Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 89
Found at i:3250162 original size:30 final size:30
Alignment explanation
Indices: 3250122--3250191 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
3250112 ACTTATAAAG
3250122 GAAAT-GAAATAATCTTTCTTTTAGTTTAA
1 GAAATGGAAATAATCTTTCTTTTAGTTTAA
3250151 GAAATGGAAATAATCTTTCTTTTAGTTTAA
1 GAAATGGAAATAATCTTTCTTTTAGTTTAA
*
3250181 GAAATGAAAAT
1 GAAATGGAAAT
3250192 TAGAGTATGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 5 0.13
30 34 0.87
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (30 bp):
GAAATGGAAATAATCTTTCTTTTAGTTTAA
Found at i:3250684 original size:27 final size:29
Alignment explanation
Indices: 3250642--3250710 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 29
3250632 TATGATAAAA
* *
3250642 ATATGAGAATAAGAAATAAG-TC-ATGTG-
1 ATATGTGAATATGAAA-AAGATCTATGTGT
*
3250669 ATATGTGAATATGAAAATGATCTATGTGT
1 ATATGTGAATATGAAAAAGATCTATGTGT
3250698 ATATGTGATATAT
1 ATATGTGA-ATAT
3250711 ATATGATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 16 0.46
28 5 0.14
29 8 0.23
30 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (29 bp):
ATATGTGAATATGAAAAAGATCTATGTGT
Found at i:3250952 original size:18 final size:18
Alignment explanation
Indices: 3250929--3250963 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3250919 AGGGTTCTAC
*
3250929 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGGACATA
*
3250947 GTGGTCATTTGGGACAT
1 GTGGTCATTCGGGACAT
3250964 TTCATAGTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
GTGGTCATTCGGGACATA
Found at i:3251390 original size:2 final size:2
Alignment explanation
Indices: 3251379--3251409 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3251369 TATATATATA
*
3251379 TG TG TA 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 TG T
3251410 TATGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3255087 original size:20 final size:21
Alignment explanation
Indices: 3255057--3255096 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
3255047 AGCCATTGGG
3255057 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
3255078 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
3255097 CTATGTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:3256242 original size:21 final size:20
Alignment explanation
Indices: 3256197--3256268 Score: 83
Period size: 21 Copynumber: 3.6 Consensus size: 20
3256187 ACTGTTGTCT
*
3256197 AAGGGATCGATCCTTT-TCA
1 AAGGGATCGATCATTTATCA
*
3256216 AGGGGATCGATCATTTAGTCA
1 AAGGGATCGATCATTTA-TCA
* *
3256237 AAGGGATCGATCATTTAACT
1 AAGGGATCGATCATTTATCA
*
3256257 AAGGGATTGATC
1 AAGGGATCGATC
3256269 CTTTGAGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.31
20 12 0.27
21 19 0.42
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (20 bp):
AAGGGATCGATCATTTATCA
Found at i:3258159 original size:24 final size:25
Alignment explanation
Indices: 3258108--3258166 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
3258098 TTAGATTTGT
3258108 AAATTTATTTTAAAATATATAAAAA
1 AAATTTATTTTAAAATATATAAAAA
* *
3258133 AAATTTTATTTTTAAAT-T-TAAATA
1 AAA-TTTATTTTAAAATATATAAAAA
3258157 AAATTTATTT
1 AAATTTATTT
3258167 GATTCGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 7 0.23
24 8 0.26
25 4 0.13
26 12 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATTTATTTTAAAATATATAAAAA
Found at i:3260248 original size:2 final size:2
Alignment explanation
Indices: 3260241--3260271 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3260231 TTTATGTCTT
3260241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3260272 TAGATTGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3263921 original size:31 final size:31
Alignment explanation
Indices: 3263885--3263944 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
3263875 AAGAGTTTGA
3263885 GAGTTCCTAATGAGAAGAACATATTGAATGG
1 GAGTTCCTAATGAGAAGAACATATTGAATGG
* *
3263916 GAGTTCCTAGTGAGAAGGACATATTGAAT
1 GAGTTCCTAATGAGAAGAACATATTGAAT
3263945 TCACCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (31 bp):
GAGTTCCTAATGAGAAGAACATATTGAATGG
Found at i:3267752 original size:30 final size:30
Alignment explanation
Indices: 3267691--3267754 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
3267681 TCGTTACCCG
*
3267691 TCTTCTTCTTCTTTTCTTCTTCTCCATTTT
1 TCTTCTTCTTCTTTTCTTCTTCTCCACTTT
*
3267721 TCTTCTTCTT-TCTTTCTT-TCTCTTCACTTT
1 TCTTCTTCTTCT-TTTCTTCT-TCTCCACTTT
3267751 TCTT
1 TCTT
3267755 TTCATCGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (30 bp):
TCTTCTTCTTCTTTTCTTCTTCTCCACTTT
Found at i:3273702 original size:65 final size:63
Alignment explanation
Indices: 3273624--3273775 Score: 192
Period size: 57 Copynumber: 2.5 Consensus size: 63
3273614 GATTTAATTG
*
3273624 AACATCGAATGCATTTGATTCATCGATGCACATACCATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTT-ATTCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTT-TAAA
* *
3273689 AACATCGAATGC----ATT--T-GATGCACATACCATGCATCGATGCATTCAGGCTTTTTCAA
1 AACATCGAATGCATTTATTCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAA
*
3273745 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCA-TTTATTCATCGATGCAC
3273776 TCTTAGTGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
56 15 0.20
57 34 0.45
58 1 0.01
60 3 0.04
61 2 0.03
63 1 0.01
64 7 0.09
65 12 0.16
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (63 bp):
AACATCGAATGCATTTATTCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAA
Found at i:3273714 original size:57 final size:56
Alignment explanation
Indices: 3273648--3273766 Score: 193
Period size: 57 Copynumber: 2.1 Consensus size: 56
3273638 TTGATTCATC
*
3273648 GATGCACATACCATGCATCGATGCACTCAGGGTTTTATAAAAACATCGAATGCATTT
1 GATGCACATACCATGCATCGATGCACTCAGGCTTTT-TAAAAACATCGAATGCATTT
* *
3273705 GATGCACATACCATGCATCGATGCATTCAGGCTTTTTCAAAACATCGAATGCATTT
1 GATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAAAACATCGAATGCATTT
*
3273761 TATGCA
1 GATGCA
3273767 TCGATGCACT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 24 0.41
57 34 0.59
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (56 bp):
GATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAAAACATCGAATGCATTT
Found at i:3282502 original size:64 final size:65
Alignment explanation
Indices: 3282325--3282484 Score: 252
Period size: 65 Copynumber: 2.5 Consensus size: 65
3282315 GATTTAATTG
*
3282325 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTTAGGGTTTTATAAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTTAGGCTTTTATAAA
* *
3282390 AACATCGAATGCATTTGACGCATCGATGCACATACCATGCATCGATGCA-TTCAGGCTTTT-TCA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTT-AGGCTTTTATAA
3282453 A
65 A
* *
3282454 AATATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
3282485 TCTTAGTGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 33 0.38
65 55 0.62
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTTAGGCTTTTATAAA
Found at i:3283979 original size:19 final size:20
Alignment explanation
Indices: 3283952--3284001 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3283942 GCTATTTTTT
*
3283952 GTATTGATACTC-AGGGTGA
1 GTATCGATACTCAAGGGTGA
* *
3283971 GTATCGATACCCAAGGGTTA
1 GTATCGATACTCAAGGGTGA
3283991 GTATCGATACT
1 GTATCGATACT
3284002 ATTGGCACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (20 bp):
GTATCGATACTCAAGGGTGA
Found at i:3292211 original size:11 final size:11
Alignment explanation
Indices: 3292195--3292236 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
3292185 TTATAGAATA
3292195 CAAAATGAGTG
1 CAAAATGAGTG
3292206 CAAAATGAGTG
1 CAAAATGAGTG
*
3292217 CAAAGTGAGTG
1 CAAAATGAGTG
*
3292228 CAAAGTGAG
1 CAAAATGAG
3292237 GTACCTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.17
Consensus pattern (11 bp):
CAAAATGAGTG
Found at i:3298078 original size:24 final size:24
Alignment explanation
Indices: 3298034--3298083 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3298024 ATAAAGAACC
*
3298034 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
3298058 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
3298082 AA
1 AA
3298084 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:3301761 original size:16 final size:18
Alignment explanation
Indices: 3301726--3301762 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
3301716 ATCAAAAATT
*
3301726 AAATACAAAATGAAATAA
1 AAATACAAAATGAAAGAA
3301744 AAATA-AAAAT-AAAGAA
1 AAATACAAAATGAAAGAA
3301760 AAA
1 AAA
3301763 CTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (18 bp):
AAATACAAAATGAAAGAA
Found at i:3308284 original size:24 final size:24
Alignment explanation
Indices: 3308240--3308289 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3308230 ATAAAGAACC
*
3308240 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
3308264 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
3308288 AA
1 AA
3308290 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:3309735 original size:134 final size:134
Alignment explanation
Indices: 3309114--3309813 Score: 917
Period size: 135 Copynumber: 5.2 Consensus size: 134
3309104 AGTTAACAAT
* * * * * *
3309114 GTCAGACTCGAGAAAATTTTGATTCACTTCGCTGCTCTTCGGGGAAGATTGAATCAAATGTGTTT
1 GTCAGACTCGAGAAAATTTTGATTCACCTCACTACTCTTCAGGGAAGATTGAATCGAATGTGATT
* * *
3309179 TGCTTCACTGCTCTTCAGGGAGACCAAATCTGAAAGAAAAAGAATATGCTCTACTACTTTTTAGG
66 TGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATATGCTCTGCTACTCTTTAGG
3309244 GGAG
131 GGAG
* * * * * *
3309248 GTCAGACTCGAGAAAAACTGTGATCCA-CTCCACTACTCTTTAGGGAAAATTGAATCGAATGAGA
1 GTCAGACTCGAG-AAAATTTTGATTCACCT-CACTACTCTTCAGGGAAGATTGAATCGAATGTGA
* * * * *
3309312 TTTGATTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAAAATTCTACTCCGCTACTCTTT
64 TTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAA-TATGCTCTGCTACTCTTT
3309377 AGGGGAG
128 AGGGGAG
* * * *
3309384 GTCAGACTCGAGAAAATTTTGGTTCACCTCATTTCTCTTC-GAGGAAGATTGAATTGAATGTGAT
1 GTCAGACTCGAGAAAATTTTGATTCACCTCACTACTCTTCAG-GGAAGATTGAATCGAATGTGAT
* * * *
3309448 TTGCTTCACTACTCTTCATGAAGACAAAATCTGAAAGAAAAAGAATATGCTCCGCTACTCTTTAG
65 TTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATATGCTCTGCTACTCTTTAG
* *
3309513 GTGAA
130 GGGAG
* * * * * *
3309518 GTCAAACTCGAGAAGAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCCAATGTGAT
1 GTCAGACTCGAGAA-AATTTTGATTCACCTCACTACTCTTCAGGGAAGATTGAATCGAATGTGAT
* *
3309583 TTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATATGCTCTTCTACTATTTAG
65 TTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATATGCTCTGCTACTCTTTAG
3309648 GGGAG
130 GGGAG
3309653 GTCAGACTCGAGAAAATTTTGATTCACCTCACTACTCTTCAGGGAAGATTGAATCGAATGTGATT
1 GTCAGACTCGAGAAAATTTTGATTCACCTCACTACTCTTCAGGGAAGATTGAATCGAATGTGATT
*
3309718 TGCTTCACTGCTCTTCAGGAAGACC-AA-CTGAAAGAAAAAAAAGAATTTGCTCTGCTACTCTTT
66 TGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAG---AAAAAGAATATGCTCTGCTACTCTTT
3309781 A-GGGATG
128 AGGGGA-G
3309788 GTCAGACTC-ATGAAAATTTTGATTCA
1 GTCAGACTCGA-GAAAATTTTGATTCA
3309814 TTCCACCACT
Statistics
Matches: 489, Mismatches: 65, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
132 7 0.01
133 2 0.00
134 124 0.25
135 321 0.66
136 35 0.07
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (134 bp):
GTCAGACTCGAGAAAATTTTGATTCACCTCACTACTCTTCAGGGAAGATTGAATCGAATGTGATT
TGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATATGCTCTGCTACTCTTTAGG
GGAG
Found at i:3313949 original size:17 final size:17
Alignment explanation
Indices: 3313927--3313960 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3313917 CTAAGGTGTC
3313927 TATGTATGGTAATGGAA
1 TATGTATGGTAATGGAA
3313944 TATGTATGGTAATGGAA
1 TATGTATGGTAATGGAA
3313961 AATTATCCTT
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:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
TATGTATGGTAATGGAA
Found at i:3317930 original size:81 final size:81
Alignment explanation
