT
8934383 GGAAAATATT
Statistics
Matches: 154, Mismatches: 15, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
98 5 0.03
99 11 0.07
100 31 0.20
101 39 0.25
102 35 0.23
103 33 0.21
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (99 bp):
TATATAGTTTTTAAAACATTTTGAAAAAAATATAATATATAATTTTTAAAATCTTTTTGAAAATT
ATATTATATAGTTTTTAAAAACATTTTTGAAAAC
Found at i:8934223 original size:66 final size:70
Alignment explanation
Indices: 8934022--8934303 Score: 238
Period size: 66 Copynumber: 4.0 Consensus size: 70
8934012 ATATATAAAT
* * * * * *
8934022 TATAG-TTTGAAAACATTTTTAAAAAATATATATAATATATAGTTTTGAAAACATGTTTAAAAAC
1 TATAGTTTTTAAAACA-TTTT-GAAAATAAATATAATATATATTTTTAAAAACAT-TTTGAAAAC
8934086 GTTTATATATTA
63 ----ATATATTA
*** **
8934098 TATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAATTTTTAAAATGTTTTTGAAAATGT
1 TATAGTTTTTAAAACATTTTGAAAATAAATATAATATAT-ATTTTTAAAAACATTTTGAAAACAT
8934163 ATATTA
65 ATATTA
*
8934169 TATAGTTTTTAAAAACATTTTGAAAAT-AA-AT-ATA-GT-TTTTTAAAAACATTTTGAAAACAT
1 TATAGTTTTT-AAAACATTTTGAAAATAAATATAATATATATTTTTAAAAACATTTTGAAAACAT
8934229 ATA-TA
65 ATATTA
* * * * *
8934234 TTATAGTTTTGAAATCATTTTGAAAACT-TATATAGTATATAGTTTTAAAAACATTTTTGAAAAC
1 -TATAGTTTTTAAAACATTTTGAAAA-TAAATATAATATATATTTTTAAAAACA-TTTTGAAAAC
8934298 TATATA
63 -ATATA
8934304 GTTTTGAAAC
Statistics
Matches: 172, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
65 16 0.09
66 33 0.19
67 2 0.01
68 3 0.02
69 4 0.02
70 13 0.08
71 29 0.17
72 21 0.12
75 24 0.14
76 18 0.10
77 9 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (70 bp):
TATAGTTTTTAAAACATTTTGAAAATAAATATAATATATATTTTTAAAAACATTTTGAAAACATA
TATTA
Found at i:8934314 original size:28 final size:29
Alignment explanation
Indices: 8934269--8934324 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
8934259 ACTTATATAG
*
8934269 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAGTTTTAAAAACATTTTTCAAAAC
*
8934298 TATATAGTTTT-GAAACATTTTTCAAAA
1 TATATAGTTTTAAAAACATTTTTCAAAA
8934325 AATAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (29 bp):
TATATAGTTTTAAAAACATTTTTCAAAAC
Found at i:8934325 original size:29 final size:29
Alignment explanation
Indices: 8934269--8934325 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8934259 ACTTATATAG
*
8934269 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAGTTTTAAAAACATTTTTAAAAAC
*
8934298 TATATAGTTTT-GAAACATTTTTCAAAAA
1 TATATAGTTTTAAAAACATTTTT-AAAAA
8934326 ATAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (29 bp):
TATATAGTTTTAAAAACATTTTTAAAAAC
Found at i:8934375 original size:38 final size:39
Alignment explanation
Indices: 8934315--8934394 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 39
8934305 TTTTGAAACA
*
8934315 TTTTTCAAAAAATAAATAATATATAATTTT-AAAATATT
1 TTTTTCAAAAAATAAATAATATAGAATTTTGAAAATATT
* * * * *
8934353 TTTTTTAAAATATATATTATATAGATTTTTGGAAAATATT
1 TTTTTCAAAAAATAAATAATATAGAATTTT-GAAAATATT
8934393 TT
1 TT
8934395 ATTATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 24 0.71
40 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (39 bp):
TTTTTCAAAAAATAAATAATATAGAATTTTGAAAATATT
Found at i:8934401 original size:3 final size:3
Alignment explanation
Indices: 8934389--8934433 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
8934379 TTTTGGAAAA
8934389 TAT T-T TAT TAT TAT TAT TAT TAT TAT TATT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
8934432 TA
1 TA
8934434 ATTTCATTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:8944606 original size:25 final size:22
Alignment explanation
Indices: 8944578--8944623 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 22
8944568 TTTGGTTTGT
8944578 TTTGATTTGACTCTTTAAGTTTTTA
1 TTTGATTTGA-T-TTT-AGTTTTTA
8944603 TTTGATTTGATTTTAGTTTTT
1 TTTGATTTGATTTTAGTTTTT
8944624 TTCCCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 1 0.05
25 10 0.48
ACGTcount: A:0.17, C:0.04, G:0.13, T:0.65
Consensus pattern (22 bp):
TTTGATTTGATTTTAGTTTTTA
Found at i:8944869 original size:6 final size:6
Alignment explanation
Indices: 8944858--8944884 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8944848 GAGTCGAATT
8944858 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
8944885 TCGTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:8947229 original size:23 final size:23
Alignment explanation
Indices: 8947161--8947234 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
8947151 ATTGTACTGA
* * *
8947161 AGTGCCACGTATAATTGCACCGG
1 AGTGCCGCGTAGAATTGCACCGT
*
8947184 AATGCCGCGTAGAATTGCACCGT
1 AGTGCCGCGTAGAATTGCACCGT
8947207 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCGCGTAGAATTGCACCGT
8947230 AGTGC
1 AGTGC
8947235 TATATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (23 bp):
AGTGCCGCGTAGAATTGCACCGT
Found at i:8947423 original size:103 final size:103
Alignment explanation
Indices: 8947252--8947469 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
8947242 TAATGTCCAT
* * *
8947252 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGCATGTGTCTCACCA
1 AAGGACCACATATAATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
*
8947317 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAAAACATATATGTCCCG
* *
8947355 AAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATAATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
*
8947420 GACTTCACACATGTTCCAAAGAAAACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAAAACATATATGTCCCG
8947458 AAGGACCACATA
1 AAGGACCACATA
8947470 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATAATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
GACTTCACACATGTTCAAAAGAAAACATATATGTCCCG
Found at i:8952374 original size:23 final size:23
Alignment explanation
Indices: 8952348--8952416 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
8952338 CACCAGAGCT
*
8952348 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
8952371 CGTAGAATTGCACCGAATTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
8952394 CGTAGAATTGCACC-ATAGTGCCA
1 CGTAGAATTGCACCGA-AGTGCCA
8952417 TATAATAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:8952603 original size:103 final size:103
Alignment explanation
Indices: 8952436--8952649 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
8952426 GTCCATAAAC
* *
8952436 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
*
8952501 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATATCCCGAAGG
*
8952539 ACCACATATCATTCCTTAAGAATCATAT-CTATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 ACCACATATCATTCCTTAAGAATCATATAC-ATATACCAAGGATCAAGTATGTGTCTCACCAGAC
8952603 TTCACACATGTTCCAAAGAATACATATATATCCCGAAGG
65 TTCACACATGTTCCAAAGAATACATATATATCCCGAAGG
8952642 ACCACATA
1 ACCACATA
8952650 GACCCTCAAC
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
102 1 0.01
103 105 0.99
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATATCCCGAAGG
Found at i:8958978 original size:165 final size:164
Alignment explanation
Indices: 8958603--8959328 Score: 717
Period size: 165 Copynumber: 4.4 Consensus size: 164
8958593 TTTGACAACG
* * * * * * *
8958603 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATG-C--C-AAAG
1 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAG
*** * * * * * * * * * * * *
8958664 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTACAGCATAACTCAAGGCTATAA
66 ACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* * *
8958729 GGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
130 GGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACA
* * * * * * **
8958767 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACAAAAG
1 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAG
* * * *
8958832 ACCTTTGAGTTCGACTATGCTCAACT-CAACGGCACATCATTTGCAACATAGCTTGAGTCGAGAA
66 ACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* *
8958896 GGGCTATCTGCCAAAGACCCTCGAGTTTGATTACA
130 GGGCTATCTGCCAAAGACCCTCGAGTTCGACTACA
* * * * * *
8958931 CTCATCTTCAAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATATGTGACCAAAA
1 CTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAA
* *
8958996 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
65 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* *
8959061 GGGCTATCTTCCAAAGACCCTCGAGTTCGATTACA
130 GGGCTATCTGCCAAAGACCCTCGAGTTCGACTACA
* * *
8959096 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTC-ACCAAA
1 CTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAA
* *
8959160 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
65 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* * * * *
8959225 GGGTTATCTGCCAACCAAAAAGCCTTCGAGTTTGACTACG
130 GGGCTATCTG----CCAAAGA-CCCTCGAGTTCGACTACA
* * * * * *
8959265 CTCAACTCCAAGACACATCATTTACAGCATAGCTCAAGGCAAAAAGGGTTATCTGTCAATAAAA
1 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAA
8959329 TTGTCGAGTT
Statistics
Matches: 470, Mismatches: 79, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
164 150 0.32
165 185 0.39
166 4 0.01
167 35 0.07
168 69 0.15
169 27 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAG
ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCCTCGAGTTCGACTACA
Found at i:8959940 original size:37 final size:38
Alignment explanation
Indices: 8959889--8960029 Score: 141
Period size: 39 Copynumber: 3.8 Consensus size: 38
8959879 ATATACATAC
8959889 ATATATAT-AT-TATAG-TTTGAAAACATTTTTAAAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTTAAAAA
* *
8959924 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAAC
1 ATATATATAATATATAGTTTTGAAAACAT-TTTTAAAAA
* * * * *
8959963 GTTTATATATTATATAGTTTTTAAAACA-TTTT-GAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTTAAAAA
* * *
8959999 ATA-ATATAATATATAATTTTTAAAACGTTTT
1 ATATATATAATATATAGTTTTGAAAACATTTT
8960030 GAAAGTATTA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
35 29 0.33
36 8 0.09
37 8 0.09
38 11 0.13
39 31 0.36
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTGAAAACATTTTTAAAAA
Found at i:8959970 original size:39 final size:36
Alignment explanation
Indices: 8959889--8960158 Score: 172
Period size: 30 Copynumber: 7.9 Consensus size: 36
8959879 ATATACATAC
* *
8959889 ATATATATATTATAG-TTTGAAAACATTTTTAAAAAATAT
1 ATATA-ATA-TATAGTTTTGAAAACA-TTTT-GAAAATTT
8959928 ATATAATATATAGTTTTGAAAACATGTTTGAAAACGTTT
1 ATATAATATATAGTTTTGAAAACAT-TTTGAAAA--TTT
* * *
8959967 ATATATTATATAGTTTTTAAAACATTTTGAAAA-TA
1 ATATAATATATAGTTTTGAAAACATTTTGAAAATTT
* * *
8960002 ATATAATATATAATTTTTAAAACGTTTTG-AAA---
