Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 129 of 211
Found at i:37705983 original size:6 final size:6
Alignment explanation
Indices: 37705972--37706044 Score: 69
Period size: 6 Copynumber: 11.8 Consensus size: 6
37705962 TATCAAAACT
* *
37705972 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
37706021 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
37706045 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:37706008 original size:31 final size:31
Alignment explanation
Indices: 37705972--37706044 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
37705962 TATCAAAACT
*
37705972 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
37706003 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
37706034 AAAATCAGAAT
1 AGAATCAGAAT
37706045 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:37706238 original size:27 final size:28
Alignment explanation
Indices: 37706183--37706240 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
37706173 GTGACAGAGT
* *
37706183 CACCAGATACAGATATTTGTGGCATAGC
1 CACCAGATACAGATATATGTGGCAAAGC
37706211 CACCAGA-ATCAGATA-ATGTGGCAAAGC
1 CACCAGATA-CAGATATATGTGGCAAAGC
37706238 CAC
1 CAC
37706241 TTAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAAAGC
Found at i:37707159 original size:27 final size:26
Alignment explanation
Indices: 37706832--37707160 Score: 381
Period size: 27 Copynumber: 12.2 Consensus size: 26
37706822 GGTATCTTGA
*
37706832 TAATTCTA-CTCTACAGGGGTATTTTAG
1 TAATTCTACCT-TACAGGGGTA-TTTCG
* * *
37706859 TATTTCTACCCTACAAGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
* *
37706885 ATAATTCTACCCTACAAGGGTATTTCAG
1 -TAATTCTACCTTACAGGGGTATTTC-G
* *
37706913 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTC-G
37706940 TAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCTTACAGGGGTATTTC-G
* *
37706967 TAATTCTACCTTACAAGGGTATTTTGG
1 TAATTCTACCTTACAGGGGTA-TTTCG
37706994 TAATTCTACCTTACAGGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
*
37707020 ATAATTCTACCTTATAGGGGTATTTCAG
1 -TAATTCTACCTTACAGGGGTATTTC-G
* * *
37707048 TAATTGTACCTTATAGGGGTGTTTCAG
1 TAATTCTACCTTACAGGGGTATTTC-G
*
37707075 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTC-G
* *
37707102 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCTTACAGGGGTA-TTTCG
37707129 TAATTCTACCTTACAGGGGTATTTCG
1 TAATTCTACCTTACAGGGGTATTTCG
37707155 TTAATT
1 -TAATT
37707161 TTGTAAATCG
Statistics
Matches: 268, Mismatches: 26, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
26 12 0.04
27 247 0.92
28 9 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (26 bp):
TAATTCTACCTTACAGGGGTATTTCG
Found at i:37707160 original size:81 final size:81
Alignment explanation
Indices: 37706832--37707153 Score: 448
Period size: 81 Copynumber: 4.0 Consensus size: 81
37706822 GGTATCTTGA
* ** * *
37706832 TAATTCTACTCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACC
*
37706896 CTACAAGGGTATTTCAG
65 TTACAAGGGTATTTCAG
* *
37706913 TAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
**
37706978 TACAAGGGTATTTTGG
66 TACAAGGGTATTTCAG
* * * * *
37706994 TAATTCTACCTTACAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCAGTAATTGTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
* * *
37707059 TATAGGGGTGTTTCAG
66 TACAAGGGTATTTCAG
*
37707075 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
*
37707140 TACAGGGGTATTTC
66 TACAAGGGTATTTC
37707154 GTTAATTTTG
Statistics
Matches: 212, Mismatches: 28, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
81 211 1.00
82 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
TACAAGGGTATTTCAG
Found at i:37707229 original size:27 final size:27
Alignment explanation
Indices: 37707210--37707512 Score: 290
Period size: 27 Copynumber: 11.2 Consensus size: 27
37707200 GGTACTTTGA
* *
37707210 TAATTTTACAAGTCGAGGGTATTTTAG
1 TAATTTTACAAATCAAGGGTATTTTAG
37707237 TAATTTTACAAATCAAGGGTATTTTAG
1 TAATTTTACAAATCAAGGGTATTTTAG
* **
37707264 TAATTTTGCAAA-CTAAGGGTATTTCGG
1 TAATTTTACAAATC-AAGGGTATTTTAG
* * *
37707291 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTAG
* *
37707318 TAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTAG
** * *
37707345 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTAG
* *
37707372 TAATTTTACAAAAT-AGGGGTATTTTGG
1 TAATTTTAC-AAATCAAGGGTATTTTAG
* * *
37707399 TAATTTTATAAACCAGGGGTATTTGT-G
1 TAATTTTACAAATCAAGGGTATTT-TAG
* * *
37707426 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTAG
** * *
37707453 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTAG
*
37707480 TAATTTTACAAA-CTAGGGGTATTTTAG
1 TAATTTTACAAATC-AAGGGTATTTTAG
*
37707507 TGATTT
1 TAATTT
37707513 GGTAAATTAA
Statistics
Matches: 240, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.03
27 229 0.95
28 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCAAGGGTATTTTAG
Found at i:37707267 original size:81 final size:81
Alignment explanation
Indices: 37707199--37707512 Score: 382
Period size: 81 Copynumber: 3.9 Consensus size: 81
37707189 TGTAAATCGG
* * * * *
37707199 GGGTACTTTGATAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
37707264 TAATTTTGCAAACTAA
66 TAATTTTGCAAACCAA
* * *
37707280 GGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
*
37707344 GTAATTTTGTAAACCAA
65 GTAATTTTGCAAACCAA
* * *
37707361 GGGTATTTTGGTAATTTTACAAAATAG-GGGTATTTTGGTAATTTTATAAACCAGGGGTATTTGT
1 GGGTATTTTGGTAATTTTAC-AAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT-T
* *
37707425 -GTAATTTTACAAACCAG
64 AGTAATTTTGCAAACCAA
** * * * *
37707442 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
37707507 TGATTT
66 TAATTT
37707513 GGTAAATTAA
Statistics
Matches: 201, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.02
81 191 0.95
82 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
TAATTTTGCAAACCAA
Found at i:37707518 original size:54 final size:54
Alignment explanation
Indices: 37707199--37707504 Score: 382
Period size: 54 Copynumber: 5.7 Consensus size: 54
37707189 TGTAAATCGG
* * * * * * *
37707199 GGGTACTTTGATAATTTTAC-AAGTCGAGGGTATTTTAGTAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAACCAA
* * * * * * * *
37707253 GGGTATTTTAGTAATTTTGCAAACTAAGGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
37707307 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
37707361 GGGTATTTTGGTAATTTTACAAAATAGGGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
37707415 GGGTA-TTTGTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTG-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
37707469 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
37707505 AGTGATTTGG
Statistics
Matches: 219, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.02
54 208 0.95
55 7 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:37710025 original size:47 final size:47
Alignment explanation
Indices: 37709947--37710496 Score: 895
Period size: 47 Copynumber: 11.6 Consensus size: 47
37709937 CCCTTCGGGA
* * * * * *
37709947 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37709994 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37710041 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37710088 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37710137 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37710184 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37710231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37710278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37710325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37710372 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
37710421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37710468 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
37710497 TATTCAAATA
Statistics
Matches: 471, Mismatches: 24, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 361 0.77
49 108 0.23
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37710273 original size:190 final size:190
Alignment explanation
Indices: 37709947--37710496 Score: 933
Period size: 190 Copynumber: 2.9 Consensus size: 190
37709937 CCCTTCGGGA
* * * * * * * *
37709947 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * *
37710012 TTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
37710077 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37710137 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
37710202 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
37710267 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37710325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
37710390 ACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
37710455 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
129 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
37710497 TATTCAAATA
Statistics
Matches: 340, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 92 0.27
190 229 0.67
192 19 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37710455 original size:25 final size:25
Alignment explanation
Indices: 37710187--37710265 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37710177 ATTAGGCCTT
37710187 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37710212 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37710234 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37710259 ATCACAT
1 ATCACAT
37710266 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37724639 original size:17 final size:19
Alignment explanation
Indices: 37724599--37724640 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
37724589 GCATATGCAT
37724599 ATGT-AAAGAGTTGTGACTA
1 ATGTCAAAGAGTTGTGAC-A
37724618 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
37724635 ATGTCA
1 ATGTCA
37724641 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:37732275 original size:30 final size:30
Alignment explanation
Indices: 37732236--37732297 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37732226 TCACACAAGG
37732236 ATGGCAGTAGATGCTTCTGCTAACGGTGCT
1 ATGGCAGTAGATGCTTCTGCTAACGGTGCT
*
37732266 ATGGTAGTAGATGCTTCTGCTAACGGTGCT
1 ATGGCAGTAGATGCTTCTGCTAACGGTGCT
37732296 AT
1 AT
37732298 CTTATGTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (30 bp):
ATGGCAGTAGATGCTTCTGCTAACGGTGCT
Found at i:37735359 original size:18 final size:20
Alignment explanation
Indices: 37735313--37735352 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37735303 TTAACTGTAA
37735313 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
37735333 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
37735353 CGATATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCAATATTCATAAGGTTAT
Found at i:37741577 original size:30 final size:30
