Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 62 of 325
Found at i:19052641 original size:15 final size:14
Alignment explanation
Indices: 19052610--19052646 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
19052600 AAAACTATAG
*
19052610 TTATTATTATATTA
1 TTATTATTATATCA
19052624 TTATTATTAATATCA
1 TTATTATT-ATATCA
19052639 TTATTATT
1 TTATTATT
19052647 TTTTAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTATTATATCA
Found at i:19055749 original size:9 final size:9
Alignment explanation
Indices: 19055733--19055811 Score: 113
Period size: 9 Copynumber: 8.8 Consensus size: 9
19055723 GGTATTTTTT
19055733 GGTAATTCG
1 GGTAATTCG
*
19055742 GTTAATTCG
1 GGTAATTCG
*
19055751 GTTAATTCG
1 GGTAATTCG
*
19055760 GTTAATTCG
1 GGTAATTCG
*
19055769 GATAATTCG
1 GGTAATTCG
19055778 GGTAATTCG
1 GGTAATTCG
19055787 GGTAATTCG
1 GGTAATTCG
*
19055796 AGTAATTCG
1 GGTAATTCG
19055805 GGTAATT
1 GGTAATT
19055812 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 65 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:19055989 original size:12 final size:12
Alignment explanation
Indices: 19055972--19055996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19055962 AGTAATTTCG
19055972 GGTCGGTTAACC
1 GGTCGGTTAACC
19055984 GGTCGGTTAACC
1 GGTCGGTTAACC
19055996 G
1 G
19055997 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:19060779 original size:3 final size:3
Alignment explanation
Indices: 19060771--19060795 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19060761 ATGGTTGTTC
19060771 GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT G
19060796 ATATGTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:19063134 original size:29 final size:29
Alignment explanation
Indices: 19063091--19063153 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
19063081 TGGTATTGAT
* *
19063091 ATTTTTAATAATTTTTTTTATAATTTTATA
1 ATTTTTAATAATTTTTTTAAAAATTTTA-A
*
19063121 ATTTTT-ATGATTTTTTTAAAAATTTTAA
1 ATTTTTAATAATTTTTTTAAAAATTTTAA
19063149 ATTTT
1 ATTTT
19063154 AAAGTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 6 0.20
29 18 0.60
30 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
ATTTTTAATAATTTTTTTAAAAATTTTAA
Found at i:19068187 original size:166 final size:166
Alignment explanation
Indices: 19067913--19068244 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 166
19067903 TACTATGTTC
*
19067913 CTACTCTCAGTGGTCCATAATTATATCTTTTATTTTCTTTATGTTTGTATTTACTTTAGGGAATG
1 CTACTCTCAGTGGTCCATAATTATATCTTTTATTTTCTTTATGTTTGCATTTACTTTAGGGAATG
*
19067978 TAACAAATTTGGTAGGGCAGACTTCTAAACACCTCTATTGATCTTTTATTTTATAATAACCATCA
66 TAACAAATTTGGTAGGGCAGACTTCTAAACACCTCTATTGATCTTTTATTTCATAATAACCATCA
19068043 TAAACATACGTGGATTTTAAATCAGAATCTATCTAT
131 TAAACATACGTGGATTTTAAATCAGAATCTATCTAT
19068079 CTACTCTCAGTGGTCCATAATTATATCTTTTATTTTCTTTATGTTTGCATTTACTTTAGGGAATG
1 CTACTCTCAGTGGTCCATAATTATATCTTTTATTTTCTTTATGTTTGCATTTACTTTAGGGAATG
19068144 TAACAAATTTGGTAGGGCAGACTTCTAAACACCTCTATTGATCTTTTATTTCATAATAACCATCA
66 TAACAAATTTGGTAGGGCAGACTTCTAAACACCTCTATTGATCTTTTATTTCATAATAACCATCA
19068209 TAAACATACGTGGATTTTAAATCAGAATCTATCTAT
131 TAAACATACGTGGATTTTAAATCAGAATCTATCTAT
19068245 TCATGTTGTC
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (166 bp):
CTACTCTCAGTGGTCCATAATTATATCTTTTATTTTCTTTATGTTTGCATTTACTTTAGGGAATG
TAACAAATTTGGTAGGGCAGACTTCTAAACACCTCTATTGATCTTTTATTTCATAATAACCATCA
TAAACATACGTGGATTTTAAATCAGAATCTATCTAT
Found at i:19074532 original size:46 final size:43
Alignment explanation
Indices: 19074448--19074571 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 43
19074438 AGATGAGTGC
* * *
19074448 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAATT
1 TAGTGTAAGACATGTATGGGACATGCATCGG-CTCGAGACGT--GT
* *
19074494 TAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGT
1 TAGTGTAAGACATGTATGGGACATGCATCGGCT-CGAGACGTGT
*
19074538 CAGTGTAAGACCATGTATGGGACATGGCATCGGC
1 TAGTGTAAGA-CATGTATGGGACAT-GCATCGGC
19074572 ACCTTACCCC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
44 10 0.14
45 15 0.22
46 44 0.64
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGTGTAAGACATGTATGGGACATGCATCGGCTCGAGACGTGT
Found at i:19074570 original size:92 final size:94
Alignment explanation
Indices: 19074401--19074571 Score: 226
Period size: 92 Copynumber: 1.8 Consensus size: 94
19074391 TTTGAGAGCC
* * *
19074401 AGTGTAAGACCATTTTTAGGACATGACATCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCTA
1 AGTGTAAGACCATGTTTAGGACATGACATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTATA
19074466 GGACATGCATCGGCCTCGAGACGTAATTT
66 GGACATGCATCGGCCTCGAGACGTAATTT
* *
19074495 AGTGTAAGA-CATGTTTGGGACATG-CATCGGC-TACGAGATGTGT-C-AGTGTAAGACCATGTA
1 AGTGTAAGACCATGTTTAGGACATGACATCGGCAT-CGAGATGAGTGCTAGTGTAAGA-CATGTA
*
19074555 TGGGACATGGCATCGGC
64 TAGGACAT-GCATCGGC
19074572 ACCTTACCCC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 9 0.13
91 14 0.21
92 23 0.34
93 13 0.19
94 9 0.13
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
AGTGTAAGACCATGTTTAGGACATGACATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTATA
GGACATGCATCGGCCTCGAGACGTAATTT
Found at i:19079393 original size:13 final size:13
Alignment explanation
Indices: 19079375--19079399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19079365 GCATAGGAAC
19079375 TTTATTTTACTTA
1 TTTATTTTACTTA
19079388 TTTATTTTACTT
1 TTTATTTTACTT
19079400 TGTTAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTACTTA
Found at i:19088557 original size:17 final size:17
Alignment explanation
Indices: 19088535--19088567 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19088525 AGTCTCTATC
*
19088535 AGTTTTGCTACAGTCTT
1 AGTTTTACTACAGTCTT
19088552 AGTTTTACTACAGTCT
1 AGTTTTACTACAGTCT
19088568 CAGTAAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (17 bp):
AGTTTTACTACAGTCTT
Found at i:19090240 original size:21 final size:21
Alignment explanation
Indices: 19090216--19090266 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
19090206 CAATTATCCC
19090216 AAATTAATCACCTAAAA-AGAT
1 AAATTAATCACCTAAAATA-AT
19090237 AAATTAATCACCTAAAATAAT
1 AAATTAATCACCTAAAATAAT
19090258 AAATTAATC
1 AAATTAATC
19090267 TAACTCACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATCACCTAAAATAAT
Found at i:19095311 original size:22 final size:22
Alignment explanation
Indices: 19095286--19095329 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19095276 AATTATTAAC
19095286 ATAATGAATTTTAATAAATTTT
1 ATAATGAATTTTAATAAATTTT
* * *
19095308 ATAATTAATTTTCATTAATTTT
1 ATAATGAATTTTAATAAATTTT
19095330 GGTTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATGAATTTTAATAAATTTT
Found at i:19099130 original size:23 final size:22
Alignment explanation
Indices: 19099104--19099151 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
19099094 CAATTTCATC
19099104 CTAATCTAAATT-CACTTCCTTTT
1 CTAA-CTAAATTACACTT-CTTTT
* *
19099127 CTAACTCAATTATACTTCTTTT
1 CTAACTAAATTACACTTCTTTT
19099149 CTA
1 CTA
19099152 CTTAATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (22 bp):
CTAACTAAATTACACTTCTTTT
Found at i:19099806 original size:32 final size:30
Alignment explanation
Indices: 19099769--19099841 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
19099759 ATTATTTAAT
* *
19099769 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATCT-ACTT-A-AATAAAAAG
19099801 TAATAAATATCTATCTACTTAAATAAAAAG
1 TAATAAATATCTATCTACTTAAATAAAAAG
19099831 TAAATAAATAT
1 T-AATAAATAT
19099842 TTATGTTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.24
31 10 0.27
32 16 0.43
33 2 0.05
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
TAATAAATATCTATCTACTTAAATAAAAAG
Found at i:19101019 original size:38 final size:38
Alignment explanation
Indices: 19100968--19101063 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 38
19100958 CCATCTCCAT
*
19100968 CCAACCC-ATCACACCATGTGGGGATAGAATCAACCCAC
1 CCAACCCTA-CACACCATATGGGGATAGAATCAACCCAC
** *
19101006 CCAACCCTACACACCAAGTATGGGGATTTAATCAACCCAT
1 CCAACCCTACACACC-A-TATGGGGATAGAATCAACCCAC
19101046 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
19101064 AGGAACCACA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
38 15 0.29
39 3 0.06
40 33 0.65
ACGTcount: A:0.35, C:0.38, G:0.11, T:0.16
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
Found at i:19101041 original size:40 final size:40
Alignment explanation
Indices: 19100986--19101061 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
19100976 TCACACCATG
19100986 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
** *
19101026 TGGGGATTTAATCAACCCATCCAACCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
19101062 TAAGGAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.36, G:0.13, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:19104337 original size:42 final size:42
Alignment explanation
Indices: 19104278--19104362 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
19104268 TTTTATACTT
19104278 AGGAGAGCAGAGGAGAGCGAAAGGAACGAGAAACGGTCTAAA
1 AGGAGAGCAGAGGAGAGCGAAAGGAACGAGAAACGGTCTAAA
19104320 AGGAGAGCAGAGGAGAGCGAAAGGAACGAGAAACGGTCTAAA
1 AGGAGAGCAGAGGAGAGCGAAAGGAACGAGAAACGGTCTAAA
19104362 A
1 A
19104363 ATAGAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.12, G:0.38, T:0.05
Consensus pattern (42 bp):
AGGAGAGCAGAGGAGAGCGAAAGGAACGAGAAACGGTCTAAA
Found at i:19107210 original size:51 final size:51
Alignment explanation
Indices: 19107132--19107259 Score: 220
Period size: 51 Copynumber: 2.5 Consensus size: 51
19107122 AAATGATGAT
*
19107132 GAAAAAAAAGAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAA-AGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
19107184 GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
* *
19107235 GAAAGAAAAAGAAGGAAAAAGAGCT
1 GAAAGAAAAAGAAAGAAAAAAAGCT
19107260 TTGAGGAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 65 0.89
52 8 0.11
ACGTcount: A:0.51, C:0.10, G:0.23, T:0.16
Consensus pattern (51 bp):
GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
Found at i:19108496 original size:40 final size:40
Alignment explanation
Indices: 19108391--19108637 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
19108381 GGATTGATAA
* *
19108391 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
19108431 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19108470 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19108510 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19108550 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19108590 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
19108630 CC-GGCTAA
1 CCGGGCTAA
19108638 ACTCCAAAGG
Statistics
