Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 32 of 168
Found at i:8419661 original size:23 final size:23
Alignment explanation
Indices: 8419635--8419680 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8419625 GAAGGTTATA
*
8419635 ATTA-AAAATTATAATTTTTAAAT
1 ATTAGAAAAGTAT-ATTTTTAAAT
*
8419658 ATTAGAAAAGTATTTTTTTAAAT
1 ATTAGAAAAGTATATTTTTAAAT
8419681 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTAGAAAAGTATATTTTTAAAT
Found at i:8419729 original size:27 final size:27
Alignment explanation
Indices: 8419683--8419744 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
8419673 TTTTAAATGA
8419683 AAAAAAATAAAAAGTCTTTA-AAAT-T
1 AAAAAAATAAAAAGTCTTTACAAATAT
8419708 AAAAAAATAAAAAATGAT-TTTACAAATAT
1 AAAAAAAT-AAAAA-G-TCTTTACAAATAT
8419737 AAACAAAA
1 AAA-AAAA
8419745 ATTTCAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 8 0.26
26 5 0.16
27 5 0.16
28 5 0.16
29 4 0.13
30 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (27 bp):
AAAAAAATAAAAAGTCTTTACAAATAT
Found at i:8423351 original size:14 final size:14
Alignment explanation
Indices: 8423334--8423363 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8423324 TCATCATTTG
8423334 CCTATAACCAAAAC
1 CCTATAACCAAAAC
8423348 CCTATAACCAAAAC
1 CCTATAACCAAAAC
8423362 CC
1 CC
8423364 ATNNNNNNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:8425104 original size:23 final size:24
Alignment explanation
Indices: 8425065--8425110 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8425055 GTAATTTGTT
8425065 TGTTATAAAAATATTATA-AAAAG
1 TGTTATAAAAATATTATATAAAAG
*
8425088 TGTTAT-AATATACTTATATAAAA
1 TGTTATAAAAATA-TTATATAAAA
8425111 AATTATGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
TGTTATAAAAATATTATATAAAAG
Found at i:8426201 original size:21 final size:21
Alignment explanation
Indices: 8426162--8426202 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8426152 TATTTAATTT
8426162 TAAATTTTTATGATATAAAAA
1 TAAATTTTTATGATATAAAAA
*
8426183 TAAATATTTTAT-ATTTAAAA
1 TAAAT-TTTTATGATATAAAA
8426203 TAGTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTTTTATGATATAAAAA
Found at i:8426526 original size:23 final size:23
Alignment explanation
Indices: 8426495--8426541 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8426485 GGATACAACA
*
8426495 ACAGTAGTGGTCGAAGTAGTAGC
1 ACAGCAGTGGTCGAAGTAGTAGC
8426518 ACAGCAGTGGTCGAAGTAGTAGC
1 ACAGCAGTGGTCGAAGTAGTAGC
8426541 A
1 A
8426542 TCTTTACCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (23 bp):
ACAGCAGTGGTCGAAGTAGTAGC
Found at i:8430365 original size:11 final size:11
Alignment explanation
Indices: 8430348--8430388 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8430338 TTGTTTTGTC
8430348 ATTATTTTACT
1 ATTATTTTACT
* *
8430359 ATCATTTCACT
1 ATTATTTTACT
*
8430370 ATTATGTTACT
1 ATTATTTTACT
8430381 ATTATTTT
1 ATTATTTT
8430389 TTTGTTATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (11 bp):
ATTATTTTACT
Found at i:8437057 original size:37 final size:36
Alignment explanation
Indices: 8436973--8437067 Score: 86
Period size: 37 Copynumber: 2.6 Consensus size: 36
8436963 CTCAGGGAAC
* *
8436973 GTTATCCATTGATATACTGAAGAAGCTCAATCGAGA
1 GTTATCCACTGATATACTGAAGAAGCTCAAACGAGA
** *
8437009 GAAATCTACTGATATACT-AAGTAAAGCTCAAACGAGCA
1 GTTATCCACTGATATACTGAAG--AAGCTCAAACGAG-A
*
8437047 -TTATCCACTGAATATATTGAA
1 GTTATCCACTG-ATATACTGAA
8437068 CTACGATACT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
35 3 0.07
36 14 0.31
37 19 0.42
38 7 0.16
39 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (36 bp):
GTTATCCACTGATATACTGAAGAAGCTCAAACGAGA
Found at i:8442178 original size:14 final size:15
Alignment explanation
Indices: 8442131--8442181 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
8442121 GATGTATTTA
**
8442131 TAATT-AATTTAAGC
1 TAATTAAATTTAAAT
*
8442145 TAATTAAGTTTAAAT
1 TAATTAAATTTAAAT
*
8442160 TAATTAAATTT-ACT
1 TAATTAAATTTAAAT
8442174 TAATTAAA
1 TAATTAAA
8442182 ACTTAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (15 bp):
TAATTAAATTTAAAT
Found at i:8445310 original size:40 final size:40
Alignment explanation
Indices: 8445176--8445311 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
8445166 CAGATCAACC
* * *
8445176 AAACACACGAGACAGGAGCTCGTAAGAGCTAATCCACCCG
1 AAACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCG
* * * **
8445216 AAATATACCAGACAAAAGCTCATAAGAGCTAATCCAATCG
1 AAACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCG
* * * *
8445256 ATACA-AGCCAGACAGAAGCTCATAATAGCTAATACACCCA
1 AAACACA-CCAGACAGAAGCTCATAAGAGCTAATCCACCCG
*
8445296 AAACACGCCAGACAGA
1 AAACACACCAGACAGA
8445312 GAGTATAACA
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.12
Consensus pattern (40 bp):
AAACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCG
Found at i:8447589 original size:3 final size:3
Alignment explanation
Indices: 8447568--8447603 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
8447558 AAAATAAAGC
* *
8447568 TAA TAA TTA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8447604 CACTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8449542 original size:99 final size:99
Alignment explanation
Indices: 8449408--8450526 Score: 1541
Period size: 99 Copynumber: 11.3 Consensus size: 99
8449398 ACCAGAGAAG
* * * ** ** * *
8449408 TAAGATTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACGAGATTCG-TCATC
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCT-GTT
**
8449472 GTAGCTTCAATCTGTTCCGCTGCATCGCCTAAAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* * * *
8449507 TAAGATTCGCCATTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTTGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
* * * * * * *
8449572 AATCTTCGATCTGTTCTGCTGCATCACCTAGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
*
8449606 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGTAATGTCGGGGAAGTGAGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
8449671 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* *
8449705 TAAGATTCGCCATTGTGG-TTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
*
8449769 TAGCTTCAATCTGTTCCGCTGTATCGCCTGGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* * * *
8449803 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGTAATATTGGGGAAGTGAGATTCGCTGTTA
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
*
8449868 TAGCTTCAATCTGTTCCACTGCATCGCCTGGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* * *
8449902 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCACTGTCGGGGAACTGAGATTCGCTATTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
*
8449967 TAGCTTCAATCTGTTCCGCTGTATCGCCTGGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* *
8450001 TAAGATTCACCATTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
* *
8450066 TAGCTTCAATTTGTTCCACTGCAAT-G-CTAGGAAA
66 TAGCTTCAATCTGTTCCGCTGC-ATCGCCT-GGAAA
** * * *
8450100 GTAAGATTTACCGTTGTGGCATCAATCTTTCAAATTGTAATGTCGGGGAAGTGAGATTCGCTGTT
1 -TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTT
8450165 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
* * *
8450200 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGAAACTGAGATTCTCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
*
8450265 TAGCTTCAATCTGTTCCGCTGTATCGCCTGGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
** *
8450299 TAAGATTTACCGTTGTGCCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
*
8450364 TAGCTTCAATCTGTTCCACTGCAAT-G-CTAGGAAA
66 TAGCTTCAATCTGTTCCGCTGC-ATCGCCT-GGAAA
** * * ** * * *
8450398 GTAAGATTTACCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAAATTCACCGTT
1 -TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTT
* *
8450463 GTAGCTTCAATCTGTTCCGTTGCATTGCCT-GAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
*
8450497 GTAAGATTCGTCGTTGTGGCTTCGATCTTT
1 -TAAGATTCGCCGTTGTGGCTTCGATCTTT
8450527 TGAGTTGCAA
Statistics
Matches: 912, Mismatches: 96, Indels: 24
0.88 0.09 0.02
Matches are distributed among these distances:
98 98 0.11
99 641 0.70
100 169 0.19
101 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (99 bp):
TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA
Found at i:8449628 original size:49 final size:49
Alignment explanation
Indices: 8449475--8450329 Score: 310
Period size: 49 Copynumber: 17.3 Consensus size: 49
8449465 CGTCATCGTA
* * ** *
8449475 GCTTCAATCTGTTCCGCTGCATCGCCTAAAAATAAGATTCGCCATTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
* * * ** ** * * * * **
8449524 GCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGTGAGATTTGCTGTTGAA
1 GCTTCGATCTGTTCAGCTGC-ATCG-CCTGGAAATAAGATTCGCCGTTGTG
* * * * *
8449574 TCTTCGATCTGTTCTGCTGCATCACCTAGAAGTAAGATTCGCCGTTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** * ** * * * *
8449623 GCTTCGATCT-TTCAAATTGTAAT-GTCGGGGAAGTGAGATTCGCTGTTGTA
1 GCTTCGATCTGTTC-AGCTG-CATCG-CCTGGAAATAAGATTCGCCGTTGTG
* * *
8449673 GCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCATTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** ** * * * *
8449722 G-TTCGATCT-TTCAAATTGCAAT-GTCGGGGAACTGAGATTCGCTGTTGTA
1 GCTTCGATCTGTTC-AGCTGC-ATCG-CCTGGAAATAAGATTCGCCGTTGTG
* * *