1 ATATAATATATAGTTTTGAAAACATTTTGAAAATTT
* *
8960034 GTAT--TATATAGTTTTAAAAACATTTTG--AA---
1 ATATAATATATAGTTTTGAAAACATTTTGAAAATTT
*
8960063 A-ATAA-ATATAGTTTTTTAAAACATTTTG-AAA---
1 ATATAATATATAG-TTTTGAAAACATTTTGAAAATTT
* * *
8960094 ACAT-ATATATAGTTTTGAAATCATTTTGAAAA-CT
1 ATATAATATATAGTTTTGAAAACATTTTGAAAATTT
*
8960128 -TAT-ATATATAGTTTTAAAAACATTTTGAAAA
1 ATATAATATATAGTTTTGAAAACATTTTGAAAA
8960159 CTATATAGTT
Statistics
Matches: 199, Mismatches: 19, Indels: 32
0.80 0.08 0.13
Matches are distributed among these distances:
28 2 0.01
29 8 0.04
30 35 0.18
31 18 0.09
32 14 0.07
33 28 0.14
34 3 0.02
35 27 0.14
37 10 0.05
38 24 0.12
39 30 0.15
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATAATATATAGTTTTGAAAACATTTTGAAAATTT
Found at i:8959974 original size:74 final size:73
Alignment explanation
Indices: 8959889--8960159 Score: 196
Period size: 61 Copynumber: 3.9 Consensus size: 73
8959879 ATATACATAC
*
8959889 ATATATATATTATAG-TTTGAAAACATTTTTAAAAAATATATATAATATATAGTTTTGAAAACAT
1 ATATAT-TA-TATAGTTTTGAAAACA-TTTT-AAAAATA-ATATAATATATAATTTTGAAAACAT
8959953 GTTTGAAAACGTTT
61 -TTTGAAAACGTTT
* * * *
8959967 ATATATTATATAGTTTTTAAAACATTTTGAAAATAATATAATATATAATTTTTAAAACGTTTTG-
1 ATATATTATATAGTTTTGAAAACATTTTAAAAATAATATAATATATAATTTTGAAAACATTTTGA
8960031 AAA-G---
66 AAACGTTT
* *
8960035 ---TATTATATAGTTTTAAAAACATTTTGAAAATAA-AT-ATAGT-T--TTTT-AAAACATTTTG
1 ATATATTATATAGTTTTGAAAACATTTTAAAAATAATATAATA-TATAATTTTGAAAACATTTTG
8960091 AAAAC----
65 AAAACGTTT
* * * *
8960096 --ATA-TATATAGTTTTGAAATCATTTTGAAAACT--TAT-ATATATAGTTTTAAAAACATTTTG
1 ATATATTATATAGTTTTGAAAACATTTT-AAAAATAATATAATATATAATTTTGAAAACATTTTG
8960155 AAAAC
65 AAAAC
8960160 TATATAGTTT
Statistics
Matches: 171, Mismatches: 11, Indels: 36
0.78 0.05 0.17
Matches are distributed among these distances:
60 11 0.06
61 33 0.19
62 6 0.04
63 8 0.05
64 19 0.11
65 32 0.19
71 1 0.01
72 3 0.02
73 4 0.02
74 22 0.13
75 6 0.04
76 9 0.05
77 11 0.06
78 6 0.04
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (73 bp):
ATATATTATATAGTTTTGAAAACATTTTAAAAATAATATAATATATAATTTTGAAAACATTTTGA
AAACGTTT
Found at i:8960042 original size:30 final size:31
Alignment explanation
Indices: 8959967--8960193 Score: 225
Period size: 30 Copynumber: 7.3 Consensus size: 31
8959957 GAAAACGTTT
8959967 ATATATTATATAGTTTTTAAAACATTTTGAAAATA
1 ATATA-TATATAGTTTTTAAAACATTTTG--AA-A
* *
8960002 ATATAATATATAATTTTTAAAACGTTTTGAAA
1 ATAT-ATATATAGTTTTTAAAACATTTTGAAA
* *
8960034 GTAT-TATATAGTTTTAAAAACATTTTGAAA
1 ATATATATATAGTTTTTAAAACATTTTGAAA
8960064 ATA-A-ATATAGTTTTTTAAAACATTTTGAAA
1 ATATATATATAG-TTTTTAAAACATTTTGAAA
* * *
8960094 ACATATATATAGTTTTGAAATCATTTTGAAA
1 ATATATATATAGTTTTTAAAACATTTTGAAA
*
8960125 ACTTATATATATAGTTTTAAAAACATTTTG-AA
1 A--TATATATATAGTTTTTAAAACATTTTGAAA
* * *
8960157 A-A-CTATATAG-TTTTGAAACATTTTCAAA
1 ATATATATATAGTTTTTAAAACATTTTGAAA
*
8960185 AAATATATA
1 ATATATATA
8960194 ATATATAATT
Statistics
Matches: 163, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
27 12 0.07
28 10 0.06
29 8 0.05
30 49 0.30
31 19 0.12
32 13 0.08
33 26 0.16
35 25 0.15
36 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (31 bp):
ATATATATATAGTTTTTAAAACATTTTGAAA
Found at i:8960119 original size:61 final size:61
Alignment explanation
Indices: 8959971--8960193 Score: 251
Period size: 61 Copynumber: 3.6 Consensus size: 61
8959961 ACGTTTATAT
* * * **
8959971 ATTATATAGTTTTTAAAACATTTTGAAAATAATATAATATATAATTTTTAAAACGTTTTGAAAGT
1 ATTATATAGTTTTGAAAACATTTTGAAAATAATAT-ATA-GT--TTTTTAAAACATTTTGAAAAC
*
8960036 ATTATATAGTTTTAAAAACATTTTGAAAATAA-ATATAGTTTTTTAAAACATTTTGAAAAC
1 ATTATATAGTTTTGAAAACATTTTGAAAATAATATATAGTTTTTTAAAACATTTTGAAAAC
* *
8960096 ATATATATAGTTTTGAAATCATTTTGAAAACTTATATATATAG-TTTTAAAAACATTTTGAAAAC
1 AT-TATATAGTTTTGAAAACATTTTGAAAA--TA-ATATATAGTTTTTTAAAACATTTTGAAAAC
*
8960160 --TATATAGTTTTG-AAACATTTTCAAAA-AATATATA
1 ATTATATAGTTTTGAAAACATTTTGAAAATAATATATA
8960194 ATATATAATT
Statistics
Matches: 143, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
56 7 0.05
57 1 0.01
60 32 0.22
61 37 0.26
62 1 0.01
63 5 0.03
64 23 0.16
65 37 0.26
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (61 bp):
ATTATATAGTTTTGAAAACATTTTGAAAATAATATATAGTTTTTTAAAACATTTTGAAAAC
Found at i:8960185 original size:27 final size:28
Alignment explanation
Indices: 8960038--8960185 Score: 111
Period size: 33 Copynumber: 5.0 Consensus size: 28
8960028 TTGAAAGTAT
*
8960038 TATATAGTTTTAAAAACATTTTGAAAA-
1 TATATAGTTTTAAAAACATTTTCAAAAC
* *
8960065 TAAATATAGTTTTTTAAAACATTTTGAAAAC
1 T--ATATAG-TTTTAAAAACATTTTCAAAAC
* * *
8960096 ATATATATAGTTTTGAAATCATTTTGAAAAC
1 ---TATATAGTTTTAAAAACATTTTCAAAAC
*
8960127 TTATATATATAGTTTTAAAAACATTTTGAAAAC
1 -----TATATAGTTTTAAAAACATTTTCAAAAC
*
8960160 TATATAGTTTT-GAAACATTTTCAAAA
1 TATATAGTTTTAAAAACATTTTCAAAA
8960186 AATATATAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.13
28 11 0.10
29 6 0.06
30 19 0.18
31 19 0.18
32 6 0.06
33 29 0.28
34 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (28 bp):
TATATAGTTTTAAAAACATTTTCAAAAC
Found at i:8960227 original size:94 final size:89
Alignment explanation
Indices: 8959973--8960230 Score: 238
Period size: 94 Copynumber: 2.8 Consensus size: 89
8959963 GTTTATATAT
* **
8959973 TATATAGTTTTTAAAACATTTTGAAAATAATATAATATATAATTTTTAAAACGTTTT-GAAAGTA
1 TATATAGTTTTTAAAACATTTT-AAAAAAATATAATATATAA-TTTTAAAATATTTTGGAAA-TA
8960037 TTATATAGTTTTAAAAACATTTTGAAAA
63 -TATATAGTTTTAAAAACATTTTGAAAA
* * * * *
8960065 TAAATATAGTTTTTTAAAACATTTT--GAAAACAT-ATATATAGTTTTGAAATCATTTTGAAAAC
1 T--ATATAG-TTTTTAAAACATTTTAAAAAAATATAATATATAATTTTAAAAT-ATTTTG-GAA-
8960127 TTATATATATAGTTTTAAAAACATTTTGAAAA
60 --ATATATATAGTTTTAAAAACATTTTGAAAA
*
8960159 CTATATAG-TTTTGAAACATTTTCAAAAAATATATAATATATAATTTTAAAATATTTTTTTGGAA
1 -TATATAGTTTTTAAAACATTTT-AAAAAA-ATATAATATATAATTTTAAAATA---TTTTGGAA
8960223 ATATATAT
60 ATATATAT
8960231 TATATAGGTT
Statistics
Matches: 134, Mismatches: 14, Indels: 34
0.74 0.08 0.19
Matches are distributed among these distances:
90 7 0.05
91 24 0.18
92 6 0.04
93 8 0.06
94 44 0.33
95 22 0.16
96 16 0.12
97 2 0.01
98 5 0.04
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (89 bp):
TATATAGTTTTTAAAACATTTTAAAAAAATATAATATATAATTTTAAAATATTTTGGAAATATAT
ATAGTTTTAAAAACATTTTGAAAA
Found at i:8960281 original size:26 final size:26
Alignment explanation
Indices: 8960250--8960304 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
8960240 TTTTGGAAAA
*
8960250 TATTTTATT-ATTATTATTATTTATTT
1 TATTTTATTAATT-TCATTATTTATTT
*
8960276 TATTTTATTAATTTCATTCTTTATTT
1 TATTTTATTAATTTCATTATTTATTT
8960302 TAT
1 TAT
8960305 ATTTTTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTATTAATTTCATTATTTATTT
Found at i:8970034 original size:9 final size:9
Alignment explanation
Indices: 8969977--8970056 Score: 58
Period size: 9 Copynumber: 9.0 Consensus size: 9
8969967 TAGGGTTAGT
*
8969977 ATAAAACAA
1 ATAAAATAA
8969986 AT-AAA-AA
1 ATAAAATAA
* *
8969993 TTAAAGTAA
1 ATAAAATAA
*
8970002 ATTAAATTAA
1 A-TAAAATAA
*
8970012 ATTAAATAA
1 ATAAAATAA
*
8970021 A-AAAATGA
1 ATAAAATAA
8970029 ATAAAATAA
1 ATAAAATAA
*
8970038 ATAGAAAAAA
1 ATA-AAATAA
8970048 ATAAAATAA
1 ATAAAATAA
8970057 CATTCAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
7 3 0.05
8 11 0.20
9 25 0.45
10 16 0.29
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (9 bp):
ATAAAATAA
Found at i:8970038 original size:21 final size:19
Alignment explanation
Indices: 8970009--8970056 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
8969999 TAAATTAAAT
*
8970009 TAAATTAAATAAAAAAATGAA
1 TAAAATAAATAAAAAAA--AA
*
8970030 TAAAATAAATAGAAAAAAA
1 TAAAATAAATAAAAAAAAA
8970049 TAAAATAA
1 TAAAATAA
8970057 CATTCAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
21 15 0.60
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
TAAAATAAATAAAAAAAAA
Found at i:8971494 original size:15 final size:15
Alignment explanation
Indices: 8971474--8971508 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8971464 TCGTAGGACC
8971474 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
8971489 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
8971504 ACTAC
1 ACTAC
8971509 AGAACCCTCG
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:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:8978129 original size:15 final size:15
Alignment explanation
Indices: 8978109--8978158 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
8978099 CCGTAGGACC
8978109 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
8978124 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
8978139 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
8978154 ACTAC
1 ACTAC
8978159 AAAACCCTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:8979665 original size:23 final size:23
Alignment explanation
Indices: 8979615--8979665 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8979605 ACCCTAAAGA
8979615 GAAAAAATGAAATAAATAAAAAT
1 GAAAAAATGAAATAAATAAAAAT
* **
8979638 AAAAAACAT-AAATAAATGTAAAT
1 GAAAAA-ATGAAATAAATAAAAAT
8979661 GAAAA
1 GAAAA
8979666 TTATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (23 bp):
GAAAAAATGAAATAAATAAAAAT
Found at i:8980838 original size:22 final size:22
Alignment explanation
Indices: 8980810--8980851 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8980800 CTGAATCCGC
* *
8980810 TCTGAATTGTCTCTCGAACCCG
1 TCTGAATTGGCTCTCAAACCCG
8980832 TCTGAATTGGCTCTCAAACC
1 TCTGAATTGGCTCTCAAACC
8980852 TAATTTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (22 bp):
TCTGAATTGGCTCTCAAACCCG
Found at i:8987211 original size:21 final size:21
Alignment explanation
Indices: 8987187--8987245 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
8987177 AAATTAAAGT
*
8987187 AAATTAAATTAAATTAAATA-A
1 AAATTAAA-TAAAATAAATAGA
*
8987208 AAATTGAATAAAATAAATAGA
1 AAATTAAATAAAATAAATAGA
*
8987229 AAA-AATAATAAAATAAA
1 AAATTA-AATAAAATAAA
8987246 ATTCAAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AAATTAAATAAAATAAATAGA
Found at i:8987220 original size:10 final size:10
Alignment explanation
Indices: 8987171--8987226 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
8987161 AGTATAAAAC
8987171 AAATAAAAATT
1 AAAT-AAAATT
8987182 AAAGT-AAATT
1 AAA-TAAAATT
*
8987192 AAATTAAATT
1 AAATAAAATT
8987202 AAATAAAAATT
1 AAAT-AAAATT
*
8987213 GAATAAAA-T
1 AAATAAAATT
8987222 AAATA
1 AAATA
8987227 GAAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.15
10 21 0.54
11 11 0.28
12 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (10 bp):