Alignment explanation
Indices: 37741522--37741578 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37741512 TCAGAGAGTT
*
37741522 ACACGGCCTGGCCACACGAGTGTGTGGAGC
1 ACACGGCCTGGCCACACGAGCGTGTGGAGC
*
37741552 ACACGGCCTGGCCATAC-AGACGTGTGG
1 ACACGGCCTGGCCACACGAG-CGTGTGG
37741579 GATCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (30 bp):
ACACGGCCTGGCCACACGAGCGTGTGGAGC
Found at i:37741729 original size:15 final size:15
Alignment explanation
Indices: 37741706--37741830 Score: 51
Period size: 15 Copynumber: 8.3 Consensus size: 15
37741696 ATCGCCCCAA
37741706 TTTTATTTTATTT-T
1 TTTTATTTTATTTAT
* *
37741720 ATTTA-TTT-TTAAT
1 TTTTATTTTATTTAT
* *
37741733 TGTTATATTATTTAT
1 TTTTATTTTATTTAT
* *
37741748 TTTTATTTTACTAAT
1 TTTTATTTTATTTAT
* *
37741763 TAATTAATTTATTTAT
1 T-TTTATTTTATTTAT
* * *
37741779 TATTCTTATACTTATAT
1 TTTTATTTTA-TT-TAT
*
37741796 TTTTAAATTT-TTTAT
1 TTTT-ATTTTATTTAT
* *
37741811 ATTTTAATTTATATAT
1 -TTTTATTTTATTTAT
37741827 TTTT
1 TTTT
37741831 GTTATTTCTA
Statistics
Matches: 80, Mismatches: 22, Indels: 17
0.67 0.18 0.14
Matches are distributed among these distances:
12 2 0.03
13 7 0.09
14 6 0.08
15 34 0.43
16 23 0.29
17 6 0.08
18 2 0.03
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:37741764 original size:22 final size:20
Alignment explanation
Indices: 37741706--37741757 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
37741696 ATCGCCCCAA
*
37741706 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
37741726 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
37741748 TTTTATTTTA
1 TTTTATTTTA
37741758 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:37741800 original size:27 final size:27
Alignment explanation
Indices: 37741735--37741800 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
37741725 TTTTTAATTG
37741735 TTATATTATTTATTTTTATTTTACTAA
1 TTATATTATTTATTTTTATTTTACTAA
*
37741762 TTA-ATTAATTTATTTATTATTCTTA-TAC
1 TTATATT-ATTTATTT-TTATT-TTACTAA
37741790 TTATATT-TTTA
1 TTATATTATTTA
37741801 AATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 3 0.09
27 15 0.44
28 10 0.29
29 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (27 bp):
TTATATTATTTATTTTTATTTTACTAA
Found at i:37748209 original size:59 final size:58
Alignment explanation
Indices: 37748117--37748234 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 58
37748107 GATTTGAATG
37748117 AATGATCATATTCTTATTTGAGTATAGACTCACCTACTGTGAACTGCGATTGACAGGAA
1 AATGATCATATTCTTATTTGAGTATAGACTCACCTACTGTGAACTGCGA-TGACAGGAA
* * *
37748176 AATGATCATATTCTTGTTTGAGTATAGACTCACCTATTGTGAACTGTGATGACAGGAA
1 AATGATCATATTCTTATTTGAGTATAGACTCACCTACTGTGAACTGCGATGACAGGAA
37748234 A
1 A
37748235 CTTTGATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 10 0.18
59 46 0.82
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (58 bp):
AATGATCATATTCTTATTTGAGTATAGACTCACCTACTGTGAACTGCGATGACAGGAA
Found at i:37749673 original size:42 final size:42
Alignment explanation
Indices: 37749627--37749745 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
37749617 TGGGGTTGAT
*
37749627 ATGAGATTTCGTGTAAGACCACGTCTGGGACATGGCATCGAA
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
* ** * * *
37749669 ATGAGATTTCATATAAGACCATATCTGGGATATGGTATCGAT
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
* ** *
37749711 GTGAGATCCCATGTAAGACCACGTTTGGGACATGG
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGG
37749746 AATTGGAATA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (42 bp):
ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
Found at i:37751102 original size:27 final size:26
Alignment explanation
Indices: 37751054--37751105 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37751044 GCGAGGCTGC
*
37751054 CAGATATTGTGACGAAGTCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
* *
37751080 CAGATATATGTGGCGAGGCCACCAAA
1 CAGATAT-TGTGACGAAGCCACCAAA
37751106 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:37751309 original size:19 final size:20
Alignment explanation
Indices: 37751268--37751309 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
37751258 CATAAGGGTT
*
37751268 TTTCATGCATAATGCTAAGG
1 TTTCATGCATAATGCTAACG
* *
37751288 TTTCATGC-TCATTCTAACG
1 TTTCATGCATAATGCTAACG
37751307 TTT
1 TTT
37751310 ACCAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTCATGCATAATGCTAACG
Found at i:37751757 original size:27 final size:28
Alignment explanation
Indices: 37751727--37751880 Score: 90
Period size: 27 Copynumber: 5.7 Consensus size: 28
37751717 CAAAATAGTT
*
37751727 ATTTTACCCTC-CATGGGTAAATCGGTA
1 ATTTTACCCTCACAAGGGTAAATCGGTA
**
37751754 ATTTTACCC-CACAAGGGTATCTCGGTA
1 ATTTTACCCTCACAAGGGTAAATCGGTA
* **
37751781 ATTCTACCCT-AC-AGAGGTATTTCGGT-
1 ATTTTACCCTCACAAG-GGTAAATCGGTA
** *
37751807 ATTTCTACCCT-ACAAGGGTATTTCGATA
1 ATTT-TACCCTCACAAGGGTAAATCGGTA
* * ** *
37751835 ATTCTATCCT-ACAAGGGTATTTTGGTA
1 ATTTTACCCTCACAAGGGTAAATCGGTA
* *
37751862 ATTCTACCCT-ACAGGGGTA
1 ATTTTACCCTCACAAGGGTA
37751881 TTTCAGTAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.06
27 97 0.90
28 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (28 bp):
ATTTTACCCTCACAAGGGTAAATCGGTA
Found at i:37751881 original size:27 final size:27
Alignment explanation
Indices: 37751748--37751895 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
37751738 CATGGGTAAA
* * *
37751748 TCGGTAATTTTACCCCACAAGGGTATC
1 TCGGTAATTCTACCCTACAAGGGTATT
37751775 TCGGTAATTCTACCCTAC-AGAGGTATT
1 TCGGTAATTCTACCCTACAAG-GGTATT
*
37751802 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* *
37751829 TCGATAATTCTATCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* *
37751856 TTGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
*
37751883 TCAGTAATTCTAC
1 TCGGTAATTCTAC
37751896 AACTTATCCA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 102 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAAGGGTATT
Found at i:37755412 original size:79 final size:81
Alignment explanation
Indices: 37755276--37755460 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
37755266 TTGAATGATG
* *
37755276 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
37755340 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
37755355 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37755417 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
37755435 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37755461 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:37755474 original size:40 final size:40
Alignment explanation
Indices: 37755277--37755460 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
37755267 TGAATGATGT
* * * *
37755277 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
37755317 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
37755357 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
37755395 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37755436 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37755461 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37755482 original size:79 final size:79
Alignment explanation
Indices: 37755329--37755493 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37755319 GGACTAAGAT
* * **
37755329 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37755394 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37755408 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37755471 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37755487 CCGAAGG
1 CCGAAGG
37755494 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37760188 original size:13 final size:13
Alignment explanation
Indices: 37760170--37760198 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37760160 TGTCAACTTA
37760170 GAATACTAATTAT
1 GAATACTAATTAT
37760183 GAATACTAATTAT
1 GAATACTAATTAT
37760196 GAA
1 GAA
37760199 CTTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (13 bp):
GAATACTAATTAT
Found at i:37762879 original size:28 final size:29
Alignment explanation
Indices: 37762824--37762894 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
37762814 GATGGTTTAG
*
37762824 AATATTATAAAATTATTAAAAATTGTAAA
1 AATATTATAAAATTATTAAAAATGGTAAA
*
37762853 TA-ATTATAAAATTATTTAAAAA-GGTAAA
1 AATATTATAAAATTA-TTAAAAATGGTAAA
37762881 AATATTA-AAAATTA
1 AATATTATAAAATTA
37762895 AAAATTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 25 0.68
29 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (29 bp):
AATATTATAAAATTATTAAAAATGGTAAA
Found at i:37762890 original size:17 final size:17
Alignment explanation
Indices: 37762860--37762908 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
37762850 AAATAATTAT
37762860 AAAATTATTTAAAAAGGTA
1 AAAATTA-TTAAAAA-GTA
*
37762879 AAAA-TATTAAAAATTA
1 AAAATTATTAAAAAGTA
37762895 AAAATTATTAAAAA
1 AAAATTATTAAAAA
37762909 ATTGTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 6 0.21
17 16 0.57
18 2 0.07
19 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AAAATTATTAAAAAGTA
Found at i:37762909 original size:18 final size:18
Alignment explanation
Indices: 37762838--37762911 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
37762828 TTATAAAATT
* *
37762838 ATTAAAAATT-GTAAATA
1 ATTAAAAATTATTAAAAA
37762855 ATTATAAAATTATTTAAAAA
1 ATTA-AAAATTA-TTAAAAA
**
37762875 GGTAAAAA-TATT-AAAA
1 ATTAAAAATTATTAAAAA
37762891 ATTAAAAATTATTAAAAA
1 ATTAAAAATTATTAAAAA
37762909 ATT
1 ATT
37762912 GTCAAAATAG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.22
17 10 0.22
18 15 0.33
19 4 0.09
20 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
ATTAAAAATTATTAAAAA
Found at i:37763394 original size:34 final size:34
Alignment explanation
Indices: 37763351--37763418 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
37763341 TTTAGAATTA
* *
37763351 TTATAA-TTTTTTACCATTTTTAATATTTAATGTT
1 TTATAATTTTTTTACCATTTAT-ATATATAATGTT
*
37763385 TTATTATTTTTTTACCATTTATATATATAATGTT
1 TTATAATTTTTTTACCATTTATATATATAATGTT
37763419 CTGAACCACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (34 bp):
TTATAATTTTTTTACCATTTATATATATAATGTT
Found at i:37763396 original size:35 final size:35
Alignment explanation
Indices: 37763348--37763418 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
37763338 TTTTTTAGAA
* *
37763348 TTATTATAATTTTTTACCATTTTTAATATTTAATGTT
1 TTATTAT-ATTTTTTACCATTTAT-ATATATAATGTT
37763385 TTATTAT-TTTTTTACCATTTATATATATAATGTT
1 TTATTATATTTTTTACCATTTATATATATAATGTT
37763419 CTGAACCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 11 0.34
35 14 0.44
37 7 0.22
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (35 bp):
TTATTATATTTTTTACCATTTATATATATAATGTT
Found at i:37765174 original size:21 final size:22