8449771 GCTTCAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCGCCGTTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** * ***** * * * * *
8449820 GCTTCGATCT-TTCAAATTGTAATATTGGGGAAGTGAGATTCGCTGTTATA
1 GCTTCGATCTGTTC-AGCTG-CATCGCCTGGAAATAAGATTCGCCGTTGTG
*
8449870 GCTTCAATCTGTTCCA-CTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
1 GCTTCGATCTGTT-CAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** ** * * ** *
8449919 GCTTCGATCT-TTCAAATTGCA-CTGTCGGGGAACTGAGATTCGCTATTGTA
1 GCTTCGATCTGTTC-AGCTGCATC-G-CCTGGAAATAAGATTCGCCGTTGTG
* * * * *
8449969 GCTTCAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCATTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** ** * * * *
8450018 GCTTCGATCT-TTCAAATTGCAAT-GTCGGGGAAGTGAGATTCGCTGTTGTA
1 GCTTCGATCTGTTC-AGCTGC-ATCG-CCTGGAAATAAGATTCGCCGTTGTG
* * **
8450068 GCTTCAATTTGTTCCA-CTGCAAT-G-CTAGGAAAGTAAGATTTACCGTTGTG
1 GCTTCGATCTGTT-CAGCTGC-ATCGCCT-GGAAA-TAAGATTCGCCGTTGTG
* * ** * ** * * * *
8450118 GCATCAATCT-TTCAAATTGTAAT-GTCGGGGAAGTGAGATTCGCTGTTGTA
1 GCTTCGATCTGTTC-AGCTG-CATCG-CCTGGAAATAAGATTCGCCGTTGTG
* *
8450168 GCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
** * * * * * *
8450217 GCTTCGATCT-TTCAAATTGCAAT-GTCGGGAAACTGAGATTCTCTGTTGTA
1 GCTTCGATCTGTTC-AGCTGC-ATCGCCTGGAAA-TAAGATTCGCCGTTGTG
* * * **
8450267 GCTTCAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTTACCGTTGTG
1 GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
*
8450316 CCTTCGATCT-TTCA
1 GCTTCGATCTGTTCA
8450330 AATTGCAATG
Statistics
Matches: 564, Mismatches: 199, Indels: 87
0.66 0.23 0.10
Matches are distributed among these distances:
47 4 0.01
48 31 0.05
49 252 0.45
50 249 0.44
51 26 0.05
52 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (49 bp):
GCTTCGATCTGTTCAGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTG
Found at i:8450221 original size:298 final size:300
Alignment explanation
Indices: 8449420--8450526 Score: 1601
Period size: 298 Copynumber: 3.7 Consensus size: 300
8449410 AGATTCGCTG
* * ** ** * *
8449420 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACGAGATTCG-TCATCGTAGCTTCAATC
1 TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCT-GTTGTAGCTTCAATC
* * * * *
8449484 TGTTCCGCTGC-ATCGCCTA--AAAATAAGATTCGCCATTGTGGCTTCAATCTTTTAAATTGCAA
65 TGTTCCACTGCAATCGCCTAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAAATTGCAA
* * * * * * * *
8449546 TGTCGGGGAAGTGAGATTTGCTGTTGAATCTTCGATCTGTTCTGCTGCATCACCTAGAAGTAAGA
130 TGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGA
* *
8449611 TTCGCCGTTGTGGCTTCGATCTTTCAAATTGTAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCT
195 TTCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTGTAGCT
* *
8449676 TCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCA
260 TCAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCA
*
8449717 TTGTGG-TTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTGTAGCTTCAATCT
1 TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
* * * * *
8449781 GTTCCGCTG-TATCGCCT-GGAAA-TAAGATTCGCCGTTGTGGCTTCGATCTTTCAAATTGTAAT
66 GTTCCACTGCAATCGCCTAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAAATTGCAAT
* * * *
8449843 ATTGGGGAAGTGAGATTCGCTGTTATAGCTTCAATCTGTTCCACTGCATCGCCTGGAAATAAGAT
131 GTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGAT
* *
8449908 TCGCCGTTGTGGCTTCGATCTTTCAAATTGCACTGTCGGGGAACTGAGATTCGCTATTGTAGCTT
196 TCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTGTAGCTT
8449973 CAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCA
261 CAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCA
*
8450013 TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATTT
1 TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
* * *
8450078 GTTCCACTGCAAT-G-CTAGGAAAGTAAGATTTACCGTTGTGGCATCAATCTTTCAAATTGTAAT
66 GTTCCACTGCAATCGCCTAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAAATTGCAAT
8450141 GTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGAT
131 GTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGAT
* *
8450206 TCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGAAACTGAGATTCTCTGTTGTAGCTT
196 TCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTGTAGCTT
* *
8450271 CAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTTACCG
261 CAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCA
*
8450311 TTGTGCCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
1 TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
* * **
8450376 GTTCCACTGCAAT-G-CTAGGAAAGTAAGATTTACCGTTGTGGCCTCAATCTTTTGAATTGCAAT
66 GTTCCACTGCAATCGCCTAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAAATTGCAAT
* * * * *
8450439 GTCGGGGAAGTGAAATTCACCGTTGTAGCTTCAATCTGTTCCGTTGCATTGCCT-GAAAGTAAGA
131 GTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAA-TAAGA
*
8450503 TTCGTCGTTGTGGCTTCGATCTTT
195 TTCGCCGTTGTGGCTTCGATCTTT
8450527 TGAGTTGCAA
Statistics
Matches: 741, Mismatches: 60, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
296 261 0.35
297 83 0.11
298 397 0.54
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (300 bp):
TTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
GTTCCACTGCAATCGCCTAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAAATTGCAAT
GTCGGGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGAT
TCGCCGTTGTGGCTTCGATCTTTCAAATTGCAATGTCGGGGAACTGAGATTCGCTGTTGTAGCTT
CAATCTGTTCCGCTGTATCGCCTGGAAATAAGATTCACCA
Found at i:8463028 original size:2 final size:2
Alignment explanation
Indices: 8462980--8463010 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8462970 TTATAAAATG
*
8462980 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8463011 TGATTTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8464703 original size:28 final size:27
Alignment explanation
Indices: 8464648--8464699 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
8464638 AAAAATGCCT
*
8464648 TAGTTTTTTGGCAAGAACATGACAAGA
1 TAGTTTTTTGGCAAGAACATGAAAAGA
*
8464675 TAGTTTTTTGGCAAGAACGTGAAAA
1 TAGTTTTTTGGCAAGAACATGAAAA
8464700 AGATGATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (27 bp):
TAGTTTTTTGGCAAGAACATGAAAAGA
Found at i:8468747 original size:15 final size:15
Alignment explanation
Indices: 8468727--8468762 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8468717 CAATTGAATC
*
8468727 ATCATTGACACCATG
1 ATCATTGACACCAAG
*
8468742 ATCATTGAGACCAAG
1 ATCATTGACACCAAG
8468757 ATCATT
1 ATCATT
8468763 CCCTTCCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (15 bp):
ATCATTGACACCAAG
Found at i:8472798 original size:13 final size:13
Alignment explanation
Indices: 8472767--8472889 Score: 74
Period size: 13 Copynumber: 9.4 Consensus size: 13
8472757 CATATCTATC
8472767 CATATAAACATTT
1 CATATAAACATTT
*
8472780 CTTATAAACACTTT
1 CATATAAACA-TTT
**
8472794 -ATATAATTATTT
1 CATATAAACATTT
8472806 C-TATATAAC-TGATT
1 CATATA-AACAT--TT
*
8472820 CATATAATCATTT
1 CATATAAACATTT
**
8472833 CATATATTCATTT
1 CATATAAACATTT
* *
8472846 TATATAACCATTT
1 CATATAAACATTT
* *
8472859 CGA-ATAACCATCT
1 C-ATATAAACATTT
*
8472872 CATATAACCATTT
1 CATATAAACATTT
8472885 CATAT
1 CATAT
8472890 TACACATTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
12 9 0.10
13 64 0.74
14 9 0.10
15 5 0.06
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:8472850 original size:26 final size:25
Alignment explanation
Indices: 8472768--8472889 Score: 84
Period size: 26 Copynumber: 4.7 Consensus size: 25
8472758 ATATCTATCC
* * *
8472768 ATATAAACATTTCTTATAAACACTTT
1 ATATAATCATTTCATATAATCA-TTT
* * *
8472794 ATATAATTATTTCTATATAACTGATTC
1 ATATAATCATTTC-ATATAA-TCATTT
*
8472821 ATATAATCATTTCATATATTCATTTT
1 ATATAATCATTTCATATAATCA-TTT
* * *
8472847 ATATAACCATTTCGA-ATAACCATCTC
1 ATATAATCATTTC-ATATAATCAT-TT
*
8472873 ATATAACCATTTCATAT
1 ATATAATCATTTCATAT
8472890 TACACATTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
25 4 0.05
26 51 0.67
27 20 0.26
28 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATAATCATTTCATATAATCATTT
Found at i:8472884 original size:39 final size:40
Alignment explanation
Indices: 8472823--8472898 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 40
8472813 ACTGATTCAT
* * ** *
8472823 ATAATCATTTCATATATTCATTTTATATAAC-CATTTCGA
1 ATAACCATCTCATATAACCATTTCATATAACACATTTCGA
*
8472862 ATAACCATCTCATATAACCATTTCATATTACACATTT
1 ATAACCATCTCATATAACCATTTCATATAACACATTT
8472899 ATCATTTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.37, C:0.20, G:0.01, T:0.42
Consensus pattern (40 bp):
ATAACCATCTCATATAACCATTTCATATAACACATTTCGA
Found at i:8473038 original size:45 final size:45
Alignment explanation
Indices: 8472989--8473105 Score: 189
Period size: 45 Copynumber: 2.6 Consensus size: 45
8472979 ACATAACGCT
* * *
8472989 ATAGTGTCTTTCAACCATGGTCTTATTCATTTCCGGTATAGTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCAGATATAGTGCC
*
8473034 ATAGTGTCTTTCAACTATGGTCGTATTCATTTCAGATATAGTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCAGATATAGTGCC
*
8473079 ATAGTGTCTTTCAACTATGATCTTATT
1 ATAGTGTCTTTCAACTATGGTCTTATT
8473106 TGTTTATCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (45 bp):
ATAGTGTCTTTCAACTATGGTCTTATTCATTTCAGATATAGTGCC