AAATAAAATT
Found at i:8987221 original size:16 final size:15
Alignment explanation
Indices: 8987171--8987224 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
8987161 AGTATAAAAC
8987171 AAATAAAAATTAAAGT
1 AAATAAAAATTAAA-T
*
8987187 AAAT-TAAATTAAATT
1 AAATAAAAATTAAA-T
*
8987202 AAATAAAAATTGAAT
1 AAATAAAAATTAAAT
8987217 AAAATAAA
1 -AAATAAA
8987225 TAGAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (15 bp):
AAATAAAAATTAAAT
Found at i:8988410 original size:12 final size:12
Alignment explanation
Indices: 8988395--8988419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8988385 AAACGGAAAT
8988395 TATAAATATATA
1 TATAAATATATA
8988407 TATAAATATATA
1 TATAAATATATA
8988419 T
1 T
8988420 TTAGGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAAATATATA
Found at i:8991559 original size:35 final size:35
Alignment explanation
Indices: 8991513--8991583 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
8991503 TTGTGGTTAT
8991513 AAGCGTCAACCCAGTGTTTTATTCCCGGTCCAAAC
1 AAGCGTCAACCCAGTGTTTTATTCCCGGTCCAAAC
8991548 AAGCGTCAACCCAGTGTTTTATTCCCGGTCCAAAC
1 AAGCGTCAACCCAGTGTTTTATTCCCGGTCCAAAC
8991583 A
1 A
8991584 CATTGAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (35 bp):
AAGCGTCAACCCAGTGTTTTATTCCCGGTCCAAAC
Found at i:8994280 original size:23 final size:23
Alignment explanation
Indices: 8994254--8994323 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
8994244 CACCACAGCC
* *
8994254 CGTATAAATGGACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
8994277 CGTAGAATTTGTACCGAAGTGCCG
1 CGTAGAA-ATGCACCGAAGTGCCA
*
8994301 CGTAGAAATGCACCGGAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
8994324 TATAAAATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 18 0.47
24 20 0.53
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:8997375 original size:3 final size:3
Alignment explanation
Indices: 8997362--8997432 Score: 94
Period size: 3 Copynumber: 24.3 Consensus size: 3
8997352 TTTTTCCATC
8997362 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT A-T
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
8997406 ATT TTT AAT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8997433 AAAATAATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8998705 original size:21 final size:20
Alignment explanation
Indices: 8998638--8998776 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 20
8998628 AAATGACCAA
***
8998638 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
8998658 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
8998678 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
8998699 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
8998720 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
8998740 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
8998761 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
8998777 ACACATAAAT
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.47
21 46 0.52
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:8998818 original size:20 final size:20
Alignment explanation
Indices: 8998744--8998972 Score: 239
Period size: 20 Copynumber: 11.4 Consensus size: 20
8998734 GATTTTCCAG
* ** *
8998744 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
8998764 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
8998784 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8998804 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
8998824 AATCGCAACGCATATCCTTA
1 AATCGCAACGCGTATCCGTA
*
8998844 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
8998864 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8998884 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
8998904 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
8998924 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
8998944 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
8998964 AATCACAAC
1 AATCGCAAC
8998973 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 173 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:8999513 original size:20 final size:20
Alignment explanation
Indices: 8999488--8999673 Score: 241
Period size: 20 Copynumber: 9.3 Consensus size: 20
8999478 AGAAGTAGTA
*
8999488 CGCAACGCGTATCCGTAAAC
1 CGCAACGCGTATCCGTAAAT
*
8999508 CGCAACGTGTATCCGTAAAT
1 CGCAACGCGTATCCGTAAAT
8999528 CGCAACGCGTATCCGTAAAT
1 CGCAACGCGTATCCGTAAAT
*
8999548 CGCAATGCGTATCCGTAAAT
1 CGCAACGCGTATCCGTAAAT
8999568 CGCAACGCGTATCCGTAAAT
1 CGCAACGCGTATCCGTAAAT
*
8999588 CGCAACG-ATAATCCGTAAAT
1 CGCAACGCGT-ATCCGTAAAT
* * *
8999608 CGCAACGAGAATCTGTAAAT
1 CGCAACGCGTATCCGTAAAT
*
8999628 CGCAACG-ATAATCCGTAAAT
1 CGCAACGCGT-ATCCGTAAAT
* * *
8999648 CGCAACGAGAATCTGTAAAT
1 CGCAACGCGTATCCGTAAAT
8999668 CGCAAC
1 CGCAAC
8999674 ACTGAAATTT
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.01
20 146 0.99
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
CGCAACGCGTATCCGTAAAT
Found at i:9000130 original size:701 final size:701
Alignment explanation
Indices: 8998787--9000188 Score: 2732
Period size: 701 Copynumber: 2.0 Consensus size: 701
8998777 ACACATAAAT
* *
8998787 CGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGCATATCCTTAAATCGCAA
1 CGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCATATCCGTAAATCGCAA
8998852 TGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGA
66 TGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGA
8998917 ATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATT
131 ATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATT
*
8998982 TTGGGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCA
196 TTGGGTATATAACTACGCAACAACAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCA
*
8999047 TCTCCATCTATCACTCTCTCTGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGG
261 TCTCCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGG
8999112 CAACAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAA
326 CAACAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAA
8999177 TGTTGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTAC
391 TGTTGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTAC
8999242 AATATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACT
456 AATATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACT
8999307 CTAATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCA
521 CTAATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCA
8999372 GAGAAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTA
586 GAGAAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTA
8999437 GTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
651 GTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
*
8999488 CGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAA
1 CGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCATATCCGTAAATCGCAA
8999553 TGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGA
66 TGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGA
*
8999618 ATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACACTGAAATT
131 ATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATT
8999683 TTGGGTATATAACTACGCAACAACAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCA
196 TTGGGTATATAACTACGCAACAACAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCA
8999748 TCTCCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGG
261 TCTCCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGG
8999813 CAACAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAA
326 CAACAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAA
*
8999878 TGTTGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGATAATGTTCATGGTGTTTTAC
391 TGTTGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTAC
8999943 AATATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACT
456 AATATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACT
9000008 CTAATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCA
521 CTAATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCA
*
9000073 GAGAAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAATGATTCATTGCTTACATTA
586 GAGAAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTA
9000138 GTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
651 GTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
9000189 TTGTTGGGTC
Statistics
Matches: 693, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
701 693 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (701 bp):
CGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCATATCCGTAAATCGCAA
TGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGA
ATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATT
TTGGGTATATAACTACGCAACAACAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCA
TCTCCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGG
CAACAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAA
TGTTGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTAC
AATATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACT
CTAATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCA
GAGAAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTA
GTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
Found at i:9000393 original size:24 final size:24
Alignment explanation
Indices: 9000366--9000412 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9000356 AAATTTGGTC
9000366 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
* *
9000390 TTGGTTAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
9000413 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:9001481 original size:19 final size:19
Alignment explanation
Indices: 9001443--9001621 Score: 234
Period size: 19 Copynumber: 9.8 Consensus size: 19
9001433 GATACCTTGA
9001443 AAAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
9001463 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
9001482 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
9001501 AAAATCGCAA--CG--A-G
1 AAAATCGCAATGCGAAATG
*
9001515 AGAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
9001535 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
9001554 AAAATCGCAA--CG--A-G
1 AAAATCGCAATGCGAAATG
*
9001568 AGAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
9001588 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
9001607 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
9001622 TTCTCTCGTT
Statistics
Matches: 142, Mismatches: 5, Indels: 25