Indices: 3317791--3317952 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
3317781 GAAGGGAATA
* * *
3317791 AAGTTGAACGAATTTTGACCATTTTGCGGCAACCAGAGCATCTTCTAAAAAAACCGATCCCAAAT
1 AAGTTGAACGAATTTTAACCATTTTACGGCAACCAGAGCATCTTCTAAAAAAACCGATCACAAAT
3317856 ATGAACTCAAGAGATC
66 ATGAACTCAAGAGATC
* *
3317872 AAGTTGAACGAATTTTAACCATTTTATGGCAACCAGAGCATCTTCTAAAAAAATCGATCACAAAT
1 AAGTTGAACGAATTTTAACCATTTTACGGCAACCAGAGCATCTTCTAAAAAAACCGATCACAAAT
3317937 ATGAACTCAAGAGATC
66 ATGAACTCAAGAGATC
3317953 GAGACGAACT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (81 bp):
AAGTTGAACGAATTTTAACCATTTTACGGCAACCAGAGCATCTTCTAAAAAAACCGATCACAAAT
ATGAACTCAAGAGATC
Found at i:3318527 original size:44 final size:45
Alignment explanation
Indices: 3318478--3318575 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 45
3318468 AGTTCTTATT
*
3318478 TTTATTACTTTAT-TTAACATTTTTCCTTTGATTTATTTAAT-T-TA
1 TTTATTA-TTTATCTT-ACATTTTTCCTTTGATTTATATAATATCTA
***
3318522 TTTATT-TTTATCTTTTGTTTTTCCTTTGATTTATATAATATCTA
1 TTTATTATTTATCTTACATTTTTCCTTTGATTTATATAATATCTA
3318566 TTTATTATTT
1 TTTATTATTT
3318576 TTTGACTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 26 0.57
43 3 0.07
44 14 0.30
45 3 0.07
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.66
Consensus pattern (45 bp):
TTTATTATTTATCTTACATTTTTCCTTTGATTTATATAATATCTA
Found at i:3321298 original size:100 final size:99
Alignment explanation
Indices: 3321182--3321446 Score: 320
Period size: 100 Copynumber: 2.7 Consensus size: 99
3321172 TTATAATATT
* * * *
3321182 ATATATATATAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAATGCCCCGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGG
3321247 ATAAGATTCAGCTAAGCCTGAT-AAGGTTGATTATA
66 ATAAGATTCAGCTAA-CCTGATAAAGG-TGATTATA
* * *
3321282 ATATATATACAATAAAGCTCGAGTTGTCCATCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGG
* ** * *
3321347 ATAATATTTTGTTAATCTGATAAAGGTGATTATA
66 ATAAGATTCAGCTAACCTGATAAAGGTGATTATA
* * * * * *
3321381 ATATCTATACAATGATA--TTAAGATGTCCCTCTAGAGTAATTGGTTAAACGCCCCAGCTTTATG
1 ATATATATACAAT-AAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATG
3321444 GAT
65 GAT
3321447 TCAGCTAGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
98 42 0.29
99 25 0.17
100 76 0.53
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGG
ATAAGATTCAGCTAACCTGATAAAGGTGATTATA
Found at i:3322589 original size:84 final size:84
Alignment explanation
Indices: 3322419--3323427 Score: 1031
Period size: 84 Copynumber: 12.0 Consensus size: 84
3322409 ACCATTTTTT
* * * * * * *
3322419 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTACTAACC-AAGACCTGCGAGTTCAATTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
3322483 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCATATC
* * * * *
3322502 ATTTGCAACATAACTCAAGGCTAGAAGGGTTATATGCCAACCAAAGACCTTCGAGTTGGACTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
3322567 CTCAGCTCAAAGGAACATC
66 CTCAGCTCCAAGGCATATC
* * * * * * * *
3322586 ATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTACCAACTAAAGACCTTTGAGTTCGACTACT
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
3322651 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCATATC
* * * * *
3322670 ATTCGCAGCATAGA-TCAAGGCTAGAAGGGATATCTTCC-ACCAAAAGACCTTCGAGTTTGACTA
1 ATTTGCAGCATA-ACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
** *
3322733 TGCTCAGCTCCAAGGTATATC
64 CACTCAGCTCCAAGGCATATC
* * * *
3322754 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTT-TCTGCCTACCAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGCGAGAAGGG-TTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
3322818 TCTCAGCTCCAAGGCATACC
65 ACTCAGCTCCAAGGCATATC
* * * * * * *
3322838 ATTTGTAGTATAACTCAAAGCTAAAAGGGTTATCTGCCAACAAAAGACCTTTGAAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG-AGTTCGACTAC
* * *
3322903 GCTCAGCTCAAAGGCACATC
65 ACTCAGCTCCAAGGCATATC
* * * * * * *
3322923 ATTTACAGTATAACTTAAGTCGAGAAGGGCTATTTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
3322988 CTGAGCTCTAAGGCACATC
66 CTCAGCTCCAAGGCATATC
** * * *
3323007 ATTTGCAGCATAACTCAAGGTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGTCTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
** *
3323072 CTCAGCTTTAAGACATATC
66 CTCAGCTCCAAGGCATATC
* * *
3323091 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGTCTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* ** *
3323156 CTCAACTTTGAGGGCATATC
66 CTCAGC-TCCAAGGCATATC
* * * * * * * *
3323176 ATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTCCCAACCAAAGGCCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
3323241 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCATATC
* * * * * *
3323260 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGATTTCAATTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
** *
3323324 CTCAGCTTAAAGGCACATC
66 CTCAGCTCCAAGGCATATC
* * * * * ** *
3323343 ATTTACAGTATAGCTCAAGGCGAGAATGGCTATCTTTC-ACCACAAGACCTTCGAGTTCGATTAC
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCA-AAGACCTTCGAGTTCGACTAC
* *
3323407 ATTCAGCTCAAAGGCATATC
65 ACTCAGCTCCAAGGCATATC
3323427 A
1 A
3323428 AATTTACAAT
Statistics
Matches: 772, Mismatches: 143, Indels: 21
0.82 0.15 0.02
Matches are distributed among these distances:
82 1 0.00
83 109 0.14
84 518 0.67
85 144 0.19
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCCAAGGCATATC
Found at i:3323444 original size:253 final size:252
Alignment explanation
Indices: 3322419--3323446 Score: 1103
Period size: 253 Copynumber: 4.1 Consensus size: 252
3322409 ACCATTTTTT
* * * * * * *
3322419 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTACTAACC-AAGACCTGCGAGTTCAATTACA
1 ATTTACAGCATAGCTTAAGGCGAGAAGGGATATCTACCAACCAAAGACCTTCGAGTTCGACTACA
* *
3322483 CTCAGCTCCAAGGCATATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATATGCCAACCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
* * * * *
3322548 ACCTTCGAGTTGGACTACGCTCAGCTCAAAGGAACATCATTTGCAACATAACTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
* * * *
3322613 GGCTATCTACCAACTAAAGACCTTTGAGTTCGACTACTCTCAGCTCCAAGGCATATC
196 GGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATC
** * * * * * *
3322670 ATTCGCAGCATAGATCAAGGCTAGAAGGGATATCTTCC-ACCAAAAGACCTTCGAGTTTGACTAT
1 ATTTACAGCATAGCTTAAGGCGAGAAGGGATATCTACCAACC-AAAGACCTTCGAGTTCGACTAC
* * * * * * *
3322734 GCTCAGCTCCAAGGTATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTT-TCTGCCTACCAA
65 ACTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGG-TTATCTGCCAACCAA
* * * * * * * * *
3322798 AGACCTTCGAGTTCGACTACTCTCAGCTCCAAGGCATACCATTTGTAGTATAACTCAAAGCTAAA
129 AGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGA
* * * * * *
3322863 AGGGTTATCTGCCAACAAAAGACCTTTGAAGTTCGACTACGCTCAGCTCAAAGGCACATC
194 AGGGCTATCTACCAACCAAAGACCTTCG-AGTTCGACTACACTCAGCTCAAAGGCATATC
* * * * * * *
3322923 ATTTACAGTATAACTTAAGTCGAGAAGGGCTATTTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAGCTTAAGGCGAGAAGGGATATCTACCAACCAAAGACCTTCGAGTTCGACTACA
* * * *
3322988 CTGAGCTCTAAGGCACATCATTTGCAGCATAACTCAAGGTTAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
* * ** * * *
3323053 ACCTTCGAGTTTGTCTACGCTCAGCTTTAAGACATATCATTTGCAGCATAACTCAAGGCTAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
* * * ** *
3323118 GGTTATCTACCAACCAAAGACCTTCGAGTTCGTCTACACTCAACTTTGAGGGCATATC
196 GGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCAAAGGCATATC
* * * * * *
3323176 ATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTCCCAACCAAAGGCCTTCGAGTTTGATTACA
1 ATTTACAGCATAGCTTAAGGCGAGAAGGGATATCTACCAACCAAAGACCTTCGAGTTCGACTACA
* *
3323241 CTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
* * * * * * * * *
3323305 ACCTTCGATTTCAATTACACTCAGCTTAAAGGCACATCATTTACAGTATAGCTCAAGGCGAGAAT
131 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
** * *
3323370 GGCTATCTTTC-ACCACAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
196 GGCTATCTACCAACCA-AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATC
**
3323427 AAATTTACAATATAGCTTAA
1 --ATTTACAGCATAGCTTAA
3323447 TTCAAGAAAA
Statistics
Matches: 640, Mismatches: 127, Indels: 18
0.82 0.16 0.02
Matches are distributed among these distances:
250 3 0.00
251 46 0.07
252 249 0.39
253 339 0.53
254 3 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (252 bp):
ATTTACAGCATAGCTTAAGGCGAGAAGGGATATCTACCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
GGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATC
Found at i:3326321 original size:21 final size:21
Alignment explanation
Indices: 3326297--3326336 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3326287 GAGCATTCAA
3326297 CATATTTTCTTGCATCTTTTT
1 CATATTTTCTTGCATCTTTTT
*
3326318 CATATTTTCTTGTATCTTT
1 CATATTTTCTTGCATCTTT
3326337 AGCTGAGTTT
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:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (21 bp):
CATATTTTCTTGCATCTTTTT
Found at i:3329090 original size:563 final size:563
Alignment explanation
Indices: 3328024--3329145 Score: 2091
Period size: 563 Copynumber: 2.0 Consensus size: 563
3328014 CATAGTTAAT
*
3328024 CCAGGTACATGTTTTGAACCTCATGATTTCAAAGAGTTTGTTCATCCTAAGCCTTCATTACAACA
1 CCAGGTACATGTTTTGAACCTCATGATTTCAAAGAGTTTGTTCATCCTAAGCCTTCATCACAACA
* * * *
3328089 TGCAGCTAGCCTAGGGTTAAATAATTTGCCGCAACATCTTAAATATTCTTATCTAGGTAGTAATA
66 TGCACCGACCCTAGAGTTAAATAATTTGCCGCAACATCTTAAATATTCTTATCTAGGTAGTAATA
3328154 AAACTTTACTTGTTATTATTTCCTTTGCCCTTACTTCTAACCAAGAATGTAGTTTGTTAAGAGTA
131 AAACTTTACTTGTTATTATTTCCTTTGCCCTTACTTCTAACCAAGAATGTAGTTTGTTAAGAGTA
*
3328219 TTGTCACAACACAAGAGAGCGTTAGGATGGACTATGACAGATCTGAAGGGAATAAGTCCTACCAT
196 TTGTCACAACACAAGAGAGCGTTAGGATGGACTATAACAGATCTGAAGGGAATAAGTCCTACCAT
*
3328284 TTGTATGCACAAAATCCTGCTGGAAGAATGCCTTGCCAAATCCATAGAACCACAAAGAAGAATAA
261 TTGCATGCACAAAATCCTGCTGGAAGAATGCCTTGCCAAATCCATAGAACCACAAAGAAGAATAA
* *
3328349 ACCCAATCATGAAACAAGTCCTGATGAAAGAAATTCTCAAATGGCTTGATACTGGAGTGTTTTAC
326 ACCCAATCATGAAACAAGTCCTGATGAAAAAAATTATCAAATGGCTTGATACTGGAGTGTTTTAC
* *
3328414 CCCATCTCTGATAGATCTTGGGTGAGTCTCATCCAATGTGTGCCAAAGAAGGGAGGTATGACAGT
391 CCCATCTCTGATAGATCTTGCGTGAGTCTCATCCAATGTGTGCCAAAGAAGAGAGGTATGACAGT
*
3328479 GGTGACAAGTGAAGATAATGAGCTATTACCAGCACGCACTGTCACCAGGTGGCAGATATGTATGG
456 GGTGACAAGTGAAGATAATGAGCTATTACCAACACGCACTGTCACCAGGTGGCAGATATGTATGG
3328544 ACTATCGCAAACTGAACAAGGCCACCAAGAAGGACCACTGTCA
521 ACTATCGCAAACTGAACAAGGCCACCAAGAAGGACCACTGTCA
3328587 CCAGGTACATGTTTTGAACCTCATGATTTCAAAGAGTTTGTTCATCCTAAGCCTTCATCACAACA
1 CCAGGTACATGTTTTGAACCTCATGATTTCAAAGAGTTTGTTCATCCTAAGCCTTCATCACAACA
3328652 TGCACCGACCCTAGAGTTAAATAATTTGCCGCAACATCTTAAATATTCTTATCTAGGTAGTAATA
66 TGCACCGACCCTAGAGTTAAATAATTTGCCGCAACATCTTAAATATTCTTATCTAGGTAGTAATA
*
3328717 AAACTTTACTTGTTATTATTTTCTTTGCCCTTACTTCTAACCAAGAATGTAGTTTGTTAAGAGTA
131 AAACTTTACTTGTTATTATTTCCTTTGCCCTTACTTCTAACCAAGAATGTAGTTTGTTAAGAGTA
*
3328782 TTGTCACAACACAAGAGAGCGTTAGGATGGACTATAACAGATCTGAAGGGAATAATTCCTACCAT
196 TTGTCACAACACAAGAGAGCGTTAGGATGGACTATAACAGATCTGAAGGGAATAAGTCCTACCAT
3328847 TTGCATGCACAAAATCCTGCTGGAAGAATGCCTTGCCAAATCCATAGAACCACAAAGAAGAATAA
261 TTGCATGCACAAAATCCTGCTGGAAGAATGCCTTGCCAAATCCATAGAACCACAAAGAAGAATAA
3328912 ACCCAATCATGAAACAAGTCCTGATGAAAAAAATTATCAAATGGCTTGATACTGGAGTGTTTTAC
326 ACCCAATCATGAAACAAGTCCTGATGAAAAAAATTATCAAATGGCTTGATACTGGAGTGTTTTAC
*
3328977 CCCATCTCTGATAGATCTTGCGTGAGTCTCATCCAATGTGTGCCAAAGAAGAGAGGTATGACCGT
391 CCCATCTCTGATAGATCTTGCGTGAGTCTCATCCAATGTGTGCCAAAGAAGAGAGGTATGACAGT
* *
3329042 GGTGACAAGTGAATATAATGAGCTATTACCAACACGCACTTTCACCAGGTGGCAGATATGTATGG
456 GGTGACAAGTGAAGATAATGAGCTATTACCAACACGCACTGTCACCAGGTGGCAGATATGTATGG
3329107 ACTATCGCAAACTGAACAAGGCCACCAAGAAGGACCACT
521 ACTATCGCAAACTGAACAAGGCCACCAAGAAGGACCACT
3329146 TCCATTTGCC
Statistics
Matches: 542, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
563 542 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (563 bp):