Matches: 194, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 43 0.22
40 151 0.78
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19110195 original size:27 final size:26
Alignment explanation
Indices: 19110142--19110195 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
19110132 TTCAATTTAC
* *
19110142 ACTACCTAGAGTGTTTCAATAAGCAT
1 ACTACCTACAGTGTTTCAATAAACAT
19110168 ACTACCTACAGTAGTTTC-ATAACACAT
1 ACTACCTACAGT-GTTTCAATAA-ACAT
19110195 A
1 A
19110196 TACAGCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
ACTACCTACAGTGTTTCAATAAACAT
Found at i:19115648 original size:16 final size:16
Alignment explanation
Indices: 19115618--19115650 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19115608 TATTCAAATA
19115618 ATTATCAAAATATTAT
1 ATTATCAAAATATTAT
19115634 ATTAT-AAAATAATTAT
1 ATTATCAAAAT-ATTAT
19115650 A
1 A
19115651 AAGTCCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTATCAAAATATTAT
Found at i:19117340 original size:23 final size:22
Alignment explanation
Indices: 19117314--19117361 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
19117304 CAATTTAATC
19117314 CTAATCTAAATT-CACTTCCTTTT
1 CTAA-CTAAATTACACTT-CTTTT
* *
19117337 CTAACTCAATTATACTTCTTTT
1 CTAACTAAATTACACTTCTTTT
19117359 CTA
1 CTA
19117362 CTTACTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (22 bp):
CTAACTAAATTACACTTCTTTT
Found at i:19117718 original size:20 final size:20
Alignment explanation
Indices: 19117693--19117733 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19117683 CCTAGTTTTT
19117693 CCTTTTCTTCCTTTCTTTCC
1 CCTTTTCTTCCTTTCTTTCC
19117713 CCTTTTCTTCCTTTCTTTCC
1 CCTTTTCTTCCTTTCTTTCC
19117733 C
1 C
19117734 GTTTGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (20 bp):
CCTTTTCTTCCTTTCTTTCC
Found at i:19118017 original size:32 final size:30
Alignment explanation
Indices: 19117980--19118061 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
19117970 ATTATTTAAT
*
19117980 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATTT-ACTT-A-AATAAAAAG
19118012 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
19118042 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
19118062 AATTGTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 20 0.44
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:19124177 original size:48 final size:48
Alignment explanation
Indices: 19124119--19124439 Score: 328
Period size: 48 Copynumber: 6.7 Consensus size: 48
19124109 TATGTGTGGT
*
19124119 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * * * * * *
19124167 AGTGTAAGACCATGTTTGGAACATAGCATTGGCGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* *
19124215 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAG-AGCC
* * * * ** * *
19124263 AGTGTAAAACCATGTCTGGGGCATGGTATCAGCCACAACATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * * *
19124311 AGTGTAAGACCATGTCTGGGATATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCC
* *
19124359 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCAACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-GATATG-AGAGCC
* *
19124407 AGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
19124440 AATTCACCCT
Statistics
Matches: 220, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 5 0.02
48 210 0.95
49 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
Found at i:19124411 original size:144 final size:144
Alignment explanation
Indices: 19124118--19124436 Score: 367
Period size: 144 Copynumber: 2.2 Consensus size: 144
19124108 ATATGTGTGG
* * ** * * *
19124118 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCATGATATGAGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATAAGAGCCAGTGTAAGACCATGTC
* * *
19124183 TGGAACATAGCATTGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
66 TGGAACATAGCATCGGCGATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
** *
19124248 ATTGATATGTGCAC
131 ATCAACATGTGCAC
* * *
19124262 TAGTGTAAAACCATGTCTGGGGCATGGTATCAGCCACAACATAAGAGCCAGTGTAAGACCATGTC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATAAGAGCCAGTGTAAGACCATGTC
* * * *
19124327 TGGGATATGGCATCGGC-AT-TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
66 TGGAACATAGCATCGGCGATGT-AG-CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
*
19124390 GCCTCAACATGTAAGC-C
129 GCATCAACATGT--GCAC
* *
19124407 -AGTGTAAGACCATGTTTGGAACATGGCATC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC
19124437 GGCAATTCAC
Statistics
Matches: 145, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 138 0.95
145 1 0.01
146 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATAAGAGCCAGTGTAAGACCATGTC
TGGAACATAGCATCGGCGATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
ATCAACATGTGCAC
Found at i:19143719 original size:46 final size:46
Alignment explanation
Indices: 19143652--19143744 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
19143642 TTTTTATGGA
19143652 ATGTTTTTTCGGATGTTATTAAGCATGTTGATAATAAATTGAGTTT
1 ATGTTTTTTCGGATGTTATTAAGCATGTTGATAATAAATTGAGTTT
19143698 ATGTTTTTTCGGATGTTATTAAGCATGTTGATAATAAATTGAGTTT
1 ATGTTTTTTCGGATGTTATTAAGCATGTTGATAATAAATTGAGTTT
19143744 A
1 A
19143745 ATTAAAGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.47
Consensus pattern (46 bp):
ATGTTTTTTCGGATGTTATTAAGCATGTTGATAATAAATTGAGTTT
Found at i:19146062 original size:27 final size:27
Alignment explanation
Indices: 19146032--19146186 Score: 136
Period size: 27 Copynumber: 5.7 Consensus size: 27
19146022 TGCTATTCAC
* *
19146032 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
19146059 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
19146086 TTAGATTCGCACA-TTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
19146113 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
19146140 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
19146167 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
19146187 TGTACAATTT
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
26 10 0.10
27 84 0.82
28 8 0.08
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:19146103 original size:54 final size:55
Alignment explanation
Indices: 19146037--19146187 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 55
19146027 TTCACTCAAC
* * *
19146037 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
19146092 TCGCACA-TTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
19146145 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
19146188 GTACAATTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
53 11 0.14
54 60 0.77
55 7 0.09
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:19154092 original size:27 final size:27
Alignment explanation
Indices: 19154062--19154217 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
19154052 TGCTATTCAC
* *
19154062 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
19154089 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
19154116 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
19154144 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
19154171 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
19154198 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
19154218 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:19154133 original size:55 final size:55
Alignment explanation
Indices: 19154067--19154218 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
19154057 TTCACTCAAC
* * *
19154067 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
19154122 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
19154176 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
19154219 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:19162202 original size:27 final size:27
Alignment explanation
Indices: 19162172--19162326 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
19162162 TGCTATTCAC
* *
19162172 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * *
19162199 TCAAATCGCAC-CTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
19162225 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
19162253 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
19162280 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
19162307 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
19162327 TGTACAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.14
27 74 0.71
28 15 0.14
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:19162235 original size:54 final size:55
Alignment explanation
Indices: 19162177--19162327 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
19162167 TTCACTCAAC
* *
19162177 TCGCACACTTAGTGCCACGTAATCAAATCGCAC-CTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
19162231 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
19162285 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
19162328 GTACAATTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 68 0.85
55 12 0.15
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:19163732 original size:12 final size:12
Alignment explanation
Indices: 19163715--19163739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19163705 ATGAAGCCCC
19163715 CCTTTTTTTTTT
1 CCTTTTTTTTTT
19163727 CCTTTTTTTTTT
1 CCTTTTTTTTTT
19163739 C
1 C
19163740 ATCACATTTC
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
CCTTTTTTTTTT
Found at i:19167379 original size:19 final size:19
Alignment explanation
Indices: 19167351--19167392 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19167341 TCATTCGAAA
* *
19167351 AAAATCTAAAAAATATTTT
1 AAAATATAAAAAATATTTC
19167370 AAAATATAAAAAATATTTC
1 AAAATATAAAAAATATTTC
19167389 AAAA
1 AAAA
19167393 AATTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATAAAAAATATTTC
Found at i:19167429 original size:18 final size:19
Alignment explanation
Indices: 19167408--19167456 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
19167398 TAATAAATAA
*
19167408 AATTATTAAAAAAT-ATAT
1 AATTTTTAAAAAATGATAT
* *
19167426 AATTTTTAAAATATGTTAT
1 AATTTTTAAAAAATGATAT
19167445 AATTTTTAAAAA
1 AATTTTTAAAAA
19167457 TAATAACGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTTTAAAAAATGATAT
Found at i:19172694 original size:17 final size:17
Alignment explanation
Indices: 19172672--19172705 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19172662 CTAACATACA
19172672 ATAATCATTAAAAGCCT
1 ATAATCATTAAAAGCCT
19172689 ATAATCATTAAAAGCCT
1 ATAATCATTAAAAGCCT
19172706 CAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
ATAATCATTAAAAGCCT
Found at i:19179556 original size:17 final size:16
Alignment explanation
Indices: 19179530--19179564 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19179520 ATTTTTCTAT
*