0.83 0.03 0.15
Matches are distributed among these distances:
14 20 0.14
15 2 0.01
16 2 0.01
17 6 0.04
19 73 0.51
20 39 0.27
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:9001540 original size:53 final size:53
Alignment explanation
Indices: 9001465--9001615 Score: 295
Period size: 53 Copynumber: 2.9 Consensus size: 53
9001455 CGGAAATGAA
9001465 AATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
9001517 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
9001570 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
9001616 TTGCGATTCT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 11 0.11
53 87 0.89
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:9001605 original size:72 final size:71
Alignment explanation
Indices: 9001443--9001621 Score: 238
Period size: 72 Copynumber: 2.5 Consensus size: 71
9001433 GATACCTTGA
* *
9001443 AAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 AAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATGAAAATCG
9001508 CAACGAG
66 CAAC-AG
* *
9001515 AGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAAT
1 AAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA-AAT-GAAAAT
*
9001579 GCGGAA-ATG
64 -CGCAACA-G
*
9001588 AAAATCGCAATGC-GAAATGAAAATCGCATTGCGA
1 AAAATCGCAATGCGGAAATGAAAATCGCAATGCGA
9001622 TTCTCTCGTT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
72 72 0.75
73 19 0.20
74 5 0.05
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (71 bp):
AAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATGAAAATCG
CAACAG
Found at i:9001655 original size:53 final size:52
Alignment explanation
Indices: 9001592--9001707 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 52
9001582 GAAATGAAAA
* *
9001592 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCAATTTTCATT
** ** **
9001644 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCAATTTTCATT
9001697 TCGCATTGCGA
1 TCGCATTGCGA
9001708 TTTTCATTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 11 0.20
53 44 0.80
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCAATTTTCATT
Found at i:9001722 original size:53 final size:53
Alignment explanation
Indices: 9001611--9001728 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 53
9001601 GAAATGAAAA
*
9001611 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCATTGCGATTTTCATT
9001664 TCGCATTGCGATTCTCTCGTTGCAATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCATTGCGATTTTCATT
9001716 TCCGCATTGCGAT
1 T-CGCATTGCGAT
9001729 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 19 0.30
53 44 0.70
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:9001736 original size:20 final size:19
Alignment explanation
Indices: 9001630--9001728 Score: 127
Period size: 20 Copynumber: 5.4 Consensus size: 19
9001620 GATTCTCTCG
9001630 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
9001650 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
9001669 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
9001683 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9001702 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
9001722 TTGCGAT
1 TTGCGAT
9001729 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
17 7 0.10
19 24 0.35
20 26 0.38
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:9001854 original size:14 final size:14
Alignment explanation
Indices: 9001835--9001871 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9001825 CATCAATTAA
9001835 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
9001849 ACAAATCATCTTTT
1 ACAAATCAACTTTT
9001863 ACAAATCAA
1 ACAAATCAA
9001872 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:9003836 original size:19 final size:19
Alignment explanation
Indices: 9003794--9003947 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
9003784 TAGTTTACTT
* *
9003794 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
9003814 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
9003833 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
9003852 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9003871 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
9003885 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9003904 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
9003918 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9003937 TCGCAATGCGA
1 TCGCAACGCGA
9003948 TTTTGGTTTC
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
14 17 0.16
15 1 0.01
16 7 0.07
17 7 0.07
18 1 0.01
19 62 0.58
20 12 0.11
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:9003896 original size:33 final size:33
Alignment explanation
Indices: 9003812--9003942 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
9003802 CGAAACTTAA
* *
9003812 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
9003850 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
9003883 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
9003916 AATCACAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
9003943 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
33 58 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:9003939 original size:52 final size:51
Alignment explanation
Indices: 9003811--9003947 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 51
9003801 ACGAAACTTA
* * * * *
9003811 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCACAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* * * **
9003862 AAATGAAAATCGC--AACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCACAA-CGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
9003914 AGAATCACAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCACAACGCGAAATGAAAATCGCAATGCGA
9003948 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 46 0.69
53 7 0.10
54 4 0.06
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (51 bp):
AAATCACAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:9003966 original size:19 final size:19
Alignment explanation
Indices: 9003943--9004034 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
9003933 AAAATCGCAA
9003943 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
9003962 AGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
9003976 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
9003995 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
9004009 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
9004028 TGCGATT
1 TGCGATT
9004035 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 22 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 29 0.50
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:9003982 original size:14 final size:14
Alignment explanation
Indices: 9003963--9004017 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
9003953 GTTTCGCGTA
9003963 GCGATTTTGTCGTT
1 GCGATTTTGTCGTT
9003977 GCGATTTTGGTTTCGCGTT
1 GCGATTTT-G--T--CGTT
*
9003996 GCGATTCTGTCGTT
1 GCGATTTTGTCGTT
9004010 GCGATTTT
1 GCGATTTT
9004018 CATTTCGCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.32
ACGTcount: A:0.07, C:0.16, G:0.29, T:0.47
Consensus pattern (14 bp):
GCGATTTTGTCGTT
Found at i:9003985 original size:33 final size:33
Alignment explanation
Indices: 9003943--9004066 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
9003933 AAAATCGCAA
* *
9003943 TGCGATTTTGGTTTCGCGTAGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
9003976 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
9004009 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
9004042 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
9004067 AAGTAAACTG
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:9004044 original size:14 final size:14
Alignment explanation
Indices: 9003992--9004048 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
9003982 TTTGGTTTCG
*
9003992 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
9004006 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
9004025 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
9004039 CGTTGCGATT
1 CGTTGCGATT
9004049 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9004259 original size:82 final size:86
Alignment explanation
Indices: 9004163--9004374 Score: 324
Period size: 93 Copynumber: 2.4 Consensus size: 86
9004153 TCAGGGTATT
9004163 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAA-C-C-A-AAAGACAAATACTATT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCACAACAAAGACAAATACTATT
9004224 TCACAGTGTTAAAGAATACAC
66 TCACAGTGTTAAAGAATACAC
9004245 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-----AC--AACAAAGACAAA
9004310 TACTATTTCACAGTGTTAAAGAATACAC
59 TACTATTTCACAGTGTTAAAGAATACAC
*
9004338 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
9004375 AAGCAATCTA
Statistics
Matches: 118, Mismatches: 1, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
82 42 0.36
83 1 0.01
89 1 0.01
92 1 0.01
93 73 0.62
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (86 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCACAACAAAGACAAATACTATT
TCACAGTGTTAAAGAATACAC
Found at i:9006086 original size:20 final size:20
Alignment explanation
Indices: 9006056--9006119 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
9006046 TTTTGGTTGA
9006056 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
9006076 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
9006096 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
9006117 AAT
1 AAT
9006120 CGCAATGCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:9006107 original size:21 final size:21
Alignment explanation
Indices: 9006054--9006118 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
9006044 TCTTTTGGTT
9006054 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
**
9006075 G-AATGACTATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
9006095 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
9006116 GAA
1 GAA
9006119 TCGCAATGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:9006122 original size:14 final size:14
Alignment explanation
Indices: 9006103--9006159 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
9006093 GAGAAATGAA
9006103 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
9006117 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
9006136 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
9006150 CATCGCAACG
1 AATCGCAACG
9006160 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:9006134 original size:33 final size:33