CCAGGTACATGTTTTGAACCTCATGATTTCAAAGAGTTTGTTCATCCTAAGCCTTCATCACAACA
TGCACCGACCCTAGAGTTAAATAATTTGCCGCAACATCTTAAATATTCTTATCTAGGTAGTAATA
AAACTTTACTTGTTATTATTTCCTTTGCCCTTACTTCTAACCAAGAATGTAGTTTGTTAAGAGTA
TTGTCACAACACAAGAGAGCGTTAGGATGGACTATAACAGATCTGAAGGGAATAAGTCCTACCAT
TTGCATGCACAAAATCCTGCTGGAAGAATGCCTTGCCAAATCCATAGAACCACAAAGAAGAATAA
ACCCAATCATGAAACAAGTCCTGATGAAAAAAATTATCAAATGGCTTGATACTGGAGTGTTTTAC
CCCATCTCTGATAGATCTTGCGTGAGTCTCATCCAATGTGTGCCAAAGAAGAGAGGTATGACAGT
GGTGACAAGTGAAGATAATGAGCTATTACCAACACGCACTGTCACCAGGTGGCAGATATGTATGG
ACTATCGCAAACTGAACAAGGCCACCAAGAAGGACCACTGTCA
Found at i:3339271 original size:19 final size:18
Alignment explanation
Indices: 3339232--3339272 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
3339222 ACATTTTGTC
* *
3339232 ATTTTAATAAAAATATTA
1 ATTTTAATAAAAAAATAA
3339250 ATTTTAATTAAAAAAATAA
1 ATTTTAA-TAAAAAAATAA
3339269 ATTT
1 ATTT
3339273 ACGGTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTAATAAAAAAATAA
Found at i:3340886 original size:22 final size:22
Alignment explanation
Indices: 3340837--3340887 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
3340827 CAATATTTCG
*
3340837 AGACCCTAATATCTTTCAAACC
1 AGACCCTAATATCTCTCAAACC
* *
3340859 ATACCCTAATATCTC-CTAAACT
1 AGACCCTAATATCTCTC-AAACC
3340881 AGACCCT
1 AGACCCT
3340888 TAAACCCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.27
Consensus pattern (22 bp):
AGACCCTAATATCTCTCAAACC
Found at i:3341013 original size:22 final size:21
Alignment explanation
Indices: 3341001--3341045 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
3340991 TTTATTCTTA
3341001 TTCTTCTTCTTTTCATTAGTTT
1 TTCTTCTTCTTTT-ATTAGTTT
*
3341023 TTCTTCTTCTTTGATTAGTTT
1 TTCTTCTTCTTTTATTAGTTT
3341044 TT
1 TT
3341046 TGGTTGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.69
Consensus pattern (21 bp):
TTCTTCTTCTTTTATTAGTTT
Found at i:3341046 original size:22 final size:22
Alignment explanation
Indices: 3341001--3341045 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
3340991 TTTATTCTTA
3341001 TTCTTCTTCTTTTCATTAGTTT
1 TTCTTCTTCTTTTCATTAGTTT
*
3341023 TTCTTCTTC-TTTGATTAGTTT
1 TTCTTCTTCTTTTCATTAGTTT
3341044 TT
1 TT
3341046 TGGTTGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.69
Consensus pattern (22 bp):
TTCTTCTTCTTTTCATTAGTTT
Found at i:3355252 original size:18 final size:19
Alignment explanation
Indices: 3355207--3355289 Score: 81
Period size: 18 Copynumber: 4.7 Consensus size: 19
3355197 AATTCTAATG
*
3355207 TTTT-CAGTTATTAGAT-A
1 TTTTACAGTTATCAGATGA
*
3355224 -TTTACAATTATCAGATGA
1 TTTTACAGTTATCAGATGA
3355242 TTTTA-AGTTATCAGAT-A
1 TTTTACAGTTATCAGATGA
* *
3355259 -TTTACAGATATCATATG-
1 TTTTACAGTTATCAGATGA
3355276 TTTTACAGTTATCA
1 TTTTACAGTTATCA
3355290 TACACAGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
16 7 0.13
17 20 0.37
18 23 0.43
19 4 0.07
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTACAGTTATCAGATGA
Found at i:3355258 original size:35 final size:34
Alignment explanation
Indices: 3355204--3355289 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 34
3355194 ATGAATTCTA
* *
3355204 ATGTTTTCAGTTATTAGATATTTACA-ATTATCAG
1 ATGTTTTAAGTTATCAGATATTTACAGA-TATCAG
*
3355238 ATGATTTTAAGTTATCAGATATTTACAGATATCAT
1 ATG-TTTTAAGTTATCAGATATTTACAGATATCAG
3355273 ATGTTTTACAGTTATCA
1 ATGTTTTA-AGTTATCA
3355290 TACACAGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 8 0.17
35 37 0.80
36 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (34 bp):
ATGTTTTAAGTTATCAGATATTTACAGATATCAG
Found at i:3355270 original size:17 final size:17
Alignment explanation
Indices: 3355219--3355271 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
3355209 TTCAGTTATT
3355219 AGATATTTACA-ATTATC
1 AGATATTTACAGA-TATC
*
3355236 AGATGATTTTA-AGTTATC
1 AGAT-A-TTTACAGATATC
3355254 AGATATTTACAGATATC
1 AGATATTTACAGATATC
3355271 A
1 A
3355272 TATGTTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.13
17 12 0.40
18 10 0.33
19 4 0.13
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (17 bp):
AGATATTTACAGATATC
Found at i:3357798 original size:27 final size:27
Alignment explanation
Indices: 3357768--3357819 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3357758 CCTGGAAATA
3357768 ATTTAGGTCATTGTACACTTTAGGGGT
1 ATTTAGGTCATTGTACACTTTAGGGGT
* *
3357795 ATTTTGGTCATTTTACACTTTAGGG
1 ATTTAGGTCATTGTACACTTTAGGG
3357820 CATTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (27 bp):
ATTTAGGTCATTGTACACTTTAGGGGT
Found at i:3358336 original size:20 final size:20
Alignment explanation
Indices: 3358311--3358348 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3358301 TATGCCTTAT
3358311 AGTATCAATACTGACCCTTG
1 AGTATCAATACTGACCCTTG
*
3358331 AGTATCAATACTTACCCT
1 AGTATCAATACTGACCCT
3358349 AGATATCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
AGTATCAATACTGACCCTTG
Found at i:3359067 original size:21 final size:21
Alignment explanation
Indices: 3359043--3359100 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
3359033 TTAAGTTCTT
3359043 GTGGGA-AGAAATAAGATAAAA
1 GTGGGAGAGAAA-AAGATAAAA
* *
3359064 GTGGGAGGGAAAAAGATAAATT
1 GTGGGAGAGAAAAAGATAAA-A
3359086 GTGGGATGA-AAAAAG
1 GTGGGA-GAGAAAAAG
3359101 GGGGTGATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 14 0.45
22 16 0.52
23 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (21 bp):
GTGGGAGAGAAAAAGATAAAA
Found at i:3359099 original size:22 final size:22
Alignment explanation
Indices: 3359041--3359100 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
3359031 TGTTAAGTTC
*
3359041 TTGTGGGAAGAAATAAGATAAA
1 TTGTGGGAAGAAAAAAGATAAA
* * *
3359063 -AGTGGGAGGGAAAAAGATAAA
1 TTGTGGGAAGAAAAAAGATAAA
*
3359084 TTGTGGGATGAAAAAAG
1 TTGTGGGAAGAAAAAAG
3359101 GGGGTGATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (22 bp):
TTGTGGGAAGAAAAAAGATAAA
Found at i:3362142 original size:186 final size:186
Alignment explanation
Indices: 3361819--3363000 Score: 1327
Period size: 186 Copynumber: 6.3 Consensus size: 186
3361809 CAAAGCTAAA
** ** *
3361819 GTAACATTTTAGGCGCAAAACATTTTATTAATAAAAATATTAACATTTTAGATCGCAACCTAATT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACAT-ATT
* * * * * * * *
3361884 TTTTAGTGAACCATGACATTCATAGGTGCAACCGTATTTATTATAAATATGCATAACATTTTGAC
65 TCTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAG
* * ** * *
3361949 CTTTTAAATTATTTTATTATCAGGGGAAAATCTAAGGCTCCATCAGCTTAAACTCTG
130 CTTTTAACTTATTTTCTTATCAGGGGAAAGCCTAAGGCCCCATCAGCTTAAATTCTG
* * * * * *
3362006 GTAACATTTTAGGCGCAAACTATTTTATTAATAAAAATATTAACATTTCAAATCGTAACATGTTT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTT
* * * *
3362071 CTTAGTGAACCGTGACATTCTTGGGCGCAACCATATTTATTATAGATGTTCATAACATTTTAAGT
66 CTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGC
* * * * *
3362136 TTTTAAATTATTTGCTTATCATGGGAATGCCTAAGGTCCCAT-AGCTTAAATTCTG
131 TTTTAACTTATTTTCTTATCAGGGGAAAGCCTAAGGCCCCATCAGCTTAAATTCTG
* * * *
3362191 GTAACATTTTAGGCGCAACTCATTTTATTAATAAAAATATTAACATTCCAGATTGTAACCTATTT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTT
* * * ** **
3362256 CTTAGTGAACCTTGATATTCTTGGGTGTTACTGTATTTATTATAGATATTCATAACATTTTGAGC
66 CTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGC
* * * * *
3362321 TTTTAACTTATTTTTTTATCATGAGAATGCCTAAGGCCCCATCAGTTTAAAATT-TG
131 TTTTAACTTATTTTCTTATCAGGGGAAAGCCTAAGGCCCCATCAGCTT-AAATTCTG
** * * *
3362377 GTAACATCATAGGCGTAACCCATTTTATTAATAAAAAATATTAACATTCCATATCGTAACATATT
1 GTAACATTTTAGGCGCAACCCATTTTATTAAT-AAAAATATTAACATTCCAGATCGCAACATATT
* ** *
3362442 TCTTAGTGAACCATGACATTCTTGGGCACAACTGTATTTATTATAGATATTCAAAACATTTTGAG
65 TCTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAG
*
3362507 CTTTTAACTTATTTTCTTATC-GTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTG
130 CTTTTAACTTATTTTCTTATCAG-GGGAAAGCCTAAGGCCCCATCAGCTTAAATTCTG
* * * *
3362564 GAAACATTTTAAGCTCAACCCATTTTATTAATAAAAATATTAACATTCTAGATCGCAATC-TATT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAA-CATATT
* * * * * * *
3362628 TCTTAGTGAGCCATGACATTCTTAGGCGCGACTATATTTATTATATATATTCTTAACATTTTGAT
65 TCTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAG
* * ** * *
3362693 CTTTTAACTTATTTTCTTAT-TGTGGGAATGCCTAAGATCCTATCAGCTTAAATTCTA
130 CTTTTAACTTATTTTCTTATCAG-GGGAAAGCCTAAGGCCCCATCAGCTTAAATTCTG
* * * *
3362750 ATAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAAT-GACAACTTGTT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCG-CAACATATT
* * * * *
3362814 TCTTAATGAATCATGAGATTCTTGGGCGCATCCATATTTATTATAGATATTCATTACATTTTGAG
65 TCTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAG
* * * *** * * *
3362879 CTTTGAAGTTATTTTTTTATC-GTTAAAATGTCTAAGGCCCCATCAACTTAAATTTTG
130 CTTTTAACTTATTTTCTTATCAGGGGAAA-GCCTAAGGCCCCATCAGCTTAAATTCTG
* * * * *
3362936 GTGACATTTTAGGTGTAACCTATTTTATTAATAAAAATATTAACATTCTAGATCG-ATACATATT
1 GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCA-ACATATT
3363000 T
65 T
3363001 TCAGCTTTGA
Statistics
Matches: 844, Mismatches: 138, Indels: 27
0.84 0.14 0.03
Matches are distributed among these distances:
185 166 0.20
186 459 0.54
187 219 0.26
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (186 bp):
GTAACATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTT
CTTAGTGAACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGC
TTTTAACTTATTTTCTTATCAGGGGAAAGCCTAAGGCCCCATCAGCTTAAATTCTG
Found at i:3362542 original size:372 final size:371
Alignment explanation
Indices: 3361819--3362990 Score: 1463
Period size: 372 Copynumber: 3.1 Consensus size: 371
3361809 CAAAGCTAAA
* *
3361819 GTAACATTTTAGGCGCAAAACATTTTATTAATAAAAATATTAACATTTTAGATCGCAACCTAATT
1 GTAACATTTTAGGCGC-AACCATTTTATTAATAAAAATATTAACATTCTAGATCGCAACCT-ATT
* * * *
3361884 TTTTAGTGAACCATGACATTCATAGGTGCAACCGTATTTATTATAAATATGCATAACATTTTGAC
64 TCTTAGTGAACCATGACATTCTTAGGTGCAACTGTATTTATTATAAATATTCATAACATTTTGAC
* * *** * * *
3361949 CTTTTAAATTATTTTATTATCAGGGGAAAATCTAAGGCTCCATCAGCTTAAACTCTGGTAACATT
129 CTTTTAACTTATTTTATTATCATGGGAATGCCTAAGGCCCCATCAGCTTAAAATTTGGTAACATT
* * *
3362014 TTAGGCGCAAACTATTTTATTAATAAAAATATTAACATTTCAAATCGTAACATGTTTCTTAGTGA
194 TTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCGTAACATGTTTCTTAGTGA
* * * *
3362079 ACCGTGACATTCTTGGGCGCAACCATATTTATTATAGATGTTCATAACATTTTAAGTTTTTAAAT
259 ACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGCTTTTAAAT
* * * *
3362144 TATTTGCTTATCATGGGAATGCCTAAGGTCCCAT-AGCTTAAATTCTG
324 TATTTTCTTATCGTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTG
* * *
3362191 GTAACATTTTAGGCGCAACTCATTTTATTAATAAAAATATTAACATTCCAGATTGTAACCTATTT
1 GTAACATTTTAGGCGCAAC-CATTTTATTAATAAAAATATTAACATTCTAGATCGCAACCTATTT
* * * ** * *
3362256 CTTAGTGAACCTTGATATTCTTGGGTGTTACTGTATTTATTATAGATATTCATAACATTTTGAGC
65 CTTAGTGAACCATGACATTCTTAGGTGCAACTGTATTTATTATAAATATTCATAACATTTTGACC
* * * **
3362321 TTTTAACTTATTTTTTTATCATGAGAATGCCTAAGGCCCCATCAGTTTAAAATTTGGTAACATCA
130 TTTTAACTTATTTTATTATCATGGGAATGCCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTT
* * *
3362386 TAGGCGTAACCCATTTTATTAATAAAAAATATTAACATTCCATATCGTAACATATTTCTTAGTGA
195 TAGGCGCAACCCATTTTATTAAT-AAAAATATTAACATTCCAAATCGTAACATGTTTCTTAGTGA
* ** * *
3362451 ACCATGACATTCTTGGGCACAACTGTATTTATTATAGATATTCAAAACATTTTGAGCTTTTAACT
259 ACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGCTTTTAAAT
3362516 TATTTTCTTATCGTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTG
324 TATTTTCTTATCGTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTG
* * * *
3362564 GAAACATTTTAAGCTCAACCCATTTTATTAATAAAAATATTAACATTCTAGATCGCAATCTATTT
1 GTAACATTTTAGGCGCAA-CCATTTTATTAATAAAAATATTAACATTCTAGATCGCAACCTATTT
* * * * * * *
3362629 CTTAGTGAGCCATGACATTCTTAGGCGCGACTATATTTATTATATATATTCTTAACATTTTGATC
65 CTTAGTGAACCATGACATTCTTAGGTGCAACTGTATTTATTATAAATATTCATAACATTTTGACC
* ** ** * **
3362694 TTTTAACTTATTTTCTTATTGTGGGAATGCCTAAGATCCTATCAGCTT-AAATTCTAATAACATT
130 TTTTAACTTATTTTATTATCATGGGAATGCCTAAGGCCCCATCAGCTTAAAATT-TGGTAACATT
* * *