Alignment explanation
Indices: 37765150--37765200 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
37765140 TGAACAGTTA
37765150 ATAGAAATGCA-A-ACAACTGCT
1 ATAGAAAT-CATATACAACTGCT
*
37765171 ATAGAAATCATATAGAACTGCT
1 ATAGAAATCATATACAACTGCT
*
37765193 ATGGAAAT
1 ATAGAAAT
37765201 AAGTGATCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 9 0.35
22 15 0.58
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (22 bp):
ATAGAAATCATATACAACTGCT
Found at i:37767420 original size:22 final size:23
Alignment explanation
Indices: 37767382--37767438 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
37767372 GGTTTGATAG
*
37767382 GCTAAA-TAGAAGAGATTTTATACA
1 GCTAAATTAG-AG-GATTATATACA
* *
37767406 -CTAATTTAGAGGATTATGTACA
1 GCTAAATTAGAGGATTATATACA
37767428 GCTAAATTAGA
1 GCTAAATTAGA
37767439 ATTCTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.32
Consensus pattern (23 bp):
GCTAAATTAGAGGATTATATACA
Found at i:37778116 original size:12 final size:10
Alignment explanation
Indices: 37778087--37778112 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
37778077 GTTTATCATC
37778087 TTTTTTATGT
1 TTTTTTATGT
37778097 TTTTTTATGT
1 TTTTTTATGT
37778107 TTTTTT
1 TTTTTT
37778113 TTATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTATGT
Found at i:37780090 original size:24 final size:24
Alignment explanation
Indices: 37780063--37780113 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
37780053 GGATAAAAGT
37780063 GGATATTGAGAGTATGAGAGGAAG
1 GGATATTGAGAGTATGAGAGGAAG
* *
37780087 GGATTTTGAGAGTATGAGCGGAAG
1 GGATATTGAGAGTATGAGAGGAAG
37780111 GGA
1 GGA
37780114 AGATAGACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.22
Consensus pattern (24 bp):
GGATATTGAGAGTATGAGAGGAAG
Found at i:37784035 original size:19 final size:19
Alignment explanation
Indices: 37784011--37784049 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37784001 GGGTGGGAAT
*
37784011 TTGGAATACCAAAATTCTA
1 TTGGAAGACCAAAATTCTA
37784030 TTGGAAGACCAAAATTCTA
1 TTGGAAGACCAAAATTCTA
37784049 T
1 T
37784050 ATTTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
TTGGAAGACCAAAATTCTA
Found at i:37797100 original size:18 final size:18
Alignment explanation
Indices: 37797077--37797113 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37797067 TTTAAAAATA
37797077 CAACCTAAAATCATTCCC
1 CAACCTAAAATCATTCCC
37797095 CAACCTAAAATCATTCCC
1 CAACCTAAAATCATTCCC
37797113 C
1 C
37797114 CTTACAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (18 bp):
CAACCTAAAATCATTCCC
Found at i:37798186 original size:20 final size:21
Alignment explanation
Indices: 37798148--37798187 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
37798138 ATGTATGATT
37798148 TATATATATATTACTTAATATA
1 TATATATATATTAC-TAATATA
*
37798170 TATATGTATATTA-TAATA
1 TATATATATATTACTAATA
37798188 AATGGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATATATATTACTAATATA
Found at i:37798310 original size:13 final size:13
Alignment explanation
Indices: 37798292--37798325 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
37798282 TGCAAATTAG
37798292 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
37798305 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
*
37798318 GAAAAGAA
1 AAAAAGAA
37798326 GAAGAGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:37798323 original size:9 final size:9
Alignment explanation
Indices: 37798293--37798325 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
37798283 GCAAATTAGA
37798293 AAAAGAAAG
1 AAAAGAAAG
*
37798302 AAAAAAAAG
1 AAAAGAAAG
37798311 -AAAGAAAG
1 AAAAGAAAG
37798319 AAAAGAA
1 AAAAGAA
37798326 GAAGAGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:37799491 original size:42 final size:44
Alignment explanation
Indices: 37799425--37799512 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
37799415 TATGTGATTG
*
37799425 ATATTGAAATGGCCAAGATGAGAAATG-AATATGAGATGAT-AA
1 ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
* * * * *
37799467 ATATTGAATTGGCTAATATTAGAAATGCGATATGAAATGATGAA
1 ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
37799511 AT
1 AT
37799513 GAGATGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 23 0.61
43 11 0.29
44 4 0.11
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (44 bp):
ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
Found at i:37804222 original size:21 final size:23
Alignment explanation
Indices: 37804174--37804222 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
37804164 GAGCTAAGTA
*
37804174 AAAAAATAATATTTTTAAATAATT
1 AAAAAATAATATTTTT-AATAATG
37804198 AAAAAATAATATTTTT-A-AATG
1 AAAAAATAATATTTTTAATAATG
37804219 AAAA
1 AAAA
37804223 TATTGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 1 0.04
24 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAAAATAATATTTTTAATAATG
Found at i:37809050 original size:12 final size:12
Alignment explanation
Indices: 37809033--37809064 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37809023 CTTGTGTTTG
37809033 ATGTTTAGTTGA
1 ATGTTTAGTTGA
37809045 ATGTTTAGTTGA
1 ATGTTTAGTTGA
*
37809057 ATGCTTAG
1 ATGTTTAG
37809065 ATGTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (12 bp):
ATGTTTAGTTGA
Found at i:37813208 original size:30 final size:30
Alignment explanation
Indices: 37813162--37813220 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
37813152 TCTGAGCTTT
37813162 GGGGAAAAAGTGTAATTATGCAAAAGTTTA
1 GGGGAAAAAGTGTAATTATGCAAAAGTTTA
* * * *
37813192 GGGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGGAAAAAGTGTAATTATGCAAAAGTTT
37813221 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
GGGGAAAAAGTGTAATTATGCAAAAGTTTA
Found at i:37813960 original size:12 final size:12
Alignment explanation
Indices: 37813943--37813992 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
37813933 ATGAGTTATT
37813943 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
37813955 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
37813967 TAAGTGAGTAAG
1 TAAGTAAGCAAG
*
37813979 TAAG-AAGCGAG
1 TAAGTAAGCAAG
37813990 TAA
1 TAA
37813993 AGATTCTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.50, C:0.06, G:0.26, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:37820629 original size:50 final size:51
Alignment explanation
Indices: 37820550--37820657 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 51
37820540 GCAGATAAAT
* * * **
37820550 TGCCAC-TGATAACACTTTGTGCACAAACCACCACTGGTATGTAGGTATAC
1 TGCCACTTGATAACACTTTATGCACAAACCACCACTGATATGAAAATATAC
* *
37820600 TGCCACTTG-TAACACTTTATAG-ACCAACCATCACTGATATGAAAATATAC
1 TGCCACTTGATAACACTTTAT-GCACAAACCACCACTGATATGAAAATATAC
37820650 TGCCACTT
1 TGCCACTT
37820658 ACTTCCATCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
TGCCACTTGATAACACTTTATGCACAAACCACCACTGATATGAAAATATAC
Found at i:37824041 original size:12 final size:12
Alignment explanation
Indices: 37824008--37824042 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
37823998 TGAGACAAGA
37824008 TATTCTTTAAAT
1 TATTCTTTAAAT
*
37824020 TACTCTTTTAAAT
1 TATTC-TTTAAAT
37824033 TATTCTTTAA
1 TATTCTTTAA
37824043 GTAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:37824187 original size:21 final size:23
Alignment explanation
Indices: 37824140--37824187 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
37824130 AAAGTAGGCT
* *
37824140 ATATATTATTTTTTTGTAATATT
1 ATATATTATTTTTATGTAATATC
37824163 ATATATTATTTTTAT-TAAT-TC
1 ATATATTATTTTTATGTAATATC
37824184 ATAT
1 ATAT
37824188 TTTAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 4 0.17
23 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATATTATTTTTATGTAATATC
Found at i:37824240 original size:21 final size:21
Alignment explanation
Indices: 37824139--37824247 Score: 66
Period size: 21 Copynumber: 5.2 Consensus size: 21
37824129 TAAAGTAGGC
* *
37824139 TATATATTATTTTTTTGTAATAT
1 TATATATTATTATTAT-TAA-AT
*
37824162 TATATATTATTTTTATT-AAT
1 TATATATTATTATTATTAAAT
* * * *
37824182 TCATATTTTAATAATTGTTATAT
1 T-ATATATT-ATTATTATTAAAT
*
37824205 TA-AGA--A-TATTATTAAAT
1 TATATATTATTATTATTAAAT
*
37824222 TATATATTATTATTGTTAAAT
1 TATATATTATTATTATTAAAT
37824243 TATAT
1 TATAT
37824248 TTAATAATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
17 10 0.15
18 3 0.05
20 4 0.06
21 23 0.35
22 8 0.12
23 18 0.27
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATATTATTATTATTAAAT
Found at i:37824281 original size:58 final size:60
Alignment explanation
Indices: 37824160--37824318 Score: 191
Period size: 61 Copynumber: 2.6 Consensus size: 60
37824150 TTTTTGTAAT
* ** *
37824160 ATTATATATTATTTTTATT-AATTCATATTTTAATAAT-TGTTATATTAAGAATATTATTAA
1 ATTATATATTATTATTATTAAATT-ATA-TTTAATAATAAATTATATTAAGAATATGATTAA
* *
37824220 ATTATATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAA-AATATGGTTAA
1 ATTATATATTATTATTATTAAATTATATTTAATAATAAATTATATTAAGAATATGATTAA
37824278 ATTATTTATTATTATTATTATTAAATTATATTTAATAATAA
1 ATTA--TA-TATTATTATTATTAAATTATATTTAATAATAA
37824319 TCCTATTAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
58 13 0.15
59 15 0.17
60 24 0.28
61 35 0.40
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (60 bp):
ATTATATATTATTATTATTAAATTATATTTAATAATAAATTATATTAAGAATATGATTAA
Found at i:37824510 original size:16 final size:16
Alignment explanation
Indices: 37824489--37824526 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37824479 AATTGAATTA
37824489 CTATTACAGTTCTATT
1 CTATTACAGTTCTATT
*
37824505 CTATTACAGTTTTATT
1 CTATTACAGTTCTATT
*
37824521 CCATTA
1 CTATTA
37824527 TAGTGAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:37841176 original size:30 final size:29
Alignment explanation
Indices: 37841133--37841189 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
37841123 TCGAGCTTTG
37841133 GGGAAAAAGTATAAATATGCAAAAGTTTA
1 GGGAAAAAGTATAAATATGCAAAAGTTTA
* * *
37841162 GGGACAAAATTATAATTTTGCAAAAGTT
1 GGGA-AAAAGTATAAATATGCAAAAGTT
37841190 CGAGTCAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.28
Consensus pattern (29 bp):
GGGAAAAAGTATAAATATGCAAAAGTTTA
Found at i:37841647 original size:50 final size:49
Alignment explanation
Indices: 37841537--37841715 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
37841527 TTATGAGAGG
* * * * **
37841537 TCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACCGAGATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAAC
** * * *
37841587 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGTAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAAC
* * * * *
37841637 TCTCATGTAAGACCATATCTGGGATATGGCATTTGCA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATGAGAAC
37841685 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