Alignment explanation
Indices: 9006054--9006176 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 33
9006044 TCTTTTGGTT
*
9006054 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGAGA
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAAC--GC
*
9006095 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
9006128 GAAATGAAAATCGCAACGAGAGCATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
9006161 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
9006177 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
33 48 0.62
35 7 0.09
37 2 0.03
38 1 0.01
39 3 0.04
41 17 0.22
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:9006250 original size:21 final size:20
Alignment explanation
Indices: 9006204--9006296 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 20
9006194 GTTGCGATTC
9006204 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGATTTTCATTT
*
9006223 TCGCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCA-TTT
**
9006244 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GATTTTCATTT
*
9006265 TCGCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
9006285 CTCTCGTTGCGA
1 -TCTCGTTGCGA
9006297 CTCTTCTGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
19 16 0.26
20 9 0.15
21 31 0.50
22 6 0.10
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:9006267 original size:42 final size:40
Alignment explanation
Indices: 9006201--9006296 Score: 147
Period size: 42 Copynumber: 2.4 Consensus size: 40
9006191 CGCGTTGCGA
**
9006201 TTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATTTTCAT
*
9006241 TTTTCTCGTTGCAGATAGTCATTTTCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGC-GATAGTCA-TTTCGCGTTGCGATTTTCAT
9006283 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
9006297 CTCTTCTGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 11 0.22
41 8 0.16
42 31 0.62
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.48
Consensus pattern (40 bp):
TTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATTTTCAT
Found at i:9006418 original size:33 final size:33
Alignment explanation
Indices: 9006376--9006446 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
9006366 AATACTAACT
9006376 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
*
9006409 TGAAAATCGCAACGAGAGAATCGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
9006442 TGAAA
1 TGAAA
9006447 TCTAAGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.10
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:9006422 original size:19 final size:19
Alignment explanation
Indices: 9006398--9006446 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
9006388 CGAGAGAATA
9006398 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
9006417 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
9006431 GCAACGCGAAATGAAA
1 GCAACGCGAAATGAAA
9006447 TCTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 10
0.66 0.06 0.29
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 2 0.09
17 2 0.09
18 1 0.04
19 7 0.30
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:9006432 original size:14 final size:14
Alignment explanation
Indices: 9006380--9006436 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
9006370 CTAACTTGAA
9006380 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
9006394 AATAGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
9006413 AATCGCAACGAGAG
1 AATCGCAACGAGAG
9006427 AATCGCAACG
1 AATCGCAACG
9006437 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:9006851 original size:20 final size:20
Alignment explanation
Indices: 9006826--9007018 Score: 255
Period size: 20 Copynumber: 9.6 Consensus size: 20
9006816 CTTTAAAAAT
9006826 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9006846 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
9006866 TGCCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
9006887 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9006907 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
9006927 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9006947 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
9006967 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
9006987 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
9007007 CGCGTTGCGATT
1 CGCGTTGCGATT
9007019 CTGGAAAATC
Statistics
Matches: 154, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
20 136 0.88
21 18 0.12
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:9007240 original size:2 final size:2
Alignment explanation
Indices: 9007233--9007287 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
9007223 TCTAATCTTA
*
9007233 AT AT AT AT AT AT AT TT AT -T 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 AT
9007274 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
9007288 GTTTATTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9007315 original size:21 final size:22
Alignment explanation
Indices: 9007291--9007337 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9007281 TATATATGTT
*
9007291 TATTTTCA-TTTTTACCATATA
1 TATTTGCAGTTTTTACCATATA
*
9007312 TATTTGGATGTTTTTACCATATA
1 TATTTGCA-GTTTTTACCATATA
9007335 TAT
1 TAT
9007338 GGTATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
23 16 0.73
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.55
Consensus pattern (22 bp):
TATTTGCAGTTTTTACCATATA
Found at i:9008075 original size:2 final size:2
Alignment explanation
Indices: 9008068--9008093 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9008058 TTGTTCCTTC
9008068 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
9008094 GAAGCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9009691 original size:19 final size:19
Alignment explanation
Indices: 9009667--9009708 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9009657 ATATCTTTTC
*
9009667 TTTCATACTT-CCTTACTCT
1 TTTCATA-TTACCTTACACT
9009686 TTTCATATTACCTTACACT
1 TTTCATATTACCTTACACT
9009705 TTTC
1 TTTC
9009709 TAGTAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTCATATTACCTTACACT
Found at i:9011226 original size:24 final size:23
Alignment explanation
Indices: 9011191--9011260 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
9011181 CACCACAGCT
*
9011191 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
9011214 CGTAGAATTTGCATCGAAGTGCCG
1 CGTAGAA-ATGCACCGAAGTGCCA
9011238 CGTAGAAATGCACC-AGAGTGCCA
1 CGTAGAAATGCACCGA-AGTGCCA
9011261 TATAAAATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 17 0.45
24 20 0.53
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:9013720 original size:21 final size:21
Alignment explanation
Indices: 9013673--9013725 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9013663 TTTCCAGACT
* * *
9013673 CGCAACGCAAACTTCGACTAT
1 CGCAATGCGAACTTCGACTAC
*
9013694 CGCAATGCGAACTTGGACTAC
1 CGCAATGCGAACTTCGACTAC
9013715 CGCAATGCGAA
1 CGCAATGCGAA
9013726 TATGTAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (21 bp):
CGCAATGCGAACTTCGACTAC
Found at i:9013740 original size:20 final size:20
Alignment explanation
Indices: 9013715--9013845 Score: 201
Period size: 20 Copynumber: 6.5 Consensus size: 20
9013705 CTTGGACTAC
9013715 CGCAATGCGAATATGTAAAT
1 CGCAATGCGAATATGTAAAT
9013735 CGCAATGCGAATATGTAAAT
1 CGCAATGCGAATATGTAAAT
9013755 CGCAATGCGAATATGTAAAT
1 CGCAATGCGAATATGTAAAT
9013775 CGCAATGCGAATATGTAAAT
1 CGCAATGCGAATATGTAAAT
***
9013795 CGCAATGCG-ATAGTCGGCTAT
1 CGCAATGCGAATA-T-GTAAAT
9013816 CGCAATGCGAATATGTAAAT
1 CGCAATGCGAATATGTAAAT
*
9013836 CGCATTGCGA
1 CGCAATGCGA
9013846 TAGTCGACTA
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
19 3 0.03
20 82 0.81
21 13 0.13
22 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (20 bp):
CGCAATGCGAATATGTAAAT
Found at i:9013819 original size:21 final size:21
Alignment explanation
Indices: 9013793--9014010 Score: 142
Period size: 21 Copynumber: 10.8 Consensus size: 21
9013783 GAATATGTAA
* *
9013793 ATCGCAATGCGATAGTCGGCT
1 ATCGCATTGCGATAGTCGACT
* *
9013814 ATCGCAATGCGAATA-T-GTA-A
1 ATCGCATTGCG-ATAGTCG-ACT
9013834 ATCGCATTGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
9013855 ATCGCATTGCGATAGTC--C-
1 ATCGCATTGCGATAGTCGACT
* *
9013873 A----ATTGTGATAGTCGGCT
1 ATCGCATTGCGATAGTCGACT
* *
9013890 ATCGCAATGCGAATA-T-GTA-A
1 ATCGCATTGCG-ATAGTCG-ACT
* *
9013910 ATCGTAATGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
* *
9013931 ATCGCATTGCGATAGTCCAAGT
1 ATCGCATTGCGATAGT-CGACT
*
9013953 -TCGCATTGCGACAGTCGACT
1 ATCGCATTGCGATAGTCGACT
* *
9013973 ATCGCATTGCGATAGTCCAAGT
1 ATCGCATTGCGATAGT-CGACT
9013995 -TCGCATTGCGATAGTC
1 ATCGCATTGCGATAGTC
9014011 CAAAATCGCA
Statistics
Matches: 156, Mismatches: 21, Indels: 41
0.72 0.10 0.19
Matches are distributed among these distances:
14 11 0.07
16 1 0.01
17 1 0.01
18 1 0.01
19 7 0.04
20 30 0.19
21 93 0.60
22 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:9013830 original size:41 final size:41
Alignment explanation
Indices: 9013733--9013984 Score: 258
Period size: 41 Copynumber: 6.3 Consensus size: 41
9013723 GAATATGTAA
*
9013733 ATCGCAATGCGAATATGTAAATCGCAATGCGAATA-T-GTA-A
1 ATCGCAATGCGAATATGTAAATCGCAATGCG-ATAGTCG-ACT
*
9013773 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGGCT
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
*
9013814 ATCGCAATGCGAATATGTAAATCGCATTGCGATAGTCGACT
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
* * *
9013855 ATCGCATTGCG-ATA-G----TC-CAATTGTGATAGTCGGCT
1 ATCGCAATGCGAATATGTAAATCGCAA-TGCGATAGTCGACT
*
9013890 ATCGCAATGCGAATATGTAAATCGTAATGCGATAGTCGACT
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
* * * *
9013931 ATCGCATTGCG-ATA-GTCCAAGTTCGCATTGCGACAGTCGACT
1 ATCGCAATGCGAATATGT--AA-ATCGCAATGCGATAGTCGACT
*
9013973 ATCGCATTGCGA
1 ATCGCAATGCGA
9013985 TAGTCCAAGT
Statistics
Matches: 180, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
34 2 0.01
35 24 0.13
36 3 0.02
37 1 0.01
39 6 0.03
40 38 0.21
41 76 0.42
42 30 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
Found at i:9013909 original size:76 final size:76
Alignment explanation
Indices: 9013733--9013950 Score: 282
Period size: 76 Copynumber: 2.8 Consensus size: 76
9013723 GAATATGTAA
* *
9013733 ATCGCAATGCGAATATGTAAATCGCAATGCGAATA-T-GTA-AATCGCAATGCGAATATGTAAAT
1 ATCGCAATGCGAATATGTAAATCGCAATGCG-ATAGTCG-ACTATCGCATTGCG-ATA-G----T
*
9013795 CGCAA-TGCGATAGTCGGCT
58 C-CAATTGTGATAGTCGGCT
*