3362758 TTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAAT-GACAACTTGTTTCTTAATG
194 TTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCG-TAACATGTTTCTTAGTG
* * * * * *
3362822 AATCATGAGATTCTTGGGCGCATCCATATTTATTATAGATATTCATTACATTTTGAGCTTTGAAG
258 AACCATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGCTTTTAAA
* ** * *
3362887 TTATTTTTTTATCGT-TAAAATGTCTAAGGCCCCATCAA-CTTAAATTTTG
323 TTATTTTCTTATCGTGGGAAA-GCCTAAGGCCCCAT-AAGCTTAAATTCTG
* * *
3362936 GTGACATTTTAGGTGTAACCTATTTTATTAATAAAAATATTAACATTCTAGATCG
1 GTAACATTTTAGGCGCAACC-ATTTTATTAATAAAAATATTAACATTCTAGATCG
3362991 ATACATATTT
Statistics
Matches: 686, Mismatches: 105, Indels: 18
0.85 0.13 0.02
Matches are distributed among these distances:
371 138 0.20
372 353 0.51
373 194 0.28
374 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (371 bp):
GTAACATTTTAGGCGCAACCATTTTATTAATAAAAATATTAACATTCTAGATCGCAACCTATTTC
TTAGTGAACCATGACATTCTTAGGTGCAACTGTATTTATTATAAATATTCATAACATTTTGACCT
TTTAACTTATTTTATTATCATGGGAATGCCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTT
AGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCGTAACATGTTTCTTAGTGAAC
CATGACATTCTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTGAGCTTTTAAATTA
TTTTCTTATCGTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTG
Found at i:3362974 original size:558 final size:556
Alignment explanation
Indices: 3361839--3363000 Score: 1508
Period size: 558 Copynumber: 2.1 Consensus size: 556
3361829 AGGCGCAAAA
* * *
3361839 CATTTTATTAATAAAAATATTAACATTTTAGATCGCAACCTAATTTTTTAGTGAACCATGACATT
1 CATTTTATTAATAAAAATATTAACATTCTAGATCG-AACAT-ATTTCTTAGTGAACCATGACATT
** *
3361904 CATAGGTGCAACCGTATTTATTATAAATATGCATAACATTTTGACCTTTTAAATTATTTTATTAT
64 CATAGGCACAACCGTATTTATTATAAATATGCAAAACATTTTGACCTTTTAAATTATTTTATTAT
* * * * * *
3361969 CAGGGGAAAATCTAAGGCTCCATCAGCTTAAACTCTGGTAACATTTTAGGCGCAAACTATTTTAT
129 CAGGGGAAAACCTAAGGCCCCATAAGCTTAAACTCTGGAAACATTTTAAGCGCAAACCATTTTAT
* * * *
3362034 TAATAAAAATATTAACATTTCAAATCGTAACATGTTTCTTAGTGAACCGTGACATTCTTGGGCGC
194 TAATAAAAATATTAACATTTCAAATCGCAACATATTTCTTAGTGAACCATGACATTCTTAGGCGC
*
3362099 AACCATATTTATTATAGATGTTCATAACATTTTAAGTTTTTAAATTATTTGCTTATCATGGGAAT
259 AACCATATTTATTATAGATATTCATAACATTTTAAGTTTTTAAATTATTTGCTTATCATGGGAAT
* ** *
3362164 GCCTAAGGTCCCATAGCTTAAATTCTGGTAACATTTTAGGCGCAACTCATTTTATTAATAAAAAT
324 GCCTAAGATCCCATAGCTTAAATTCTAATAACATTTTAGGCGCAACCCATTTTATTAATAAAAAT
* * * * * * * **
3362229 ATTAACATTCCAGATTGTAACCTATTTCTTAGTGAACCTTGATATTCTTGGGTGTTACTGTATTT
389 ATTAACATTCCAGAATGCAACCTATTTCTTAATGAACCATGAGATTCTTGGGCGATACCATATTT
* *
3362294 ATTATAGATATTCATAACATTTTGAGCTTTTAACTTATTTTTTTATCATGAGAATGCCTAAGGCC
454 ATTATAGATATTCATAACATTTTGAGCTTTGAACTTATTTTTTTATCATGAAAATGCCTAAGGCC
**
3362359 CCATCAGTTTAAAATTTGGTAACATCATAGGCGTAACC
519 CCATCAACTTAAAATTTGGTAACATCATAGGCGTAACC
* *
3362397 CATTTTATTAATAAAAAATATTAACATTCCATATCGTAACATATTTCTTAGTGAACCATGACATT
1 CATTTTATTAAT-AAAAATATTAACATTCTAGATCG-AACATATTTCTTAGTGAACCATGACATT
* * * * * * * *
3362462 CTTGGGCACAACTGTATTTATTATAGATATTCAAAACATTTTGAGCTTTTAACTTATTTTCTTAT
64 CATAGGCACAACCGTATTTATTATAAATATGCAAAACATTTTGACCTTTTAAATTATTTTATTAT
* * * *
3362527 C-GTGGGAAAGCCTAAGGCCCCATAAGCTTAAATTCTGGAAACATTTTAAGCTCAACCCATTTTA
129 CAG-GGGAAAACCTAAGGCCCCATAAGCTTAAACTCTGGAAACATTTTAAGCGCAAACCATTTTA
* *
3362591 TTAATAAAAATATTAACA-TTCTAGATCGCAATC-TATTTCTTAGTGAGCCATGACATTCTTAGG
193 TTAATAAAAATATTAACATTTC-AAATCGCAA-CATATTTCTTAGTGAACCATGACATTCTTAGG
* * * * * * * **
3362654 CGCGACTATATTTATTATATATATTCTTAACATTTTGA-TCTTTTAACTTATTTTCTTATTGTGG
256 CGCAACCATATTTATTATAGATATTCATAACATTTTAAGT-TTTTAAATTATTTGCTTATCATGG
*
3362718 GAATGCCTAAGATCCTATCAGCTTAAATTCTAATAACATTTTAGGCGCAACCCATTTTATTAATA
320 GAATGCCTAAGATCCCAT-AGCTTAAATTCTAATAACATTTTAGGCGCAACCCATTTTATTAATA
* * *
3362783 AAAATATTAACATTCCA-AATGACAACTTGTTTCTTAATGAATCATGAGATTCTTGGGCGCAT-C
384 AAAATATTAACATTCCAGAATG-CAACCTATTTCTTAATGAACCATGAGATTCTTGGGCG-ATAC
* * * * *
3362846 CATATTTATTATAGATATTCATTACATTTTGAGCTTTGAAGTTATTTTTTTATCGTTAAAATGTC
447 CATATTTATTATAGATATTCATAACATTTTGAGCTTTGAACTTATTTTTTTATCATGAAAATGCC
* * ** *
3362911 TAAGGCCCCATCAACTTAAATTTTGGTGACATTTTAGGTGTAACC
512 TAAGGCCCCATCAACTTAAAATTTGGTAACATCATAGGCGTAACC
*
3362956 TATTTTATTAATAAAAATATTAACATTCTAGATCGATACATATTT
1 CATTTTATTAATAAAAATATTAACATTCTAGATCGA-ACATATTT
3363001 TCAGCTTTGA
Statistics
Matches: 518, Mismatches: 77, Indels: 18
0.85 0.13 0.03
Matches are distributed among these distances:
557 6 0.01
558 291 0.56
559 220 0.42
560 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (556 bp):
CATTTTATTAATAAAAATATTAACATTCTAGATCGAACATATTTCTTAGTGAACCATGACATTCA
TAGGCACAACCGTATTTATTATAAATATGCAAAACATTTTGACCTTTTAAATTATTTTATTATCA
GGGGAAAACCTAAGGCCCCATAAGCTTAAACTCTGGAAACATTTTAAGCGCAAACCATTTTATTA
ATAAAAATATTAACATTTCAAATCGCAACATATTTCTTAGTGAACCATGACATTCTTAGGCGCAA
CCATATTTATTATAGATATTCATAACATTTTAAGTTTTTAAATTATTTGCTTATCATGGGAATGC
CTAAGATCCCATAGCTTAAATTCTAATAACATTTTAGGCGCAACCCATTTTATTAATAAAAATAT
TAACATTCCAGAATGCAACCTATTTCTTAATGAACCATGAGATTCTTGGGCGATACCATATTTAT
TATAGATATTCATAACATTTTGAGCTTTGAACTTATTTTTTTATCATGAAAATGCCTAAGGCCCC
ATCAACTTAAAATTTGGTAACATCATAGGCGTAACC
Found at i:3368009 original size:20 final size:21
Alignment explanation
Indices: 3367984--3368025 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3367974 TTTTTCTATT
3367984 TAAAAGT-TATATAAAAAATA
1 TAAAAGTGTATATAAAAAATA
*
3368004 TAAAAGTGTTTATAAAAAATA
1 TAAAAGTGTATATAAAAAATA
3368025 T
1 T
3368026 TCATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
TAAAAGTGTATATAAAAAATA
Found at i:3372418 original size:31 final size:31
Alignment explanation
Indices: 3372335--3372419 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
3372325 ATCAAACTTT
* * *
3372335 AAAAAACCCAACCCGAACCCAAAATTTTTTA
1 AAAAAACCCGACCCGAACCCGAAAGTTTTTA
* * * *
3372366 AAAAAATCTGACCCGATCCCGAAAGTTTTTG
1 AAAAAACCCGACCCGAACCCGAAAGTTTTTA
*
3372397 AAAAAACCCGACCTGAACCCGAA
1 AAAAAACCCGACCCGAACCCGAA
3372420 TCCGACCCGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.18
Consensus pattern (31 bp):
AAAAAACCCGACCCGAACCCGAAAGTTTTTA
Found at i:3377626 original size:142 final size:139
Alignment explanation
Indices: 3377067--3377889 Score: 960
Period size: 139 Copynumber: 6.0 Consensus size: 139
3377057 AATTGCCCTA
* ** * * *
3377067 TCATGTCTCCCGAAGGCACTATTCATGTTAGTACCTATCATGTTTGAGGGGACACAACAAAGTAG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* * * *
3377132 TGAAAAC-GCATTTCAGGGGGTACGTTTTCCATTATTTTGTCA-ATGAATATGTTATAATTGTCC
66 TG-AAACTGCGTTTCAGGGGGCACGTCTTCCATTATTTTGTCAGA-GAATATGTTATAATTGCCC
3377195 TATTATGTGAC
129 TATTATGTGAC
* *
3377206 TCATGTCCCCCGGGGGCACTATTCAT-ACAGTACCTATCATGTTTGAGGAGACGCAACAAAGTGG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* * *
3377270 TGAAAGTGTAG-TTCAGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCT
66 TGAAACTG-CGTTTCAGGGGGCACGTCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCT
3377334 ATTATGTGAC
130 ATTATGTGAC
* * * *
3377344 TCATGTCCCCCGGGGGCACTATTTATATCAGTACCTATCATGTTTGAGGGGATGCATCAAAGTGG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* * * * * *
3377409 TGAAAGC-ACATTTTAGGGGGCGC-TCCTTCCATTATTTTGTTAGAGAATATGTTATAATTGCCT
66 TGAAA-CTGCGTTTCAGGGGGCACGT-CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCC
3377472 TATTATGTGAC
129 TATTATGTGAC
* * ** * * * * *
3377483 TCATGCCCCCCCGGGATACTATTCATGTCAGTACCTATTATGTTTAAGGGAACGTAAAAAAGTGG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* ** *
3377548 TGAAACTGCGTTTTAGGGGGGGGGGCGTCTTCCATTACTTTGTCAGAGAATATGTTATAATTGCC
66 TGAAACTGCGTTTCA---GGGGGCACGTCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCC
*
3377613 TTATTATGTGAC
128 CTATTATGTGAC
* * *
3377625 TCATATCCCCCGGGGGCACTATTCATGTCAGTACCTATTACGTTTGAGGGGACGCAACAAAGTGG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* * * *
3377690 TGAAAATGCGTTTCAGGGGGCACAG-CTTCTATTATTTTGTCATAGAATATGTTGTAATTGCCCT
66 TGAAACTGCGTTTCAGGGGGCAC-GTCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCT
3377754 ATTATGTGAC
130 ATTATGTGAC
* * * * *
3377764 TCAT-TTCCCC-GGGGTACTATTTATGTTAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGG
1 TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
* *
3377827 TGAAAGC-GCGTTTCAGGGAG--CGTCTTCCATT-TTTT-T--G-TAATATGTTATAATTGCCCT
66 TGAAA-CTGCGTTTCAGGGGGCACGTCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCT
3377884 ATTATG
130 ATTATG
3377890 CTTGAAATTT
Statistics
Matches: 590, Mismatches: 79, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
130 24 0.04
133 1 0.00
134 5 0.01
135 8 0.01
137 67 0.11
138 124 0.21
139 237 0.40
140 1 0.00
142 122 0.21
143 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (139 bp):
TCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
TGAAACTGCGTTTCAGGGGGCACGTCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTA
TTATGTGAC
Found at i:3377660 original size:281 final size:277
Alignment explanation
Indices: 3377081--3377844 Score: 943
Period size: 281 Copynumber: 2.7 Consensus size: 277
3377071 GTCTCCCGAA
* * *
3377081 GGCACTATTCATGTTAGTACCTATCATGTTTGAGGGGACACAACAAAGTAGTGAAAACGCATTTC
1 GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACGCATTTC
*
3377146 AGGGGGTACG-TTTTCCATTATTTTGTCAATGAATATGTTATAATTGTCCTATTATGTGACTCAT
66 AGGGGG--CGCTCTTCCATTATTTTGTCAA-GAATATGTTATAATTG-CCTATTATGTGACTCAT
* * *
3377210 GTCCCCCGGGGGCACTATTCAT-ACAGTACCTATCATGTTTGA-GGAGACGCAACAAAGTGGTGA
127 G-CCCCCCGGGGTACTATTCATGTCAGTACCTATCATGTTTGAGGGA-ACGCAACAAAGTGGTGA
* * *
3377273 AAGTGTAG-TTCA---GGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCT
190 AACTG-CGTTTCAGGGGGGGGCACGCCTTCCATTACTTTGTCAGAGAATATGTTATAATTGCCCT
*
3377334 ATTATGTGACTCATGTCCCCCGGG
254 ATTATGTGACTCATATCCCCCGGG
* * * * * * *
3377358 GGCACTATTTATATCAGTACCTATCATGTTTGAGGGGATGCATCAAAGTGGTGAAAGCACATTTT
1 GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACGCATTTC
*
3377423 AGGGGGCGCTCCTTCCATTATTTTGTTAGAGAATATGTTATAATTGCCTTATTATGTGACTCATG
66 AGGGGGCGCT-CTTCCATTATTTTGTCA-AGAATATGTTATAATTGCC-TATTATGTGACTCATG
* * * * *
3377488 CCCCCCCGGGATACTATTCATGTCAGTACCTATTATGTTTAAGGGAACGTAAAAAAGTGGTGAAA
128 -CCCCCCGGGGTACTATTCATGTCAGTACCTATCATGTTTGAGGGAACGCAACAAAGTGGTGAAA
* ** * *
3377553 CTGCGTTTTAGGGGGGGGGGCGTCTTCCATTACTTTGTCAGAGAATATGTTATAATTGCCTTATT
192 CTGCGTTTCAGGGGGGGGCACGCCTTCCATTACTTTGTCAGAGAATATGTTATAATTGCCCTATT
3377618 ATGTGACTCATATCCCCCGGG
257 ATGTGACTCATATCCCCCGGG
* * * *
3377639 GGCACTATTCATGTCAGTACCTATTACGTTTGAGGGGACGCAACAAAGTGGTGAAAATGCGTTTC
1 GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACGCATTTC
* * * *
3377704 AGGGGGCACAGCTTCTATTATTTTGTCATAGAATATGTTGTAATTGCCCTATTATGTGACTCAT-
66 AGGGGGCGC-TCTTCCATTATTTTGTCA-AGAATATGTTATAATTG-CCTATTATGTGACTCATG
** * * * *
3377768 TTCCCCGGGGTACTATTTATGTTAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAAG
128 CCCCCCGGGGTACTATTCATGTCAGTACCTATCATGTTTGAGGGAACGCAACAAAGTGGTGAAA-
3377833 C-GCGTTTCAGGG
192 CTGCGTTTCAGGG
3377845 AGCGTCTTCC
Statistics
Matches: 415, Mismatches: 59, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
275 2 0.00
276 3 0.01
277 126 0.30
278 40 0.10
279 66 0.16
280 1 0.00
281 175 0.42
282 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (277 bp):
GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACGCATTTC
AGGGGGCGCTCTTCCATTATTTTGTCAAGAATATGTTATAATTGCCTATTATGTGACTCATGCCC
CCCGGGGTACTATTCATGTCAGTACCTATCATGTTTGAGGGAACGCAACAAAGTGGTGAAACTGC
GTTTCAGGGGGGGGCACGCCTTCCATTACTTTGTCAGAGAATATGTTATAATTGCCCTATTATGT
GACTCATATCCCCCGGG
Found at i:3378845 original size:42 final size:42
Alignment explanation
Indices: 3378799--3378904 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
3378789 ATGTACCCCT
3378799 GTGGGCTAGGAATGTAACCCTGCGGAGATGACATATGAACTG
1 GTGGGCTAGGAATGTAACCCTGCGGAGATGACATATGAACTG
* * * *
3378841 GTGGGCT-TGACATAT-ACCCTTGCGGAGATGGCATCTGAACTG
1 GTGGGCTAGGA-ATGTAACCC-TGCGGAGATGACATATGAACTG
* *
3378883 GTGGGCTAGGCATGTACCCCTG