19179530 AAAAATTAAAAATTCA
1 AAAAATTAAAAATACA
19179546 AAAATATTAAAAATACA
1 AAAA-ATTAAAAATACA
19179563 AA
1 AA
19179565 GTTCCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTAAAAATACA
Found at i:19195026 original size:17 final size:17
Alignment explanation
Indices: 19195004--19195036 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19194994 GTGATATTAA
*
19195004 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
19195021 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
19195037 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:19195845 original size:38 final size:39
Alignment explanation
Indices: 19195779--19195861 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
19195769 AGAAAAAAAA
*
19195779 GTCATTTGCTTTTCTTTTTTTAAAAAAAGTTCTTTCTCT
1 GTCATTTGCTTTTCTTTTTTTAAAAAAAGTTATTTCTCT
19195818 GTCATTTGCTTTTCTTTTTTT-AAAAAAGTTATTTCTCT
1 GTCATTTGCTTTTCTTTTTTTAAAAAAAGTTATTTCTCT
19195856 -TCATTT
1 GTCATTT
19195862 TCTCTCTAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 6 0.14
38 16 0.37
39 21 0.49
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.58
Consensus pattern (39 bp):
GTCATTTGCTTTTCTTTTTTTAAAAAAAGTTATTTCTCT
Found at i:19196959 original size:44 final size:44
Alignment explanation
Indices: 19196863--19197518 Score: 273
Period size: 44 Copynumber: 14.5 Consensus size: 44
19196853 TTTACTCTAT
** * **
19196863 TGCAACTTCAGAGAGATAAGATTCGCTAATTTCAAAATGCTCCAC
1 TGCAACTTCAGAGAGATAAGA-TCTATAACTTCAATCTGCTCCAC
** *
19196908 TATAACTTTAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
* * *
19196952 TGCAACTTCAGAGAGATAAGA-CTTATAATTTTC-ATATGCTCTAC
1 TGCAACTTCAGAGAGATAAGATC-TATAA-CTTCAATCTGCTCCAC
* * * *
19196996 TGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTTCAC
1 TGCAACTTCAGAGAGATAAGATCT-ATAACTTCAATCTGCTCCAC
**
19197041 TGCAACTTCA-AGAAGATAAGAT-TAATGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGAG-AGATAAGATCT-ATAACTTCAATCTGCTCCAC
* * * *
19197085 TGCAACTTCA-AGGAGATAAGATTTACCATAATGATTTCAA-C-CCATCCCAT
1 TGCAACTTCAGA-GAGATAAGA--T--C-T-ATAACTTCAATCTGC-T-CCAC
** * * * * * *
19197135 TATAACTTCAG-GGGTATAGGATCTGTAACTTCAACCTACTCCAT
1 TGCAACTTCAGAGAG-ATAAGATCTATAACTTCAATCTGCTCCAC
* * * * * *
19197179 TGCAACTTCA-AGGAGATAAGGTTTGTAACTTTAATTTGCTCTAC
1 TGCAACTTCAGA-GAGATAAGATCTATAACTTCAATCTGCTCCAC
** * * * * * *
19197223 CACAATTTCAGAGAGATAAGGTTTGCTATCTTCAATCTGCTCCAT
1 TGCAACTTCAGAGAGATAAGATCT-ATAACTTCAATCTGCTCCAC
* * * *
19197268 TGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAA-C-CCATCCCAC
1 TGCAACTTCAGAGAGATAAGA--T--C-T-ATAACTTCAATCTGC-T-CCAC
* * * * * *
19197318 TACAACTTCAG-GGGTATAGGATTTGTAACTTCAACCTGCTCCAC
1 TGCAACTTCAGAGAG-ATAAGATCTATAACTTCAATCTGCTCCAC
* * * * * * * *
19197362 TACAACTTTAGGGAGATAAGGTTTATAATTTCAATTTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
*** * *
19197406 CATAATTTCGGAGAGATAAGATTTGCTAT-A-TTCAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGA--T-CTATAACTTCAATCTGCTCCAC
**
19197451 TGCAACTTCA-AGAAGATAAGAT-TAGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGAG-AGATAAGATCTA-TAACTTCAATCTGCTCCAC
* * *
19197495 TACAACTTCAGGGAGATAATATCT
1 TGCAACTTCAGAGAGATAAGATCT
19197519 GCCATAATGA
Statistics
Matches: 460, Mismatches: 108, Indels: 86
0.70 0.17 0.13
Matches are distributed among these distances:
41 2 0.00
42 1 0.00
43 2 0.00
44 262 0.57
45 120 0.26
46 6 0.01
47 4 0.01
48 4 0.01
49 8 0.02
50 51 0.11
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
Found at i:19197016 original size:133 final size:133
Alignment explanation
Indices: 19196857--19197105 Score: 344
Period size: 133 Copynumber: 1.9 Consensus size: 133
19196847 CTTTAATTTA
* * *
19196857 CTCTATTGCAACTTCAGAGAGATAAGATTCGCTAAT-TTCAAAATGCTCCACTATAACTT-TAGA
1 CTCTACTGCAACTTCAGAGAGATAAGATTCGCT-ATCTTCAAAATGCTCCACTACAACTTCAAGA
19196920 GAGATAAGATCT-ATAACTTCAATCTGCTCCACTGCAACTTC-AGAGAGATAAGACTTATAATTT
65 -AGATAAGAT-TAATAACTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGACTTATAATTT
19196983 TCATATG
127 TCATATG
* ** * *
19196990 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTTCACTGCAACTTCAAGAA
1 CTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAAAATGCTCCACTACAACTTCAAGAA
**
19197055 GATAAGATTAATGGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 GATAAGATTAATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
19197106 TTTACCATAA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
132 3 0.03
133 94 0.92
134 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (133 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAAAATGCTCCACTACAACTTCAAGAA
GATAAGATTAATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTATAATTTTCAT
ATG
Found at i:19197107 original size:89 final size:88
Alignment explanation
Indices: 19196863--19197108 Score: 252
Period size: 89 Copynumber: 2.8 Consensus size: 88
19196853 TTTACTCTAT
** * ** *
19196863 TGCAACTTCAGAGAGATAAGATTCGCTAAT-TTCAAAATGCTCCACTATAACTTTAGAGAGATAA
1 TGCAACTTCAGAGAGATAAGA--CTATAATCTTC-ATATGCTCCACTGCAACTTCAGAGAGATAA
* * *
19196927 GATCT-ATAACTTCAATCTGCTCCAC
63 GATTTGCTATCTTCAATCTGCTCCAC
* *
19196952 TGCAACTTCAGAGAGATAAGACTTATAATTTTCATATGCTCTACTGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGAC-TATAATCTTCATATGCTCCACTGCAACTTCAGAGAGATAAGA
*
19197017 TTTGCTATCTTCAATCTGCTTCAC
65 TTTGCTATCTTCAATCTGCTCCAC
*
19197041 TGCAACTTCA-AGAAGATAAGA-T-TAATGGCTTCAATCTGCTCCACTGCAACTTCA-AGGAGAT
1 TGCAACTTCAGAG-AGATAAGACTATAAT--CTTC-ATATGCTCCACTGCAACTTCAGA-GAGAT
19197102 AAGATTT
61 AAGATTT
19197109 ACCATAATGA
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
86 4 0.03
87 2 0.01
88 39 0.29
89 90 0.67
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (88 bp):
TGCAACTTCAGAGAGATAAGACTATAATCTTCATATGCTCCACTGCAACTTCAGAGAGATAAGAT
TTGCTATCTTCAATCTGCTCCAC
Found at i:19197183 original size:94 final size:93
Alignment explanation
Indices: 19197069--19197386 Score: 303
Period size: 94 Copynumber: 3.4 Consensus size: 93
19197059 AGATTAATGG
*
19197069 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
* *
19197134 TTATAACTTCAGGGGTATAGGATCTGTAA
66 -TACAACTTCAGGGGTATAGGATTTGTAA
* * * * * * * * *
19197163 CTTCAACCTACTCCATTGCAACTTCAAGGAGATAAGGTTTGTAAC-T-TTAATTT--GCTC-TAC
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAA-GATT-TACCATAATGATTTCAACCCATCC
* * *
19197223 C--ACAATTTCAGAGAG-ATAAGG-TTTGCTAT
64 CATACAACTTCAG-GGGTAT-AGGATTTG-TAA
* * * *
19197252 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAACCCATCCCA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
19197317 CTACAACTTCAGGGGTATAGGATTTGTAA
66 -TACAACTTCAGGGGTATAGGATTTGTAA
* * * *
19197346 CTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
19197387 TAATTTCAAT
Statistics
Matches: 174, Mismatches: 35, Indels: 30
0.73 0.15 0.13
Matches are distributed among these distances:
87 2 0.01
88 17 0.10
89 44 0.25
91 5 0.03
92 5 0.03
94 79 0.45
95 19 0.11
96 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (93 bp):
CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
TACAACTTCAGGGGTATAGGATTTGTAA
Found at i:19197197 original size:183 final size:183
Alignment explanation
Indices: 19196994--19197473 Score: 565
Period size: 183 Copynumber: 2.6 Consensus size: 183
19196984 CATATGCTCT
* **
19196994 ACTGCAACTTC-AGAGAGATAAGATTTGCTATCTTCAATCTGCT-TCACTGCAACTTCA-AGAAG
1 ACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAATCTGCTCT-ACCACAACTTCAGAG-AG
*
19197056 ATAA-GATTAATGGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGAT
62 ATAAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGAT
* *
19197120 TTCAACCCATCCCATTATAACTTCAGGGGTATAGGATCTGTAACTTCAACCTACTCC
127 TTCAACCCATCCCACTACAACTTCAGGGGTATAGGATCTGTAACTTCAACCTACTCC
* * * * *
19197177 ATTGCAACTTCAAGGAGATAAGGTTTGTAACTTTAATTTGCTCTACCACAATTTCAGAGAGATAA
1 ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
* ** * * * *
19197242 GGTTTGCTATCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCA
66 GGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCA
* *
19197307 ACCCATCCCACTACAACTTCAGGGGTATAGGATTTGTAACTTCAACCTGCTCC
131 ACCCATCCCACTACAACTTCAGGGGTATAGGATCTGTAACTTCAACCTACTCC
* * * * * * * * * *
19197360 ACTACAACTTTAGGGAGATAAGGTTTATAATTTCAATTTGCTCTACCATAATTTCGGAGAGATAA
1 ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
** ** *
19197425 -GATTTGCTATATTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATT
66 GGA-TTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
19197474 AGTGGCTTCA
Statistics
Matches: 258, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
182 28 0.11
183 228 0.88
184 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (183 bp):
ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
GGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCA
ACCCATCCCACTACAACTTCAGGGGTATAGGATCTGTAACTTCAACCTACTCC
Found at i:19197275 original size:89 final size:89
Alignment explanation
Indices: 19197163--19197470 Score: 268
Period size: 89 Copynumber: 3.4 Consensus size: 89
19197153 GGATCTGTAA
* *
19197163 CTTCAACCTACTCCATTGCAACTTCAAGGAGATAAGGTTTGTAACTTT-AATTTGCTCTACCACA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAA-TTTCAATTTGCTCTACCACA
19197227 ATTTCAGAGAGATAAGGTTTGCTAT
65 ATTTCAGAGAGATAAGGTTTGCTAT
* * * * **
19197252 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAA--CCCATCC
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTG---T-A--ATTTCAATTTGC-T-C
* * * * *
19197315 CACTACAACTTCAG-G-GGTATAGGATTTG-TAA
58 TACCACAATTTCAGAGAGATA-AGG-TTTGCTAT
* * * * *
19197346 CTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTATAATTTCAATTTGCTCTACCATAA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAATTTCAATTTGCTCTACCACAA
* *
19197411 TTTCGGAGAGATAAGATTTGCTAT
66 TTTCAGAGAGATAAGGTTTGCTAT
* * *
19197435 ATTCAATCTGCTCCACTGCAACTTCAAGAAGATAAG
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAG
19197471 ATTAGTGGCT
Statistics
Matches: 170, Mismatches: 33, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
88 21 0.12
89 73 0.43
90 5 0.03
91 1 0.01
92 1 0.01
93 5 0.03
94 45 0.26
95 19 0.11
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (89 bp):
CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAATTTCAATTTGCTCTACCACAA
TTTCAGAGAGATAAGGTTTGCTAT
Found at i:19197353 original size:227 final size:227
Alignment explanation
Indices: 19197138--19197568 Score: 496
Period size: 227 Copynumber: 1.9 Consensus size: 227
19197128 ATCCCATTAT
* *** *
19197138 AACTTCAGGG-G-TATAGGATCTGTAACTTCAACCTACTCCATTGCAACTTCA-AGGAGATAAGG
1 AACTTCAGGGAGATA-AGG-TCTATAACTTCAACCTACTCCACCACAACTTCAGA-GAGATAAGA
* * * * * * *
19197200 TTTG-TA-ACTTTAATTTGCTCTACCACAATTTC-AGAGAGATAAGGTTTGCTATCTTCAATCTG