9013814 ATCGCAATGCGAATATGTAAATCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAATTGT
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCATTGCGATAGTCCAATTGT
9013879 GATAGTCGGCT
66 GATAGTCGGCT
*
9013890 ATCGCAATGCGAATATGTAAATCGTAATGCGATAGTCGACTATCGCATTGCGATAGTCCAA
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCATTGCGATAGTCCAA
9013951 GTTCGCATTG
Statistics
Matches: 127, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
75 3 0.02
76 74 0.58
80 4 0.03
81 35 0.28
82 11 0.09
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (76 bp):
ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCATTGCGATAGTCCAATTGT
GATAGTCGGCT
Found at i:9014020 original size:42 final size:42
Alignment explanation
Indices: 9013917--9014010 Score: 179
Period size: 42 Copynumber: 2.2 Consensus size: 42
9013907 TAAATCGTAA
9013917 TGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAT
*
9013959 TGCGACAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAT
9014001 TGCGATAGTC
1 TGCGATAGTC
9014011 CAAAATCGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (42 bp):
TGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAT
Found at i:9014142 original size:5 final size:6
Alignment explanation
Indices: 9014103--9014139 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
9014093 GACACGTATT
9014103 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
9014140 CGAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:9014738 original size:21 final size:21
Alignment explanation
Indices: 9014713--9014849 Score: 129
Period size: 23 Copynumber: 6.4 Consensus size: 21
9014703 ATTTTGGACT
9014713 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
9014734 ATCGCAACGCGAATTTGGAATAA
1 ATCGCAA--CGAACTTGGAATAA
* *
9014757 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
9014778 ATTGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
9014799 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
9014820 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
9014841 ATCGCAACG
1 ATCGCAACG
9014850 CAAACTTAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.20
21 35 0.37
23 40 0.43
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:9014789 original size:42 final size:42
Alignment explanation
Indices: 9014734--9014868 Score: 216
Period size: 42 Copynumber: 3.2 Consensus size: 42
9014724 CTTGGAATAA
9014734 ATCGCAACGCGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
9014778 ATTGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
9014820 ATCGCAACGAACTTGGAATAAATCGCAACGCAAACTTAGACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
9014862 ATCGCAA
1 ATCGCAA
9014869 TGCGAATATG
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
42 80 0.93
44 6 0.07
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:9014865 original size:21 final size:20
Alignment explanation
Indices: 9014757--9014868 Score: 75
Period size: 21 Copynumber: 5.3 Consensus size: 20
9014747 TTTGGAATAA
*
9014757 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGC-AACTTAGACT
* * * *
9014778 ATTGCAACG-AATTTGGAAT
1 ATCGCAACGCAACTTAGACT
*
9014797 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGC-AACTTAGACT
* *
9014820 ATCGCAACG-AACTTGGAAT
1 ATCGCAACGCAACTTAGACT
9014839 AAATCGCAACGCAAACTTAGACT
1 --ATCGCAACGC-AACTTAGACT
9014862 ATCGCAA
1 ATCGCAA
9014869 TGCGAATATG
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
19 15 0.21
21 41 0.58
23 15 0.21
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCAACTTAGACT
Found at i:9020059 original size:23 final size:23
Alignment explanation
Indices: 9020039--9020135 Score: 140
Period size: 23 Copynumber: 4.2 Consensus size: 23
9020029 TAAATGCATT
*
9020039 GAAGTGCCACGTAGAATTGCACC
1 GAAGTGCCGCGTAGAATTGCACC
* *
9020062 GAAGTGTCGCGTAGAATTGCGCC
1 GAAGTGCCGCGTAGAATTGCACC
*
9020085 GAAGTGCCGCGTAGAATTGCGCC
1 GAAGTGCCGCGTAGAATTGCACC
* *
9020108 GAAGTGCCGTGAAGAATTGCACC
1 GAAGTGCCGCGTAGAATTGCACC
9020131 GAAGT
1 GAAGT
9020136 TCCATATAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.19
Consensus pattern (23 bp):
GAAGTGCCGCGTAGAATTGCACC
Found at i:9025129 original size:26 final size:25
Alignment explanation
Indices: 9025083--9025139 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
9025073 CTTACTTACT
* *
9025083 TATTTTATATTTATGTATTCTATATG
1 TATTTTAAATTTATCTATTCT-TATG
*
9025109 TATTTTAAATTTTATCT-TTCTTATT
1 TATTTTAAA-TTTATCTATTCTTATG
9025134 TATTTT
1 TATTTT
9025140 TTATTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.33
26 12 0.44
27 6 0.22
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTTAAATTTATCTATTCTTATG
Found at i:9032555 original size:133 final size:128
Alignment explanation
Indices: 9032363--9032624 Score: 443
Period size: 133 Copynumber: 2.0 Consensus size: 128
9032353 TCCTAATAAA
*
9032363 TGAATTTTTGGGTTTTTTTAAATTAAAAACGCCATCTCTTCTTAGAGTTTGAAAAAAATTAATGA
1 TGAATTTTGGGGTTTTTTTAAATTAAAAACGCCATCTCTTCTTAGAGTTTGAAAAAAATTAATGA
*
9032428 TATTAGAGATTAAAAAAGGTATAATGTTAAAATTAGTCTCTAATGTTTTTTTAAAAATAATTAT
66 TATTAGAGATTAAAAAAGGTATAATGTTAAAATTAGTCTCTAATG-TTTATTAAAAATAATTAT
* *
9032492 TGAATTTTGGGGTTTTTTTAAAATTAAAAACGCTATCTCCTCTTCTTAGGGTTTGAAAAAAATTA
1 TGAATTTTGGGGTTTTTTT-AAATTAAAAACGCCA--T-CTCTTCTTAGAGTTTGAAAAAAATTA
9032557 ATGATATTAGAGATTAAAAAAGGTATAATGTTAAAATTAGTCTCTAATGTTTATTAAAAATAATT
62 ATGATATTAGAGATTAAAAAAGGTATAATGTTAAAATTAGTCTCTAATGTTTATTAAAAATAATT
9032622 AT
127 AT
9032624 T
1 T
9032625 TTGATATTTT
Statistics
Matches: 125, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
129 18 0.14
130 14 0.11
132 19 0.15
133 74 0.59
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.41
Consensus pattern (128 bp):
TGAATTTTGGGGTTTTTTTAAATTAAAAACGCCATCTCTTCTTAGAGTTTGAAAAAAATTAATGA
TATTAGAGATTAAAAAAGGTATAATGTTAAAATTAGTCTCTAATGTTTATTAAAAATAATTAT
Found at i:9035854 original size:182 final size:182
Alignment explanation
Indices: 9035547--9036402 Score: 1316
Period size: 182 Copynumber: 4.7 Consensus size: 182
9035537 TGTCGGTTTA
* * * * * *
9035547 TGTCGATACTTTATAAAAATGTATCGATCCATATCAATATAACAGATAAAAATATGATAAAATCG
1 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * *
9035612 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
9035677 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
9035729 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
9035794 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
9035859 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
* * * * *
9035911 TATCGATATTTTATAACAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
9035976 GTCTCTAAAGGACAAAACCGATATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATT
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* * *
9036041 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCTTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
* * * *
9036093 TGTCGATACTTTATAACAATGTATCAATCCACAACGATATAACAAGTAAAAATATGACAAAACCT
1 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
9036158 GTCTCTAAAGGACAAAATCGGTATAGAGCGACTGGATATATTGAAAGTGTCGATACTTCAATATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* * *
9036223 AATATTGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
*
9036275 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * * * *
9036340 GTCTCGAAATGACAAATCTGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATA
9036403 AGTACGCGTA
Statistics
Matches: 615, Mismatches: 59, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
182 615 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
Found at i:9038701 original size:19 final size:19
Alignment explanation
Indices: 9038677--9038725 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
9038667 AATGTAGGGT
9038677 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
9038696 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
9038715 TAATTTTGTAT
1 TAATTTTGTAT
9038726 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:9039986 original size:603 final size:598
Alignment explanation
Indices: 9039083--9040636 Score: 2148
Period size: 603 Copynumber: 2.6 Consensus size: 598
9039073 ATATATGTTA
* * **
9039083 ATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAT
* * * * *
9039148 TTTGTAATATAACCGATATAAATATACC-ATTTTATGTGAGAATAGGTCTACATAGTGTATCAAC
66 TTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGAC
* * * *
9039212 ACTTTTGAAATTGGTATCGATACTTTTTGTCCAGAATGAATGCCCAAGATGGTGAACGCATAAAG
131 ACTTTTG-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAG
*
9039277 TGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
195 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
9039342 GTAAATTTACAATGTAACCGATATAACTATATCGATTTTATGAGAGAATATGTCTACATAATGTA
260 GTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTA
*
9039407 TCGACACTTCTTGAATTTGTATCGATA-TTGTTTGTCCAGAAGGAATGCCC-AAAAGGGTACACC
325 TCGACACTT-TTGAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGGGTACACC
* * * *
9039470 CATAAAGTATCGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATAAT
388 CATAAAGTATCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAAT
* * * * *
9039535 GTAATAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTATA
453 GTAATAGGTAAATTT-CAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAA
* * * * * *
9039600 TAATGTATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
517 AAAAGTATCGACACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGA
*
9039665 GAACGCATAAAGTGTCG
582 GAACCCATAAAGTGTCG
* * * * * *
9039682 ATACATTTTTAAAAATTGTCGATCTCAGAGACATCGAAACTCATAATTATAATATAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAT
* * *
9039747 TTTGTAATGTAACTGGTATAAATTTACCGGTTTTATGTGAGAATAGGTCTATATAATGTATCGAC
66 TTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGAC
* *
9039812 ACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATTATGGTGCACGCATA
131 ACTTTTGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAA--ATGGTGCACGCATA
*
9039877 AAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATGATTATAATGTAA
192 AAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * * * * *
9039942 TAGGTAATTTTTCAATGTAATCGATATAAATATACCGGTTTTATGCGAGACTAGGTCTAGAAAAT
257 TAGGTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAAT
* * *
9040007 GTATCGATACTTTTGTATTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCA
322 GTATCGACACTTTTG-AATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTACA
* * * *
9040072 CCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCTCAAAAACATCGAAATAGATAATTATA