1 GTGGGCTAGGAATGTAACCCTG
3378905 TTGCATCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.12
42 42 0.81
43 4 0.08
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (42 bp):
GTGGGCTAGGAATGTAACCCTGCGGAGATGACATATGAACTG
Found at i:3380664 original size:23 final size:24
Alignment explanation
Indices: 3380620--3380664 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3380610 TAATTAGTAC
* *
3380620 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATAAAAAAATTT
3380644 AAATAAT-ATTAATAAAAAAAT
1 AAATAATAATTAATAAAAAAAT
3380665 ATGACAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAATAATTAATAAAAAAATTT
Found at i:3381020 original size:61 final size:61
Alignment explanation
Indices: 3380918--3381038 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
3380908 TCAACGAACC
3380918 CCGTGAAAGCGCGACCCCAGGGATGCTCCTTAACCACGTGGCATCCCAGTAAGCTAAAACT
1 CCGTGAAAGCGCGACCCCAGGGATGCTCCTTAACCACGTGGCATCCCAGTAAGCTAAAACT
* * ** *
3380979 CCGTGAAAGCGCGCCCCCAGGGATGCGT-CTTACCCGTGTGGCATCCCAGTCAGCTAAAAC
1 CCGTGAAAGCGCGACCCCAGGGATGC-TCCTTAACCACGTGGCATCCCAGTAAGCTAAAAC
3381039 CCCGGTAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.17
Consensus pattern (61 bp):
CCGTGAAAGCGCGACCCCAGGGATGCTCCTTAACCACGTGGCATCCCAGTAAGCTAAAACT
Found at i:3386211 original size:9 final size:10
Alignment explanation
Indices: 3386190--3386216 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3386180 GGATCGGTTG
3386190 AAAACCGGAA
1 AAAACCGGAA
3386200 AAAACCGGAA
1 AAAACCGGAA
3386210 AAAACCG
1 AAAACCG
3386217 TCAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.22, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAACCGGAA
Found at i:3388148 original size:15 final size:15
Alignment explanation
Indices: 3388128--3388165 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3388118 CACTGTTTTG
**
3388128 CTGAATCAATCAGTA
1 CTGAATCAATCAACA
3388143 CTGAATCAATCAACA
1 CTGAATCAATCAACA
3388158 CTGAATCA
1 CTGAATCA
3388166 TTTAGAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (15 bp):
CTGAATCAATCAACA
Found at i:3394027 original size:19 final size:18
Alignment explanation
Indices: 3393985--3394027 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
3393975 TAGTTTTTGG
* *
3393985 ATATATATATTATAATAT
1 ATATTTATATTATAAAAT
3394003 ATTATTTATATTATATAAAT
1 A-TATTTATATTATA-AAAT
3394023 ATATT
1 ATATT
3394028 ATTATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.76
20 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTATATTATAAAAT
Found at i:3395379 original size:5 final size:5
Alignment explanation
Indices: 3395369--3395414 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
3395359 TTTTGCAGTG
* * *
3395369 TTTTA TTTTA -TTTA CTTTA TTTTA -TTTA TTCTA TTATA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
3395415 CTTTTTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:3395389 original size:14 final size:13
Alignment explanation
Indices: 3395370--3395419 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
3395360 TTTGCAGTGT
3395370 TTTATTTTATTTA
1 TTTATTTTATTTA
3395383 CTTTATTTTATTTA
1 -TTTATTTTATTTA
*
3395397 TTCTATTATATTTTA
1 TT-TATTTTA-TTTA
*
3395412 TTTCTTTT
1 TTTATTTT
3395420 TTCCTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 2 0.06
14 23 0.74
15 6 0.19
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:3395391 original size:19 final size:20
Alignment explanation
Indices: 3395369--3395414 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
3395359 TTTTGCAGTG
3395369 TTTTATTTTATT-TACTT-TA
1 TTTTATTTTATTCTA-TTATA
3395388 TTTTA-TTTATTCTATTATA
1 TTTTATTTTATTCTATTATA
3395407 TTTTATTT
1 TTTTATTT
3395415 CTTTTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATTTTATTCTATTATA
Found at i:3397745 original size:14 final size:15
Alignment explanation
Indices: 3397726--3397754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3397716 TCAAGCATTT
3397726 AACAATCCA-AAACA
1 AACAATCCAGAAACA
3397740 AACAATCCAGAAACA
1 AACAATCCAGAAACA
3397755 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:3399708 original size:23 final size:22
Alignment explanation
Indices: 3399678--3399757 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
3399668 GCATGTCCTT
3399678 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
3399700 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
3399722 GTGTATTGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
3399744 ATGCATCGATGCAC
1 GTGCATCGATGCAC
3399758 TGTTAGGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 14 0.31
22 15 0.33
23 16 0.36
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:3405327 original size:21 final size:21
Alignment explanation
Indices: 3405303--3405346 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3405293 GTTTGATGCT
3405303 TTCTCT-TTGATTCTCTCTTGA
1 TTCTCTCTTGATTCT-TCTTGA
*
3405324 TTCTCTCTTGATTCTTGTTGA
1 TTCTCTCTTGATTCTTCTTGA
3405345 TT
1 TT
3405347 GTTGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTGATTCTTCTTGA
Found at i:3405346 original size:10 final size:11
Alignment explanation
Indices: 3405303--3405338 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
3405293 GTTTGATGCT
3405303 TTCTCT-TTGA
1 TTCTCTCTTGA
3405313 TTCTCTCTTGA
1 TTCTCTCTTGA
3405324 TTCTCTCTTGA
1 TTCTCTCTTGA
3405335 TTCT
1 TTCT
3405339 TGTTGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:3406275 original size:20 final size:21
Alignment explanation
Indices: 3406250--3406306 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
3406240 TATCTAGATT
*
3406250 AAAGGATCGATCCCTTAG-CG
1 AAAGGATCGATCCCTTAGACC
* *
3406270 AAAGGATCGATCCATTTGACC
1 AAAGGATCGATCCCTTAGACC
*
3406291 AAATGATCGATCCCTT
1 AAAGGATCGATCCCTT
3406307 GGACAACAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
AAAGGATCGATCCCTTAGACC
Found at i:3408773 original size:21 final size:21
Alignment explanation
Indices: 3408748--3408787 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3408738 AATTAAATTT
3408748 ATTCAAAGTCCTAAA-AAAACA
1 ATTCAAAGTCC-AAAGAAAACA
3408769 ATTCAAAGTCCAAAGAAAA
1 ATTCAAAGTCCAAAGAAAA
3408788 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.17
Consensus pattern (21 bp):
ATTCAAAGTCCAAAGAAAACA
Found at i:3408933 original size:21 final size:21
Alignment explanation
Indices: 3408886--3408963 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
3408876 CCAAGTGGAT
* *
3408886 CAAAGAATCGATCCCTTAG-C
1 CAAAGGATCGATCCCTTTGAC
*
3408906 TAAAGGATCGATCCCTTTGAC
1 CAAAGGATCGATCCCTTTGAC
*
3408927 CAAAGGATCGATCCCCTTGA-
1 CAAAGGATCGATCCCTTTGAC
* * *
3408947 AAAAAGATTGATCCCTT
1 CAAAGGATCGATCCCTT
3408964 GGACTACAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
20 29 0.60
21 19 0.40
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (21 bp):
CAAAGGATCGATCCCTTTGAC
Found at i:3409695 original size:27 final size:27
Alignment explanation
Indices: 3409657--3409710 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3409647 AAATATATCC
3409657 GGTTAGGATTTTTTTGTGACAAAAAGT
1 GGTTAGGATTTTTTTGTGACAAAAAGT
3409684 GGTTAGGATTTTTTTGTGACAAAAAGT
1 GGTTAGGATTTTTTTGTGACAAAAAGT
3409711 ATGCGAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.41
Consensus pattern (27 bp):
GGTTAGGATTTTTTTGTGACAAAAAGT
Found at i:3410053 original size:23 final size:24
Alignment explanation
Indices: 3410015--3410063 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
3410005 CCAGAAATGC
3410015 GAGAAGAAACAAAAGTTCTATCAA
1 GAGAAGAAACAAAAGTTCTATCAA
*
3410039 GAGAAG-AGCAAAAGTTCTATCAA
1 GAGAAGAAACAAAAGTTCTATCAA
3410062 GA
1 GA
3410064 TCTGATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.16
Consensus pattern (24 bp):
GAGAAGAAACAAAAGTTCTATCAA
Found at i:3412466 original size:17 final size:18
Alignment explanation
Indices: 3412446--3412479 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3412436 TTTTAATTCC
3412446 TTTTTTGGTTTA-AATTA
1 TTTTTTGGTTTATAATTA
*
3412463 TTTTTTTGTTTATAATT
1 TTTTTTGGTTTATAATT
3412480 GGATCAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTTGGTTTATAATTA
Found at i:3418160 original size:21 final size:21
Alignment explanation
Indices: 3418134--3418173 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3418124 TTCAAAAAAT
3418134 AAAAAAGAAAAAAAGAGAAGA
1 AAAAAAGAAAAAAAGAGAAGA
* *
3418155 AAAAAAGAGAAGAAGAGAA
1 AAAAAAGAAAAAAAGAGAA
3418174 AAATGAGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAGAGAAGA
Found at i:3418185 original size:17 final size:17
Alignment explanation
Indices: 3418139--3418192 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
3418129 AAAATAAAAA
3418139 AGAAAAAA-A-GAGAAG
1 AGAAAAAAGAGGAGAAG
*
3418154 A-AAAAAAGAGAAGAAG
1 AGAAAAAAGAGGAGAAG
*
3418170 AGAAAAATGAGGAGAAG
1 AGAAAAAAGAGGAGAAG
3418187 AAGAAA
1 -AGAAA
3418193 GAAAACATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 6 0.19
17 13 0.41
18 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (17 bp):
AGAAAAAAGAGGAGAAG
Found at i:3420884 original size:256 final size:256
Alignment explanation
Indices: 3420250--3421474 Score: 1583
Period size: 256 Copynumber: 4.8 Consensus size: 256
3420240 TTATTTTTGT
* * * * *
3420250 ATATAATTTGAAAAAGGCGAAAGTGATTTTCAAAGTTTCTGATTCATTATTTTTAGAAAATGAAA
1 ATATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATGAAA
* * *
3420315 TTTTTCAAAAGTAAGAAAGCGATTTCCAAAGTTTTTTACCTAGTAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * * * * *
3420380 AGTCCTTCTGGCCACCAGCAAGTCTTTCGAGCATTATGATTAAATCATTCGGGTCATTTGTCAAT
131 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGT
* * * * * * * *
3420445 CTTTCAAGCAAGATGACAAGTTCTTCGGACCATCTATATGACCTTCAGGAAAGTTGCTTTTAT
196 CTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAAAGATGC-TTT-C
* *
3420508 ATGATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTATT-TGATTTAATATTTTCAGAAAATGA
1 AT-ATAATTTGAAAAATGAGAAAGTGATTTTCAAAGT-TTCTCATTTAATATTTTTAGAAAATGA
* * * * * *
3420572 AATTTTTGAAAAGTAAAAAACTAATTTCCAAAGTTTCTTACTTAGTAAACTATTTCCAATATTAG
64 AATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGG
* * *
3420637 TAAGTCATTCAGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTTA
129 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTCA
* * *
3420702 GTCTTTCGAGCAAGATAATAAGTCCTTCGGGCCATCTATAAGACCTTTGGGCAAGATGCTTTC
194 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAAAGATGCTTTC
* * * * **
3420765 GTATAATTTGAAAAACGAGAAAGAGATTTTTAAAGTTTCTCATTTGGTATTTTTAGAAAATGAAA
1 ATATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATGAAA
3420830 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
** * * * *
3420895 AGTTGTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTC--GACATCTATTAGT
131 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGT
* * * *
3420958 CTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCTATAAAACCTTTGGGAAAGATGTTTTC
196 CTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAAAGATGCTTTC
* *
3421019 ATATGATAATTTGAAAAATGAGAAAATGATTTTCAAAGGTTCTCATTTAATATTTTTAGAAAATG
1 --AT-ATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATG
* * * *
3421084 AAATTTTTGAAAAGTAAGAAAGTAATTTCCAAAGTTTCTTACCTAGTAAACTATATACAAAATCG
63 AAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * * * *
3421149 TTAAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCATGATGATTAAATCCTTTGGGTCATCTGTC
128 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTC
* * * * * *
3421214 AGTCTTTCGAGAAAGATGATAAGTCATTCGGCCCATCTAGAAGACCTTCGAGAAAGATGATTTC
193 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAAAGATGCTTTC
* * * *
3421278 ATATAATTTGAAAAATGAGAAAGTGATTTTCGAAGTTTCTCATTTAGTATTTTCAGAAAATTAAA
1 ATATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATGAAA
* * *
3421343 ATTTTGAAAAGTAAGAAAGTGATATCCAAAGTTTCTTACCTAATAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * ** * * * *
3421408 AATCATTTGGGCCATTAGTAAGTCTTTCGAATATGATGAGTAAATCCTTCGGGTTATCTGACAGT