63 TTTGCTATA-TTCAATCTGCTCCACCACAACTTCAAGA-AGATAAGATTAG-TAGCTTCAATCTG
* * *
19197262 CTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAACCCATCCCACTACAACTTC
125 CTCCACTACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTTC
19197327 AGGGGTATAGGATTTGTAACTTCAACCTGCTCCACTAC
190 AGGGGTATAGGATTTGTAACTTCAACCTGCTCCACTAC
* * * ** * * * * *
19197365 AACTTTAGGGAGATAAGGTTTATAATTTCAATTTGCTCTACCATAATTTCGGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGGTCTATAACTTCAACCTACTCCACCACAACTTCAGAGAGATAAGATTT
** *
19197430 GCTATATTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTAGTGGCTTCAATCTGCTCCAC
66 GCTATATTCAATCTGCTCCACCACAACTTCAAGAAGATAAGATTAGTAGCTTCAATCTGCTCCAC
* *
19197495 TACAACTTCAGGGAGATAATATCTGCCATAATGATTTCAACCCATCCCACTGCAACTTCAGGGGT
131 TACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTTCAGGGGT
19197560 ATAGGATTT
196 ATAGGATTT
19197569 ATGATTTCTC
Statistics
Matches: 168, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
227 127 0.76
228 35 0.21
229 6 0.04
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (227 bp):
AACTTCAGGGAGATAAGGTCTATAACTTCAACCTACTCCACCACAACTTCAGAGAGATAAGATTT
GCTATATTCAATCTGCTCCACCACAACTTCAAGAAGATAAGATTAGTAGCTTCAATCTGCTCCAC
TACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTTCAGGGGT
ATAGGATTTGTAACTTCAACCTGCTCCACTAC
Found at i:19204163 original size:17 final size:17
Alignment explanation
Indices: 19204141--19204173 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19204131 GTGATATTAA
*
19204141 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
19204158 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
19204174 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:19206957 original size:43 final size:43
Alignment explanation
Indices: 19206908--19206993 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
19206898 ATAAATAGGG
19206908 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
1 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
19206951 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
1 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
19206994 ATACTTAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (43 bp):
TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
Found at i:19206978 original size:22 final size:22
Alignment explanation
Indices: 19206910--19206978 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19206900 AAATAGGGTA
19206910 AGCTAATTGTTTCTATTGTAGG
1 AGCTAATTGTTTCTATTGTAGG
* * *
19206932 AGCTTACTAAGTATT-TA-TATA--
1 AGC-TAAT-TGT-TTCTATTGTAGG
19206953 AGCTAATTGTTTCTATTGTAGG
1 AGCTAATTGTTTCTATTGTAGG
19206975 AGCT
1 AGCT
19206979 TACTAAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
20 6 0.18
21 3 0.09
22 7 0.21
23 6 0.18
24 4 0.12
25 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (22 bp):
AGCTAATTGTTTCTATTGTAGG
Found at i:19218637 original size:45 final size:45
Alignment explanation
Indices: 19218570--19218659 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
19218560 ACAAGATTAA
19218570 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
1 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
*
19218615 AATATATTACTTTTATCGATTATCATTATTATTTTGAATATTTAT
1 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
19218660 TCTTTATTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (45 bp):
AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
Found at i:19219692 original size:20 final size:20
Alignment explanation
Indices: 19219667--19219705 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19219657 CTCCCGAACT
19219667 CGAAATCGAATAATTCAAAC
1 CGAAATCGAATAATTCAAAC
*
19219687 CGAAATCGAGTAATTCAAA
1 CGAAATCGAATAATTCAAA
19219706 GTGCATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (20 bp):
CGAAATCGAATAATTCAAAC
Found at i:19222459 original size:9 final size:9
Alignment explanation
Indices: 19222445--19222481 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19222435 TATAGTTTGA
19222445 TATTCGAAT
1 TATTCGAAT
19222454 TATTCGAAT
1 TATTCGAAT
*
19222463 TATTCGAGT
1 TATTCGAAT
19222472 TATTCGAAT
1 TATTCGAAT
19222481 T
1 T
19222482 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19223981 original size:25 final size:25
Alignment explanation
Indices: 19223944--19223994 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
19223934 TATACTAAAA
* *
19223944 AATGGCATTTCATTATCAGAA-CTAG
1 AATGACATATCATT-TCAGAATCTAG
19223969 AATGACATATCATTTCAGAATCTAG
1 AATGACATATCATTTCAGAATCTAG
19223994 A
1 A
19223995 TGGCATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
AATGACATATCATTTCAGAATCTAG
Found at i:19224935 original size:2 final size:2
Alignment explanation
Indices: 19224930--19224958 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19224920 TGAATATATA
19224930 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
19224959 AATATGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19226803 original size:40 final size:40
Alignment explanation
Indices: 19226656--19226839 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
19226646 TCGAATGATG
* * * *
19226656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
19226696 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19226735 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19226774 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19226815 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19226840 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 23 0.18
39 21 0.17
40 71 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19226871 original size:78 final size:78
Alignment explanation
Indices: 19226709--19226864 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 78
19226699 GGACTAAGAT
** **
19226709 CCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
*
19226774 TCCGGGTTAAGTC
66 TCCGGGTTAAATC
* *
19226787 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
*
19226851 ATATCC-GGTTAAAT
63 AAATCCGGGTTAAAT
19226865 TCGAAGGTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 25 0.37
79 18 0.27
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:19234816 original size:39 final size:40
Alignment explanation
Indices: 19234715--19234858 Score: 163
Period size: 39 Copynumber: 3.6 Consensus size: 40
19234705 TCGAATGATG
* * *
19234715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
19234754 ATCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
19234795 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
19234833 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19234859 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
38 9 0.10
39 39 0.43
40 33 0.37
41 9 0.10
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:19238999 original size:20 final size:20
Alignment explanation
Indices: 19238974--19239012 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19238964 AATATTCAAA
19238974 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
19238994 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
19239013 ATCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:19243666 original size:48 final size:50
Alignment explanation
Indices: 19243543--19243671 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 50
19243533 GTCTCAAGTT
* * * * *
19243543 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGCTTATTCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
*
19243593 -AGTGCCATGTCCCAGACATGGTCTTACATTGACAC-C-TTTATACGTGCC
1 GA-TGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
*
19243641 GATGCCATGTCCTAGACATGGTCTTACATTG
1 GATGCCATGTCCCAGACATGGTCTTACATTG
19243672 GCTTACTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
48 37 0.53
49 3 0.04
50 30 0.43
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
Found at i:19244500 original size:13 final size:13
Alignment explanation
Indices: 19244482--19244506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19244472 CTAAAAGTAC
19244482 AAAAATCATCAAG
1 AAAAATCATCAAG
19244495 AAAAATCATCAA
1 AAAAATCATCAA
19244507 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:19251232 original size:48 final size:47
Alignment explanation
Indices: 19251118--19251243 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
19251108 GGTATAATAC
* * * *
19251118 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGT
1 CAATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCTCAAGT
* * * **
19251165 CAATGCTATGT-CTCAGACATGGTCTTACACTGACACCTCTGTACGTGT
1 CAATGCCATGTCCT-AGACATGGTCTTACACTGACACATCTCT-CAAGT
19251213 CAATGCCATGTCCTAGACATGGTCTTACACT
1 CAATGCCATGTCCTAGACATGGTCTTACACT
19251244 AGCTTACTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 33 0.50
48 30 0.45
49 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CAATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCTCAAGT
Found at i:19253101 original size:25 final size:25
Alignment explanation
Indices: 19253073--19253123 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19253063 TACTTTTAAT
*
19253073 AATCAATCAACATTCGAAATTCATC
1 AATCAATCAACATTCCAAATTCATC
19253098 AATCAATCAACATTCCAAATTCATC
1 AATCAATCAACATTCCAAATTCATC
19253123 A
1 A
19253124 TTTAACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (25 bp):
AATCAATCAACATTCCAAATTCATC
Found at i:19255647 original size:26 final size:26
Alignment explanation
Indices: 19255618--19255725 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
19255608 TGATACAAAT
19255618 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19255644 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19255670 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19255696 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19255722 TGAT
1 TGAT
19255726 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19262459 original size:29 final size:29
Alignment explanation
Indices: 19262396--19262501 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 29
19262386 TTCACATACC
* * *
19262396 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
19262424 T-TCATATAGCCCCTTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
19262453 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
19262482 TTTATATGGCCCGTTAGGCC
1 TGTATATGGCCCATTAGGCC
19262502 TACTTACATT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.23
29 47 0.73
30 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:19264428 original size:6 final size:6
Alignment explanation
Indices: 19264402--19264478 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
19264392 AAAGTTTAAG
* * * *
19264402 AAAATA CAAATA AACAGA AAAATA AAAATA AAAACTA ATAATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