Found at i:8474910 original size:63 final size:63
Alignment explanation
Indices: 8474831--8474991 Score: 173
Period size: 63 Copynumber: 2.6 Consensus size: 63
8474821 GTGATACTAG
* * * * **
8474831 TTCACACACAGTGAGTTACACGGCCTAGTCACACGGC-CAAGTCCTTGGCCCGTGTAACCTTAA
1 TTCACAAACAGTGAGTTACACGGCCT-GACACACGGCTCAAGTCCCTGGCCCATGTAACAGTAA
* ** *
8474894 TTCACAAACAGTGAGTTACACGACCTGGACACAC-GCTCGTGTCCCTGGCCCATGTGACAGTAA
1 TTCACAAACAGTGAGTTACACGGCCT-GACACACGGCTCAAGTCCCTGGCCCATGTAACAGTAA
* * *
8474957 TTCACAAATAGTGAGTTACACAGCCTGGCACACGG
1 TTCACAAACAGTGAGTTACACGGCCTGACACACGG
8474992 TCGTATGGTG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
62 8 0.10
63 73 0.90
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (63 bp):
TTCACAAACAGTGAGTTACACGGCCTGACACACGGCTCAAGTCCCTGGCCCATGTAACAGTAA
Found at i:8477533 original size:44 final size:45
Alignment explanation
Indices: 8477409--8477539 Score: 149
Period size: 45 Copynumber: 2.9 Consensus size: 45
8477399 ATCTATGCAA
* * * * *
8477409 ATTCATAGAAGAAACTTCATGGAT-AAAGCAAATTCAAACATACGA
1 ATTCATAAAAGAAACTTCAT-GATCATAGCAAATTCATACATGCGG
* * *
8477454 ATTCATAGAAGAAACTTTATGATCATAGCAAATTCATTCATGCGG
1 ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATGCGG
**
8477499 ATTCATAAAAG-AACTTCATGATCATAGCGGATTCATACATG
1 ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATG
8477540 TAGAATTGGT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
44 29 0.39
45 45 0.61
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (45 bp):
ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATGCGG
Found at i:8482953 original size:78 final size:78
Alignment explanation
Indices: 8482809--8482967 Score: 223
Period size: 78 Copynumber: 2.0 Consensus size: 78
8482799 TGAATATTTC
*
8482809 AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAGCAATCTTGAATT
1 AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAACAATCTTGAATT
* *
8482874 GATGGTGAC-AAA
66 GACGATGACGAAA
* * * *
8482886 AAATCCTAAGATTACGTTATTATGCTCTCGCAAGATTGATGGTCAGT-AGAGCAACAATCTTGGA
1 AAATCCTAAGATTACGTTATTATGC-CCCGCAAGAATGATGGTCA-TCAAAGCAACAATCTTGAA
8482950 TTGACGATGACGAAA
64 TTGACGATGACGAAA
8482965 AAA
1 AAA
8482968 GCGCGAACAG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 25 0.35
78 40 0.56
79 7 0.10
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (78 bp):
AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAACAATCTTGAATT
GACGATGACGAAA
Found at i:8493625 original size:7 final size:7
Alignment explanation
Indices: 8493613--8493637 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8493603 TTGGATCTTT
8493613 TTTTAAA
1 TTTTAAA
8493620 TTTTAAA
1 TTTTAAA
8493627 TTTTAAA
1 TTTTAAA
8493634 TTTT
1 TTTT
8493638 GGATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:8495928 original size:21 final size:23
Alignment explanation
Indices: 8495886--8495928 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8495876 TAGTTATTCT
*
8495886 AAATATATATATATAAATTTATA
1 AAATATATATATATAAAATTATA
8495909 AAATATAT-TATA-AAAATTAT
1 AAATATATATATATAAAATTAT
8495929 TTCATGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATATATATATAAAATTATA
Found at i:8500094 original size:6 final size:6
Alignment explanation
Indices: 8500083--8500108 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8500073 GTTACTGGCA
8500083 TGCCAC TGCCAC TGCCAC TGCCAC TG
1 TGCCAC TGCCAC TGCCAC TGCCAC TG
8500109 TTCACGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCCAC
Found at i:8504328 original size:18 final size:19
Alignment explanation
Indices: 8504307--8504358 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
8504297 TTTTTAAAAA
*
8504307 TATAAAT-TTTTGGATTTT
1 TATAAATATTTTGAATTTT
8504325 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
8504343 TAAAAATTATTTTGAA
1 TATAAA-TATTTTGAA
8504359 ATGTTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:8504357 original size:19 final size:18
Alignment explanation
Indices: 8504322--8504358 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
8504312 ATTTTTGGAT
*
8504322 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
8504340 TTTTAAAAATTATTTTGAA
1 TTTTAAAAA-TATTTTGAA
8504359 ATGTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:8504608 original size:17 final size:20
Alignment explanation
Indices: 8504586--8504647 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 20
8504576 TTGTATTTAT
8504586 TATTTAA-AA-TTT-TGATG
1 TATTTAATAAGTTTATGATG
*
8504603 TATTTAATAAGTTTATGTTG
1 TATTTAATAAGTTTATGATG
**
8504623 TATTT-ATATTTTTATGATG
1 TATTTAATAAGTTTATGATG
8504642 -ATTTAA
1 TATTTAA
8504648 ACATACAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 7 0.19
18 6 0.16
19 15 0.41
20 9 0.24
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
TATTTAATAAGTTTATGATG
Found at i:8508337 original size:18 final size:19
Alignment explanation
Indices: 8508292--8508340 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
8508282 GAATATTTAC
*
8508292 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
8508312 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
8508330 ATAAAAATAAA
1 ATAAAAATAAA
8508341 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:8512742 original size:25 final size:25
Alignment explanation
Indices: 8512695--8512743 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8512685 AGGGAAAGGG
* * *
8512695 AAAGGGAAAGGAAAATGACTGGAAA
1 AAAGAGAAAGGAAAATAAATGGAAA
*
8512720 AAAGAGAAAGGGAAATAAATGGAA
1 AAAGAGAAAGGAAAATAAATGGAA
8512744 TAGAAGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.31, T:0.08
Consensus pattern (25 bp):
AAAGAGAAAGGAAAATAAATGGAAA
Found at i:8512753 original size:25 final size:24
Alignment explanation
Indices: 8512699--8512754 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
8512689 AAAGGGAAAG
* *
8512699 GGAAAGGAAAATGACTGGAAAAAA
1 GGAAAGGAAAATAAATGGAAAAAA
* *
8512723 GAGAAAGGGAAATAAATGGAATAGAA
1 G-GAAAGGAAAATAAATGGAA-AAAA
8512749 GGAAAG
1 GGAAAG
8512755 AGAAGAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
26 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.32, T:0.09
Consensus pattern (24 bp):
GGAAAGGAAAATAAATGGAAAAAA
Found at i:8513217 original size:20 final size:18
Alignment explanation
Indices: 8513194--8513243 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8513184 TAATAGATGC
8513194 ATTTAAAATTATTGATGTTA
1 ATTTAAAATTATT-AT-TTA
8513214 ATTTAAAATT-TTATTTA
1 ATTTAAAATTATTATTTA
*
8513231 TTTATAAAATTAT
1 ATT-TAAAATTAT
8513244 CATAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 9 0.33
19 3 0.11
20 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
ATTTAAAATTATTATTTA
Found at i:8514634 original size:210 final size:212
Alignment explanation
Indices: 8514263--8514646 Score: 621
Period size: 210 Copynumber: 1.8 Consensus size: 212
8514253 CTGATCTCGT
* * *
8514263 TTATGATCAAAATATTCAAGCGGTCTCCATGCTAGAAGTTGAGCATCAATGATAATCTTATGAGT
1 TTATGATCAAAATATTCAAGCGATCTCCATGCTAGAAGTTGAGCATCAATGATAATCTCAAGAGT
* * * *
8514328 TTCCTCCATTTTAGGCTTACTTTTAAGGTTTTCTTCAACTTTTTTCCATCTTCTTATTAGATTGT
66 TTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTATTAGATTAT
8514393 TTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAATTATATATAT
131 TTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAATTATATATAT
8514458 ATGGATACTGATCCTGC
196 ATGGATACTGATCCTGC
* * *
8514475 TTATGATCATAATCTTCAGGCGATCTCCATGCTAG-AGATTGAGCATCAATGATAAT-TCAAGAG
1 TTATGATCAAAATATTCAAGCGATCTCCATGCTAGAAG-TTGAGCATCAATGATAATCTCAAGAG
*
8514538 TTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTTAAC-TTTTTCCATCGTCTTATTAGATTA
65 TTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTATTAGATTA
* *
8514602 TTTTTGGCCTCAATGTTGAAGAATGAATCATTTGCTGGAGGTCAA
130 TTTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAA
8514647 TTAAAAATTT
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
210 65 0.41
211 44 0.28
212 49 0.31
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (212 bp):
TTATGATCAAAATATTCAAGCGATCTCCATGCTAGAAGTTGAGCATCAATGATAATCTCAAGAGT
TTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTATTAGATTAT
TTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAATTATATATAT
ATGGATACTGATCCTGC
Found at i:8515973 original size:171 final size:171
Alignment explanation
Indices: 8515688--8516003 Score: 499
Period size: 171 Copynumber: 1.8 Consensus size: 171
8515678 ATTCCAAGAG
* *
8515688 CAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAATGTGATATAGACCATGTT
1 CAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGACCATGTT
*
8515753 ACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGTTAGCTCAATTGAA
66 ACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCTCAATTGAA
*
8515818 TTAATATTCAATAGGCCACCCAAAACATGACATCCCAAAAA
131 TTAACATTCAATAGGCCACCCAAAACATGACATCCCAAAAA
* * * *
8515859 CAATACAATAACATGAAATCAATCTCCTTACCAAATGAAAATTAGAAGGTGCT-TAGACCCTGTT
1 CAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGACCATGTT
* * * * *
8515923 GCACTAACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTTCACACCAAGATGGCTTAGTTGA
66 ACACT-ACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCTCAATTGA
8515988 ATTAACATTCAATAGG
130 ATTAACATTCAATAGG
8516004 TCTCCCAGAA
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 14 0.11
171 117 0.89
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.26
Consensus pattern (171 bp):
CAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGACCATGTT
ACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCTCAATTGAA
TTAACATTCAATAGGCCACCCAAAACATGACATCCCAAAAA
Found at i:8518992 original size:26 final size:25
Alignment explanation
Indices: 8518958--8519007 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
8518948 TGGAGAACCA
8518958 TTAACAGGAAGCTCACAAAGAGCCT
1 TTAACAGGAAGCTCACAAAGAGCCT
*
8518983 TTAATCAGGAAGCTCACGAAGAGCC
1 TTAA-CAGGAAGCTCACAAAGAGCC
8519008 ATATAACGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (25 bp):
TTAACAGGAAGCTCACAAAGAGCCT
Found at i:8519838 original size:30 final size:30
Alignment explanation
Indices: 8519802--8519861 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8519792 ATCTATATTC
8519802 ATCCATGGAAAAACCTTAGTACTTTGATAA
1 ATCCATGGAAAAACCTTAGTACTTTGATAA
8519832 ATCCATGGAAAAACCTTAGTACTTTGATAA
1 ATCCATGGAAAAACCTTAGTACTTTGATAA
8519862 CTTTACAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (30 bp):
ATCCATGGAAAAACCTTAGTACTTTGATAA
Found at i:8526655 original size:25 final size:24
Alignment explanation
Indices: 8526626--8526696 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
8526616 AGCTATATAG
8526626 CGGGAAGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCAT-TGAGCCATGTAA
* * *
8526651 TGGGAAGCTTATTCGAGCTATGTAA
1 CGGGAAGCTCATT-GAGCCATGTAA
*
8526676 CGGGAAGCTCATAAGAGCCAT
1 CGGGAAGCTCAT-TGAGCCAT
8526697 AATCAGGAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (24 bp):
CGGGAAGCTCATTGAGCCATGTAA
Found at i:8526839 original size:25 final size:25
Alignment explanation
Indices: 8526808--8526876 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
8526798 GGTAGCTCTG
8526808 AAGAGCCATTAATAGGAAGCTCACA
1 AAGAGCCATTAATAGGAAGCTCACA
* * *
8526833 AAGAGCCTTTAATCGGGAAGCTCACG
1 AAGAGCCATTAAT-AGGAAGCTCACA
*
8526859 AAGAGCCATATAACAGGA
1 AAGAGCCAT-TAATAGGA
8526877 TGGGATACTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 12 0.33
26 21 0.58
27 3 0.08
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (25 bp):
AAGAGCCATTAATAGGAAGCTCACA
Found at i:8526862 original size:26 final size:26
Alignment explanation
Indices: 8526676--8526867 Score: 95
Period size: 24 Copynumber: 7.8 Consensus size: 26
8526666 AGCTATGTAA
*
8526676 CGGGAAGCTCA-TAAGAGCCA-TAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * * * *
8526700 CAGGAAGCTCA-TATGAACCAAT-AT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * * *
8526724 CTGGTAGCTCCCGAA-AGCCACTAA-
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * *
8526748 CGGGAAGCTC-TGGATAGCCA-TATAT
1 CGGGAAGCTCACGAAGAGCCATTA-AT
* * *
8526773 CGGGAAGTTCAAG-CGAGCCA-T-AT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* *
8526796 CGGGTAGCTC-TGAAGAGCCATTAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * *
8526821 -AGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
8526846 CGGGAAGCTCACGAAGAGCCAT
1 CGGGAAGCTCACGAAGAGCCAT
8526868 ATAACAGGAT
Statistics
Matches: 126, Mismatches: 30, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.01
23 20 0.16
24 54 0.43
25 32 0.25
26 19 0.15
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (26 bp):
CGGGAAGCTCACGAAGAGCCATTAAT
Found at i:8530159 original size:46 final size:43
Alignment explanation
Indices: 8530107--8530340 Score: 235
Period size: 46 Copynumber: 5.6 Consensus size: 43
8530097 TTTGAGTACT
8530107 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG---TAGCTACACTTA
**
8530153 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
**
8530190 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
*
8530227 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--T-AGCTACACTTA
**
8530273 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TAGCTACACTTA
8530318 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
8530341 AGGTCATATG
Statistics
Matches: 167, Mismatches: 9, Indels: 27
0.82 0.04 0.13
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 61 0.37
40 3 0.02
41 1 0.01
43 11 0.07
44 1 0.01
45 22 0.13
46 66 0.40
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:8530186 original size:37 final size:37
Alignment explanation
Indices: 8530145--8530255 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
8530135 TAGTTTTAGC
8530145 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
8530182 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
8530219 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8530256 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:8540364 original size:18 final size:19
Alignment explanation
Indices: 8540312--8540364 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
8540302 TGCCAACTAT
8540312 AAAA-AATAATATTTTAATG
1 AAAATAATAATATTTTAA-G
8540331 AAAATTAATAA-A--TTAA-
1 AAAA-TAATAATATTTTAAG
8540347 AAAATAATAATATTTTAA
1 AAAATAATAATATTTTAA
8540365 TATAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
15 6 0.21
16 5 0.17
18 8 0.28
19 4 0.14
20 1 0.03
21 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATAATAATATTTTAAG
Found at i:8542597 original size:25 final size:26
Alignment explanation
Indices: 8542549--8542598 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
8542539 TATAACTTTT
8542549 TTTTTATTTACCAAAAAATATATAATA
1 TTTTTATTTACC-AAAAATATATAATA
8542576 TTTTTATTTACC-AAAATATATAA
1 TTTTTATTTACCAAAAATATATAA
8542599 AAAAAACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.48
27 12 0.52
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTTATTTACCAAAAATATATAATA
Found at i:8542682 original size:27 final size:27
Alignment explanation
Indices: 8542650--8542707 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
8542640 CCTTGGTCAC
*
8542650 GCCAAAGCCATTGGCGGCACCAAAGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
*
8542677 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
8542704 GCCA
1 GCCA
8542708 TACTGAGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (27 bp):
GCCAAAACCATTGGCGGCACCAAAGGT
Found at i:8542818 original size:11 final size:11
Alignment explanation
Indices: 8542802--8542841 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
8542792 TGTGCTGCGG
8542802 AAAAGAAGAGA
1 AAAAGAAGAGA
8542813 AAAAG-AGAGA
1 AAAAGAAGAGA
*
8542823 AAAATAAGAGA
1 AAAAGAAGAGA
8542834 AAAAGAAG
1 AAAAGAAG
8542842 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:8542982 original size:3 final size:3
Alignment explanation
Indices: 8542976--8543037 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
8542966 ATTATTATTA
*
8542976 TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
8543024 TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TT
8543038 AGTATTAAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.02, C:0.00, G:0.31, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:8543259 original size:36 final size:35
Alignment explanation
Indices: 8543188--8543264 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
8543178 AGTTAGTTAG
* *
8543188 TTAGT-TATTATTTTTAGTAAAATTAATAATTTTA
1 TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
*
8543222 TT-GTGTATTATTTTGAGTATAAAATTATTAATATTA
1 TTAGTGTATTATTTTGAG--TAAAATTAATAATATTA
8543258 TTAGTGT
1 TTAGTGT
8543265 GTTAGTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 13 0.36
36 17 0.47
37 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (35 bp):
TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
Found at i:8543943 original size:18 final size:18
Alignment explanation
Indices: 8543916--8543959 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8543906 TGACATGGTT
*
8543916 GGTGGTGAAGAAGAAGGG
1 GGTGGCGAAGAAGAAGGG
*
8543934 GGTGGCGAAGAAGAAGGT
1 GGTGGCGAAGAAGAAGGG
8543952 GGTGGCGA
1 GGTGGCGA
8543960 TCATTGGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.05, G:0.55, T:0.11
Consensus pattern (18 bp):
GGTGGCGAAGAAGAAGGG
Found at i:8545296 original size:15 final size:15
Alignment explanation
Indices: 8545276--8545307 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8545266 AAAAAATATC
8545276 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
8545291 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
8545306 AT
1 AT
8545308 TAGCCGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTTCTAAATTT
Found at i:8545734 original size:22 final size:22
Alignment explanation
Indices: 8545709--8545753 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8545699 GGTTTTTTTT
8545709 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
8545731 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
8545753 A
1 A
8545754 AACTTATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:8546586 original size:4 final size:4
Alignment explanation
Indices: 8546570--8546691 Score: 60
Period size: 4 Copynumber: 30.0 Consensus size: 4
8546560 CTCCTTTCCT
*
8546570 TTTC TTTC CTTC TTTC TTTC -TT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * * *
8546615 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTCCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TT-TC -TTTC TTTC TTTC TTTC
*
8546662 TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC
8546692 CCTCGCCTTC
Statistics
Matches: 94, Mismatches: 9, Indels: 30
0.71 0.07 0.23
Matches are distributed among these distances:
3 14 0.15
4 57 0.61
5 17 0.18
6 6 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:8546594 original size:40 final size:38
Alignment explanation
Indices: 8546503--8546692 Score: 184
Period size: 38 Copynumber: 5.0 Consensus size: 38
8546493 AAATTATCTT
* *
8546503 TTCTTTTCTTCTTTTTT-TTCCTTCCTTCCCTCTTC-TT-C
1 TTCTTTT-TTCTTTTTTCTT-C-TCCTTTCCTTTTCTTTCC
8546541 TTCTTTTTT-TTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTCC
8546579 TTCTTTCTTTC-TTTTTCTTCTCCTTTCCTTTTC-TT-C
1 TTCTTT-TTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCC
*
8546615 TTCTTTCTTTCTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCC
1 TTCTTT-TTTC--TTTTT-TCTTCTCCTTTCCTTTTCTTTCC
*
8546657 TTC-TTTTTCTTTCTTTCCTCTCCTTT-C-TTTCTTTCC
1 TTCTTTTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTCC
8546693 CTCGCCTTCT
Statistics
Matches: 134, Mismatches: 5, Indels: 28
0.80 0.03 0.17
Matches are distributed among these distances:
36 37 0.28
37 9 0.07
38 46 0.34
39 13 0.10
40 21 0.16
41 4 0.03
42 4 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (38 bp):
TTCTTTTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCC
Found at i:8546619 original size:44 final size:43
Alignment explanation
Indices: 8546533--8546673 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 43
8546523 CTTCCTTCCC
* *
8546533 TCTTCTTCTTCTTT-TTTTTTTTCTCTTCTCCTTTCCTTTTC-
1 TCTTCTTTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCTTTTCT
*
8546574 T-TTC--CTTCTTTCTTTCTTTT-TCTTCTCCTTTCCTTTTCT
1 TCTTCTTTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCTTTTCT
*
8546613 TCTTC--TTTCTTTCTTT-TTTTCTCTTCTCCTTCCCTTTTCTT
1 TCTTCTTTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCTTTTC-T
8546654 TCCTTCTTTTTCTTTCTTTC
1 T-CTTCTTTTTCTTTCTTTC
8546674 CTCTCCTTTC
Statistics
Matches: 88, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
38 25 0.28
39 12 0.14
40 33 0.38
41 3 0.03
42 4 0.05
44 11 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (43 bp):
TCTTCTTTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCTTTTCT
Found at i:8546679 original size:78 final size:76
Alignment explanation
Indices: 8546533--8546683 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 76
8546523 CTTCCTTCCC
* * *
8546533 TCTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTTCTT
1 TCTTCTTCTTCTTTCTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTTTCTTTC-TTTTCCT
8546598 CTCCTTTCCTTT
65 CTCCTTTCCTTT
8546610 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTTTTTCTTTC-TTTC
1 TCTTCTTC-TTCTTTCTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTC--TTTCTTTCTTTTC
8546674 CTCTCCTTTC
63 CTCTCCTTTC
8546684 TTTCTTTCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
77 8 0.12
78 52 0.76
80 8 0.12
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (76 bp):
TCTTCTTCTTCTTTCTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTTTCTTTCTTTTCCTC
TCCTTTCCTTT
Found at i:8546702 original size:18 final size:18
Alignment explanation
Indices: 8546663--8546702 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8546653 TTCCTTCTTT
*
8546663 TTCTTTCTTTCCTCTCCT
1 TTCTTTCTTTCCTCTCCC
8546681 TTCTTTCTTTCC-CTCGCC
1 TTCTTTCTTTCCTCTC-CC
8546699 TTCT
1 TTCT
8546703 GGTCCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.00, C:0.40, G:0.03, T:0.57
Consensus pattern (18 bp):
TTCTTTCTTTCCTCTCCC
Found at i:8546772 original size:27 final size:27
Alignment explanation
Indices: 8546734--8546803 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
8546724 CCCTAATATA
8546734 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCT-TTGGCAC
8546761 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCTTTGGCAC
*
8546788 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
8546804 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGCAC
Found at i:8546811 original size:27 final size:27
Alignment explanation
Indices: 8546734--8546812 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
8546724 CCCTAATATA
*
8546734 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
*
8546761 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
* **
8546788 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
8546813 GTGACCAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:8546868 original size:11 final size:11
Alignment explanation
Indices: 8546854--8546884 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8546844 TTTTTTGCAG
8546854 GTTTTTTTTTT
1 GTTTTTTTTTT
*
8546865 GTTTGTTTTTT
1 GTTTTTTTTTT
8546876 GTTTTTTTT
1 GTTTTTTTT
8546885 ATATATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:8546923 original size:28 final size:28
Alignment explanation
Indices: 8546884--8546951 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
8546874 TTGTTTTTTT
8546884 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
* *
8546912 TATATTTTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
8546940 TA-ACATTTTGGT
1 TATATATTTTGGT
8546952 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.43
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:8548809 original size:19 final size:19
Alignment explanation
Indices: 8548782--8548842 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
8548772 ATTAAAATCT
8548782 ATAAAATTTAAATTTAATG
1 ATAAAATTTAAATTTAATG
* * *
8548801 ATAATATTT--ATTAAAATCT
1 ATAAAATTTAAATT-TAAT-G
8548820 ATAAAATTTAAATTTAATG
1 ATAAAATTTAAATTTAATG
8548839 ATAA
1 ATAA
8548843 TATAAATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 20 0.62
20 3 0.09
21 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
ATAAAATTTAAATTTAATG
Found at i:8548812 original size:38 final size:38
Alignment explanation
Indices: 8548764--8548845 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
8548754 TATATAAAGT
*
8548764 TAATAATTATTAAAATCTATAAAATTTAAATTTAATGA
1 TAATATTTATTAAAATCTATAAAATTTAAATTTAATGA
8548802 TAATATTTATTAAAATCTATAAAATTTAAATTTAATGA
1 TAATATTTATTAAAATCTATAAAATTTAAATTTAATGA
8548840 TAATAT
1 TAATAT
8548846 AAATTATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (38 bp):
TAATATTTATTAAAATCTATAAAATTTAAATTTAATGA
Found at i:8550619 original size:38 final size:38
Alignment explanation
Indices: 8550567--8550641 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
8550557 GGTACACAAC
*
8550567 TAATTCAAAAAAAATGACTCTATCTTTTCTAAAGATGG
1 TAATTCAAAAAAAATGACTCTATATTTTCTAAAGATGG
* *
8550605 TAATTCAAAGAAAATGACTTTATATTTTCTAAAGATG
1 TAATTCAAAAAAAATGACTCTATATTTTCTAAAGATG
8550642 TGATATTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (38 bp):
TAATTCAAAAAAAATGACTCTATATTTTCTAAAGATGG
Found at i:8551308 original size:28 final size:28
Alignment explanation
Indices: 8551250--8551308 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
8551240 CCACTACCTG
* *
8551250 CCCCCTGTGCCCCTCTGCCCCGCATAGC
1 CCCCCTGTGCCCCTCTGCCCCACATACC
* *
8551278 CCCCCTGTGCGCCTCTGCCTCACA-ACC
1 CCCCCTGTGCCCCTCTGCCCCACATACC
8551305 CCCC
1 CCCC
8551309 TGCACCCCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.08, C:0.59, G:0.15, T:0.17
Consensus pattern (28 bp):
CCCCCTGTGCCCCTCTGCCCCACATACC
Found at i:8551460 original size:3 final size:3
Alignment explanation
Indices: 8551452--8551493 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
8551442 GAGAGAAAGG
8551452 AGA AGA AGA AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
8551494 AGAAAGAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8551500 original size:20 final size:20
Alignment explanation
Indices: 8551426--8551501 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
8551416 GCACCCACCC
*
8551426 GAAGAGAGAAAGAAAGGAG-A
1 GAAGA-AGAAAGAAAGAAGAA
*
8551446 GAA-AGGAGAAG-AAGAAGAA
1 GAAGAAGA-AAGAAAGAAGAA
8551465 GAAGAAG-AAGAGAAGAAGAA
1 GAAGAAGAAAGA-AAGAAGAA
8551485 GAAGAAGAAAGAAAGAA
1 GAAGAAGAAAGAAAGAA
8551502 AGAAAAAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.21
19 8 0.17
20 25 0.53
21 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAAGAAAGAAGAA
Found at i:8551759 original size:60 final size:60
Alignment explanation
Indices: 8551666--8551784 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
8551656 AATTTTTTTA
* * *
8551666 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATGTTATAAATTATTGTGTTTG
8551726 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATGTTATAAATTATTGTGTTT
8551785 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATGTTATAAATTATTGTGTTTG
Found at i:8551874 original size:72 final size:72
Alignment explanation
Indices: 8551798--8551962 Score: 305
Period size: 72 Copynumber: 2.3 Consensus size: 72
8551788 TTAGTATTTG
*
8551798 GTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATT-TA
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTAT-
8551862 TGTGTTTT
65 TGTGTTTT