37841716 TTTCGCATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 31 0.30
50 69 0.67
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAGAAC
Found at i:37841950 original size:20 final size:20
Alignment explanation
Indices: 37841925--37841963 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37841915 TGAGTTATTT
37841925 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
37841945 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
37841964 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:37846393 original size:40 final size:40
Alignment explanation
Indices: 37846347--37846423 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
37846337 AACTTTTGGG
37846347 CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
1 CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
37846387 CAATATATTTTAAGTCATGGTAACTTTATAAAAACAT
1 CAATATATTTTAAGTCATGGTAACTTTATAAAAACAT
37846424 ATTATTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (40 bp):
CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
Found at i:37846522 original size:31 final size:31
Alignment explanation
Indices: 37846481--37846572 Score: 96
Period size: 35 Copynumber: 2.7 Consensus size: 31
37846471 GTCATGGTAA
37846481 CTTT-AATACATGATCAATATATTTAAAACT
1 CTTTAAATACATGATCAATATATTTAAAACT
*
37846511 CTTTAAATACATGAAACATATTATAATTTAAAACT
1 CTTTAAATACATG-ATCA-A-TAT-ATTTAAAACT
37846546 CTTTATAAATACATATGATCAATATAT
1 C-TT-TAAATAC--ATGATCAATATAT
37846573 GTACGTATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
30 4 0.08
31 8 0.16
32 3 0.06
33 1 0.02
34 3 0.06
35 13 0.25
36 5 0.10
37 8 0.16
38 3 0.06
39 3 0.06
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (31 bp):
CTTTAAATACATGATCAATATATTTAAAACT
Found at i:37849668 original size:14 final size:14
Alignment explanation
Indices: 37849645--37849684 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37849635 ACAGAAAAGT
*
37849645 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
37849659 AAATCATTTTACGG
1 AAAACATTTTACAG
37849673 AAAACATTTTAC
1 AAAACATTTTAC
37849685 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:37849670 original size:34 final size:35
Alignment explanation
Indices: 37849610--37849676 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
37849600 CAAACACCAA
* **
37849610 AAAATATTTTCCAGTATGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37849645 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37849677 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37857346 original size:56 final size:52
Alignment explanation
Indices: 37857280--37857423 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 52
37857270 GTTGATGAGA
* * * **
37857280 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTATTGAGGTTATGAAAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CACCGA-G--ATGAAAGG
*
37857336 TCCCACGTAAGACCATGTCTGGGACATGGCATT-G-ACACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACACCGAGATGAAAGG
* *
37857386 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAC
37857424 CGATATGAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
50 38 0.49
51 1 0.01
52 3 0.04
53 3 0.04
54 1 0.01
55 1 0.01
56 31 0.40
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (52 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACACCGAGATGAAAGG
Found at i:37857425 original size:50 final size:50
Alignment explanation
Indices: 37857328--37857459 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
37857318 TATTGAGGTT
* *
37857328 ATGAAAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGACACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
* * *
37857378 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
** * * *
37857428 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
37857460 TATGACATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
Found at i:37857749 original size:20 final size:20
Alignment explanation
Indices: 37857724--37857773 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
37857714 TGAGTTATTT
37857724 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
37857744 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
*
37857764 AAGAAAGCAA
1 AAGTAAGCAA
37857774 AGACCATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.58, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:37867121 original size:13 final size:13
Alignment explanation
Indices: 37867073--37867112 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
37867063 ACCTAAGACA
37867073 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
37867086 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
37867099 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
37867112 T
1 T
37867113 AGTCGTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.45, T:0.33
Consensus pattern (13 bp):
TGGGCGTGTGCCT
Found at i:37869864 original size:17 final size:17
Alignment explanation
Indices: 37869844--37869876 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37869834 ATCTTGCATA
37869844 ACAAGGAAATTTGCAAT
1 ACAAGGAAATTTGCAAT
37869861 ACAAGGAAATTTGCAA
1 ACAAGGAAATTTGCAA
37869877 AGAAGAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (17 bp):
ACAAGGAAATTTGCAAT
Found at i:37887263 original size:26 final size:26
Alignment explanation
Indices: 37887218--37887298 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
37887208 TAAATATAAT
*
37887218 ATTAAT-TATTATTTAATATTAAATA
1 ATTAATATATTTTTTAATATTAAATA
* *
37887243 ATTAATATATTTTTTAGTATTATATA
1 ATTAATATATTTTTTAATATTAAATA
* *
37887269 ATTTAA-ATAATTTTTAATATGAATATA
1 A-TTAATATATTTTTTAATATTAA-ATA
37887296 ATT
1 ATT
37887299 TTAATAACTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 6 0.13
26 32 0.70
27 8 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATATATTTTTTAATATTAAATA
Found at i:37887282 original size:27 final size:26
Alignment explanation
Indices: 37887211--37887362 Score: 100
Period size: 27 Copynumber: 5.8 Consensus size: 26
37887201 TTTATTATAA
* *
37887211 ATATAATATTAATTATTATTTAATATT
1 ATATAAT-TTAATAATTTTTTAATATT
* *
37887238 AAATAA-TTAATATATTTTTTAGTATT
1 ATATAATTTAATA-ATTTTTTAATATT
*
37887264 ATATAATTTAAATAA-TTTTTAATATGA
1 ATATAATTT-AATAATTTTTTAATAT-T
*
37887291 ATATAATTTTAATAA-CTTTTAACTATT
1 ATATAA-TTTAATAATTTTTTAA-TATT
* * *
37887318 ATTTAATTT--T-ATTATTTAATATAG
1 ATATAATTTAATAATTTTTTAATAT-T
* *
37887342 ATATGATTTAATAAATTTTTA
1 ATATAATTTAATAATTTTTTA
37887363 TTTTTATTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 22
0.71 0.12 0.16
Matches are distributed among these distances:
23 4 0.04
24 13 0.13
25 5 0.05
26 29 0.30
27 36 0.37
28 10 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (26 bp):
ATATAATTTAATAATTTTTTAATATT
Found at i:37888749 original size:20 final size:20
Alignment explanation
Indices: 37888726--37888768 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37888716 AACTATTCAA
** *
37888726 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
37888746 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
37888766 ATA
1 ATA
37888769 CGTTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:37897174 original size:40 final size:40
Alignment explanation
Indices: 37897090--37897273 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
37897080 TTGAATGCTG
* * * *
37897090 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
37897129 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
37897170 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
37897210 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
37897250 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37897274 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:37897227 original size:80 final size:81
Alignment explanation
Indices: 37897090--37897270 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
37897080 TTGAATGCTG
* * *
37897090 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
37897154 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
37897170 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
37897231 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
37897250 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
37897271 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:37897294 original size:39 final size:38
Alignment explanation
Indices: 37897171--37897320 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
37897161 GTTATTAATT
* ** * *
37897171 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
37897211 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
37897250 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
37897290 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
37897321 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:37904587 original size:16 final size:16
Alignment explanation
Indices: 37904557--37904598 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
37904547 AATGTCAAGC
*
37904557 TCAATCATAG-TCAAA
1 TCAATCATAGAGCAAA
37904572 -CATATCATAGAGCAAA
1 TCA-ATCATAGAGCAAA
37904588 TCAATCATAGA
1 TCAATCATAGA
37904599 TAACATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 7 0.30
16 12 0.52
17 2 0.09
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (16 bp):
TCAATCATAGAGCAAA
Found at i:37904674 original size:27 final size:26
Alignment explanation
Indices: 37904644--37905103 Score: 418
Period size: 27 Copynumber: 17.1 Consensus size: 26
37904634 GGGTATAACA
37904644 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* **
37904671 GTCATTTTACCCTGTGGGGGTATTTTA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* ** * *
37904698 GTCATTCTACTTTAAGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
*
37904725 ATCATTTTA-CCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37904751 GTCAATTTACCTTATAAGGGGTATTTTG
1 GTCATTTTACCCTAT--GGGGTATTTCG
* *
37904779 GTCATTTTACCCTATGCGAGTATTTTG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
37904806 GTCATTTTATCCTACGGGAGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* * *
37904833 GTCATTATACCCTAGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGTATTTCG
*
37904859 GTCATTATACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
37904886 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37904913 GTCATTTTATCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
*
37904940 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37904967 ATCATTTTACCCTATGGATGTATTTCA
1 GTCATTTTACCCTATGG-GGTATTTCG
*
37904994 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
37905021 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*** * *
37905048 GTCATTTTATGTTTTAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