19264450 AAAAT- AAAAT- AAAAT- AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
19264479 TGGACTCAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 25 0.41
6 31 0.51
7 5 0.08
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:19264429 original size:24 final size:21
Alignment explanation
Indices: 19264402--19264479 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 21
19264392 AAAGTTTAAG
19264402 AAAATACAAATAAACAGAAAAAT
1 AAAATA-AAATAAA-AGAAAAAT
*
19264425 AAAAATAAAAACTAATAATAAAAAT
1 -AAAAT-AAAA-TAA-AAGAAAAAT
*
19264450 AAAATAAAATAAAA-TAAAAT
1 AAAATAAAATAAAAGAAAAAT
19264470 AAAATAAAAT
1 AAAATAAAAT
19264480 GGACTCAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
20 15 0.31
21 2 0.04
22 3 0.06
23 4 0.08
24 13 0.27
25 11 0.22
26 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAAAAGAAAAAT
Found at i:19264434 original size:5 final size:5
Alignment explanation
Indices: 19264420--19264479 Score: 75
Period size: 5 Copynumber: 11.0 Consensus size: 5
19264410 AATAAACAGA
19264420 AAAAT AAAAAT AAAAACT AATAAT AAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT -AAAA-T AA-AAT -AAAAT AAAAT AAAAT AAAAT AAAAT
19264470 AAAAT AAAAT
1 AAAAT AAAAT
19264480 GGACTCAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
5 30 0.59
6 16 0.31
7 5 0.10
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19279753 original size:30 final size:30
Alignment explanation
Indices: 19279707--19279792 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
19279697 CACGGGCTGG
* *
19279707 CACATGGGCATGTGGCCAGCCCGTGTGGAT
1 CACACGGGCGTGTGGCCAGCCCGTGTGGAT
* *
19279737 CACAGGGGCGTGTGGCCAGCTCGTGTGGAT
1 CACACGGGCGTGTGGCCAGCCCGTGTGGAT
*
19279767 CACACGGGTGTGT-GCTCAGCCCGTGT
1 CACACGGGCGTGTGGC-CAGCCCGTGT
19279793 AGGAATGGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.04
30 47 0.96
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.21
Consensus pattern (30 bp):
CACACGGGCGTGTGGCCAGCCCGTGTGGAT
Found at i:19281617 original size:35 final size:35
Alignment explanation
Indices: 19281546--19281617 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
19281536 TTTTTTAGGG
* *
19281546 TTAGGGTTTTGCTAAAATAAGTTAGGGGTTAGGGT
1 TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
* * *
19281581 TTAGGTTTTTGTTAAAATAAGTTAAGGTTTAAGGT
1 TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
19281616 TT
1 TT
19281618 TAGTAGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
Found at i:19282081 original size:127 final size:125
Alignment explanation
Indices: 19281687--19282081 Score: 526
Period size: 126 Copynumber: 3.1 Consensus size: 125
19281677 GGGTTTATGG
*
19281687 TTTTTCTACATTAGTTCCTGAAAAAATAATTTTGAGAAGACTTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACTTTTCTGAACAAATAGTGTCAAAA
* * * *
19281752 AGGTTCAAGGATGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGTTC
66 AGCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGCTC
* *
19281812 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGA-TGTTTCTGAACATATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACT-TTTCTGAACAAATAGTGTCAAA
* * * * ** *
19281876 AACGCTTCAAGCAGGATGCAGTGTCAGCAAAATTTCTAAAAAAAACTCCCACGTGGATACTG
65 AA-GCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGCTC
** * * **
19281938 TTCATCTATAGCAGTTCCTGAAAAAATAATTTCAAGAAGACTTTTCTGAACAAATAGTG-CAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACTTTTCTGAACAAATAGTGTC--AA
*
19282002 AAATGCTTCAAGCAGGAAT-CAATGTCAGCAAAATTTTTGAAAAAAGCTCCCACGTGGACGCTC
64 AAA-GCTTCAAGCAGG-ATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGCTC
19282065 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
19282082 ATGCTTGGCC
Statistics
Matches: 231, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
124 1 0.00
125 63 0.27
126 97 0.42
127 68 0.29
128 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACTTTTCTGAACAAATAGTGTCAAAA
AGCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:19285649 original size:18 final size:18
Alignment explanation
Indices: 19285623--19285665 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
19285613 GACTGGGAAA
* *
19285623 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
19285641 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
19285659 AGGATAC
1 AGGATAC
19285666 GCGCCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:19286260 original size:7 final size:7
Alignment explanation
Indices: 19286250--19286274 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19286240 TTATATACAT
19286250 AATACTA
1 AATACTA
19286257 AATACTA
1 AATACTA
19286264 AATACTA
1 AATACTA
19286271 AATA
1 AATA
19286275 TGAAACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:19287229 original size:25 final size:24
Alignment explanation
Indices: 19287192--19287243 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
19287182 ACTGTTATAA
*
19287192 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTATAAAATGAAAAAAT-ATT
*
19287216 AAAATTATGTAAATGAAAAAATATT
1 AAAATTAT-AAAATGAAAAAATATT
19287241 AAA
1 AAA
19287244 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATTATAAAATGAAAAAATATT
Found at i:19290968 original size:41 final size:43
Alignment explanation
Indices: 19290869--19291015 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
19290859 ATGTGTTCTT
* *
19290869 GTGTAAGACCAC-GTCTGGGACATTGGAATCGATATGTGATTAC
1 GTGTAAGACC-CTGTCTGGGACATTCGAATCGATATGTGACTAC
* *
19290912 GTGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTGACT-C
1 GTGTAAGACCCTGTCTGGGACATTCGA-ATCGATATGTGACTAC
* * * * *
19290953 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGAGA-TAGC
1 GTGTAAGACCCTGTCTGGGACATTCGAATCGATATGTGACTA-C
*
19290996 ATGTAAGACCAC-GTCTGGGA
1 GTGTAAGACC-CTGTCTGGGA
19291016 TACTTTCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
41 26 0.31
42 17 0.20
43 41 0.48
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGGACATTCGAATCGATATGTGACTAC
Found at i:19293082 original size:16 final size:16
Alignment explanation
Indices: 19293061--19293095 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19293051 ACAGGGCTGA
19293061 AATGGAATAAAGTTGT
1 AATGGAATAAAGTTGT
**
19293077 AATGGAATGGAGTTGT
1 AATGGAATAAAGTTGT
19293093 AAT
1 AAT
19293096 CAATAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (16 bp):
AATGGAATAAAGTTGT
Found at i:19293892 original size:22 final size:23
Alignment explanation
Indices: 19293867--19293918 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
19293857 TTATATTAAA
19293867 TTATATTAAAAGAT-TTTAATTT
1 TTATATTAAAAGATATTTAATTT
**
19293889 TTATATTAAATTATATTTAATTT
1 TTATATTAAAAGATATTTAATTT
*
19293912 TTTTATT
1 TTATATT
19293919 TACTACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTAAAAGATATTTAATTT
Found at i:19303800 original size:53 final size:53
Alignment explanation
Indices: 19303726--19303833 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
19303716 AAACTACTGT
* * * * *
19303726 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCAA
* * *
19303779 AAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCAA
19303832 AA
1 AA
19303834 AGGAAAGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (53 bp):
AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCAA
Found at i:19307416 original size:15 final size:15
Alignment explanation
Indices: 19307388--19307452 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
19307378 ACCTTGTCTA
*
19307388 ATTT-TTTATGTATT
1 ATTTATTTATTTATT
19307402 ATTT-TTTATTTTATTT
1 ATTTATTTA-TTTA-TT
*
19307418 ATTTATTTACTTATT
1 ATTTATTTATTTATT
*
19307433 ATTTCTTCTATTTA-T
1 ATTTATT-TATTTATT
19307448 ATTTA
1 ATTTA
19307453 AAATTGATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 8 0.19
15 16 0.38
16 14 0.33
17 4 0.10
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTTATTTATTTATT
Found at i:19307432 original size:28 final size:27
Alignment explanation
Indices: 19307388--19307447 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
19307378 ACCTTGTCTA
* *
19307388 ATTT-TTTATGTATTATTTTTTATTTT
1 ATTTATTTATGTATTATTATTTATTCT
* *
19307414 ATTTATTTATTTACTTATTATTTCTTCT
1 ATTTATTTATGTA-TTATTATTTATTCT
19307442 ATTTAT
1 ATTTAT
19307448 ATTTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.14
27 7 0.25
28 17 0.61
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (27 bp):
ATTTATTTATGTATTATTATTTATTCT
Found at i:19307621 original size:6 final size:6
Alignment explanation
Indices: 19307603--19307660 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
19307593 CTTGCACATG
* * * *
19307603 TATTGT TCA-TGT TATTGT TGTTGT TGTTGT TATTGT TATTAT TATTAT
1 TATTGT T-ATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT
*
19307651 TATTAT TATT
1 TATTGT TATT
19307661 ATCATTATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 1 0.02
6 45 0.96
7 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.66
Consensus pattern (6 bp):
TATTGT
Found at i:19307629 original size:9 final size:9
Alignment explanation
Indices: 19307612--19307645 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
19307602 GTATTGTTCA
19307612 TGTTATTGT
1 TGTTATTGT
*
19307621 TGTTGTTGT
1 TGTTATTGT
19307630 TGTTATTGT
1 TGTTATTGT
*
19307639 TATTATT
1 TGTTATT
19307646 ATTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (9 bp):
TGTTATTGT
Found at i:19307644 original size:3 final size:3
Alignment explanation
Indices: 19307632--19307674 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
19307622 GTTGTTGTTG
* * *
19307632 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19307675 ACTTTCATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19309064 original size:5 final size:5
Alignment explanation
Indices: 19309056--19309083 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19309046 AAAATAAAAA
19309056 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
19309084 TAGGTTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:19311409 original size:13 final size:13
Alignment explanation
Indices: 19311391--19311425 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
19311381 GCACATTGGT
19311391 GTGTGACTTGGCC
1 GTGTGACTTGGCC
19311404 GTGTGACTTGGCC
1 GTGTGACTTGGCC
19311417 GTGTGACTT
1 GTGTGACTT
19311426 CAATTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.37, T:0.34
Consensus pattern (13 bp):
GTGTGACTTGGCC
Found at i:19313361 original size:21 final size:21
Alignment explanation
Indices: 19313335--19313406 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
19313325 AGGAGTTTGG
19313335 AGTTGGGGAAAAAGATAGAAT
1 AGTTGGGGAAAAAGATAGAAT
* **
19313356 AGTT--GGAAGAAGAGAGGAGTTT
1 AGTTGGGGAA-AA-AGA-TAGAAT