8551870 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTATT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTATT
8551935 GTGTTTT
66 GTGTTTT
8551942 GTGAGTTTTTAGTAATGTAAA
1 GTGAGTTTTTAGTAATGTAAA
8551963 TTTTTAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
72 90 0.99
73 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.54
Consensus pattern (72 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTATT
GTGTTTT
Found at i:8551882 original size:38 final size:38
Alignment explanation
Indices: 8551840--8551957 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
8551830 AAATATTTTG
8551840 TTAGTAATTTATTATAAATT-TATGTGTTTTGTGAGTTT
1 TTAGTAATTTATTATAAATTAT-TGTGTTTTGTGAGTTT
* * *** *
8551878 TTAGTAA--T-GTA-AAATTATTTTGTTAAAT-ATTTT
1 TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
8551911 GTTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
1 -TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
8551950 TTAGTAAT
1 TTAGTAAT
8551958 GTAAATTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
33 4 0.07
34 18 0.30
35 3 0.05
36 2 0.03
37 2 0.03
38 28 0.46
39 4 0.07
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (38 bp):
TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
Found at i:8551916 original size:34 final size:34
Alignment explanation
Indices: 8551806--8551919 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 34
8551796 TGGTGAGTTT
8551806 TTAGTAATATAAAATTATTTTGTTAAATATTTTG
1 TTAGTAATATAAAATTATTTTGTTAAATATTTTG
* *** *
8551840 TTAGTAATTTATTATAAATT-TATGTGTTTTGTGAGTTT-
1 TTAGTAA--TA-TA-AAATTAT-TTTGTTAAAT-ATTTTG
*
8551878 TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
1 TTAGTAATATAAAATTATTTTGTTAAATATTTTG
8551912 TTAGTAAT
1 TTAGTAAT
8551920 TTATTATAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
33 4 0.07
34 26 0.43
35 3 0.05
36 3 0.05
37 3 0.05
38 18 0.30
39 4 0.07
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (34 bp):
TTAGTAATATAAAATTATTTTGTTAAATATTTTG
Found at i:8552178 original size:106 final size:103
Alignment explanation
Indices: 8552053--8552334 Score: 361
Period size: 104 Copynumber: 2.7 Consensus size: 103
8552043 TTATAGTTAT
* * * *
8552053 TTATTTTGTTAATAATTTATGGGGTTAGG-T-TACAAATTGTTAGTGTTTAGTATAGAGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT-TAGTGTTTTGT
**
8552116 GATTTTTTAGTGATGTAAGTTTTTAAAAAAAATAATTTTATAG
63 GATTTTTTAGCAATGT-A-TTTTTAAAAAAAATAATTTTATAG
*
8552159 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTATGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTA-GTGTTTTGTGA
* *
8552224 TTTTTTAGCAATGTATTTTTTAAAAAATTAATTTTATAG
65 TTTTTTAGCAATGTATTTTTAAAAAAAATAATTTTATAG
* * * * *
8552263 TTATTCTATTAGTAATTTATGATTAGGTTATATAAATTATTTGTGTTTAGTTTAGTGTTTTGTGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAG-TTAGTGTTTTGTGA
8552328 TTTTTTA
65 TTTTTTA
8552335 ATGTACTTTT
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
104 90 0.57
105 7 0.04
106 60 0.38
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.54
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTAGTGTTTTGTGAT
TTTTTAGCAATGTATTTTTAAAAAAAATAATTTTATAG
Found at i:8552276 original size:104 final size:107
Alignment explanation
Indices: 8552086--8552334 Score: 364
Period size: 104 Copynumber: 2.4 Consensus size: 107
8552076 GTTAGGTTAC
* **
8552086 AAATTGTTAGTGTTTAG-TATAGAGTTTTGTGATTTTTTAGTGATGTAAGTTTTTAAAAAAAATA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTAAAAAAAATA
* *
8552150 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAT
66 ATTTTATAGTTATTCTATTAGTAATTTATGATTAGGTTATAT
* * *
8552192 AAATTGTTAGTGTTTAGTTAT-GTGTTTTATGATTTTTTAGCAATGT-A-TTTTTTAAAAAATTA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTAAAAAAAATA
8552254 ATTTTATAGTTATTCTATTAGTAATTTATGATTAGGTTATAT
66 ATTTTATAGTTATTCTATTAGTAATTTATGATTAGGTTATAT
* * *
8552296 AAATTATTTGTGTTTAGTT-TAGTGTTTTGTGTTTTTTTA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTA
8552335 ATGTACTTTT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
103 1 0.01
104 86 0.67
105 1 0.01
106 38 0.29
107 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.54
Consensus pattern (107 bp):
AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTAAAAAAAATA
ATTTTATAGTTATTCTATTAGTAATTTATGATTAGGTTATAT
Found at i:8564630 original size:23 final size:21
Alignment explanation
Indices: 8564580--8564619 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8564570 TTATATTTTT
*
8564580 AAGAAAATATAAAAAAATTTA
1 AAGAATATATAAAAAAATTTA
8564601 AAGAATATATAAAAAAATT
1 AAGAATATATAAAAAAATT
8564620 AATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
AAGAATATATAAAAAAATTTA
Found at i:8570727 original size:67 final size:67
Alignment explanation
Indices: 8570645--8570776 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
8570635 TGTTTCAGAA
* *
8570645 CTGTTGAAACCA-TTTTTTGTAAAAGAGGTCGACTTTTTTATTTAAAAACGAAAATGGAGTCGCC
1 CTGTCGAAACCATTTTTTTGTAAAAG-GGTCGACTTTTTTATTTAAAAACGAAAATAGAGTCGCC
8570709 ATG
65 ATG
*
8570712 CTGTCGAAACCATTTTTTTGTAAAAGGGTTGACTTTTTTATTTAAAAACGAAAATAGAGTCGCCA
1 CTGTCGAAACCATTTTTTTGTAAAAGGGTCGACTTTTTTATTTAAAAACGAAAATAGAGTCGCCA
8570777 CCAATCCTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 48 0.79
68 13 0.21
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (67 bp):
CTGTCGAAACCATTTTTTTGTAAAAGGGTCGACTTTTTTATTTAAAAACGAAAATAGAGTCGCCA
TG
Found at i:8572582 original size:24 final size:24
Alignment explanation
Indices: 8572555--8572601 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8572545 CTCTTTTGAA
* *
8572555 AAAATAAAAATAAATAAATAAAAC
1 AAAATAAAAAGAAAAAAATAAAAC
**
8572579 AAAATGGAAAGAAAAAAATAAAA
1 AAAATAAAAAGAAAAAAATAAAA
8572602 AGACCACCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (24 bp):
AAAATAAAAAGAAAAAAATAAAAC
Found at i:8585090 original size:27 final size:27
Alignment explanation
Indices: 8585052--8585111 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
8585042 AACAAAGATA
**
8585052 ATTTGATTAATGATTGATATTGTGCTT
1 ATTTGATTAATGATCAATATTGTGCTT
8585079 ATTTGATTAATGATCAATATTGTGCTT
1 ATTTGATTAATGATCAATATTGTGCTT
*
8585106 AATTGA
1 ATTTGA
8585112 CATTATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (27 bp):
ATTTGATTAATGATCAATATTGTGCTT
Found at i:8586070 original size:18 final size:20
Alignment explanation
Indices: 8586036--8586072 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8586026 TTTATTTATA
8586036 ATTTAAGAAAAATATAATTG
1 ATTTAAGAAAAATATAATTG
8586056 ATTT-AGAAAAA-ATAATT
1 ATTTAAGAAAAATATAATT
8586073 TATCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (20 bp):
ATTTAAGAAAAATATAATTG
Found at i:8589327 original size:9 final size:9
Alignment explanation
Indices: 8589315--8589340 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8589305 TTTATTTTTA
8589315 AAAATATTT
1 AAAATATTT
8589324 AAAATATTT
1 AAAATATTT
8589333 AAAATATT
1 AAAATATT
8589341 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:8595028 original size:21 final size:21
Alignment explanation
Indices: 8595004--8595043 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8594994 TTCATTCTAG
8595004 AATTATAGAAAA-CATAAAAAA
1 AATTATA-AAAATCATAAAAAA
8595025 AATTATAAAAATCATAAAA
1 AATTATAAAAATCATAAAA
8595044 TTTTGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AATTATAAAAATCATAAAAAA
Found at i:8595094 original size:12 final size:11
Alignment explanation
Indices: 8595068--8595118 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
8595058 TTAAAAAATA
8595068 AAAATAATTAG
1 AAAATAATTAG
*
8595079 AAAATAATTTAT
1 AAAATAA-TTAG
*
8595091 AAAATTTATTAG
1 AAAA-TAATTAG
*
8595103 AAATTAATTA-
1 AAAATAATTAG
8595113 AAAATA
1 AAAATA
8595119 TAAATTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.16
11 12 0.38
12 13 0.41
13 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AAAATAATTAG
Found at i:8595094 original size:24 final size:24
Alignment explanation
Indices: 8595065--8595111 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8595055 TTATTAAAAA
8595065 ATAAAAATAATTAGAAAATAATTT
1 ATAAAAATAATTAGAAAATAATTT
* * *
8595089 ATAAAATTTATTAGAAATTAATT
1 ATAAAAATAATTAGAAAATAATT
8595112 AAAAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAAAATAATTAGAAAATAATTT
Found at i:8595410 original size:6 final size:7
Alignment explanation
Indices: 8595392--8595417 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8595382 TTTAAAAAAT
8595392 ATTTTTA
1 ATTTTTA
8595399 ATTTTTA
1 ATTTTTA
8595406 ATTTTTA
1 ATTTTTA
8595413 ATTTT
1 ATTTT
8595418 GTTGACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:8596987 original size:21 final size:21
Alignment explanation
Indices: 8596963--8597002 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8596953 GTTACGAAAA
8596963 AAATAAAATATTTTTATAAAT
1 AAATAAAATATTTTTATAAAT
* *
8596984 AAATATATTATTTTTATAA
1 AAATAAAATATTTTTATAA
8597003 TATATATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATAAAATATTTTTATAAAT
Found at i:8598387 original size:34 final size:34
Alignment explanation
Indices: 8598348--8598436 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 34
8598338 CTCACAAGTG
* * *
8598348 AGGGTTTGCATAACATATAGGCTCGCATAGACTT
1 AGGGTTCGCATAACATATAGGCTCACATAGACCT