37905075 ATTATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
37905102 GT
1 GT
37905104 GCAAATATCA
Statistics
Matches: 352, Mismatches: 68, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 46 0.13
27 275 0.78
28 31 0.09
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:37908024 original size:27 final size:27
Alignment explanation
Indices: 37908004--37908595 Score: 614
Period size: 27 Copynumber: 22.0 Consensus size: 27
37907994 GGGTATAACA
*
37908004 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37908031 GTCATTTTACTCTATGGGGGTTTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** * *
37908058 GTTATCCTACCCTATAGCGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37908085 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37908111 CTCATTTTACCCTATGCGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
37908138 GTCATTTTATCCTACGAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
37908165 GTCATTAGACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
37908192 GTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37908219 ATCATTTTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
37908246 GTCATTTTACCCTATTAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37908273 GTCATTCTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37908299 GTCATTTTACCCTATGGGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37908326 GTCATTTTACCCTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37908353 GTCATTTAATCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
37908380 ATTAGTCTA-CCTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37908406 GTCATTTTATCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
37908433 ATTATTCTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
37908460 ATTATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
37908487 GTCATTTTACCTTATGGGGCTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
**
37908514 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37908541 GTCATTCTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37908568 GTCATTTTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
37908595 G
1 G
37908596 CCCAACGTGG
Statistics
Matches: 457, Mismatches: 105, Indels: 6
0.80 0.18 0.01
Matches are distributed among these distances:
26 66 0.14
27 391 0.86
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:37908253 original size:161 final size:159
Alignment explanation
Indices: 37908004--37908593 Score: 680
Period size: 161 Copynumber: 3.7 Consensus size: 159
37907994 GGGTATAACA
* * ** * * * *
37908004 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACTCTATGGGGGTTTTTCGGTTATCCTACC
1 GTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACC
* * * *
37908069 CTATAGCGGTATTTCGGTCATTTTACCCTATGGGGTATTTCACTCATTTTACCCTATGCGGGTAT
66 CTATGGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCA-TCATTCTACCCTATG-GGGTAT
* * *
37908134 TTTGGTCATTTTATCCTACGAGAGTATTTCG
129 TTCGGTCATTTTATCCTATGGGAGTATTTCG
** * * *
37908165 GTCATTAGACCTTATGGGGGTATTTCGGTCATTCTACCCTATAAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACC
* * *
37908230 CTGTGGGGGTATTTCGGTCATTTTACCCTATTAGGGTATTTCAGTCATTCTACCCTATGGGGTAT
66 CTATGGGGGTATTTCAGTCATTTTACCCTA-TGGGGTATTTCA-TCATTCTACCCTATGGGGTAT
* *
37908295 TTCGGTCATTTTACCCTATGGGTGTATTTCG
129 TTCGGTCATTTTATCCTATGGGAGTATTTCG
* * * * * * *
37908326 GTCATTTTACCCTATGGGGATATTTCAGTCATTTAATCCTAT-GGGGTTATTTCGATTAGTCTA-
1 GTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTATAAGGG-TATTTCGATCATTCTAC
* * * *
37908389 CCTATGGGGATATTTCAGTCATTTTATCCTATGGGGTTATTTCGATTATTCTACCTTATAGGGGT
65 CCTATGGGGGTATTTCAGTCATTTTACCCTATGGGG-TATTTC-ATCATTCTACCCTAT-GGGGT
* * * *
37908454 ATTTCGATTATTCTATCCTATGGGGGTATTTCG
127 ATTTCGGTCATTTTATCCTATGGGAGTATTTCG
* * *
37908487 GTCATTTTACCTTATGGGGCTATTTTAGTCATTTTACCCTATAAGGGTATTTCGGTCATTCTACC
1 GTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACC
* *
37908552 TTATGGGGGTATTTCAGTCATTTTACCCTGTGGGGGTATTTC
66 CTATGGGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTC
37908594 GGCCCAACGT
Statistics
Matches: 360, Mismatches: 61, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
159 4 0.01
160 48 0.13
161 242 0.67
162 62 0.17
163 4 0.01
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (159 bp):
GTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACC
CTATGGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCATCATTCTACCCTATGGGGTATTT
CGGTCATTTTATCCTATGGGAGTATTTCG
Found at i:37939175 original size:25 final size:26
Alignment explanation
Indices: 37939122--37939175 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
37939112 GAAATCCCGA
*
37939122 AAAAACTAAAGAGAGAATTCTTGGAG
1 AAAAACTAAAGAGAGAATTCTTGCAG
*
37939148 AAAAACTCAAG-GAGAATTC-TGCACG
1 AAAAACTAAAGAGAGAATTCTTGCA-G
37939173 AAA
1 AAA
37939176 TTTTTGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 12 0.48
26 10 0.40
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (26 bp):
AAAAACTAAAGAGAGAATTCTTGCAG
Found at i:37940425 original size:26 final size:26
Alignment explanation
Indices: 37940369--37940441 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
37940359 CATATTTTCT
* *
37940369 CAAAATTTTACCATGGGCAAAATAAA
1 CAAAATTTTACCAAGGGTAAAATAAA
* *
37940395 CAAAATTTTACCAAGGATAAAATCATA
1 CAAAATTTTACCAAGGGTAAAAT-AAA
*
37940422 -AAAA-TTTACTAAGGGTAAAA
1 CAAAATTTTACCAAGGGTAAAA
37940442 CAGGGATGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.35
26 24 0.60
27 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (26 bp):
CAAAATTTTACCAAGGGTAAAATAAA
Found at i:37946515 original size:24 final size:24
Alignment explanation
Indices: 37946467--37946513 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
37946457 ACTGGTCATA
*
37946467 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
37946491 GAGAG-ATATGAGGAGAGAATATT
1 GAGAGAAT-TGAGGAG-GAATATT
37946514 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:37947231 original size:27 final size:27
Alignment explanation
Indices: 37947188--37947816 Score: 700
Period size: 27 Copynumber: 23.5 Consensus size: 27
37947178 CGATATCTGC
*
37947188 ACTGAAATACCCTCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37947215 ACTAAAATACCCCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
** * *
37947242 ACCAAAATACCCCTATAGGGTAGAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37947269 ACTGAAATACCCCCATAGGATAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947296 ACTGAAATA-CCTCATAAGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37947322 ATTGAAATA-CCCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37947348 ACTGAAATACCCCAAAAGGAT-AAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947374 ACCGAAATACCCTCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947401 ACTGAAATACCCCTATAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37947428 ACCGAAATACCCTCATATGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947455 A-TCGAAATACCCCAATAGGATAAAATG
1 ACT-GAAATACCCCCATAGGGTAAAATG
* *
37947482 ACTGAAATACCCTCATAGGGTAGAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37947509 ACTGAAATACCCCCATAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947536 ACCGAAATACCTCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947563 ACCGAAATACCTCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* ** *
37947590 ACCGAAATACCCCTGTAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37947617 ACTGTAATACCTCTATAGGGTAAAAT-
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947643 AATCGAAATACCCCCATAGGGTAAAATA
1 ACT-GAAATACCCCCATAGGGTAAAATG
*
37947671 ACTGAAATA-CCCCATAAGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
** * *
37947697 ACCAAAATACCCCCATAGGGAAAAATT
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37947724 AC-GAAATATCCCCATAGGTTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37947750 A-TCAAAATAACCCTATAGGGTAAAATG
1 ACT-GAAATACCCCCATAGGGTAAAATG
*
37947777 A-TCGAAATACCCCCATAGGGTAAAATA
1 ACT-GAAATACCCCCATAGGGTAAAATG
**
37947804 ACTGTTATACCCC
1 ACTGAAATACCCC
37947817 TAGTAGATAA
Statistics
Matches: 508, Mismatches: 84, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
26 110 0.22
27 394 0.78
28 4 0.01
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
ACTGAAATACCCCCATAGGGTAAAATG
Found at i:37948070 original size:26 final size:26
Alignment explanation
Indices: 37948038--37948101 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
37948028 CTTTGCCACA
*
37948038 AATACTGTTACTAGTAGCTTTGCTGC
1 AATACTGTTACTAGTAGCTCTGCTGC
* *
37948064 AATACTGATACTGGTAGCTCTGCTGC
1 AATACTGTTACTAGTAGCTCTGCTGC
* *
37948090 AATGCTATTACT
1 AATACTGTTACT
37948102 GACAGCTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (26 bp):
AATACTGTTACTAGTAGCTCTGCTGC
Found at i:37948108 original size:26 final size:26
Alignment explanation
Indices: 37948053--37948108 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
37948043 TGTTACTAGT
* **
37948053 AGCTTTGCTGCAATACTGATACTGGT
1 AGCTCTGCTGCAATACTGATACTGAC
*
37948079 AGCTCTGCTGCAATGCT-ATTACTGAC
1 AGCTCTGCTGCAATACTGA-TACTGAC
37948105 AGCT
1 AGCT
37948109 TTGTTGCGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (26 bp):
AGCTCTGCTGCAATACTGATACTGAC
Found at i:37948248 original size:28 final size:28
Alignment explanation
Indices: 37948200--37948395 Score: 254
Period size: 28 Copynumber: 7.0 Consensus size: 28
37948190 TATTGCACTG
*
37948200 CACTGTTACTGTATTGGGCTAAGGCCAA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
* *
37948228 CATTGATT-CTGTATTGGGCTAAGGTCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
37948256 CACTGTTACTGTATTCGGATAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
37948284 CACTGATT-CTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
37948312 CACTAATT-CTGTATTGGGCTAATGCCCA
1 CACT-GTTACTGTATTGGGCTAAGGCCCA
*
37948340 CACTGTTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
37948368 CACTGTTACTGTATTGGGCTAAGACCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
37948396 TACTATACTA
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.03
28 137 0.94
29 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:37954131 original size:21 final size:19
Alignment explanation
Indices: 37954094--37954168 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
37954084 AATCATATCT
37954094 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
37954113 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
* *
37954134 TCTAAGATTGCATATGATA
1 TCCAAGATTGCATATCATA
*
37954153 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
37954169 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:37954612 original size:44 final size:44