131 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGT
3421473 CT
196 CT
3421475 CACTTGAGAC
Statistics
Matches: 843, Mismatches: 116, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
254 67 0.08
255 2 0.00
256 329 0.39
257 162 0.19
258 5 0.01
259 276 0.33
260 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (256 bp):
ATATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATGAAA
TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGT
CTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAAAGATGCTTTC
Found at i:3421220 original size:513 final size:512
Alignment explanation
Indices: 3420250--3421458 Score: 1650
Period size: 513 Copynumber: 2.4 Consensus size: 512
3420240 TTATTTTTGT
* * * * *
3420250 ATATAATTTGAAAAAGGCGAAAGTGATTTTCAAAGTTTCTGATTCATTATTTTTAGAAAATGAAA
1 ATATAATTTGAAAAACGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAA
* * *
3420315 TTTTTCAAAAGTAAGAAAGCGATTTCCAAAGTTTTTTACCTAGTAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * * * * *
3420380 AGTCCTTCTGGCCACCAGCAAGTCTTTCGAGCATTATGATTAAATCATTCGGGTCATTTGTCAAT
131 AGTCATTC-GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTC--GACATCTATCAAT
* ** *
3420445 CTTTCAAGCAAGATGACAAGTTCTTCGGACCATCTATATGACCTTCAGGAAAGTTGCTTTTATAT
193 CTTTCAAGCAAGATGACAAGTCCTTCGGACCATCTATAAAACCTTCAGGAAAGATGCTTTTATAT
* * *
3420510 GATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTATTTGATTTAATATTTTCAGAAAATGAAAT
258 GATAATTTGAAAAATGAGAAAATGATTTTCAAAGTATCTCATTTAATATTTTCAGAAAATGAAAT
* * * *
3420575 TTTTGAAAAGTAAAAAACTAATTTCCAAAGTTTCTTACTTAGTAAACTATTTCCAATATTAGTAA
323 TTTTGAAAAGTAAAAAACTAATTTCCAAAGTTTCTTACCTAGTAAACTATATACAATAATAGTAA
* * *
3420640 GTCATTCAGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTTAGTC
388 GTCATTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCGGGTCATCTGTCAGTC
* * * * * * * *
3420705 TTTCGAGCAAGATAATAAGTCCTTCGGGCCATCTATAAGACCTTTGGGCAAGATGCTTTC
453 TTTCGAGAAAGATAATAAGTCATTCGGCCCATCTAGAAGACCTTCGAGAAAGATGATTTC
* * * *
3420765 GTATAATTTGAAAAACGAGAAAGAGATTTTTAAAGTTTCTCATTTGGTATTTTTAGAAAATGAAA
1 ATATAATTTGAAAAACGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAA
3420830 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
** * *
3420895 AGTTGTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGACATCTATTAGTCT
131 AGTCATTCG-GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGACATCTATCAATCT
* * * * **
3420960 TTCGAGCAAGATGATAAGTCCTTTGGGCCATCTATAAAACCTTTGGGAAAGATG-TTTTCATATG
195 TTCAAGCAAGATGACAAGTCCTTCGGACCATCTATAAAACCTTCAGGAAAGATGCTTTT-ATATG
*
3421024 ATAATTTGAAAAATGAGAAAATGATTTTCAAAGGT-TCTCATTTAATATTTTTAGAAAATGAAAT
259 ATAATTTGAAAAATGAGAAAATGATTTTCAAA-GTATCTCATTTAATATTTTCAGAAAATGAAAT
* * *
3421088 TTTTGAAAAGTAAGAAAGTAATTTCCAAAGTTTCTTACCTAGTAAACTATATACAA-AATCGTTA
323 TTTTGAAAAGTAAAAAACTAATTTCCAAAGTTTCTTACCTAGTAAACTATATACAATAATAG-TA
* * * * *
3421152 AGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCATGATGATTAAATCCTTTGGGTCATCTGTCAGT
387 AGTCATTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCGGGTCATCTGTCAGT
*
3421217 CTTTCGAGAAAGATGATAAGTCATTCGGCCCATCTAGAAGACCTTCGAGAAAGATGATTTC
452 CTTTCGAGAAAGATAATAAGTCATTCGGCCCATCTAGAAGACCTTCGAGAAAGATGATTTC
* * * *
3421278 ATATAATTTGAAAAATGAGAAAGTGATTTTCGAAGTTTCTCATTTAGTATTTTCAGAAAATTAAA
1 ATATAATTTGAAAAACGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAA
* * *
3421343 ATTTTGAAAAGTAAGAAAGTGATATCCAAAGTTTCTTACCTAATAAACTATTTCCAAAATTGGTA
66 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * ** * *
3421408 AATCATTTGGGCCATTAGTAAGTCTTTCGAATATGATGAGTAAATCCTTCG
131 AGTCA-TTCGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCG
3421459 GGTTATCTGA
Statistics
Matches: 609, Mismatches: 80, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
512 7 0.01
513 435 0.71
514 6 0.01
515 161 0.26
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (512 bp):
ATATAATTTGAAAAACGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAA
TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
AGTCATTCGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGACATCTATCAATCTT
TCAAGCAAGATGACAAGTCCTTCGGACCATCTATAAAACCTTCAGGAAAGATGCTTTTATATGAT
AATTTGAAAAATGAGAAAATGATTTTCAAAGTATCTCATTTAATATTTTCAGAAAATGAAATTTT
TGAAAAGTAAAAAACTAATTTCCAAAGTTTCTTACCTAGTAAACTATATACAATAATAGTAAGTC
ATTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCGGGTCATCTGTCAGTCTTT
CGAGAAAGATAATAAGTCATTCGGCCCATCTAGAAGACCTTCGAGAAAGATGATTTC
Found at i:3430199 original size:21 final size:20
Alignment explanation
Indices: 3430173--3430242 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
3430163 ATTATCCCAA
3430173 TATCGATACCCCTATGAGGAG
1 TATCGATACCCCTATG-GGAG
3430194 TATCGATACTACCCCT-T--G-G
1 TATCG--A-TACCCCTATGGGAG
3430213 TATCGATACCCCTATGGGGAG
1 TATCGATACCCCTAT-GGGAG
3430234 TATCGATAC
1 TATCGATAC
3430243 TATCCCTTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
19 6 0.15
20 2 0.05
21 15 0.37
23 2 0.05
24 7 0.17
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (20 bp):
TATCGATACCCCTATGGGAG
Found at i:3430228 original size:40 final size:40
Alignment explanation
Indices: 3430173--3430270 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
3430163 ATTATCCCAA
3430173 TATCGATACCCCTATGAGGAGTATCGATACTACCCCTTGG
1 TATCGATACCCCTATGAGGAGTATCGATACTACCCCTTGG
* *
3430213 TATCGATACCCCTATGGGGAGTATCGATACTATCCCTTGG
1 TATCGATACCCCTATGAGGAGTATCGATACTACCCCTTGG
*
3430253 TATCAATACTCCCT-TGAG
1 TATCGATAC-CCCTATGAG
3430271 CATCGGTACC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 49 0.92
41 4 0.08
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (40 bp):
TATCGATACCCCTATGAGGAGTATCGATACTACCCCTTGG
Found at i:3436491 original size:23 final size:23
Alignment explanation
Indices: 3436465--3436514 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
3436455 ACTTCTTAAA
3436465 TGGCGAATCTGAGCTTCGTACTT
1 TGGCGAATCTGAGCTTCGTACTT
*
3436488 TGGCGAATCTGAGCTTTGTACTT
1 TGGCGAATCTGAGCTTCGTACTT
3436511 TGGC
1 TGGC
3436515 AAACCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGCGAATCTGAGCTTCGTACTT
Found at i:3441017 original size:5 final size:5
Alignment explanation
Indices: 3441007--3441035 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3440997 TACTAGACTT
3441007 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
3441036 TTATTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:3441362 original size:55 final size:55
Alignment explanation
Indices: 3441277--3442066 Score: 870
Period size: 55 Copynumber: 14.4 Consensus size: 55
3441267 AGATAAGTAA
* * ** * *
3441277 AACTTGAAAAATCTTCAGAAAACAGGTCCGCTCCCTATTCTTTCATGGAGTATAG
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441332 GACTCGAACAATCTT-AGACAAACGAGTCCGCTCCCTATTCTTTCAGGGAGTATAG
1 AACTCGAACAATCTTCAGA-AAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
*
3441387 AACTCGAACAATCTT-ATGAAAATGGGTTCGCCCCCTATTCTTTCAGGGAGTATAG
1 AACTCGAACAATCTTCA-GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441442 AACTC-AAAAATTCTTCTGAAAAT-GGATCCCTCCCTATTCTTTCAGGGAGTATAG
1 AACTCGAACAA-TCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
** * *
3441496 AACTCGAACAATCTTCTTAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAA
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441551 AACTCGAAAAATCTTCTA-AAAATGGGTCCGCTCCCTATTTTTTCAAGGAGTATAG
1 AACTCGAACAATCTTC-AGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441606 AACTCAAACAATCTTCTGAAAATAGGTTCGCTCCCTATTCTTTTAGGGAGTATAG
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441661 AACTCGAAAAATCGTCTGAAAATGGGTTCGCTCCATATTCTTTCAGGGAGTATAG
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * * *
3441716 AACTCGAATAATCTTCTGAAAACT-GGTTTGCTCCCTATTCTTTCAGGGACTATAG
1 AACTCGAACAATCTTCAGAAAA-TGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * *
3441771 AACTCGAACAATCTTCTGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTGTTG
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* *
3441826 AACTCGAACAATCTTCTGAAAATGGGTTCACTCCCTATTCTTTCAGGGAGTATAG
1 AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * *
3441881 AACTCGAACAATCTTCATGAAACAT--GTTTGCT--CTATTTTTTCAGAGAGTATA-
1 AACTCGAACAATCTTCA-GAAA-ATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * *
3441933 AGACTCGAACAATCTTCATAAAATGAGTTTC-CTCTCTATTCTTTCAGGGAGTATA-
1 A-ACTCGAACAATCTTCAGAAAATG-GGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * ** * * * *
3441988 AGACTCAAACAATCTTTATCAAACGTGTTTGCTACCTATTCTTTCAGGGAGTATA-
1 A-ACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
* * *
3442043 AGACTTGAAAAATCTTCATAAAAT
1 A-ACTCGAACAATCTTCAGAAAAT
3442067 AAGTCTGCTT
Statistics
Matches: 635, Mismatches: 81, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
51 2 0.00
52 4 0.01
53 36 0.06
54 55 0.09
55 529 0.83
56 7 0.01
57 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (55 bp):
AACTCGAACAATCTTCAGAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAG
Found at i:3442337 original size:37 final size:36
Alignment explanation
Indices: 3442290--3442407 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 36
3442280 ACTGATGACA
*
3442290 TGCTTCACTACTCATTCGTGATGGCTTAAGATTGATT
1 TGCTTCACTACTC-TTCGTGAAGGCTTAAGATTGATT
* * * ** **
3442327 TTCTTTACTACTCTTCCGTGAAGACTTACTATTGACC
1 TGCTTCACTACTCTT-CGTGAAGGCTTAAGATTGATT
*
3442364 TGCTTCACTACTCTTCTGTGAAGGCTTAAGAATGATT
1 TGCTTCACTACTCTTC-GTGAAGGCTTAAGATTGATT
3442401 TGCTTCA
1 TGCTTCA
3442408 AAGGTTGAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
36 3 0.05
37 60 0.95
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (36 bp):
TGCTTCACTACTCTTCGTGAAGGCTTAAGATTGATT
Found at i:3444465 original size:2 final size:2
Alignment explanation
Indices: 3444458--3444504 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3444448 AACTTTATTG
3444458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3444500 TA TA T
1 TA TA T
3444505 TGTAATCGCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3449370 original size:45 final size:45
Alignment explanation
Indices: 3449285--3449374 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
3449275 ATTCAAAAAT
* **
3449285 CCTAACCGCATGATATCTAATTCACATGCTGGTTTGAAAAATAAA
1 CCTAACCGCATGATATCTAATTCACATACTGGTTACAAAAATAAA
* * * * *
3449330 CCTAACCGCATGGTCTCTAGTTCTCATACTTGTTACAAAAATAAA
1 CCTAACCGCATGATATCTAATTCACATACTGGTTACAAAAATAAA
3449375 TAAATAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (45 bp):
CCTAACCGCATGATATCTAATTCACATACTGGTTACAAAAATAAA
Found at i:3451837 original size:34 final size:34
Alignment explanation
Indices: 3451799--3451864 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
3451789 GAATGCCCCC
*
3451799 TACAAACTGTTT-TATTAAGTTTTTATCACCCCTT
1 TACAAACTGTTTCT-TTAAGTTTTTATAACCCCTT
*
3451833 TACAAACTGTTTCTTTTAGTTTTTATAACCCC
1 TACAAACTGTTTCTTTAAGTTTTTATAACCCC
3451865 CACTTTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (34 bp):
TACAAACTGTTTCTTTAAGTTTTTATAACCCCTT
Found at i:3468003 original size:109 final size:109
Alignment explanation
Indices: 3467794--3468002 Score: 307
Period size: 109 Copynumber: 1.9 Consensus size: 109
3467784 TCACGGGATG
3467794 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACCTACAGTGTGGGATGGTAGG
1 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACCTACAGTGTGGGATGGTAGG
* **
3467859 TGTGATGGGTTGACTCCCCTCGAAGTAATGTAAAAAGAAATCAA
66 TGTGATGGATTGACTCCCCTAAAAGTAATGTAAAAAGAAATCAA
* * *
3467903 ACTCTACTTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTA-G
1 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACCTACAGTGTGGGATGGTAGG
* *
3467967 TGTGAT-TATATGATTCCCCTAAAAGT-ATGTTAAAAA
66 TGTGATGGAT-TGACTCCCCTAAAAGTAATG-TAAAAA
3468003 AAAGTTGAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
107 4 0.04
108 26 0.29
109 60 0.67
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (109 bp):
ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACCTACAGTGTGGGATGGTAGG
TGTGATGGATTGACTCCCCTAAAAGTAATGTAAAAAGAAATCAA
Found at i:3473616 original size:21 final size:20
Alignment explanation
Indices: 3473552--3473692 Score: 88
Period size: 20 Copynumber: 7.0 Consensus size: 20
3473542 AAATAACCAA
* * *
3473552 CAAATTCGCAACGCGAACTA
1 CAAATTCGCAACACGAATTT
* *
3473572 CAATTTCGCAACAC-AGTTT
1 CAAATTCGCAACACGAATTT
3473591 CCAAATTCGCAACACGGAATTT
1 -CAAATTCGCAACAC-GAATTT
** *
3473613 CAAATTCATAACTCG-ATTT
1 CAAATTCGCAACACGAATTT
**
3473632 CTAAATTCGCAATGCGAATTT
1 C-AAATTCGCAACACGAATTT
*** * * *
3473653 CCTTTTTGCAACAAGATTTT
1 CAAATTCGCAACACGAATTT
*
3473673 CTAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
3473693 TGTTTTCGTA
Statistics
Matches: 88, Mismatches: 28, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
19 7 0.08
20 61 0.69
21 16 0.18
22 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:3473700 original size:20 final size:20
Alignment explanation
Indices: 3473677--3473764 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
3473667 GATTTTCTAA
**
3473677 TTCGCAACACGAATTTTGTT
1 TTCGCAACACGAATTTTAAT
* * *
3473697 TTCGTAACTCGATTTTTGAA-
1 TTCGCAACACGAATTTT-AAT
3473717 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
* * *
3473737 TTCGTAACA-G-CTTTTATT
1 TTCGCAACACGAATTTTAAT
3473755 TTCGCAACAC
1 TTCGCAACAC
3473765 AAATGTTTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
18 14 0.26
19 3 0.06
20 36 0.68
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:3473711 original size:40 final size:41
Alignment explanation
Indices: 3473553--3473744 Score: 149
Period size: 40 Copynumber: 4.8 Consensus size: 41
3473543 AATAACCAAC
* * * * * * *
3473553 AAATTCGCAACGCGAACTACAATTTCGCAACAC-AGTTTCC
1 AAATTCGCAACACGAATTTCAATTTCGTAACTCGATTTTCT
* *
3473593 AAATTCGCAACACGGAATTTCAAATTCATAACTCGA-TTTCT
1 AAATTCGCAACAC-GAATTTCAATTTCGTAACTCGATTTTCT
** ** * * **
3473634 AAATTCGCAATGCGAATTTCCTTTTTGCAACAAGATTTTCT
1 AAATTCGCAACACGAATTTCAATTTCGTAACTCGATTTTCT
***
3473675 -AATTCGCAACACGAATTTTGTTTTCGTAACTCGATTTT-T
1 AAATTCGCAACACGAATTTCAATTTCGTAACTCGATTTTCT
* *
3473714 GAATTCGCAACACGAATTTTAATTTCGTAAC
1 AAATTCGCAACACGAATTTCAATTTCGTAAC
3473745 AGCTTTTATT
Statistics
Matches: 120, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
39 1 0.01
40 84 0.70
41 34 0.28
42 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (41 bp):
AAATTCGCAACACGAATTTCAATTTCGTAACTCGATTTTCT
Found at i:3473900 original size:16 final size:15
Alignment explanation
Indices: 3473865--3473903 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3473855 TCCCCATCTC
*
3473865 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
3473880 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
3473896 TAATTTTT
1 TAATTTTT
3473904 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:3474674 original size:24 final size:24
Alignment explanation
Indices: 3474642--3474695 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
3474632 GTATTCGAAA
3474642 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
3474666 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
3474690 TTTGAT
1 TTTGAT
3474696 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:3474878 original size:3 final size:3
Alignment explanation
Indices: 3474870--3474900 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3474860 ATATAACCCT
*
3474870 GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
3474901 TCCCCGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:3476993 original size:18 final size:18
Alignment explanation
Indices: 3476970--3477005 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3476960 AAGCAAAAGG
*
3476970 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
3476988 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
3477006 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:3477301 original size:20 final size:20
Alignment explanation
Indices: 3477276--3477331 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3477266 TGCGATTGTT
3477276 ACGAAAGTCAAATTCGCAAC
1 ACGAAAGTCAAATTCGCAAC
*
3477296 ACGAAAGTCAAGTTCGCAAC
1 ACGAAAGTCAAATTCGCAAC
* *
3477316 ACGAAAATCGAATTCG
1 ACGAAAGTCAAATTCG
3477332 ACACGCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
ACGAAAGTCAAATTCGCAAC
Found at i:3477516 original size:16 final size:17
Alignment explanation
Indices: 3477495--3477531 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3477485 TGCAGATTGA
*
3477495 AATTAAA-CAACAAATC
1 AATTAAACCAAAAAATC
3477511 AATTAAACCAAAAAATC
1 AATTAAACCAAAAAATC
3477528 AATT
1 AATT
3477532 CTTATTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (17 bp):
AATTAAACCAAAAAATC
Found at i:3478989 original size:21 final size:21
Alignment explanation
Indices: 3478965--3479018 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
3478955 GGGAGGTTTA
* *
3478965 TCTTTAACGATGGAATGGGCC
1 TCTTAAACGATGGAAGGGGCC
* *
3478986 TCTTAAATGATGGGAGGGGCC
1 TCTTAAACGATGGAAGGGGCC
*
3479007 TCTTGAACGATG
1 TCTTAAACGATG
3479019 ATAGGTGATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (21 bp):
TCTTAAACGATGGAAGGGGCC
Found at i:3479055 original size:21 final size:21
Alignment explanation
Indices: 3479031--3479071 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3479021 AGGTGATTCG
*
3479031 TGAATAATGGGAGGTGGATCC
1 TGAACAATGGGAGGTGGATCC
*
3479052 TGAACAATGGTAGGTGGATC
1 TGAACAATGGGAGGTGGATC
3479072 GGGCTTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (21 bp):
TGAACAATGGGAGGTGGATCC
Found at i:3479237 original size:4 final size:4
Alignment explanation
Indices: 3479205--3479250 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
3479195 GGGCCGCTAA
* * * *
3479205 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
3479251 TGTCAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:3479504 original size:21 final size:21
Alignment explanation
Indices: 3479480--3479525 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
3479470 ATCATTATCG
* *
3479480 TCACATAAAGTACAGACCTCA
1 TCACACAAAGCACAGACCTCA
* *
3479501 TCACGCAAAGCACTGACCTCA
1 TCACACAAAGCACAGACCTCA
3479522 TCAC
1 TCAC
3479526 GTAACTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.35, G:0.11, T:0.17
Consensus pattern (21 bp):
TCACACAAAGCACAGACCTCA
Found at i:3479691 original size:42 final size:42
Alignment explanation
Indices: 3479644--3479736 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
3479634 GTGATGGAAT
* * * * * *
3479644 AGGTGATGGCCCTTGGTGTCTAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCCCTCGGTGTCGAGCTATAGAATCAGCTCGATC
* *
3479686 AGGTGATGGCTCTCGGTGTCGAGCTATAGAATCAGCTCGATT
1 AGGTGATGGCCCTCGGTGTCGAGCTATAGAATCAGCTCGATC
3479728 AGGTGATGG
1 AGGTGATGG
3479737 ATCTCAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.29
Consensus pattern (42 bp):
AGGTGATGGCCCTCGGTGTCGAGCTATAGAATCAGCTCGATC
Found at i:3481261 original size:20 final size:20
Alignment explanation
Indices: 3481238--3481307 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
3481228 TTTGAAACTT
3481238 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
* *
3481258 AAATTCGCAACTCGAAAATA
1 AAATTCGCAACACGAAAATG
**
3481278 AAATTCGCAACGTGAAAATG
1 AAATTCGCAACACGAAAATG
*
3481298 AAATTTGCAA
1 AAATTCGCAA
3481308 TGCAAAAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:3481397 original size:20 final size:20
Alignment explanation
Indices: 3481354--3481397 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
3481344 GCGTTGTGAT
* *
3481354 TTTCGTGTTGCAAATTTCAT
1 TTTCGTGTTGCAAATTTAAG
**
3481374 TTTCGTGTTGTGAATTTAAG
1 TTTCGTGTTGCAAATTTAAG
3481394 TTTC
1 TTTC
3481398 AAAAACTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCAAATTTAAG
Found at i:3481893 original size:19 final size:20
Alignment explanation
Indices: 3481871--3481908 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3481861 ATATTTGTGT
3481871 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
3481890 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
3481909 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:3481904 original size:20 final size:20
Alignment explanation
Indices: 3481879--3481961 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
3481869 GTTTCGAATT
3481879 CGAAAATAAAATTCGCGTTG
1 CGAAAATAAAATTCGCGTTG
** *
3481899 CGAAAAT-AAACGCGCTTTG
1 CGAAAATAAAATTCGCGTTG
**
3481918 CG-ATTTACAAATTCGCGTTG
1 CGAAAATA-AAATTCGCGTTG
* *
3481938 CGGAAAA-CAAATTCGAGTTG
1 C-GAAAATAAAATTCGCGTTG
3481958 CGAA
1 CGAA
3481962 TTTCAAAACT
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
18 2 0.04
19 14 0.30
20 29 0.62
21 1 0.02
22 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (20 bp):
CGAAAATAAAATTCGCGTTG
Found at i:3481959 original size:40 final size:39
Alignment explanation
Indices: 3481887--3481968 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
3481877 TTCGAAAATA
* **
3481887 AAATTCGCGTTGCGAAAATAAACGCGCTTTGCG-ATTTAC
1 AAATTCGCGTTGCGAAAACAAACGCGAGTTGCGAATTT-C
**
3481926 AAATTCGCGTTGCGGAAAACAAATTCGAGTTGCGAATTTC
1 AAATTCGCGTTGC-GAAAACAAACGCGAGTTGCGAATTTC
3481966 AAA
1 AAA
3481969 ACTGAGTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.36
40 19 0.53
41 4 0.11
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (39 bp):
AAATTCGCGTTGCGAAAACAAACGCGAGTTGCGAATTTC
Found at i:3482027 original size:20 final size:21
Alignment explanation
Indices: 3481985--3482029 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
3481975 TTGTGAACTG
3481985 GGAAATTCGCGTTGCAAATTT
1 GGAAATTCGCGTTGCAAATTT
*
3482006 GGAAATT-GTGTTGCGAAA-TT
1 GGAAATTCGCGTTGC-AAATTT
3482026 GGAA
1 GGAA
3482030 CTAATTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (21 bp):
GGAAATTCGCGTTGCAAATTT
Found at i:3483594 original size:60 final size:60
Alignment explanation
Indices: 3483528--3483693 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 60
3483518 ATTTGGATAT
* ** **
3483528 GTTTAGGGGTGAAATTAGAATATTCAATAGTTTGGGGACTAATTTAGAAAGAGGGTCATA
1 GTTTAGGGGTGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAGTCATA
* * * * * *
3483588 GTTTAGGGATAAAATTAAAATGTTCAAAAGTTTAAGGACTAATATAGAATGAAAGTCATA
1 GTTTAGGGGTGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAGTCATA
* *
3483648 GTCT-GGGGATGTAATTAGAATATTCAAAAGTTTAAGGACTAATTTA
1 GTTTAGGGG-TGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTA
3483694 AAATAAAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 3 0.03
60 84 0.97
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (60 bp):
GTTTAGGGGTGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAGTCATA
Found at i:3491529 original size:95 final size:95
Alignment explanation
Indices: 3491398--3491599 Score: 305
Period size: 95 Copynumber: 2.1 Consensus size: 95
3491388 CAGATTATAA
3491398 TATTATATATATACAATAAAGATTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTT
1 TATTATA-ATATACAATAAAGATTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTT
* *
3491463 AAGAATAAGATTCAGCTAGCCTGATAAAGGT
65 AAGAATAAGATACAGCTAGCCTGATAAAGCT
* * * * *
3491494 TATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTA
1 TATTATAATATACAATAAAGATTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
* *
3491559 TGGATAAGATACAGCTAGCCTGATAAAGCT
66 AGAATAAGATACAGCTAGCCTGATAAAGCT
*
3491589 AATTATAATAT
1 TATTATAATAT
3491600 TGAGTTGTCC
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 89 0.93
96 7 0.07
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (95 bp):
TATTATAATATACAATAAAGATTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
AGAATAAGATACAGCTAGCCTGATAAAGCT
Found at i:3493331 original size:85 final size:84
Alignment explanation
Indices: 3493236--3493459 Score: 261
Period size: 85 Copynumber: 2.6 Consensus size: 84
3493226 ATCTGTAAAT
* * * * *
3493236 AAACCTTCGAGTTTTATTACATTAAGCTCAAGGACGTATCAAATTTATAGCATAGTTCAAGGAGA
1 AAACCTTCGAGTTTGATTGCATTAAGCTCAAGG-CATATCAAATTTAAAGCATAGCTCAAGGAGA
**
3493301 AAAGGGCTATTTGTCAACCA