* * *
8598382 AGGGTTCACATAACATGTAGGCTCATATAGACCT
1 AGGGTTCGCATAACATATAGGCTCACATAGACCT
*
8598416 AGGGTTCGCATAATATATAGG
1 AGGGTTCGCATAACATATAGG
8598437 TTCAGACACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAGGCTCACATAGACCT
Found at i:8598715 original size:14 final size:14
Alignment explanation
Indices: 8598686--8598736 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
8598676 TGACTTGGAT
* *
8598686 ATATATTGAATCGC
1 ATATAATGACTCGC
*
8598700 ATTTAATGACTCGC
1 ATATAATGACTCGC
* *
8598714 ATATATTGACTAGC
1 ATATAATGACTCGC
8598728 ATATAATGA
1 ATATAATGA
8598737 TTTGCATGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (14 bp):
ATATAATGACTCGC
Found at i:8598751 original size:28 final size:28
Alignment explanation
Indices: 8598686--8598752 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
8598676 TGACTTGGAT
* * *
8598686 ATATATTGAATCGCATTTAATGACTCGC
1 ATATATTGACTAGCATATAATGACTCGC
* *
8598714 ATATATTGACTAGCATATAATGATTTGC
1 ATATATTGACTAGCATATAATGACTCGC
*
8598742 ATGTATTGACT
1 ATATATTGACT
8598753 CACATCTACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (28 bp):
ATATATTGACTAGCATATAATGACTCGC
Found at i:8601533 original size:46 final size:46
Alignment explanation
Indices: 8601430--8601607 Score: 117
Period size: 46 Copynumber: 3.9 Consensus size: 46
8601420 TTTTTTCCCT
* * * * * * * * *
8601430 GGTTTCGAGCACCTGCATATGTTCCGGGCTCAAGATTATATGAATA
1 GGTTTCGAGCTCCTTCATATGTTGCAGACTCGAGAATACAAGAATA
* *
8601476 GG-TTCTAAGCTCCTTCATATGTTGTAGACTCGAGAATACAAGAATA
1 GGTTTC-GAGCTCCTTCATATGTTGCAGACTCGAGAATACAAGAATA
* * * * * * **
8601522 GGTTTCGAGCTCCTACATGTGTTGCAAACTCAAGAATATAGGTTTA
1 GGTTTCGAGCTCCTTCATATGTTGCAGACTCGAGAATACAAGAATA
* ** *
8601568 GGTTTTGAGCT-CTTGCATATGTTGGGGACTTGAGAATACA
1 GGTTTCGAGCTCCTT-CATATGTTGCAGACTCGAGAATACA
8601608 TCAATATTAA
Statistics
Matches: 99, Mismatches: 30, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
45 5 0.05
46 91 0.92
47 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (46 bp):
GGTTTCGAGCTCCTTCATATGTTGCAGACTCGAGAATACAAGAATA
Found at i:8603635 original size:18 final size:18
Alignment explanation
Indices: 8603612--8603649 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
8603602 CTTTCCCTAG
8603612 ATGGTATTCGATTGTGTA
1 ATGGTATTCGATTGTGTA
8603630 ATGGTATTCGATTGTGTA
1 ATGGTATTCGATTGTGTA
8603648 AT
1 AT
8603650 CATAGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (18 bp):
ATGGTATTCGATTGTGTA
Found at i:8604260 original size:16 final size:16
Alignment explanation
Indices: 8604239--8604270 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8604229 ACATAACTTT
8604239 TTTGATCCAAATTCAC
1 TTTGATCCAAATTCAC
8604255 TTTGATCCAAATTCAC
1 TTTGATCCAAATTCAC
8604271 GCTTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
TTTGATCCAAATTCAC
Found at i:8611373 original size:2 final size:2
Alignment explanation
Indices: 8611368--8611412 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
8611358 TTTTATTCCG
*
8611368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA T- TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
8611410 TA T
1 TA T
8611413 GTTTTATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8611476 original size:25 final size:25
Alignment explanation
Indices: 8611428--8611476 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8611418 ATGTTTCTAA
*
8611428 TATTTTTTATAAATTTTAATTTTTT
1 TATTTTTTATAAATTATAATTTTTT
*
8611453 TATTTTTTATAGATTATATATTTT
1 TATTTTTTATAAATTATA-ATTTT
8611477 AGCTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TATTTTTTATAAATTATAATTTTTT
Found at i:8611509 original size:26 final size:25
Alignment explanation
Indices: 8611466--8611519 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
8611456 TTTTTATAGA
* *
8611466 TTATATATTTTAGCTTTTCATAATTT
1 TTATAAATTTTAGCTTTT-AAAATTT
**
8611492 TTATAAATTTTATTTTTTAAAATTT
1 TTATAAATTTTAGCTTTTAAAATTT
8611517 TTA
1 TTA
8611520 AATTATAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATAAATTTTAGCTTTTAAAATTT
Found at i:8612334 original size:57 final size:57
Alignment explanation
Indices: 8612247--8612404 Score: 167
Period size: 57 Copynumber: 2.8 Consensus size: 57
8612237 TTGGACAAAG
* * * * *
8612247 AAAAAAGTTCAAACCCTAA-TTGAGAACAATTGTTAAGTTTAGGGACTAACTTAAAT
1 AAAAAAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGGAACTAACTTAAAC
* * **
8612303 AAAAAAATTCAAACCCCAATTTGAGAACAATTG-CGAAGTTCAGGAATTAACTTGGAC
1 AAAAAAATTCAAACCCCAATTTGAGAACAATTGTC-AAGTTTAGGAACTAACTTAAAC
* * * *
8612360 AAAAGAAATTCAAGCCTCAATGTGAAAACAATTGTCAAGTTTAGG
1 AAAA-AAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGG
8612405 CCCCAAATAG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 17 0.20
57 33 0.39
58 33 0.39
59 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (57 bp):
AAAAAAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGGAACTAACTTAAAC
Found at i:8612912 original size:17 final size:14
Alignment explanation
Indices: 8612879--8612905 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8612869 AATTGTTGGA
8612879 TTGTTAAATTATTT
1 TTGTTAAATTATTT
8612893 TTGTTAAATTATT
1 TTGTTAAATTATT
8612906 AGTTTTGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTGTTAAATTATTT
Found at i:8621664 original size:25 final size:24
Alignment explanation
Indices: 8621636--8621707 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
8621626 GACATAAAAC
*
8621636 TAAGATTAGAACGTAGAACTTAG-CT
1 TAAG-TTAGAACTTAGAA-TTAGACT
* *
8621661 TAAGTTTGGAACTTAGGATTAGACT
1 TAAG-TTAGAACTTAGAATTAGACT
8621686 TAAGTTAAGAACTTAGAATTAG
1 TAAGTT-AGAACTTAGAATTAG
8621708 GTTTAGTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (24 bp):
TAAGTTAGAACTTAGAATTAGACT
Found at i:8621937 original size:15 final size:16
Alignment explanation
Indices: 8621917--8621950 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8621907 ACTTGAAATT
8621917 TGTTTTCT-GCTAACA
1 TGTTTTCTAGCTAACA
*
8621932 TGTTTTCTAGCTAATA
1 TGTTTTCTAGCTAACA
8621948 TGT
1 TGT
8621951 AAAGATCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.50
Consensus pattern (16 bp):
TGTTTTCTAGCTAACA
Found at i:8624586 original size:24 final size:24
Alignment explanation
Indices: 8624559--8624610 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8624549 TTAGTAAGTC
*
8624559 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8624583 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8624607 AAAT
1 AAAT
8624611 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8626554 original size:24 final size:24
Alignment explanation
Indices: 8626527--8626578 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8626517 TTAGTAAGTC
*
8626527 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8626551 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8626575 AAAT
1 AAAT
8626579 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8627309 original size:27 final size:27
Alignment explanation
Indices: 8627277--8627331 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
8627267 AGTTTTGGAA
8627277 TAATGATAAGGGTCCA-GTCAAAGTTTG
1 TAATGATAAGGGTCCAGGT-AAAGTTTG
8627304 TAATGATAAGGGTCCAGGTAAAGTTTG
1 TAATGATAAGGGTCCAGGTAAAGTTTG
8627331 T
1 T
8627332 TTGTTTGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (27 bp):
TAATGATAAGGGTCCAGGTAAAGTTTG
Found at i:8630304 original size:16 final size:16
Alignment explanation
Indices: 8630283--8630313 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8630273 TCTTCGCAGA
8630283 GTGAACCCATACATAC
1 GTGAACCCATACATAC
8630299 GTGAACCCATACATA
1 GTGAACCCATACATA
8630314 ATGCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (16 bp):
GTGAACCCATACATAC
Found at i:8631048 original size:6 final size:6
Alignment explanation
Indices: 8631037--8631071 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
8631027 TTATTTAAAA
8631037 TCTAAT TCTAAT TCTAAT TCTAAT TCTAA- TCTAAT
1 TCTAAT TCTAAT TCTAAT TCTAAT TCTAAT TCTAAT
8631072 CCCTTGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (6 bp):
TCTAAT
Found at i:8631786 original size:16 final size:16
Alignment explanation
Indices: 8631765--8631887 Score: 101
Period size: 16 Copynumber: 7.5 Consensus size: 16
8631755 AAGTGAACAA
8631765 AGCTCACACATAGTAT
1 AGCTCACACATAGTAT
* *
8631781 AGCTCACA-ATTCAGCAG
1 AGCTCACACA-T-AGTAT
8631798 AGCTCACACAT-GTTAT
1 AGCTCACACATAG-TAT
*
8631814 AGCTCACA-ATTCAGTAG
1 AGCTCACACA-T-AGTAT
*
8631831 AGCTCGCACATAGTAT
1 AGCTCACACATAGTAT
*
8631847 AGCTCACA-ATTCAGTAG
1 AGCTCACACA-T-AGTAT
*
8631864 AGCTCACACATATTAT
1 AGCTCACACATAGTAT
8631880 AGCTCACA
1 AGCTCACA
8631888 ATTTAACAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
15 4 0.05
16 42 0.49
17 35 0.41
18 4 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (16 bp):
AGCTCACACATAGTAT
Found at i:8631802 original size:33 final size:33
Alignment explanation
Indices: 8631765--8631890 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
8631755 AAGTGAACAA
*
8631765 AGCTCACACATAGTATAGCTCACAATTCAGCAG
1 AGCTCACACATAGTATAGCTCACAATTCAGTAG
8631798 AGCTCACACAT-GTTATAGCTCACAATTCAGTAG
1 AGCTCACACATAG-TATAGCTCACAATTCAGTAG
*
8631831 AGCTCGCACATAGTATAGCTCACAATTCAGTAG