Alignment explanation
Indices: 37954541--37955090 Score: 490
Period size: 44 Copynumber: 12.5 Consensus size: 44
37954531 ACCAGTATGG
* * * * * *
37954541 GAAGACAAAATCTGCTACCTTTC-ATCTATTTCATGCCGACACAT
1 GAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATACAT
* *
37954585 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
37954627 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* *
37954672 GAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* ***
37954716 GAAGACAAGATCTGCTTTCTTCGATCTACTT-A-GCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TACAT
*
37954761 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
37954805 GAAGACAAGATCTGGTATCTTTGATTTACTTCACACCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
37954849 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
37954893 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCC-ATCAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT-A-CAT
* * * *
37954936 GGGAACATAAGATCTGCTATCTCCGATCTAATTCACGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
37954982 GATGACAAGATCTGGTATCTTTGATCTACTTCACGCAAATACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * * *
37955026 GTAGGCAAG-GCTAG-TATCTTTGATCTGCTTCACTGTCAGTACAA
1 GAAGACAAGATCT-GCTATCTTCGATCTACTTCAC-GCCAATACAT
*
37955070 GAAGGCAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
37955091 TAACCTGCTC
Statistics
Matches: 413, Mismatches: 73, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.00
42 45 0.11
43 25 0.06
44 225 0.54
45 103 0.25
46 3 0.01
47 8 0.02
48 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:37954734 original size:89 final size:89
Alignment explanation
Indices: 37954585--37955013 Score: 594
Period size: 89 Copynumber: 4.9 Consensus size: 89
37954575 GCCGACACAT
* * *
37954585 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
37954648 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
37954672 GAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37954737 CGATCTACTTAGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
37954761 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * * ***
37954826 TGATTTACTTC-ACACCAATACAT
66 CGATCTACTTCGCCACCAGTATGG
* *
37954849 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37954914 CGATCTACTTCGCCATCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * * * * *
37954938 GAACATAAGATCTGCTATCTCCGATCTAATTCACGCCAATACATGATGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37955003 TGATCTACTTC
66 CGATCTACTTC
37955014 ACGCAAATAC
Statistics
Matches: 297, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 27 0.09
88 76 0.26
89 194 0.65
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:37954879 original size:177 final size:177
Alignment explanation
Indices: 37954585--37955090 Score: 660
Period size: 177 Copynumber: 2.9 Consensus size: 177
37954575 GCCGACACAT
* * ** *
37954585 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTATCTCCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * * ** *
37954648 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATA
66 TGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA
37954713 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
130 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
* *
37954761 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTCCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * *
37954826 TGATTTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATAC
66 TGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
* *
37954891 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATGG
131 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
* * * *
37954938 GAACATAAGATCTGCTATCTCCGATCTAATTCACGCCAATACATGATGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTCCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * * * * * * *
37955003 TGATCTACTTCACGCAAATACAGGTAGGCAAG-GCTAG-TATCTTTGATCTGCTTCACTGTCAGT
66 TGATCTACTTCACACCAATACAGGAAGACAAGATCT-GCTATCTTTGATCTACTTCAC-GCCAAT
* * *
37955066 ACAAGAAGGCAAGATCTGCTATCTT
129 ACATGAAGACAAGATCTGCTTTCTT
37955091 TAACCTGCTC
Statistics
Matches: 289, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
176 49 0.17
177 203 0.70
178 37 0.13
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (177 bp):
GAAGACAAGATCTGCTATCTCCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
TGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
Found at i:37955121 original size:88 final size:88
Alignment explanation
Indices: 37955023--37956418 Score: 2010
Period size: 88 Copynumber: 15.9 Consensus size: 88
37955013 CACGCAAATA
* * * * * *
37955023 CAGGTAGGCAAGGCTAGTATCTTTGATCTGCTTCACTGTC-AGTACAAGAAGGCAAGATCTGCTA
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTA
*
37955087 TCTTTAACCTGCTCCACTACAACC
65 TCTTCAACCTGCTCCACTACAACC
* * * ** * * *
37955111 CAGGGTGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATAGGAAGCCAAGATCTACTTT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
**
37955176 CTTCAACCTG---CACTAGGACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37955196 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGCCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
* *
37955261 CTTCAACCTACTCCACTTCAACC
66 CTTCAACCTGCTCCACTACAACC
*
37955284 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37955349 CTTCAACCTGCTCCACTACGACC
66 CTTCAACCTGCTCCACTACAACC
* * * * * *
37955372 CAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGCAAGATCTTCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37955437 CTTCAACTTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* *
37955460 CAGGGAGGCAAGGCTGGTATCTTCGATTTGCTTCGCTGTCGATGCAGGAAGGCAAGGTCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37955525 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* *
37955548 TAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37955613 CTTCAACCTACTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * *
37955636 CAAGGAGGCAAGGTTGGTATCTTCGATCTTCTTCGCTGTCGATGTAGGAAGACAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37955701 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37955724 CAGGGCGACAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGAAAGATCTGCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37955789 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* *
37955812 CAGGGAGGCAAGGCTGGTATCTTCGATCTTCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37955877 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * *
37955900 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATGCAGGAAGGCAAGATCTACTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37955965 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * *
37955988 CAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTTCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37956053 CTTCAACCTACTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * * *
37956076 TAGGGAGGCAAGACTGGTATCTTCGATCTGCTTCACTGTCGATGTAGGAAGACAAGATCTGTTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37956141 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37956164 TAGGGAGGTAAGGCTGGTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGAAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37956229 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37956252 CAGGGAGGCAAGGCTGGTATTTTCGATCTTCTTCGCTGTCGATGCAGGAAGACAAGATCTGCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
* *
37956317 CTTCAACCTGCTTCGCTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * * **
37956340 TAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCGCCGTC-AGTACAGGAAGACAAGATCTATTA
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTA
*
37956404 TTTTCAACCTGCTCC
65 TCTTCAACCTGCTCC
37956419 GCTGCAAACC
Statistics
Matches: 1178, Mismatches: 125, Indels: 10
0.90 0.10 0.01
Matches are distributed among these distances:
85 78 0.07
87 1 0.00
88 1099 0.93
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (88 bp):
CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
CTTCAACCTGCTCCACTACAACC
Found at i:37964341 original size:21 final size:21
Alignment explanation
Indices: 37964315--37964355 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37964305 AAGGATTGTA
37964315 TATCATATCCAAGATTGCATG
1 TATCATATCCAAGATTGCATG
*
37964336 TATCATATCTAAGATTGCAT
1 TATCATATCCAAGATTGCAT
37964356 ATCCTTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
TATCATATCCAAGATTGCATG
Found at i:37970428 original size:75 final size:75
Alignment explanation
Indices: 37970303--37970489 Score: 189
Period size: 75 Copynumber: 2.5 Consensus size: 75
37970293 CGGTATACCT
* * * *
37970303 GACTAGCGCTAGGTGCAAATACCGTTGGTTTGTCCAACTATAGCTAGGCTCACATTCAATATCAT
1 GACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCAATATCAT
*
37970368 C-GATATATCC
66 CAGATA-ACCC
* ** * * * * *
37970378 GACTAGCGTTGGGTGCAAACATTGTTTGTTTATCCAACTAGAGTTGGGCTCACTTTCAATATCGT
1 GACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCAATATCAT
*
37970443 CAGCTAACCC
66 CAGATAACCC
*
37970453 GACTAGCGCTGGGCGCAAACTACTC-TGTGGTTTATCC
1 GACTAGCGCTGGGTGCAAAC-AC-CGT-TGGTTTATCC
37970490 GCTAGGCACC
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
75 75 0.84
76 5 0.06
77 9 0.10
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (75 bp):
GACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCAATATCAT
CAGATAACCC
Found at i:37973474 original size:23 final size:22
Alignment explanation
Indices: 37973423--37973474 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
37973413 CCTCGTCTTT
*
37973423 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
37973445 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
37973468 TTCTTTT
1 TTCTTTT
37973475 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:37976531 original size:30 final size:30
Alignment explanation
Indices: 37976495--37976561 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
37976485 GTGTCTTACT
37976495 CGTGTGAGTCACACGGCCTAGCCACATGGC
1 CGTGTGAGTCACACGGCCTAGCCACATGGC
* *
37976525 CTTGTGAGTCACACGGCCTGGCCACATGGC
1 CGTGTGAGTCACACGGCCTAGCCACATGGC
37976555 CGTGTGA
1 CGTGTGA
37976562 CCCTTATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.19
Consensus pattern (30 bp):
CGTGTGAGTCACACGGCCTAGCCACATGGC
Found at i:37979032 original size:12 final size:12
Alignment explanation
Indices: 37979011--37979048 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37979001 TCCAATTTTT
*
37979011 TTTTCATTTTCA
1 TTTTCCTTTTCA
37979023 TTTTCCTTTTC-
1 TTTTCCTTTTCA
37979034 TTGTTCCTTTTCA
1 TT-TTCCTTTTCA
37979047 TT
1 TT