65 AAAGGGCTAACTGTCAACCA
* * * * *
3493321 AAACCTTCGAGTTCGATTGCTTTCAGCTCAAGTGCATATCAAATTTACAA-CATAGCTCGAGGCG
1 AAACCTTCGAGTTTGATTGCATTAAGCTCAAG-GCATATCAAATTTA-AAGCATAGCTCAAGGAG
*
3493385 AGAAGGGCTAACTGTCAACCA
64 AAAAGGGCTAACTGTCAACCA
* * *
3493406 AAACCTTCAAGTTTGATTGCGTTTAGCTCAAGGTCATATCAAATTTAAAGCATA
1 AAACCTTCGAGTTTGATTGCATTAAGCTCAAGG-CATATCAAATTTAAAGCATA
3493460 TCTTAAGTCG
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
84 3 0.03
85 113 0.96
86 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (84 bp):
AAACCTTCGAGTTTGATTGCATTAAGCTCAAGGCATATCAAATTTAAAGCATAGCTCAAGGAGAA
AAGGGCTAACTGTCAACCA
Found at i:3494216 original size:54 final size:54
Alignment explanation
Indices: 3494114--3494220 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
3494104 TTACACAAGA
* **
3494114 TTGGATTTCAACTTCACAACAAAGGATATCCAACTCAGAGACGGTTTGGTGAAC
1 TTGGATTTCAACTTCACAACAAAGGATATCCAACTCAGAAACAATTTGGTGAAC
*
3494168 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCA-AAACCAATTTGGTGAA
1 TTGGATTTCAACTTCACAACAAAGGATATCCAACTCAGAAA-CAATTTGGTGAA
3494221 GCAATACAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
TTGGATTTCAACTTCACAACAAAGGATATCCAACTCAGAAACAATTTGGTGAAC
Found at i:3496450 original size:29 final size:29
Alignment explanation
Indices: 3496392--3496448 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
3496382 ATTTTTATAT
* * * *
3496392 TTATAAAGAAAATTCAAAATTTTCTTAAA
1 TTATAAAAAAAACTCAAAATTTCCTAAAA
3496421 TTATAAAAAAAACTCAAAA-TTCCTAAAA
1 TTATAAAAAAAACTCAAAATTTCCTAAAA
3496449 ATATCACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.32
Consensus pattern (29 bp):
TTATAAAAAAAACTCAAAATTTCCTAAAA
Found at i:3496824 original size:22 final size:22
Alignment explanation
Indices: 3496799--3496840 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3496789 AAAATTGGAC
3496799 TTTTTAAAAATAAAATTTTAAT
1 TTTTTAAAAATAAAATTTTAAT
* *
3496821 TTTTTTAAATTAAAATTTTA
1 TTTTTAAAAATAAAATTTTA
3496841 TAAATATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTAAAAATAAAATTTTAAT
Found at i:3498999 original size:2 final size:2
Alignment explanation
Indices: 3498992--3499025 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3498982 TTGCACTTGA
3498992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3499026 TAATTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3503814 original size:19 final size:19
Alignment explanation
Indices: 3503770--3503817 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
3503760 TAATAAATCC
*
3503770 ATAATAGTATGTATTATTT
1 ATAATATTATGTATTATTT
3503789 ATAATATTATGTATTATTT
1 ATAATATTATGTATTATTT
3503808 ATAATATTAT
1 ATAATATTAT
3503818 CTCTTGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
ATAATATTATGTATTATTT
Found at i:3511801 original size:20 final size:20
Alignment explanation
Indices: 3511761--3511799 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3511751 AATTGCAGGA
*
3511761 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCCACAAAAG
3511781 ATTTCATGGCCTCCACAAA
1 ATTT-ATGGCCTCCACAAA
3511800 GACCTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTTATGGCCTCCACAAAAG
Found at i:3526178 original size:19 final size:19
Alignment explanation
Indices: 3526154--3526194 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3526144 GACAATCTGG
*
3526154 ATCAGATCGGGTCACCTGT
1 ATCAGATCGAGTCACCTGT
*
3526173 ATCAGATTGAGTCACCTGT
1 ATCAGATCGAGTCACCTGT
3526192 ATC
1 ATC
3526195 GATTTGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (19 bp):
ATCAGATCGAGTCACCTGT
Found at i:3550343 original size:19 final size:19
Alignment explanation
Indices: 3550316--3550352 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3550306 TTTATTTCCG
*
3550316 AAATGATTAAAAGCTGCCT
1 AAATAATTAAAAGCTGCCT
*
3550335 AAATAATTAAAAGTTGCC
1 AAATAATTAAAAGCTGCC
3550353 ACAACAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATAATTAAAAGCTGCCT
Found at i:3574158 original size:21 final size:23
Alignment explanation
Indices: 3574132--3574190 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
3574122 CCTTTTTTCC
3574132 TTTTTT-T-TCTTTTGTTTGATA
1 TTTTTTCTCTCTTTTGTTTGATA
*
3574153 TTTTTTCTCTTTTTTGTTTGAT-
1 TTTTTTCTCTCTTTTGTTTGATA
*
3574175 TTTGTTTCTCTGTTTT
1 TTT-TTTCTCTCTTTT
3574191 TTCCTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 4 0.12
23 23 0.70
ACGTcount: A:0.05, C:0.08, G:0.10, T:0.76
Consensus pattern (23 bp):
TTTTTTCTCTCTTTTGTTTGATA
Found at i:3574182 original size:23 final size:24
Alignment explanation
Indices: 3574141--3574191 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
3574131 CTTTTTTTTC
3574141 TTTTGTTTGATATTTTTTCTCT-T
1 TTTTGTTTGATATTTTTTCTCTGT
3574164 TTTTGTTTGAT-TTTGTTTCTCTGT
1 TTTTGTTTGATATTT-TTTCTCTGT
3574188 TTTT
1 TTTT
3574192 TCCTTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.06, C:0.08, G:0.12, T:0.75
Consensus pattern (24 bp):
TTTTGTTTGATATTTTTTCTCTGT
Found at i:3574774 original size:3 final size:3
Alignment explanation
Indices: 3574766--3574791 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3574756 GTAATAAATG
3574766 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
3574792 TTTGTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:3581051 original size:6 final size:6
Alignment explanation
Indices: 3581031--3581062 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3581021 TTCAATAAAT
3581031 AAAT-A AAAT-A AAATGA AAATGA AAATGA AAAT
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAAT
3581063 AGGTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (6 bp):
AAATGA
Found at i:3581057 original size:12 final size:11
Alignment explanation
Indices: 3581027--3581063 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
3581017 ATTTTTCAAT
3581027 AAAT-AAAT-A
1 AAATAAAATGA
3581036 AAATAAAATGA
1 AAATAAAATGA
3581047 AAATGAAAATGA
1 AAAT-AAAATGA
3581059 AAATA
1 AAATA
3581064 GGTAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.16
10 4 0.16
11 6 0.24
12 11 0.44
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:3582063 original size:24 final size:24
Alignment explanation
Indices: 3582010--3582063 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
3582000 TCTTTTTTTT
*
3582010 TATTTTGTTTGATATTTTTTTCTC
1 TATTTTGTTTGATATTTGTTTCTC
*
3582034 TTTTTTGTTTGAT-TTTGTTTCTC
1 TATTTTGTTTGATATTTGTTTCTC
3582057 TGATTTT
1 T-ATTTT
3582064 TTCCTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.09, C:0.07, G:0.11, T:0.72
Consensus pattern (24 bp):
TATTTTGTTTGATATTTGTTTCTC
Found at i:3583066 original size:83 final size:83
Alignment explanation
Indices: 3582915--3583103 Score: 240
Period size: 83 Copynumber: 2.3 Consensus size: 83
3582905 GAGGGTGATA
* * * * * *
3582915 ACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACTTCTCCTACGTGATGAGG
1 ACACAGTTCCTACGTGATGAGGACGACTGGTCATCTAGGGGTGACACTGCTCCTACGTGATAAAG
3582980 AGGTCTGGTCAGG-AGATG
66 AGGTCTGGTC-GGTAGATG
*
3582998 ACACAGTTCCTACGCGATGAGGACGACAT-GTCATCTAGGGGTGACA-TGGCTCCTACGTGATAA
1 ACACAGTTCCTACGTGATGAGGACGAC-TGGTCATCTAGGGGTGACACT-GCTCCTACGTGATAA
*
3583061 AGAGGTCTGGTCGGTGGATG
64 AGAGGTCTGGTCGGTAGATG
* *
3583081 ACACAATTCCTATGTGATGAGGA
1 ACACAGTTCCTACGTGATGAGGA
3583104 TGGTAGGTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
82 3 0.03
83 88 0.96
84 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (83 bp):
ACACAGTTCCTACGTGATGAGGACGACTGGTCATCTAGGGGTGACACTGCTCCTACGTGATAAAG
AGGTCTGGTCGGTAGATG
Found at i:3583146 original size:48 final size:49
Alignment explanation
Indices: 3583081--3583215 Score: 130
Period size: 48 Copynumber: 2.7 Consensus size: 49
3583071 TCGGTGGATG
* * *
3583081 ACACAATTCCTATGTGATGAGGATGGTAGGTTATCTTTAGGGA-TGATA
1 ACACAGTTCCTACGTGATGAGGATGGTTGGTTATCTTTAGGGAGTGATA
* *** **
3583129 ACACAGTTCCTACGTGATGATGACAATTGGCCATCTTTAGGGAGGGTGATA
1 ACACAGTTCCTACGTGATGAGGATGGTTGGTTATCTTTAGGGA--GTGATA
* *
3583180 ACA-TGATTCCCACGTGATGAGGATGGTTGGTTATCT
1 ACACAG-TTCCTACGTGATGAGGATGGTTGGTTATCT
3583216 AAGGGTGACA
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
48 34 0.52
50 1 0.02
51 31 0.47
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (49 bp):
ACACAGTTCCTACGTGATGAGGATGGTTGGTTATCTTTAGGGAGTGATA
Found at i:3583345 original size:265 final size:265
Alignment explanation
Indices: 3582891--3583396 Score: 753
Period size: 265 Copynumber: 1.9 Consensus size: 265
3582881 CGAGGATGGC
* * *
3582891 TGGCCATCTTTAGGGAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGG
1 TGGCCATCTTTAGGGAGGGTGATAACACGATTCCCACGTGATGAGGACGACTGGTTATCTAAGGG
** * * *
3582956 TGACACTTCTCCTACGTGATGAGGAGGTCTGGTCAGGAGATGACACAGTTCCTACGCGATGAGGA
66 TGACACGGCTCCTACGTGATAAGGAGGTCTGGTCAGGAGATGACACAGTTCCTACACAATGAGGA
* * * * *
3583021 CGACATGTCATCTAGGGGTGACATGGCTCCTACGTGATAAAGAGGTCTGGTCGGTGGATGACACA
131 CGACATGCCATCTAGGGGTGACACGACTCCTACGTGATAAAGAGGTATAGTCGGTGGATGACACA
** **
3583086 ATTCCTATGTGATGAGGATGGTAGGTTATCTTTAGGGATGATAACACAGTTCCTACGTGATGATG
196 ATTCCTACATGATGAGGATGGTAGGCCATCTTTAGGGATGATAACACAGTTCCTACGTGATGATG
3583151 ACAAT
261 ACAAT
* * **
3583156 TGGCCATCTTTAGGGAGGGTGATAACATGATTCCCACGTGATGAGGATGGTTGGTTATCTAAGGG
1 TGGCCATCTTTAGGGAGGGTGATAACACGATTCCCACGTGATGAGGACGACTGGTTATCTAAGGG
* *
3583221 TGACACGGCTCCTACGTGATAAGGAGGTCTGGTCAGGGGATGACA-ATGTTTCTACACAATGAGG
66 TGACACGGCTCCTACGTGATAAGGAGGTCTGGTCAGGAGATGACACA-GTTCCTACACAATGAGG
* * * *
3583285 ACGACATGCCATCTAGGGTTGACACGACTGCTACGTGATAAGGAGGTATAGTCTGTGGATGACAC
130 ACGACATGCCATCTAGGGGTGACACGACTCCTACGTGATAAAGAGGTATAGTCGGTGGATGACAC
3583350 AATTCCTACATGATGAGGATGGTAGGCCATCTTTAGGGATGATAACA
195 AATTCCTACATGATGAGGATGGTAGGCCATCTTTAGGGATGATAACA
3583397 TGCTTCCTAT
Statistics
Matches: 213, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
264 1 0.00
265 212 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (265 bp):
TGGCCATCTTTAGGGAGGGTGATAACACGATTCCCACGTGATGAGGACGACTGGTTATCTAAGGG
TGACACGGCTCCTACGTGATAAGGAGGTCTGGTCAGGAGATGACACAGTTCCTACACAATGAGGA
CGACATGCCATCTAGGGGTGACACGACTCCTACGTGATAAAGAGGTATAGTCGGTGGATGACACA
ATTCCTACATGATGAGGATGGTAGGCCATCTTTAGGGATGATAACACAGTTCCTACGTGATGATG
ACAAT
Found at i:3583359 original size:83 final size:83
Alignment explanation
Indices: 3583212--3583368 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 83
3583202 ATGGTTGGTT
* * * * *
3583212 ATCTAAGGGTGACACGGCTCCTACGTGATAAGGAGGTCTGGTCAGGGGATGACAATGTTTCTACA
1 ATCTAAGGGTGACACGACTCCTACGTGATAAGGAGGTATAGTCAGGGGATGACAATATTCCTACA
3583277 CAATGAGGACGACATGCC
66 CAATGAGGACGACATGCC
* * *
3583295 ATCT-AGGGTTGACACGACTGCTACGTGATAAGGAGGTATAGTCTGTGGATGACACA-ATTCCTA
1 ATCTAAGGG-TGACACGACTCCTACGTGATAAGGAGGTATAGTCAGGGGATGACA-ATATTCCTA
**
3583358 CATGATGAGGA
64 CACAATGAGGA
3583369 TGGTAGGCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
82 4 0.06
83 57 0.92
84 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (83 bp):
ATCTAAGGGTGACACGACTCCTACGTGATAAGGAGGTATAGTCAGGGGATGACAATATTCCTACA
CAATGAGGACGACATGCC
Found at i:3583379 original size:83 final size:83
Alignment explanation
Indices: 3583185--3583381 Score: 191
Period size: 83 Copynumber: 2.4 Consensus size: 83
3583175 TGATAACATG
* * * ** * *
3583185 ATTCCCACGTGATGAGGATGGTTGGTTATCTAAGGGTGACACGGCTCCTACGTGATAAGGAGGTC
1 ATTCCTACATGATGAGGATGGTAGGCCATCTAAGGGTGACACGACTCCTACGTGATAAGGAGGTA
*
3583250 TGGTCAGGGGATGACAAT
66 TAGTCAGGGGATGACAAT
* * ** * ** * *
3583268 GTTTCTACACAATGAGGACGACATGCCATCT-AGGGTTGACACGACTGCTACGTGATAAGGAGGT
1 ATTCCTACATGATGAGGATGGTAGGCCATCTAAGGG-TGACACGACTCCTACGTGATAAGGAGGT
* *
3583332 ATAGTCTGTGGATGACACA-
65 ATAGTCAGGGGATGACA-AT
3583351 ATTCCTACATGATGAGGATGGTAGGCCATCT
1 ATTCCTACATGATGAGGATGGTAGGCCATCT
3583382 TTAGGGATGA
Statistics
Matches: 85, Mismatches: 27, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
82 4 0.05
83 80 0.94
84 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (83 bp):
ATTCCTACATGATGAGGATGGTAGGCCATCTAAGGGTGACACGACTCCTACGTGATAAGGAGGTA
TAGTCAGGGGATGACAAT
Done.