1 AGCTCACACATAGTATAGCTCACAATTCAGTAG
*
8631864 AGCTCACACATATTATAGCTCACAATT
1 AGCTCACACATAGTATAGCTCACAATT
8631891 TAACAAAGCT
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (33 bp):
AGCTCACACATAGTATAGCTCACAATTCAGTAG
Found at i:8631803 original size:17 final size:17
Alignment explanation
Indices: 8631776--8631871 Score: 85
Period size: 17 Copynumber: 5.8 Consensus size: 17
8631766 GCTCACACAT
*
8631776 AGTATAGCTCACAATTC
1 AGTAGAGCTCACAATTC
*
8631793 AGCAGAGCTCAC-A--C
1 AGTAGAGCTCACAATTC
*
8631807 ATGTTATAGCTCACAATTC
1 A-G-TAGAGCTCACAATTC
*
8631826 AGTAGAGCTCGCACA-T-
1 AGTAGAGCTCACA-ATTC
*
8631842 AGTATAGCTCACAATTC
1 AGTAGAGCTCACAATTC
8631859 AGTAGAGCTCACA
1 AGTAGAGCTCACA
8631872 CATATTATAG
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 21 0.34
17 33 0.53
18 2 0.03
19 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (17 bp):
AGTAGAGCTCACAATTC
Found at i:8634589 original size:17 final size:17
Alignment explanation
Indices: 8634567--8634599 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8634557 CATTTTTTGT
*
8634567 TTTTTTTTTTCTTATTG
1 TTTTTTTTTTCATATTG
8634584 TTTTTTTTTTCATATT
1 TTTTTTTTTTCATATT
8634600 TTTAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTCATATTG
Found at i:8635341 original size:2 final size:2
Alignment explanation
Indices: 8635334--8635373 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8635324 NNNNNNNNNA
8635334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8635374 TTCCTCCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8637652 original size:18 final size:18
Alignment explanation
Indices: 8637629--8637663 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8637619 AAATAAAAAC
*
8637629 AACAGTAACCAACAACAA
1 AACAGTAACAAACAACAA
*
8637647 AACAGTAGCAAACAACA
1 AACAGTAACAAACAACA
8637664 GCAGGGACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.26, G:0.09, T:0.06
Consensus pattern (18 bp):
AACAGTAACAAACAACAA
Found at i:8639025 original size:57 final size:57
Alignment explanation
Indices: 8638933--8639048 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
8638923 AAACTACGTA
*
8638933 TTTAAAACATAGAGATAAGTTTTAAAATAATATACAATAAATAATGAAATATATGGT
1 TTTAAAACATAGAGATAAGTTTTAAAATAACATACAATAAATAATGAAATATATGGT
8638990 TTTAAAACATAGAGATAAGTTTTAAAATAACATACAATAAATAATGAAATATATGGT
1 TTTAAAACATAGAGATAAGTTTTAAAATAACATACAATAAATAATGAAATATATGGT
8639047 TT
1 TT
8639049 CAATTTCCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (57 bp):
TTTAAAACATAGAGATAAGTTTTAAAATAACATACAATAAATAATGAAATATATGGT
Found at i:8639585 original size:47 final size:48
Alignment explanation
Indices: 8639533--8639627 Score: 120
Period size: 52 Copynumber: 1.9 Consensus size: 48
8639523 AATTTTAATC
* *
8639533 AACTAAAG-TATAATAATAATGGGAATTAAATTATATCAAATTATTTG
1 AACTAAAGATATAATAATAATGGGAACTAAATTATATAAAATTATTTG
*
8639580 AACTAAAGCATAATATAATAATAATGGTAACTAAATTATATAAAATTA
1 AACTAAAG----ATATAATAATAATGGGAACTAAATTATATAAAATTA
8639628 AATTTGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
47 8 0.20
52 32 0.80
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (48 bp):
AACTAAAGATATAATAATAATGGGAACTAAATTATATAAAATTATTTG
Found at i:8651039 original size:17 final size:18
Alignment explanation
Indices: 8651017--8651051 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
8651007 TAAAATCTTA
8651017 TTATAAATAT-AATATAT
1 TTATAAATATAAATATAT
8651034 TTATAAATATAAATATAT
1 TTATAAATATAAATATAT
8651052 GTTTGATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAAATATAAATATAT
Found at i:8651719 original size:24 final size:24
Alignment explanation
Indices: 8651692--8651740 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
8651682 CTTCTCTGAT
*
8651692 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
8651716 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
8651740 A
1 A
8651741 AGTCCACGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:8653090 original size:18 final size:19
Alignment explanation
Indices: 8653067--8653105 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
8653057 TGTTGGAAAT
8653067 TTTGACTTGG-ATTTTGAC
1 TTTGACTTGGAATTTTGAC
8653085 TTTGACTTGGAATTTTGAC
1 TTTGACTTGGAATTTTGAC
8653104 TT
1 TT
8653106 AAGTGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.51
Consensus pattern (19 bp):
TTTGACTTGGAATTTTGAC
Found at i:8663172 original size:172 final size:172
Alignment explanation
Indices: 8662845--8663356 Score: 830
Period size: 172 Copynumber: 3.0 Consensus size: 172
8662835 ATGGCCAAAC
* * *
8662845 CACATGAAAATCATGCCCAAACATTACCACATCATTCCAACATGAATCAAAACATTAATAATAAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAATAAA
*
8662910 TAATTAAACTCATTTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTT
66 TATTTAAACTCA-TTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTT
8662975 TAGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
130 TAGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
** * *
8663018 CGTATGAAAATCATGTCTAAACATTACCAAATCATTCCAGCATGAATCAAAACATTAAAAATAAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAATAAA
* * *
8663083 TATTTAAACTCATTTGGAATAAAACATGACATAAACATATTCAAATCGGAATGGAATAAATTTTA
66 TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTTT
*
8663148 AGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGTCATT
131 AGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
8663190 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAA-AAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAATAAA
* *
8663254 TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAACCAG-ATCGACATAAATTTT
66 TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGA-ATAAATTTT
* * *
8663318 TAGCTAAACAAATTCCAAAAATAAATAATCCAAGACAAG
130 TAGCTAAAC-AATTTCAAAAACAAATAATCCAAAACAAG
8663357 TTTTCCACAT
Statistics
Matches: 313, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
170 4 0.01
171 66 0.21
172 174 0.56
173 69 0.22
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (172 bp):
CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAATAAA
TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTTT
AGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
Found at i:8685080 original size:19 final size:19
Alignment explanation
Indices: 8685056--8685102 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
8685046 AAATTTCCTC
8685056 TTTCTTATTCATGTAAACG
1 TTTCTTATTCATGTAAACG
8685075 TTTCTTATTCATGTAAACG
1 TTTCTTATTCATGTAAACG
8685094 TTTCTTATT
1 TTTCTTATT
8685103 GGAATACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTCTTATTCATGTAAACG
Found at i:8685847 original size:29 final size:29
Alignment explanation
Indices: 8685805--8685935 Score: 192
Period size: 29 Copynumber: 4.5 Consensus size: 29
8685795 TAGGTGTTCA
8685805 TTTTGACAGAGATAGCCACAAA-GACATCC
1 TTTTGACAGAGATAGCCACAAATG-CATCC
*
8685834 TTTTGACAGAGATAGGCACAAATGCATCC
1 TTTTGACAGAGATAGCCACAAATGCATCC
* *
8685863 TTTTGACAGAGACAGCCACAAATGTATCC
1 TTTTGACAGAGATAGCCACAAATGCATCC
* * *
8685892 TTTTGACAAAGATAGTCAGAAATGCATCC
1 TTTTGACAGAGATAGCCACAAATGCATCC
8685921 TTTTGACAGAGATAG
1 TTTTGACAGAGATAG
8685936 ACATAAAGGC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 90 0.99
30 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (29 bp):
TTTTGACAGAGATAGCCACAAATGCATCC
Found at i:8686025 original size:29 final size:29
Alignment explanation
Indices: 8685990--8686084 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
8685980 TATGGAAACT
8685990 GCCACAAAGGCACTTCTTTAACAGAGATA
1 GCCACAAAGGCACTTCTTTAACAGAGATA
8686019 GCCACAAAGGCTCAC-T-TTTAACTA-AGATA
1 GCCACAAAGG--CACTTCTTTAAC-AGAGATA
* *
8686048 GCCACAAAGGCA-TCCTTT--CAGAGTTA
1 GCCACAAAGGCACTTCTTTAACAGAGATA
8686074 GCCACAAAGGC
1 GCCACAAAGGC
8686085 TCACTTATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
25 1 0.02
26 16 0.28
27 2 0.03
28 3 0.05
29 31 0.53
30 2 0.03
31 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (29 bp):
GCCACAAAGGCACTTCTTTAACAGAGATA
Found at i:8721325 original size:22 final size:20
Alignment explanation
Indices: 8721284--8721325 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8721274 TCATTGTAGA
*
8721284 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
8721304 GAAATTGATAGATATTAAGCTT
1 GAAATTGAT-GA-ATTAAGCTT
8721326 AGATAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:8733928 original size:16 final size:17
Alignment explanation
Indices: 8733901--8733933 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8733891 GTGGTATGAA
*
8733901 TTTCTCTTAATTTTCTC
1 TTTCTCTTAATTCTCTC
8733918 TTTCT-TTAATTCTCTC
1 TTTCTCTTAATTCTCTC
8733934 ATCTCAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCTCTTAATTCTCTC
Found at i:8748470 original size:5 final size:5
Alignment explanation
Indices: 8748460--8748507 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
8748450 TGAATATAAC
*
8748460 ATATA ATATA ATATA ATATA A-AAA ATATA ATA-A CATATA A-ATA A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA ATATA
8748507 A
1 A
8748508 ACAATAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 12 0.32
5 25 0.66
6 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (5 bp):
ATATA
Done.