386 CCCATAAAGTATCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACACATAATTATA
9040137 ATGTAATAGGTAAATTTCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATATGTCTAA
451 ATGTAATAGGTAAATTTCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATATGTCTAA
* * * *
9040202 AAAAAGTATCGACTCTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCTAAAAGGG
516 AAAAAGTATCGACACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGG
9040267 AGAACCCATAAAGTGTCG
581 AGAACCCATAAAGTGTCG
* * *
9040285 ATACATTTTTAAAAAGTGTCAATCCCAAAAATATAGAAA-TAGATAATTATAATGTAATAGGTAA
1 ATACATTTTTAAAAAGTGTCAATCCCAAAAACATCGAAACT-CATAATTATAATGTAATAGGTAA
* * * * *
9040349 ATTT-CAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACAAAATGTATCGA
65 TTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGA
* * * *
9040413 CACTTTTGGAATTTGTGTCGATACTTTTTGTCTAGAAGGAATGCCCAAAAGGGTGCACCCATAAA
130 CACTTTT-GAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAA
* * * * *
9040478 GTGTTGATACATTTTTAAAAAGTTTCGATCCCAAAAACATCGAAACCGATAATTATAATGAAATA
194 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
9040543 GGTAAATTTCCAATGTAACCGGTATAAATATATCGGTTTTATGAGAAAATAGGTC-AGTATAAAG
259 GGTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTA-CATAATG
* *
9040607 TATCGACAATTGTTAAATTTGTGTCGATAC
323 TATCGACACTT-TTGAATTTGTGTCGATAC
9040637 CATTTTAAAA
Statistics
Matches: 836, Mismatches: 107, Indels: 24
0.86 0.11 0.02
Matches are distributed among these distances:
598 1 0.00
599 230 0.28
600 72 0.09
601 5 0.01
602 96 0.11
603 347 0.42
604 85 0.10
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (598 bp):
ATACATTTTTAAAAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAT
TTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGAC
ACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAGT
GTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
CGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTACACCCAT
AAAGTATCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTA
ATAGGTAAATTTCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAAAAAA
GTATCGACACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGAGAAC
CCATAAAGTGTCG
Found at i:9040303 original size:199 final size:200
Alignment explanation
Indices: 9039083--9040636 Score: 1988
Period size: 200 Copynumber: 7.8 Consensus size: 200
9039073 ATATATGTTA
* * * * *
9039083 ATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * * * *
9039148 TTTGTAATATAACCGATATAAATATACC-ATTTTATGTGAGAATAGGTCTACATAGTGTATCAAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* * * * * * *
9039212 ACTTTTGAAATTGGTATCGATACTTTTTGTCCAGAATGAATGCCCAAGATGGTGAACGCATAAAG
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
9039277 TGTCG
196 TGTCG
* * *
9039282 ATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * * *
9039347 TTTACAATGTAACCGATATAACTATATCGATTTTATGAGAGAATATGTCTACATAATGTATCGAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* *
9039412 ACTTCTTG-AATTTGTATCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAGGGTACACCCATAA
131 ACTT-TTGAAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAA
*
9039475 AGTATCG
194 AGTGTCG
* * * *
9039482 ATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * *
9039547 TTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTATATAATGTATCGAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* * * * *
9039612 ACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAG
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
9039677 TGTCG
196 TGTCG
* * * * * * *
9039682 ATACATTTTTAAAAATTGTCGATCTCAGAGACATCGAAACTCATAATTATAATATAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * *
9039747 TTTGTAATGTAACTGGTATAAATTTACCGGTTTTATGTGAGAATAGGTCTATATAATGTATCGAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* * * * * *
9039812 ACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATTATGGTGCACGCATA
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAA--AGGGTGCACCCATA
9039877 AAGTGTCG
193 AAGTGTCG
* * * *
9039885 ATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATGATTATAATGTAATAGGTAAT
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * * * * *
9039950 TTTTCAATGTAATCGATATAAATATACCGGTTTTATGCGAGACTAGGTCTAGAAAATGTATCGAT
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* *
9040015 ACTTTTGTATTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCACCCATAAA
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGCACCCATAAA
9040080 GTGTCG
195 GTGTCG
* ***
9040086 ATACATTTTTAAAAAGTGTCGATCTCAAAAACATCGAAATAGATAATTATAATGTAATAGGTAAA
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * *
9040151 TTT-CAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAAAAAAGTATCGAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* * * * * *
9040215 TCTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCTAAAAGGGAGAACCCATAAAG
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
9040280 TGTCG
196 TGTCG
* * * ***
9040285 ATACATTTTTAAAAAGTGTCAATCCCAAAAATATAGAAATAGATAATTATAATGTAATAGGTAAA
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* *
9040350 TTT-CAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACAAAATGTATCGAC
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
* *
9040414 ACTTTTGGAATTTGTGTCGATACTTTTTGTCTAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
131 ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
*
9040479 TGTTG
196 TGTCG
* * *
9040484 ATACATTTTTAAAAAGTTTCGATCCCAAAAACATCGAAACCGATAATTATAATGAAATAGGTAAA
1 ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
* * * * *
9040549 TTTCCAATGTAACCGGTATAAATATATCGGTTTTATGAGAAAATAGGTC-AGTATAAAGTATCGA
66 TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAATGTATCGA
*
9040613 CAATTGTT-AAATTTGTGTCGATAC
130 CACTT-TTGAAATTTGTGTCGATAC
9040637 CATTTTAAAA
Statistics
Matches: 1210, Mismatches: 134, Indels: 21
0.89 0.10 0.02
Matches are distributed among these distances:
199 357 0.30
200 587 0.49
201 90 0.07
203 176 0.15
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
ATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAA
TTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGAC
ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAG
TGTCG
Found at i:9041303 original size:2 final size:2
Alignment explanation
Indices: 9041296--9041385 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
9041286 ATGGGGAATG
9041296 AT 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 AT
9041338 AT 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 AT
9041380 AT AT AT
1 AT AT AT
9041386 GCATATACTA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9042224 original size:18 final size:18
Alignment explanation
Indices: 9042186--9042225 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9042176 CAAGAGGTCA
*
9042186 ATGAAGATGAAGATGACG
1 ATGAAGATGAAGATAACG
* *
9042204 ATGAAGATGATGATAATG
1 ATGAAGATGAAGATAACG
9042222 ATGA
1 ATGA
9042226 TCCAAACAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.23
Consensus pattern (18 bp):
ATGAAGATGAAGATAACG
Found at i:9044300 original size:200 final size:199
Alignment explanation
Indices: 9043779--9044546 Score: 1077
Period size: 200 Copynumber: 3.9 Consensus size: 199
9043769 TAAAGTTTCC
9043779 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
* * *
9043844 GTAATAGGTAAATTTACAATGTGACCGGTATAAATATACCGATTTTATGAGCAAATAGGTCAGT-
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-TA
* * ***** * * *
9043908 -ATAAAGTATCGACACATTTTAAATTTGTGTCGATACTTTTTGTCCAAGCCTTTGCTCAACGAGC
130 CATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCAAATGAATGCTAAACGGGG
*
9043972 TTCACG
194 TGCACG
*
9043978 CATAAAAGTGTCGATACA--TTTAAAATTGTATCGATCCAAAAAACATCGAAACCAAAAATTATA
1 CAT-AAAGTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCGAAACCAAAAATTATA
* *
9044041 ATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAGGT-AT
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAT
*
9044105 ACATAATGTATCGACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGGATGCTAAACGG
129 ACATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCCA-AATGAATGCTAAACGG
*
9044170 GGTGCACA
192 GGTGCACG
* * * * *
9044178 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAATATCAAAAACGATAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCAAAAATTATAA
* *
9044242 TGTAATAGGTAAATTTACAATGTAACCGGTATAAGTATACCGGTTTTATGAGAAAATAGGTGA-A
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATA
* * *
9044306 CATAATGTATCGACACTTTTTAGATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAATGGG
130 CATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCA-AATGAATGCTAAACGGG
9044371 GTGCACG
193 GTGCACG
*
9044378 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAACATCGAAACCGAAAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCAAAAATTATAA
* *
9044442 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTTA-A
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATA
* *
9044506 CATAATGTATCAACACTTTTAAATTTGTGTCGATACGTTTT
130 CATAATGTATCGACACTTTTAAATTTGTGTCGATACATTTT
9044547 TAAATTACAC
Statistics
Matches: 515, Mismatches: 43, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
197 1 0.00
198 9 0.02
199 175 0.34
200 320 0.62
201 10 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATAC
ATAATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCCAAATGAATGCTAAACGGGGTG
CACG
Found at i:9044529 original size:399 final size:399
Alignment explanation
Indices: 9043779--9044546 Score: 1136
Period size: 399 Copynumber: 1.9 Consensus size: 399
9043769 TAAAGTTTCC
* *
9043779 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCAAAAACAAAAATTATAAT
* * **
9043844 GTAATAGGTAAATTTACAATGTGACCGGTATAAATATACCGATTTTATGAGCAAATAGGTCAGTA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
* ** * ** *
9043909 TAAAGTATCGACACATTTTAAATTTGTGTCGATACTTTTTGTCCAAGCCTTTGCTCAACGAGCTT
131 TAAAGTATCGACACATTTTAAATTTGTGTCGATACATTTTGTCCAAGAATATGCAAAACGAGCTG
*
9043974 CACGCATAAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACATCGAAACCAAAAATTA
196 CACGCATAAAAGTGTCGATACATTTAAAATAGTATCGATCCAAAAAACATCGAAACCAAAAATTA
*
9044039 TAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAGGTA
261 TAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTA
*
9044104 TACATAATGTATCGACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGGATGCTAAACG
326 TACATAATGTATCAACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGGATGCTAAACG
9044169 GGGTGCACA