37979049 CTTTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTCCTTTTCA
Found at i:37979939 original size:11 final size:11
Alignment explanation
Indices: 37979919--37979955 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
37979909 TTTCATTCAT
*
37979919 CATCCTTCAAG
1 CATCCATCAAG
37979930 CATCCATCAAG
1 CATCCATCAAG
*
37979941 CCTCCATCAAG
1 CATCCATCAAG
37979952 CATC
1 CATC
37979956 ATTCTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.41, G:0.08, T:0.22
Consensus pattern (11 bp):
CATCCATCAAG
Found at i:37995702 original size:12 final size:12
Alignment explanation
Indices: 37995687--37995796 Score: 70
Period size: 12 Copynumber: 8.8 Consensus size: 12
37995677 TTGCTCGCAC
37995687 TCTTTTCTCTTT
1 TCTTTTCTCTTT
*
37995699 TCTTTCAATCTTTTT
1 TCTTT---TCTCTTT
37995714 TCTTTT-TCATTT
1 TCTTTTCTC-TTT
37995726 TCCTTTTCT-TTT
1 T-CTTTTCTCTTT
37995738 TCTTTT-TCCTTT
1 TCTTTTCT-CTTT
37995750 TCTTTT-TCTTTT
1 TCTTTTCTC-TTT
*
37995762 TCTTTT-TC-AT
1 TCTTTTCTCTTT
37995772 TCTTTTTCTCTTGT
1 TC-TTTTCTCTT-T
37995786 TCATTTTCTCT
1 TC-TTTTCTCT
37995797 CGACTTTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
10 4 0.05
11 11 0.14
12 37 0.46
13 5 0.06
14 12 0.15
15 11 0.14
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.73
Consensus pattern (12 bp):
TCTTTTCTCTTT
Found at i:37995780 original size:6 final size:6
Alignment explanation
Indices: 37995710--37995769 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
37995700 CTTTCAATCT
* * *
37995710 TTTTTC TTTTTC ATTTTC CTTTTC TTTTTC TTTTTC CTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37995758 TTTTTC TTTTTC
1 TTTTTC TTTTTC
37995770 ATTCTTTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:37995783 original size:18 final size:18
Alignment explanation
Indices: 37995737--37995790 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
37995727 CCTTTTCTTT
37995737 TTCTTTTTC-C-TTTTC-
1 TTCTTTTTCTCTTTTTCA
* *
37995752 TTTTTCTTTTTCTTTTTCA
1 TTCTT-TTTCTCTTTTTCA
*
37995771 TTCTTTTTCTCTTGTTCA
1 TTCTTTTTCTCTTTTTCA
37995789 TT
1 TT
37995791 TTCTCTCGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 1 0.03
18 18 0.60
19 4 0.13
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTTTTTCTCTTTTTCA
Found at i:37995783 original size:24 final size:23
Alignment explanation
Indices: 37995710--37995780 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 23
37995700 CTTTCAATCT
37995710 TTTTTCTTTTTCATTTTCCTTTTC
1 TTTTTCTTTTTCATTTT-CTTTTC
*
37995734 TTTTTCTTTTTCCTTTTCTTTTTC
1 TTTTTCTTTTTCATTTTC-TTTTC
*
37995758 TTTTTCTTTTTCATTCT-TTTTC
1 TTTTTCTTTTTCATTTTCTTTTC
37995780 T
1 T
37995781 CTTGTTCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 6 0.14
23 1 0.02
24 36 0.84
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCTTTTTCATTTTCTTTTC
Found at i:37995792 original size:24 final size:22
Alignment explanation
Indices: 37995689--37995793 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 22
37995679 GCTCGCACTC
*
37995689 TTTTCTCTTTTC--TTTCAATCTT
1 TTTTCT-TTTTCATTTTCATTC-T
37995711 TTTTCTTTTTCATTTTC---C-
1 TTTTCTTTTTCATTTTCATTCT
* *
37995729 TTTTCTTTTTCTTTTTCCTTTTCT
1 TTTTCTTTTTCATTTT-C-ATTCT
*
37995753 TTTTCTTTTTCTTTTTCATTCT
1 TTTTCTTTTTCATTTTCATTCT
37995775 TTTTCTCTTGTTCATTTTC
1 TTTTCT-TT-TTCATTTTC
37995794 TCTCGACTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
18 15 0.21
19 1 0.01
20 1 0.01
21 5 0.07
22 16 0.23
23 8 0.11
24 24 0.34
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTTCATTTTCATTCT
Found at i:37997535 original size:28 final size:28
Alignment explanation
Indices: 37997493--37997559 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
37997483 CTATTCAGTA
* *
37997493 ACAGT-ACAATGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
37997520 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
37997548 ACAGTAACAGTG
1 ACAGTAACAGTG
37997560 CAATAATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:37997899 original size:27 final size:27
Alignment explanation
Indices: 37997875--37998449 Score: 278
Period size: 27 Copynumber: 21.3 Consensus size: 27
37997865 AGAGGTATAA
* *
37997875 CAGTCATTTTACCTTATGGGAGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
* *
37997902 CGGTCATTTTACCGTACGGGGGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
* * **
37997929 CAATCATTTTACCCTATAAGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
* * * *
37997956 C-GATCATTTTACCCTATGGGGGTGTTT
1 CAG-TCATTTTACCGTACGGGAGTATTT
* *
37997983 C-GATCATTTTACCCTATAGGG-GTATTT
1 CAG-TCATTTTACCGTA-CGGGAGTATTT
* * *
37998010 CAATCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* *
37998037 CAGTCATTTTAGTC-TAC-TGAGGTATTT
1 CAGTCATTTTA-CCGTACGGGA-GTATTT
* *
37998064 CGGTCATTTTACCCTACGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* * *
37998091 CGGTCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
** *
37998118 TGGTCATTTTACC-TATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
*
37998144 CAGTTATTTTAACC-TACGAGG-GTATTT
1 CAGTCATTTT-ACCGTACG-GGAGTATTT
** * *
37998171 TGGTTATTTTACCCTACAGGG-GTATTT
1 CAGTCATTTTACCGTAC-GGGAGTATTT
* * *
37998198 CTGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
*
37998225 CAGTCATTTTACCCTACGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* * *
37998252 CGGTCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
** * * *
37998279 TGGTCATTTTACCATATGGGGGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
37998306 CAGTCATTTTAACC-TACGAGG-GTATTT
1 CAGTCATTTT-ACCGTACG-GGAGTATTT
** * *
37998333 TGGTTATTTTACCCTACAGGG-GTATTT
1 CAGTCATTTTACCGTAC-GGGAGTATTT
* *
37998360 CAGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
* *
37998387 CAGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
** * *
37998414 TGGTCATTTTACTC-TATGGGGGTATTT
1 CAGTCATTTTAC-CGTACGGGAGTATTT
*
37998441 CGGTCATTT
1 CAGTCATTT
37998450 ATTGACCTCT
Statistics
Matches: 464, Mismatches: 57, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.00
26 34 0.07
27 414 0.89
28 14 0.03
29 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCGTACGGGAGTATTT
Found at i:37997936 original size:54 final size:53
Alignment explanation
Indices: 37997875--37998449 Score: 641
Period size: 54 Copynumber: 10.7 Consensus size: 53
37997865 AGAGGTATAA
* *
37997875 CAGTCATTTTACCTTATGGGAGTATTTCGGTCATTTTACCGTACGGGGGTATTT
1 CAGTCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * * *
37997929 CAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATGGGGGTGTTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** * *
37997983 C-GATCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** * *
37998037 CAGTCATTTTAGTCTACTGAGGTATTTCGGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * **
37998091 CGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTA-CCTATAGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * * * *
37998144 CAGTTATTTTAACCTACGAGGGTATTTTGGTTATTTTACCCTACAGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * *
37998198 CTGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * *
37998252 CGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCATATGGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * * *
37998306 CAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTACCCTACAGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* **
37998360 CAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** *
37998414 TGGTCATTTTACTCTATGGGGGTATTTCGGTCATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTT
37998450 ATTGACCTCT
Statistics
Matches: 447, Mismatches: 65, Indels: 18
0.84 0.12 0.03
Matches are distributed among these distances:
53 48 0.11
54 393 0.88
55 6 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
Found at i:37997990 original size:81 final size:81
Alignment explanation
Indices: 37997878--37998449 Score: 653
Period size: 81 Copynumber: 7.1 Consensus size: 81
37997868 GGTATAACAG
* * * * **
37997878 TCATTTTACCTTAT-GGGAGTATTTCGGTCATTTTACCGTACGGGGGTATTTCAATCATTTTACC
1 TCATTTTACCCTATAGGG-GTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACC
*
37997942 CTATAAGGGTATTTCGA
65 CTATGAGGGTATTTCGA
* * * **
37997959 TCATTTTACCCTATGGGGGTGTTTC-GATCATTTTACCCTA-TAGGGGTATTTCAATCATTTTAC
1 TCATTTTACCCTATAGGGGTATTTCAG-TCATTTTACCCTACGA-GGGTATTTCGGTCATTTTAC
37998022 CCTATGAGGGTATTTC-A
64 CCTATGAGGGTATTTCGA
** * *
37998039 GTCATTTTAGTCTACT-GAGGTATTTCGGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTAC
1 -TCATTTTACCCTA-TAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTAC
* *
37998103 CCTATGAGGGTATTTTGG
64 CCTATGAGGGTATTTCGA
* * * *
37998121 TCATTTTA-CCTATAGGGGTATTTCAGTTATTTTAACCTACGAGGGTATTTTGGTTATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCC
*
37998185 TA-CAGGGGTATTTCTG-
66 TATGA-GGGTATTTC-GA
37998201 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCC
* *
37998266 TATGAGGGTATTTTGG
66 TATGAGGGTATTTCGA
* * * * *
37998282 TCATTTTACCATATGGGGGTATTTCAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCC
*
37998347 TA-CAGGGGTATTTC-A
66 TATGA-GGGTATTTCGA
* *
37998362 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA-TAGGGGTATTTTGGTCATTTTAC
1 -TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGA-GGGTATTTCGGTCATTTTAC
* * *
37998426 TCTATGGGGGTATTTCGG
64 CCTATGAGGGTATTTCGA
37998444 TCATTT
1 TCATTT
37998450 ATTGACCTCT
Statistics
Matches: 425, Mismatches: 47, Indels: 38
0.83 0.09 0.07
Matches are distributed among these distances:
79 2 0.00
80 70 0.16
81 346 0.81
82 7 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCC
TATGAGGGTATTTCGA
Found at i:38006506 original size:50 final size:50
Alignment explanation
Indices: 38006430--38006720 Score: 275
Period size: 50 Copynumber: 5.9 Consensus size: 50
38006420 CATTTGGGTA
* * *
38006430 AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGCACCCAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGAT
* * * *
38006480 AAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGAT
* * *
38006530 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGAT
** * * * *
38006580 GAA-AGGTCCCCGGTAAGACCATGTTTGGGACATGGCATGGGCA-CGATAT
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGAT
* ** * * * **
38006629 GAGAACTCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCCAGAT
** * * *
38006679 AA-ACATCCCATGTAAGACCATATATGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38006721 TGTTATTATC
Statistics
Matches: 199, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 69 0.35
50 125 0.63
51 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGAT
Found at i:38006665 original size:49 final size:49
Alignment explanation
Indices: 38006605--38006713 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 49