19313378 GGAGTTGGGGAAAAAGATAGAAT
1 --AGTTGGGGAAAAAGATAGAAT
19313401 AGTTGG
1 AGTTGG
19313407 AAGAAGAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 4 0.11
20 2 0.05
21 13 0.34
22 3 0.08
23 3 0.08
24 7 0.18
25 2 0.05
26 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (21 bp):
AGTTGGGGAAAAAGATAGAAT
Found at i:19313374 original size:45 final size:45
Alignment explanation
Indices: 19313323--19313413 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
19313313 GACTTTGAAA
19313323 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
1 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
19313368 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
1 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
19313413 A
1 A
19313414 AACAATGCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.00, G:0.40, T:0.20
Consensus pattern (45 bp):
AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
Found at i:19313814 original size:21 final size:21
Alignment explanation
Indices: 19313790--19313829 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19313780 TAGCCTAAAT
*
19313790 AAGATAGAAGAGCTGAAGAGA
1 AAGATAGAAGAGCTCAAGAGA
19313811 AAGATAGAAGAGCTCAAGA
1 AAGATAGAAGAGCTCAAGA
19313830 CCACATTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (21 bp):
AAGATAGAAGAGCTCAAGAGA
Found at i:19314230 original size:19 final size:19
Alignment explanation
Indices: 19314194--19314246 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
19314184 GCCTCTTTTT
19314194 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCAT-A
19314214 -GCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
19314232 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
19314247 AAAAGACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 22 0.73
20 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:19315332 original size:86 final size:86
Alignment explanation
Indices: 19315228--19315400 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
19315218 GTATGCTTAG
* *
19315228 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACTTCTTCTGGAGAAGGAGGCAACAATGCTTTT
1 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
19315293 CATAAACACTCTAAAATCCCA
66 CATAAACACTCTAAAATCCCA
* *
19315314 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTGTGGAGAAGGAGACAACAATGTTTTT
1 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
19315379 CATAAACACTCTAAAATCCCA
66 CATAAACACTCTAAAATCCCA
19315400 A
1 A
19315401 TTCATTAACC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (86 bp):
AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
CATAAACACTCTAAAATCCCA
Found at i:19322533 original size:44 final size:43
Alignment explanation
Indices: 19322359--19323235 Score: 266
Period size: 44 Copynumber: 19.5 Consensus size: 43
19322349 TGAAATCACA
* *
19322359 AATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGTA
1 AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA--C
* * * * *
19322404 AATCTTATCTCTCTGAAGTTATAGTAGAGCAAATTAAAGCTAC
1 AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * * * * * *
19322447 AAACTTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCAGATACC
1 AATC-TTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* * *
19322492 AGTCTCATCTCCTTAAAGTTATAGTGGAGCAAATTGAAGATAGC
1 AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* * * * * * *
19322536 GAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTGTAAGTTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGG---AG--CAAA-TTG-AAGATAC
* * * * *
19322587 AAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGATAGC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* ** ** * * *
19322632 AAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * ** * * *
19322676 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
** * * ** *
19322720 AAATCCCATCTCTCTGAAGTTGCAGTAGAG-AAGATTGAAGATAAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAA-ATTGAAGAT-AC
* * * ** * **
19322765 AAATCTAATCTCCTTGAAGTTGCAGTGGACCTGATTGAAGATAGC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* * * ** * * * * *
19322810 AAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * * ** * * * *
19322854 AAACTTTATCTCTCTGAAGTTGCAATGGAGTAAATTAAAGTTAC
1 AATC-TTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * * *
19322898 AAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* * * ** * *
19322943 GAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA-
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATT---G----AAG--ATAC
* * ** *
19322995 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
1 AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATA-C
* ** ** * * *
19323039 AAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * * *
19323083 AAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* * * * * * * *
19323127 GATTCTCATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGTTAC
1 -AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
* ** * *
19323171 AAGTCTTATC-CCTCTGAAGTTGCAGTGGAGCAAATTAAATATAC
1 AA-TCTTATCTCC-CTAAAGTTATAGTGGAGCAAATTGAAGATAC
*
19323215 AAATCTCATCTCCCTAAAGTT
1 -AATCTTATCTCCCTAAAGTT
19323236 GCAGTACAGC
Statistics
Matches: 644, Mismatches: 154, Indels: 69
0.74 0.18 0.08
Matches are distributed among these distances:
42 3 0.00
43 9 0.01
44 317 0.49
45 236 0.37
46 3 0.00
48 6 0.01
50 3 0.00
51 56 0.09
52 8 0.01
54 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGATAC
Found at i:19322767 original size:89 final size:89
Alignment explanation
Indices: 19322356--19323254 Score: 650
Period size: 89 Copynumber: 10.0 Consensus size: 89
19322346 AAATGAAATC
* * * * ** *
19322356 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGAA
** * * * * *
19322421 GTTATAGTAGAGCAAATTAAAGCT
66 GTTGCAGTGGAGTAGATTGAAGTT
* * * * * * * * * * *
19322445 ACAAA-CTTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCAGAT-ACCAGTCTCATCTCCTTAA
1 ACAAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGA
** * * *
19322508 AGTTATAGTGGAGCAAATTGAAGAT
65 AGTTGCAGTGGAGTAGATTGAAGTT
* * * * * * * *
19322533 AGCGAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTGTAAGTTACAAATCTTATCT
1 A-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAA---G--A-TAACAAATCTTATCT
* * *
19322598 CCTTGAAGTTGTAGTGGAGTAGATTGAAGAT
59 CCCTGAAGTTGCAGTGGAGTAGATTGAAGTT
* ** * * *
19322629 AGCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCT-ACAAACCTTATCTCCCTGA
1 A-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGA
19322693 AGTTGCAGTGGAGTAGATTGAAGTT
65 AGTTGCAGTGGAGTAGATTGAAGTT
** * * * *
19322718 ACAAATCCCATCTCTCTGAAGTTGCAGTAGAGAAGATTGAAGATAACAAATCTAATCTCCTTGAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGAA
* *
19322783 GTTGCAGTGGACCT-GATTGAAGAT
66 GTTGCAGTGGA-GTAGATTGAAGTT
* * * * * *
19322807 AGCAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCT-ACAAA-CTTTATCTCTCTG
1 A-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATC-TTATCTCCCTG
* * *
19322870 AAGTTGCAATGGAGTAAATTAAAGTT
64 AAGTTGCAGTGGAGTAGATTGAAGTT
* * * * * * *
19322896 ACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCCTGAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGAA
**
19322961 GTTGCAGTGGAACAGATTAAAGCTACAAGTT
66 GTTGCAGTGGAGTAGATT---G----AAGTT
* * * ** *
19322992 ATAAATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATATCTAA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGA
* * * *
19323056 AGTTGCAGTAGAGCAAATTAAAGTT
65 AGTTGCAGTGGAGTAGATTGAAGTT
* * * * *
19323081 ACAAATCTTATCTC-CTTGAAGTTACAGTGGAGCAGATTGAAGAT-ACGATTCTCATCTCTCTGA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGA
*
19323144 AGTTGTAGTGGAGTAGATTGAAGTT
65 AGTTGCAGTGGAGTAGATTGAAGTT
* * * * *
19323169 ACAAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAAATT-AA-ATATACAAATCTCATCTCCCTAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-ACAAATCTTATCTCCCTGA
** *
19323232 AGTTGCAGTACAGCAGATTGAAG
65 AGTTGCAGTGGAGTAGATTGAAG
19323255 CGATACTTTG
Statistics
Matches: 650, Mismatches: 132, Indels: 57
0.77 0.16 0.07
Matches are distributed among these distances:
86 2 0.00
87 2 0.00
88 206 0.32
89 250 0.38
90 40 0.06
92 1 0.00
93 1 0.00
94 1 0.00
95 2 0.00
96 145 0.22
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (89 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTGAA
GTTGCAGTGGAGTAGATTGAAGTT
Found at i:19322768 original size:133 final size:133
Alignment explanation
Indices: 19322356--19323254 Score: 684
Period size: 133 Copynumber: 6.6 Consensus size: 133
19322346 AAATGAAATC
* * * * * * *
19322356 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAA
** * * * * * * * * * *
19322421 GTTATAGTAGAGCAAATTAAAGCTACAAA-CTTTATCTCCCTCAAGTTGTACTGGAGTAGATTGC
65 GTTGCAGTGGAGCAGATTGAAGTTACAAATC-TTATCTCTCTGAAGTTGCAGTGGAGAAGATTGA
19322485 AGAT-
129 AGATA
* * * * ** * * * *
19322489 ACCAGTCTCATCTC-CTTAAAGTTATAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCCCTGA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * * *
19322553 AGTTACAATGGAACAGATTAAAGCTGTAAGTTACAAATCTTATCTC-CTTGAAGTTGTAGTGGAG
64 AGTTGCAGTGGAGCAGA-T-----TG-AAGTTACAAATCTTATCTCTC-TGAAGTTGCAGTGGAG
*
19322617 TAGATTGAAGATA
121 AAGATTGAAGATA
* * ** * *
19322630 GCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAG
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAG
* ** *
19322695 TTGCAGTGGAGTAGATTGAAGTTACAAATCCCATCTCTCTGAAGTTGCAGTAGAGAAGATTGAAG
66 TTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAG
19322760 ATA
131 ATA
* * * * * *
19322763 ACAAATCTAATCTC-CTTGAAGTTGCAGTGGACCTGATTGAAGATAGCAAATCTTATATCTCTGA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * * * *
19322827 AGTTGCAATAGAGCAGATTAAAGCTACAAA-CTTTATCTCTCTGAAGTTGCAATGGAGTAA-ATT
64 AGTTGCAGTGGAGCAGATTGAAGTTACAAATC-TTATCTCTCTGAAGTTGCAGTGGAG-AAGATT
* *
19322890 AAAG-TT
127 GAAGATA
* * * * * * *
19322896 ACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCCTGAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAA
* * *
19322961 GTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTC-CTTGAAGTTGCAGTGGAGC
65 GTTGCAGTGGAGCAGATT---G----AAGTTACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGA
19323025 AGATTGAAGATA
122 AGATTGAAGATA
* * * * * * * *
19323037 GCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTTACAAATCTTATCTCCTTGAAG
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAG
* * * * * * *
19323102 TTACAGTGGAGCAGATTGAAGATACGATTCTCATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAG
66 TTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAG
*
19323167 -TT
131 ATA
* * * * * *