391 GGGTGCACA
* * *
9044178 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAATATCAAAAACGATAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCAAAAACAAAAATTATAA
* * *
9044242 TGTAATAGGTAAATTTACAATGTAACCGGTATAAGTATACCGGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
* * * * *
9044307 ATAATGTATCGACACTTTTTAGATTTGTGTCGATACATTTTGTCC-AGAATGAATGCAAAATGGG
130 ATAAAGTATCGACACATTTTAAATTTGTGTCGATACATTTTGTCCAAGAAT--ATGCAAAACGAG
* *
9044371 GTGCACGCAT-AAAGTGTCGATACATTTTTAAAA-AGTATCGATCTC-AAAAACATCGAAACCGA
193 CTGCACGCATAAAAGTGTCGATACA--TTTAAAATAGTATCGATC-CAAAAAACATCGAAACCAA
* *
9044433 AAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAA
255 AAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAA
*
9044498 TAGGT-TAACATAATGTATCAACACT-TTTAAATTTGTGTCGATACGTTTT
320 TAGGTAT-ACATAATGTATCAACACTGTTTAAATTTGTGTCGATACATTTT
9044547 TAAATTACAC
Statistics
Matches: 330, Mismatches: 32, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
398 3 0.01
399 194 0.59
400 125 0.38
401 8 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (399 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCAAAAACAAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
TAAAGTATCGACACATTTTAAATTTGTGTCGATACATTTTGTCCAAGAATATGCAAAACGAGCTG
CACGCATAAAAGTGTCGATACATTTAAAATAGTATCGATCCAAAAAACATCGAAACCAAAAATTA
TAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTA
TACATAATGTATCAACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGGATGCTAAACG
GGGTGCACA
Found at i:9045714 original size:19 final size:19
Alignment explanation
Indices: 9045687--9045735 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9045677 AATGTAGGGT
9045687 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
9045706 TAATGTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
9045725 TAATTTTGTAT
1 TAATTTTGTAT
9045736 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:9048727 original size:200 final size:198
Alignment explanation
Indices: 9048370--9048846 Score: 663
Period size: 200 Copynumber: 2.4 Consensus size: 198
9048360 TGTCCAAAAT
9048370 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAATAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AACATCGAAACCGATAATTATAATG
* * * * *
9048435 TAATAGGTAAATTTACAATGCAACTGGTATAAATATACCGGTTTTATAAGAAAATAGGCCAGCAT
65 TAATAGGTAAATTTACAACGCAACTGATAGAAATATACCAGTTTTATAAGAAAATAGGCCAGAAT
* * * *
9048500 AAAGTATCGACGCCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAACGGGGTG
130 AAAGTATCAACACCATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGCCAAACGAGGTG
9048565 CACGC
194 CACGC
*
9048570 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCA-AAACATCGAAACCGATAATTATAATG
* * * *
9048635 TGATAGGTAAATTTACAACG-TACTCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTA-A
65 TAATAGGTAAATTTACAACGCAACT-GATAGAAATATACCAGTTTTATAAGAAAATAGG-CCAGA
* ** * *
9048698 ATAATGTATCAACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGT
128 ATAAAGTATCAACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGT
* *
9048763 TCATGC
193 GCACGC
** *
9048769 ATAAAGTGTCGATACATTTA-TAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCC-CAAAACATCGAAACCGATAATTATAATG
9048833 TAATAGGTAAATTT
65 TAATAGGTAAATTT
9048847 GCACTGTTAC
Statistics
Matches: 247, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
198 51 0.21
199 49 0.20
200 144 0.58
201 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAACGCAACTGATAGAAATATACCAGTTTTATAAGAAAATAGGCCAGAATA
AAGTATCAACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTGCA
CGC
Found at i:9048941 original size:23 final size:23
Alignment explanation
Indices: 9048885--9048941 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
9048875 TTACTTAGAA
*
9048885 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
9048909 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
9048932 AATATGTTAT
1 AATATGTTAT
9048942 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:9049216 original size:7 final size:7
Alignment explanation
Indices: 9049204--9049260 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
9049194 TCTTACGATG
9049204 GGGTTTA
1 GGGTTTA
9049211 GGGTTTA
1 GGGTTTA
* *
9049218 AGGTTAA
1 GGGTTTA
* *
9049225 AGATTTA
1 GGGTTTA
*
9049232 GGGTTAA
1 GGGTTTA
* *
9049239 AGATTTA
1 GGGTTTA
9049246 GGGTTTA
1 GGGTTTA
9049253 GGGTTTA
1 GGGTTTA
9049260 G
1 G
9049261 TACCTAAACT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:9049233 original size:21 final size:21
Alignment explanation
Indices: 9049207--9049259 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9049197 TACGATGGGG
*
9049207 TTTAGGGTTTAAGGTTAAAGA
1 TTTAGGGTTTAAGATTAAAGA
* * * *
9049228 TTTAGGGTTAAAGATTTAGGG
1 TTTAGGGTTTAAGATTAAAGA
9049249 TTTAGGGTTTA
1 TTTAGGGTTTA
9049260 GTACCTAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
TTTAGGGTTTAAGATTAAAGA
Found at i:9049260 original size:14 final size:14
Alignment explanation
Indices: 9049214--9049250 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9049204 GGGTTTAGGG
*
9049214 TTTAAGGTTAAAGA
1 TTTAGGGTTAAAGA
9049228 TTTAGGGTTAAAGA
1 TTTAGGGTTAAAGA
9049242 TTTAGGGTT
1 TTTAGGGTT
9049251 TAGGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (14 bp):
TTTAGGGTTAAAGA
Found at i:9051151 original size:35 final size:35
Alignment explanation
Indices: 9051067--9051161 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 35
9051057 TAGATATTAC
* * * *
9051067 TTTAATTTGAAATATTAAAAAGAATATAATTATCT
1 TTTAATTTGAAAAATTAAAAAGAATACAAATACCT
* *
9051102 TTTAATATT-CAAAATTAAACAGACA-ACAAATACCT
1 TTTAAT-TTGAAAAATTAAAAAGA-ATACAAATACCT
*
9051137 TTTAATTTGAAAAATT-TAAAGAATA
1 TTTAATTTGAAAAATTAAAAAGAATA
9051162 ATTATCCTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
33 1 0.02
34 7 0.15
35 36 0.77
36 3 0.06
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (35 bp):
TTTAATTTGAAAAATTAAAAAGAATACAAATACCT
Found at i:9052952 original size:58 final size:57
Alignment explanation
Indices: 9052859--9052974 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 57
9052849 CTAACCCGAG
* * ** *
9052859 TATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTATAGTCCCAA
1 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCATTAAGTATA-TCCCAA
* *
9052917 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCATTTAGTGTATCCCAA
1 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCATTAAGTATATCCCAA
9052974 T
1 T
9052975 TTGTAGCCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 7 0.14
58 44 0.86
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (57 bp):
TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCATTAAGTATATCCCAA
Found at i:9053326 original size:24 final size:24
Alignment explanation
Indices: 9053265--9053333 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
9053255 CTTCCTGATA
* *
9053265 ATGTATAAAACATATGTGTACATG
1 ATGTATAAAACATCTATGTACATG
*
9053289 ATGTATAAAACATCTCTGTACATG
1 ATGTATAAAACATCTATGTACATG
9053313 ATGTATAAAACATCTATGTAC
1 ATGTATAAAACATCTATGTAC
9053334 TATGTCATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
ATGTATAAAACATCTATGTACATG
Found at i:9054553 original size:30 final size:30
Alignment explanation
Indices: 9054519--9054607 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
9054509 CATTTTTAAT
*
9054519 TTTTCCAAAATTTCAT-TTTAGTCCCTAAAC
1 TTTTCCAAAATTT-ATATTTAGTCACTAAAC
* *
9054549 TTTT-CAAAGTTTATACTTTGGTCACTAAAC
1 TTTTCCAAAATTTATA-TTTAGTCACTAAAC
* *
9054579 TTTACC-AAATTTATAATTTGGTCACTAAA
1 TTTTCCAAAATTTAT-ATTTAGTCACTAAA
9054608 TAAATTCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.04
29 7 0.14
30 39 0.78
31 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTTCCAAAATTTATATTTAGTCACTAAAC
Found at i:9055798 original size:22 final size:22
Alignment explanation
Indices: 9055773--9055825 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9055763 AACAATATTG
* *
9055773 TGAACAGTAATGTACAATACCA
1 TGAAAAGTAATGAACAATACCA
* *
9055795 TGAAAAATAATGAACAATACTA
1 TGAAAAGTAATGAACAATACCA
*
9055817 TGAATAGTA
1 TGAAAAGTA
9055826 CCGCATGCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (22 bp):
TGAAAAGTAATGAACAATACCA
Found at i:9055880 original size:21 final size:22
Alignment explanation
Indices: 9055854--9055904 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
9055844 TAGAATGCTA
*
9055854 TGCTACAGGGTATCGATACCC-
1 TGCTACAGGGTACCGATACCCT
**
9055875 TGCTACAATGTACCGATACCCT
1 TGCTACAGGGTACCGATACCCT
9055897 TGCTACAG
1 TGCTACAG
9055905 TAATTTCGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (22 bp):
TGCTACAGGGTACCGATACCCT
Found at i:9056611 original size:22 final size:22
Alignment explanation
Indices: 9056585--9056646 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
9056575 GGAATACGAA
*
9056585 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
* *
9056607 ATTTGTCCCGAAGGACATCTGT
1 ATTTGTCCCGAAGGACCTATGT
*
9056629 ATATGTCCCGAAGGACCT
1 ATTTGTCCCGAAGGACCT
9056647 CATAGACCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:9060515 original size:31 final size:31
Alignment explanation
Indices: 9060479--9060538 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
9060469 AACTTAAAAA
* *
9060479 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
9060510 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
9060539 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:9061202 original size:19 final size:18
Alignment explanation
Indices: 9061144--9061205 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
9061134 AACTTAAATC
*
9061144 AAAATAATTAATATAATTAT
1 AAAATAATTTATAT-A-TAT
9061164 AAAAT--TTTAATAATATAT
1 AAAATAATTT-AT-ATATAT
9061182 AAAATAATTTATATGATAT
1 AAAATAATTTATAT-ATAT
9061201 AAAAT
1 AAAAT
9061206 TAAATATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
18 12 0.33
19 14 0.39
20 10 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATAATTTATATATAT
Found at i:9061224 original size:35 final size:38
Alignment explanation
Indices: 9061144--9061224 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
9061134 AACTTAAATC
*
9061144 AAAATAATTAATATAATTATAAAATTTTAATAATATAT
1 AAAATAATTAATATAATTATAAAATTTAAATAATATAT
* * *
9061182 AAAATAATTTATATGA-TATAAAA-TTAAAT-ATCTAT
1 AAAATAATTAATATAATTATAAAATTTAAATAATATAT
*
9061217 AATATAAT
1 AAAATAAT
9061225 ATTAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 12 0.32
36 5 0.13
37 7 0.18
38 14 0.37
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
AAAATAATTAATATAATTATAAAATTTAAATAATATAT
Done.