38006595 AGACCATGTT
* * *
38006605 TGGGACATGGCATGGGCACGATA-TGAGAAC-TCCCATGTAAAACCATATC
1 TGGGACATGGCATGGGCA-G-TACAGAAAACATCCCATGTAAAACCATATA
* * *
38006654 TGGGATATGGCATTGGCAGTACAGAAAACATCCCATGTAAGACCATATA
1 TGGGACATGGCATGGGCAGTACAGAAAACATCCCATGTAAAACCATATA
38006703 TGGGACATGGC
1 TGGGACATGGC
38006714 TTTGGCATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 2 0.04
48 6 0.12
49 43 0.84
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (49 bp):
TGGGACATGGCATGGGCAGTACAGAAAACATCCCATGTAAAACCATATA
Found at i:38012767 original size:42 final size:42
Alignment explanation
Indices: 38012698--38012779 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 42
38012688 TTAAATTCAT
*
38012698 TAAGTTATATTATTTTCAAATTTTGATACATCAAGTAATGCCAC
1 TAAGTTATATTA-TTTCAAATTTTGATACAT-AAGCAATGCCAC
38012742 TAAGTTATATTA-TTCAAATTTTGATACATAAGCAATGC
1 TAAGTTATATTATTTCAAATTTTGATACATAAGCAATGC
38012780 TATTTTCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 8 0.22
42 17 0.46
44 12 0.32
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (42 bp):
TAAGTTATATTATTTCAAATTTTGATACATAAGCAATGCCAC
Found at i:38012796 original size:20 final size:20
Alignment explanation
Indices: 38012771--38012821 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
38012761 TTTGATACAT
* *
38012771 AAGCAATGCTATTTTCATAC
1 AAGCAATACAATTTTCATAC
*
38012791 AAGCAATACAATTTTCATAA
1 AAGCAATACAATTTTCATAC
*
38012811 AAGTAATACAA
1 AAGCAATACAA
38012822 AAAGTCCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (20 bp):
AAGCAATACAATTTTCATAC
Found at i:38018680 original size:117 final size:118
Alignment explanation
Indices: 38018487--38018830 Score: 446
Period size: 114 Copynumber: 3.0 Consensus size: 118
38018477 TAAAAAATGT
* * * * ** *
38018487 GCCCAACACTCATCGACATGTAGTCGAAGTAACAATTTGGCACCCAATGCCTCATTAGAACGTCC
1 GCCCAACACTCATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
* * *
38018552 GAAGTAATTAGTTTGCGCCTAGCGTTCATTGGTATAACTGAAGTAAATATTAC
66 GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
* *
38018605 GCCCAACACTCATCGACACGTAGTTG-AGTAACCATTTGACACCTAGTGCCTCATCGGAACGTCT
1 GCCCAACACTCATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
* * **
38018669 GAAGTAATTAGTTTGCACCTAGCGCTCATCGGTATAACCGAAGTAAAAATTGT
66 GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
* * * * *
38018722 G-CC--TA-GCATCGAGACGTAGTCGAAGTAACCATTTGGCAGCTAGTGCCTCATCGGAATGTCT
1 GCCCAACACTCATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
* *
38018783 GAAGTAATTAGTTTGCGTCTAGCGCTCATCGATATAACCGAAGTAAAT
66 GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAAT
38018831 GTTGTGCCTA
Statistics
Matches: 198, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
113 14 0.07
114 80 0.40
116 2 0.01
117 78 0.39
118 24 0.12
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (118 bp):
GCCCAACACTCATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
Found at i:38021285 original size:19 final size:19
Alignment explanation
Indices: 38021247--38021285 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
38021237 TTCGATAATC
38021247 AATCTCAAACTTAACATTTT
1 AATCTCAAAC-TAACATTTT
38021267 AATCTCAAA-TAATCATTTT
1 AATCTCAAACTAA-CATTTT
38021286 CAATTTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 6 0.33
20 9 0.50
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (19 bp):
AATCTCAAACTAACATTTT
Found at i:38023174 original size:50 final size:50
Alignment explanation
Indices: 38023099--38023341 Score: 405
Period size: 50 Copynumber: 4.8 Consensus size: 50
38023089 ATTTGGGTAA
*
38023099 AGAGGTCCCATGTAAGACCATGTCTGGTACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
38023149 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
38023199 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
38023249 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
38023299 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38023342 TGTTATTATC
Statistics
Matches: 182, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 145 0.80
51 37 0.20
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:38026235 original size:23 final size:23
Alignment explanation
Indices: 38026200--38026244 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38026190 TGGAGCATAA
* *
38026200 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
38026223 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
38026245 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:38026866 original size:42 final size:42
Alignment explanation
Indices: 38026819--38027002 Score: 291
Period size: 42 Copynumber: 4.4 Consensus size: 42
38026809 CAGTGCCTAT
38026819 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
38026861 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
38026903 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
38026945 CAGGCTTAATGCGGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
38026986 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
38027003 TACTGAATTA
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 3 0.02
41 29 0.22
42 100 0.76
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:38028335 original size:12 final size:12
Alignment explanation
Indices: 38028318--38028347 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38028308 GGACACACGG
38028318 CCGTGTCCTAAC
1 CCGTGTCCTAAC
*
38028330 CCGTGTCCTCAC
1 CCGTGTCCTAAC
38028342 CCGTGT
1 CCGTGT
38028348 AACTCTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTAAC
Found at i:38031556 original size:21 final size:21
Alignment explanation
Indices: 38031532--38031573 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38031522 GAAATTAAAG
*
38031532 TGTTTTACTTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
38031553 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
38031574 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:38035664 original size:21 final size:21
Alignment explanation
Indices: 38035613--38035657 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
38035603 GAAAAAGGAG
38035613 AAGAGAAAAAT-AAAAGTGAAA
1 AAGA-AAAAATGAAAAGTGAAA
38035634 AAGAAGAAAATGAAAA-TGAAA
1 AAGAA-AAAATGAAAAGTGAAA
38035655 AAG
1 AAG
38035658 GCAAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (21 bp):
AAGAAAAAATGAAAAGTGAAA
Found at i:38035768 original size:36 final size:33
Alignment explanation
Indices: 38035703--38035769 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
38035693 GTGAATGAAG
*
38035703 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
38035736 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
38035770 GAAGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:38044814 original size:41 final size:40
Alignment explanation
Indices: 38044765--38045019 Score: 237
Period size: 41 Copynumber: 6.3 Consensus size: 40
38044755 TGGTACAAAA
* *
38044765 GTGC-ATTCATGGGTATCAAAGTACAAATAGGGGAACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* *
38044805 GTGCAATTCAGGGGTATCAAAGTACTAACAGGGGCACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
38044846 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGAACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* * * * * **
38044887 ATTCAATTTAGGGGTACTGAAGTACAAA-AAGGGACACGCAT
1 GTGCAATTCAGGGGTAC-AAAGTACAAACAGGGGA-ACATAT
** * * *
38044928 GTGCAATTCAAAGGTACCGAAGTACAAA-TGGGGCACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* * * *
38044968 GTGCAATTCAGTGGTACGGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTAC-AAAGTACAAACAGGGGAACATAT
*
38045009 ATGCAATTCAG
1 GTGCAATTCAG
38045020 CAATATTATT
Statistics
Matches: 180, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 38 0.21
41 140 0.78
42 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
GTGCAATTCAGGGGTACAAAGTACAAACAGGGGAACATAT
Found at i:38044859 original size:21 final size:21
Alignment explanation
Indices: 38044793--38044859 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
38044783 AAGTACAAAT
38044793 AGGGGAACATATGTGCAATTC
1 AGGGGAACATATGTGCAATTC
* * *
38044814 AGGGGTATCA-AAGTACTAA--C
1 AGGGG-AACATATGTGC-AATTC
*
38044834 AGGGGCACATATGTGCAATTC
1 AGGGGAACATATGTGCAATTC
38044855 AGGGG
1 AGGGG
38044860 TACCAAAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 4 0.12
20 10 0.29
21 15 0.44
22 5 0.15
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (21 bp):
AGGGGAACATATGTGCAATTC
Found at i:38044867 original size:82 final size:82
Alignment explanation
Indices: 38044765--38045019 Score: 309
Period size: 82 Copynumber: 3.1 Consensus size: 82
38044755 TGGTACAAAA
* * *
38044765 GTGC-ATTCATGGGTATCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTATC-AAAGT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTA-CGGAAGT
* *
38044828 ACTAACAGGGGCACATAT
65 ACAAACAGGGGCACGTAT
* * * * *
38044846 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGAACATATATTCAATTTAGGGGTACTGAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTACGGAAGTA
* * *
38044911 CAAAAAGGGACACGCAT
66 CAAACAGGGGCACGTAT
** * * *
38044928 GTGCAATTCAAAGGTACCGAAGTACAAAT-GGGGCACATATGTGCAATTCAGTGGTACGGAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTACGGAAGTA
38044992 CAAACAGGGGCACGTAT
66 CAAACAGGGGCACGTAT
*
38045009 ATGCAATTCAG
1 GTGCAATTCAG
38045020 CAATATTATT
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
81 57 0.39
82 88 0.61
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (82 bp):
GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTACGGAAGTA
CAAACAGGGGCACGTAT
Found at i:38044879 original size:20 final size:19
Alignment explanation
Indices: 38044775--38044879 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 19
38044765 GTGCATTCAT
*
38044775 GGGTATCAAAGTACAAATAG
1 GGGTA-CAAAGTACAAACAG
* * * *
38044795 GGGAACATATGTGCAATTCAG
1 GGGTACA-AAGTACAA-ACAG
*
38044816 GGGTATCAAAGTACTAACAG
1 GGGTA-CAAAGTACAAACAG
* * * *
38044836 GGGCACATATGTGCAATTCAG
1 GGGTACA-AAGTACAA-ACAG
38044857 GGGTACCAAAGTACAAACAG
1 GGGTA-CAAAGTACAAACAG
38044877 GGG
1 GGG
38044880 AACATATATT
Statistics
Matches: 60, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
19 4 0.07
20 28 0.47
21 24 0.40
22 4 0.07
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (19 bp):
GGGTACAAAGTACAAACAG
Found at i:38047704 original size:26 final size:28
Alignment explanation
Indices: 38047664--38047717 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
38047654 AAACAGTCAG
38047664 TTTACCCTAT-GGGGGTATTTCGATAAT
1 TTTACCCTATCGGGGGTATTTCGATAAT
*
38047691 TTTA-CCTATCGGGGGTATTTCGGTAAT
1 TTTACCCTATCGGGGGTATTTCGATAAT
38047718 AAAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (28 bp):
TTTACCCTATCGGGGGTATTTCGATAAT
Done.