19323169 ACAAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAAATTAAATATACAAATCTCATCTCCCTAAAG
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAG
**
19323234 TTGCAGTACAGCAGATTGAAG
66 TTGCAGTGGAGCAGATTGAAG
19323255 CGATACTTTG
Statistics
Matches: 614, Mismatches: 122, Indels: 61
0.77 0.15 0.08
Matches are distributed among these distances:
132 74 0.12
133 253 0.41
134 73 0.12
135 2 0.00
137 1 0.00
139 5 0.01
140 136 0.22
141 69 0.11
142 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (133 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAG
ATA
Found at i:19323024 original size:96 final size:94
Alignment explanation
Indices: 19322867--19323174 Score: 327
Period size: 96 Copynumber: 3.4 Consensus size: 94
19322857 CTTTATCTCT
* * *
19322867 CTGAAGTTGCAATGG-AG--TAAA-TTA-AAGTTACAAATCTCATCTCCCTGAAGTTACAGTGGA
1 CTGAAGTTGCAGTGGAAGATTAAAGTTACAAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGA
*
19322927 GCAGATTGAAGATAGCGAATCTTATTTTC
66 GCAGATTGAAGATAGCGAATCTTATTATC
* * *
19322956 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCTTGAAGTTGCAGTG
1 CTGAAGTTGCAGTGG-A-AGATTAAAGTTACAAGTTACAAATCTTATCTCCTTGAAGTTACAGTG
*
19323021 GAGCAGATTGAAGATAGCAAATCTTATATAT-
64 GAGCAGATTGAAGATAGCGAATCTTAT-TATC
* **
19323052 CTAAAGTTGCAGT---AGAGCAAA-TTA-AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGA
1 CTGAAGTTGCAGTGGAAGATTAAAGTTACAAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGA
* * *
19323112 GCAGATTGAAGATA-CGATTCTCA-TCTC
66 GCAGATTGAAGATAGCGAATCTTATTATC
* *
19323139 TCTGAAGTTGTAGTGGAGTAGATTGAAGTTACAAGT
1 -CTGAAGTTGCAGTGGA--AGATTAAAGTTACAAGT
19323175 CTTATCCCTC
Statistics
Matches: 179, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
86 2 0.01
88 17 0.09
89 62 0.35
90 2 0.01
91 6 0.03
92 2 0.01
93 5 0.03
94 7 0.04
95 6 0.03
96 68 0.38
97 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (94 bp):
CTGAAGTTGCAGTGGAAGATTAAAGTTACAAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGA
GCAGATTGAAGATAGCGAATCTTATTATC
Found at i:19323070 original size:229 final size:228
Alignment explanation
Indices: 19322660--19323209 Score: 600
Period size: 229 Copynumber: 2.4 Consensus size: 228
19322650 GTTGCAGTAC
* * * * * * * *
19322660 AGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATC
1 AGCAAATTAAAGATACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTC
** * * * * * *
19322725 CCATCTCTCTGAAGTTGCAGTAGAGA-AGATTGAAG-----A-TAACAAATCTAATCTCCTTGAA
66 TTATCCCTCTGAAGTTGCAGTGGA-ACAAATTAAAGCTACAAGTTATAAATCTAATCTCCTTGAA
* * * *
19322783 GTTGCAGTGGACCTGATTGAAGATAGCAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAA
130 GTTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATTAA
*
19322848 AGCTACAAA-CTTTATCT-CTCTGAAGTTGCAATGG
195 AGCTACAAATC-TTATCTCCT-TGAAGTTACAATGG
* *
19322882 AGTAAATTAAAGTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAA-
1 AGCAAATTAAAGATACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA-C-AAG
** * *
19322946 TCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCTTG
64 TCTTATCCCT-CTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTATAAATCTAATCTCCTTG
* *
19323010 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATT
128 AAGTTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATT
* *
19323075 AAAGTTACAAATCTTATCTCCTTGAAGTTACAGTGG
193 AAAGCTACAAATCTTATCTCCTTGAAGTTACAATGG
* * * * * ** * *
19323111 AGCAGATTGAAGATACGATTCTCATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGTTACAAGTC
1 AGCAAATTAAAGATACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTC
*
19323176 TTATCCCTCTGAAGTTGCAGTGGAGCAAATTAAA
66 TTATCCCTCTGAAGTTGCAGTGGAACAAATTAAA
19323210 TATACAAATC
Statistics
Matches: 274, Mismatches: 40, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
222 54 0.20
223 28 0.10
224 2 0.01
227 2 0.01
228 32 0.12
229 153 0.56
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (228 bp):
AGCAAATTAAAGATACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTC
TTATCCCTCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTATAAATCTAATCTCCTTGAAG
TTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATTAAA
GCTACAAATCTTATCTCCTTGAAGTTACAATGG
Found at i:19323111 original size:407 final size:406
Alignment explanation
Indices: 19322356--19323220 Score: 1194
Period size: 407 Copynumber: 2.1 Consensus size: 406
19322346 AAATGAAATC
* * * * * *
19322356 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAAATTGAAGATAGCAAATCTTATATCTCTGAA
* * * * * **
19322421 GTTATAGTAGAGCAAATTAAAGCTACAAACTTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCA
66 GTTACAATAGAGCAAATTAAAGCTACAAACTTTATCTCCCTCAAGTTGCAATGGAGTAAATTAAA
* * * *
19322486 GATACCAGTCTCATCTCCTTAAAGTTATAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCCCT
131 GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCCCT
** *
19322551 GAAGTTACAATGGAACAGATTAAAGCTGTAAGTTACAAATCTTATCTCCTTGAAGTTGTAGTGGA
196 GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
* * * *
19322616 GTAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCTACAAACC
261 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
* * *
19322681 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCCCATCTCTCTGAAGTTGCAGT
326 TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCTCTGAAGTTGCAGT
19322746 AGAGAAGATTGAAGATA
391 AGAGAAGATTGAAG-TA
* **
19322763 ACAAATCTAATCTCCTTGAAGTTGCAGTGGACCTGATTGAAGATAGCAAATCTTATATCTCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAAATTGAAGATAGCAAATCTTATATCTCTGAA
* * * *
19322828 GTTGCAATAGAGCAGATTAAAGCTACAAACTTTATCTCTCTGAAGTTGCAATGGAGTAAATTAAA
66 GTTACAATAGAGCAAATTAAAGCTACAAACTTTATCTCCCTCAAGTTGCAATGGAGTAAATTAAA
* * * *
19322893 GTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCCT
131 GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCCCT
* * *
19322958 GAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGA
196 GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
* * *
19323023 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTTACAAATC
261 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
* * * * *
19323088 TTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATACGATTCTCATCTCTCTGAAGTTGTAGT
326 TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCTCTGAAGTTGCAGT
* * *
19323153 GGAGTAGATTGAAGTT
391 AGAGAAGATTGAAGTA
* * * *
19323169 ACAAGTCTTATC-CCTCTGAAGTTGCAGTGGAGCAAATTAAATATA-CAAATCT
1 ACAAATCTTATCTCCT-TGAAGTTGCAGTGGACCAAATTGAAGATAGCAAATCT
19323221 CATCTCCCTA
Statistics
Matches: 398, Mismatches: 59, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
405 10 0.03
406 35 0.09
407 353 0.89
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (406 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAAATTGAAGATAGCAAATCTTATATCTCTGAA
GTTACAATAGAGCAAATTAAAGCTACAAACTTTATCTCCCTCAAGTTGCAATGGAGTAAATTAAA
GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCCCT
GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCTCTGAAGTTGCAGT
AGAGAAGATTGAAGTA
Found at i:19323222 original size:88 final size:88
Alignment explanation
Indices: 19322987--19323254 Score: 340
Period size: 88 Copynumber: 3.0 Consensus size: 88
19322977 TTAAAGCTAC
* * * *
19322987 AAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATAT
1 AAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTCATCTCT
* *
19323052 CTAAAGTTGCAGTAGAGCAAATTA
65 CTAAAGTTGCAGTAGAGCAGATTG
* * *
19323076 AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATACGATTCTCATCTCTC
1 AAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTCATCTCTC
* * * *
19323141 TGAAGTTGTAGTGGAGTAGATTG
66 TAAAGTTGCAGTAGAGCAGATTG
* * * * *
19323164 AAGTTACAAGTCTTATC-CCTCTGAAGTTGCAGTGGAGCAAATTAAATATACAAATCTCATCTCC
1 AAGTTACAAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTCATCTCT
*
19323228 CTAAAGTTGCAGTACAGCAGATTG
65 CTAAAGTTGCAGTAGAGCAGATTG
19323252 AAG
1 AAG
19323255 CGATACTTTG
Statistics
Matches: 152, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 3 0.02
88 101 0.66
89 48 0.32
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (88 bp):
AAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTCATCTCTC
TAAAGTTGCAGTAGAGCAGATTG
Found at i:19324966 original size:3 final size:3
Alignment explanation
Indices: 19324952--19325000 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
19324942 ATTGTTCATG
* *
19324952 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19325000 T
1 T
19325001 ACTTTTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19329329 original size:38 final size:38
Alignment explanation
Indices: 19329268--19329342 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
19329258 TTGTTTTTAA
*
19329268 TCAATTTTTCTAAGGCTTGATTTGTTTCTCAATTTTTTT
1 TCAATTTTTCTAAGGCTTGATTTGTTTCAC-ATTTTTTT
19329307 TCAATTTTT-TAAGGCTTGATTTGTTTCACATTTTTT
1 TCAATTTTTCTAAGGCTTGATTTGTTTCACATTTTTT
19329343 GGATTCTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 7 0.20
38 19 0.54
39 9 0.26
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.59
Consensus pattern (38 bp):
TCAATTTTTCTAAGGCTTGATTTGTTTCACATTTTTTT
Found at i:19330003 original size:22 final size:21
Alignment explanation
Indices: 19329978--19330029 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
19329968 ATAAAATCCC
19329978 TAAAATTTTTTAAAAAAAATCA
1 TAAAATTTTTT-AAAAAAATCA
* *
19330000 TAAAATTGTTTAAAAATATCA
1 TAAAATTTTTTAAAAAAATCA
19330021 TAAAATTTT
1 TAAAATTTT
19330030 AAGATTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATTTTTTAAAAAAATCA
Found at i:19334266 original size:24 final size:24
Alignment explanation
Indices: 19334239--19334314 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
19334229 CATAATGCGA
* *
19334239 AAGTTCACAAAGAACCTTATCTGG
1 AAGTTCACAAAGAACCATATCGGG
*
19334263 AAGTT--C-AAGAACCGTATCGGG
1 AAGTTCACAAAGAACCATATCGGG
19334284 AAGTTCACAAAGAACCATATCGGG
1 AAGTTCACAAAGAACCATATCGGG
19334308 AAGTTCA
1 AAGTTCA
19334315 AGCGAGCACT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 18 0.39
22 1 0.02
23 1 0.02
24 26 0.57
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCGGG
Found at i:19334274 original size:21 final size:21
Alignment explanation
Indices: 19334248--19334316 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
19334238 AAAGTTCACA
* *
19334248 AAGAACCTTATCTGGAAGTTC
1 AAGAACCATATCGGGAAGTTC
*
19334269 AAGAACCGTATCGGGAAGTTCAC
1 AAGAACCATATCGGGAAGTT--C
19334292 AAAGAACCATATCGGGAAGTTC
1 -AAGAACCATATCGGGAAGTTC
19334314 AAG
1 AAG
19334317 CGAGCACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.50
22 1 0.02
23 1 0.02
24 19 0.45
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (21 bp):
AAGAACCATATCGGGAAGTTC
Found at i:19349230 original size:29 final size:29
Alignment explanation
Indices: 19349193--19349252 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
19349183 TCTATCTAAC
19349193 TAATTCTCATTCATATTCAGATGCTGTCA
1 TAATTCTCATTCATATTCAGATGCTGTCA
19349222 TAATTCTCATTCATATTCAGATGCTGTCA
1 TAATTCTCATTCATATTCAGATGCTGTCA
19349251 TA
1 TA
19349253 CTTCCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (29 bp):
TAATTCTCATTCATATTCAGATGCTGTCA
Found at i:19351575 original size:24 final size:24
Alignment explanation
Indices: 19351510--19351577 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
19351500 GGAAGCTCAT
* *
19351510 AAGAGCCATAATTGGAAAGTTCACA
1 AAGAACCAT-ATTGGGAAGTTCACA
* * **
19351535 AATAACCTTATCAGGAAGTTCACA
1 AAGAACCATATTGGGAAGTTCACA
19351559 AAGAACCATATTGGGAAGT
1 AAGAACCATATTGGGAAGT
19351578 GAAGAACCAT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (24 bp):
AAGAACCATATTGGGAAGTTCACA
Found at i:19360979 original size:30 final size:31
Alignment explanation
Indices: 19360928--19360986 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
19360918 TGGCCTGGGA
* * *
19360928 CATGGCTGTGTGGCCAGCCCGTG-GGAATCC
1 CATGGCCGTGTAGCCAACCCGTGTGGAATCC
19360958 CATGGCCGTGTAGCCAACCCGTGTGGAAT
1 CATGGCCGTGTAGCCAACCCGTGTGGAAT
19360987 TCTGGCTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (31 bp):
CATGGCCGTGTAGCCAACCCGTGTGGAATCC
Found at i:19362036 original size:53 final size:51
Alignment explanation
Indices: 19361948--19362096 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 51
19361938 TAATATCGAT
* * * * *
19361948 GCCATATCCCAGATATGATCTTATACGAAATCACATTATCACATCACACCGAC
1 GCCATAACCCAGCTATGGTCTTATACGGAA-CACA-TATCACATCACACCAAC
* * * *
19362001 GCCATAACCCAGCTTTGGTCTTATACGGGAACACATATCACATTATACCAAT
1 GCCATAACCCAGCTATGGTCTTATAC-GGAACACATATCACATCACACCAAC
* *
19362053 GCCATAGCCCAACTATGGTCTTATACAGGAACACATATCACATC
1 GCCATAACCCAGCTATGGTCTTATAC-GGAACACATATCACATC
19362097 TTTTCCGTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 52 0.64
53 26 0.32
54 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (51 bp):
GCCATAACCCAGCTATGGTCTTATACGGAACACATATCACATCACACCAAC
Found at i:19368562 original size:30 final size:31
Alignment explanation
Indices: 19368526--19368584 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
19368516 TGGCCTGGGA
*
19368526 CATGGCCGTATGGCCAGCCCGTG-GGAATCC
1 CATGGCCGTATGACCAGCCCGTGTGGAATCC
*
19368556 CATGGCCGTGTGACCAGCCCGTGTGGAAT
1 CATGGCCGTATGACCAGCCCGTGTGGAAT
19368585 TCTGACTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.19
Consensus pattern (31 bp):
CATGGCCGTATGACCAGCCCGTGTGGAATCC
Found at i:19369416 original size:41 final size:41
Alignment explanation
Indices: 19369371--19369454 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
19369361 TTCCATGTTG
**
19369371 CTATTCACAAATTTAACTCATTTGGGTTCATTTCTCATTCA
1 CTATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
19369412 CTATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
1 CTATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
19369453 CT
1 CT
19369455 TCCATTATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (41 bp):
CTATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
Found at i:19369680 original size:53 final size:52
Alignment explanation
Indices: 19369596--19369698 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 52
19369586 TCATATATAA
* *
19369596 TACCAATGCCATATCCCAGATATGGTTTTATACG-GAACCACATTATCACATTG
1 TACCAATGCCATAGCCCAGATATGGTCTTATACGAGAA-CACA-TATCACATTG
*
19369649 TACCAATGCCATAGCCCAGCTATGGTCTTATACGAGAACACATATCACAT
1 TACCAATGCCATAGCCCAGATATGGTCTTATACGAGAACACATATCACAT
19369699 CTTTTCCGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 8 0.17
53 35 0.76
54 3 0.07
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (52 bp):
TACCAATGCCATAGCCCAGATATGGTCTTATACGAGAACACATATCACATTG
Found at i:19374032 original size:18 final size:20
Alignment explanation
Indices: 19373993--19374032 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19373983 TAAAGAGGAA
19373993 TTGAAGTGGATAGAGCAAAAT
1 TTGAAGTGGATAGA-CAAAAT
19374014 TTGAAGT-GATAGA-AAAAT
1 TTGAAGTGGATAGACAAAAT
19374032 T
1 T
19374033 ACCACCTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (20 bp):
TTGAAGTGGATAGACAAAAT
Found at i:19377697 original size:24 final size:24
Alignment explanation
Indices: 19377670--19377733 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
19377660 TGCCAAGGAT
*
19377670 CCCACTCAAGTTGCTGCTAAAGCA
1 CCCACTCAAATTGCTGCTAAAGCA
** **
19377694 CCCACTCAACCTGCTGCTAGGGCA
1 CCCACTCAAATTGCTGCTAAAGCA
*
19377718 CCTACTCAAATTGCTG
1 CCCACTCAAATTGCTG
19377734 GGGAAGAGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (24 bp):
CCCACTCAAATTGCTGCTAAAGCA
Found at i:19392268 original size:20 final size:19
Alignment explanation
Indices: 19392204--19392292 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 19
19392194 ATAAATGAAG
*
19392204 AACAGGGGCACATACGTGCA
1 AACAGGGGCACA-AAGTGCA
*
19392224 ATCAGGGG-ACCAAAGTG-A
1 AACAGGGGCA-CAAAGTGCA
19392242 GAACAGGGGCACAAATGTGCA
1 -AACAGGGGCACAAA-GTGCA
* * *
19392263 AACAGGGACATCGAAGTGTA
1 AACAGGGGCA-CAAAGTGCA
*
19392283 TACAGGGGCA
1 AACAGGGGCA
19392293 TTGAAGTGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.02
19 16 0.29
20 34 0.62
21 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.33, T:0.11
Consensus pattern (19 bp):
AACAGGGGCACAAAGTGCA
Found at i:19392298 original size:20 final size:20
Alignment explanation
Indices: 19392264--19392301 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19392254 AAATGTGCAA
19392264 ACAGGGACATCGAAGTGTAT
1 ACAGGGACATCGAAGTGTAT
* *
19392284 ACAGGGGCATTGAAGTGT
1 ACAGGGACATCGAAGTGT
19392302 GAACAGCAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (20 bp):
ACAGGGACATCGAAGTGTAT
Found at i:19392307 original size:20 final size:19
Alignment explanation
Indices: 19392263--19392307 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19392253 CAAATGTGCA
19392263 AACAGGGACATCGAAGTGT
1 AACAGGGACATCGAAGTGT
* *
19392282 ATACAGGGGCATTGAAGTGT
1 A-ACAGGGACATCGAAGTGT
19392302 GAACAG
1 -AACAG
19392308 CAGCATAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (19 bp):
AACAGGGACATCGAAGTGT
Found at i:19392322 original size:60 final size:60
Alignment explanation
Indices: 19392258--19392393 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 60
19392248 GGGCACAAAT
* ** *
19392258 GTGCAAACAGGGACA-TCGAAGTGTATACAGGGGCATTGAAGTGTGAACAGCAGCATAGTC
1 GTGCAAACAGGGACACT-GAAGCGTATACAGGGGCACCGAAGTGCGAACAGCAGCATAGTC
* * * **
19392318 GTGCAAATAGGGACACTGGAGCGTATATAGGGGCACCGAAGTGCGAACAGGGGCATAGTC
1 GTGCAAACAGGGACACTGAAGCGTATACAGGGGCACCGAAGTGCGAACAGCAGCATAGTC
* * *
19392378 ATGCAAATAGAGACAC
1 GTGCAAACAGGGACAC
19392394 CAAAATCTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 63 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (60 bp):
GTGCAAACAGGGACACTGAAGCGTATACAGGGGCACCGAAGTGCGAACAGCAGCATAGTC
Found at i:19395018 original size:4 final size:4
Alignment explanation
Indices: 19395009--19395047 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
19394999 AGAAAAACAA
* * *
19395009 AAAT AAAT AAAT AAAT AAAT AAAC AAAC AAAT AATT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
19395048 GAATTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:19399753 original size:43 final size:43
Alignment explanation
Indices: 19399687--19399857 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
19399677 AGCTTGTATA
* * * *
19399687 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACACGAAATCAAATATCG
* *
19399730 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAAATA-CA
1 ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATCG
* * * *
19399772 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAAACAGGGTCTTACACG-AAATC-AAATATCG
* *
19399816 ATGCCAAAGTCCCAAAC-GTGGTCTTACACGAAATCACATATC
1 ATGCCAATGTCCCAAACAG-GGTCTTACACGAAATCAAATATC
19399858 AAAATCCTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.27
43 47 0.45
44 29 0.28
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATCG
Found at i:19399847 original size:86 final size:85
Alignment explanation
Indices: 19399686--19399851 Score: 246
Period size: 86 Copynumber: 1.9 Consensus size: 85
19399676 AAGCTTGTAT
* **
19399686 AATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGG
1 AATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAAAGTCCCAAACAGGG
19399751 TCTTACACGAAATCAAATAC
66 TCTTACACGAAATCAAATAC
* *
19399771 AATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGATGCCAAAGTCCCAAAC-G
1 AATGCCAACGTCCCAGACATGGTCTTACATGT-AATC-AAATATCGATGCCAAAGTCCCAAACAG
19399834 TGGTCTTACACGAAATCA
64 -GGTCTTACACGAAATCA
19399852 CATATCAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
85 31 0.42
86 40 0.55
87 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (85 bp):
AATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAAAGTCCCAAACAGGG
TCTTACACGAAATCAAATAC
Found at i:19404897 original size:80 final size:78
Alignment explanation
Indices: 19404813--19404981 Score: 189
Period size: 79 Copynumber: 2.1 Consensus size: 78
19404803 CTAAGATCCG
*
19404813 AAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAA
1 AAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAA
* *
19404876 ATCCGGGTTAAGTCCCA
62 AACCGGGCTAAGTCCCA
* * * *
19404893 AAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
* * *
19404958 CGGGCTATGTCTCG
65 CGGGCTAAGTCCCA
19404972 AAGGCATTTG
1 AAGGCATTTG
19404982 AACGAGGAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 36 0.48
80 34 0.45
82 3 0.04
83 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
AAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAACC
GGGCTAAGTCCCA
Found at i:19404917 original size:40 final size:38
Alignment explanation
Indices: 19404757--19405014 Score: 182
Period size: 40 Copynumber: 6.5 Consensus size: 38
19404747 TTGAATGCTG
* * * * *
19404757 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-ACTAAA
** *
19404797 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAG-TACTAA-A
* *
19404837 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAG-TACTAAA
* *
19404877 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGT-ACTAAA
*
19404917 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TACTAAA
* * * * * *
19404956 ACCGGGCTATGTCTCGAAGGCATT-TGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTG--CGAGTA-CTAAA
*
19404996 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19405015 TATGTGATTT
Statistics
Matches: 175, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
38 2 0.01
39 49 0.28
40 113 0.65
41 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
Done.