Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 195 of 297
Found at i:66158967 original size:21 final size:21
Alignment explanation
Indices: 66158941--66159010 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
66158931 AAGACACGTG
66158941 ACTTCAATCAATTCCACTGAA
1 ACTTCAATCAATTCCACTGAA
** ** *
66158962 ACTTCAAGGAGA-TCTGCTGTA
1 ACTTCAATCA-ATTCCACTGAA
* *
66158983 GCTTCGATCAATTCCACTGAA
1 ACTTCAATCAATTCCACTGAA
66159004 ACTTCAA
1 ACTTCAA
66159011 GGAGATCTGC
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (21 bp):
ACTTCAATCAATTCCACTGAA
Found at i:66159000 original size:42 final size:42
Alignment explanation
Indices: 66158942--66159028 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
66158932 AGACACGTGA
66158942 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
66158984 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
66159026 CTT
1 CTT
66159029 TTAGCTGCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:66159743 original size:43 final size:44
Alignment explanation
Indices: 66159674--66159760 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
66159664 GGGAGACAAA
* *
66159674 ATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAG
1 ATCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAG
* * * *
66159718 ATCTGTAAATTT-AACCTGTTACCCTACTGCTTATGGGTTTAAG
1 ATCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAG
66159761 GCTTGGTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (44 bp):
ATCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAG
Found at i:66172162 original size:289 final size:289
Alignment explanation
Indices: 66171643--66172220 Score: 1102
Period size: 289 Copynumber: 2.0 Consensus size: 289
66171633 AATGATAACT
66171643 AACGATAATAATAATAACATGAATAATAATAGTATAATGTAAATATGAAGAAATGGGGAACATAT
1 AACGATAATAATAATAACATGAATAATAATAGTATAATGTAAATATGAAGAAATGGGGAACATAT
66171708 ATATGTAAAAAGCGTAGTACTAGACTAAAAAATAATATTTATTGAAAACAGTTATATAAATACAA
66 ATATGTAAAAAGCGTAGTACTAGACTAAAAAATAATATTTATTGAAAACAGTTATATAAATACAA
*
66171773 TAGTAACTAAATAATAACAATACATAAATACATACATGCAAGTATTGAAATATATACGTAATAAT
131 TAGTAACTAAATAATAACAATACATAAATACATACATGCAAGTATCGAAATATATACGTAATAAT
66171838 AGAAATAATAATAAAAATATACGTGGTATTAAAATATATGTACATGATATAGTTTTAAGAATATG
196 AGAAATAATAATAAAAATATACGTGGTATTAAAATATATGTACATGATATAGTTTTAAGAATATG
66171903 CACAACATGCATGGTATTAAAAATGGTAC
261 CACAACATGCATGGTATTAAAAATGGTAC
*
66171932 AACGATAATAATAATAACATGAATAATAATAGTATAATGTAAATATGAAGTAATGGGGAACATAT
1 AACGATAATAATAATAACATGAATAATAATAGTATAATGTAAATATGAAGAAATGGGGAACATAT
*
66171997 ATATGTAAAAAGCGTAGTACTAGACTAAAAAATAATATTTATTGAAAACAGTTATATATATACAA
66 ATATGTAAAAAGCGTAGTACTAGACTAAAAAATAATATTTATTGAAAACAGTTATATAAATACAA
*
66172062 TAGTAATTAAATAATAACAATACATAAATACATACATGCAAGTATCGAAATATATACGTAATAAT
131 TAGTAACTAAATAATAACAATACATAAATACATACATGCAAGTATCGAAATATATACGTAATAAT
*
66172127 AGAAATAATAATAAAAATATACGTGGTATTAAAATATATGTGCATGATATAGTTTTAAGAATATG
196 AGAAATAATAATAAAAATATACGTGGTATTAAAATATATGTACATGATATAGTTTTAAGAATATG
*
66172192 TACAACATGCATGGTATTAAAAATGGTAC
261 CACAACATGCATGGTATTAAAAATGGTAC
66172221 TAAAAAAACA
Statistics
Matches: 283, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
289 283 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (289 bp):
AACGATAATAATAATAACATGAATAATAATAGTATAATGTAAATATGAAGAAATGGGGAACATAT
ATATGTAAAAAGCGTAGTACTAGACTAAAAAATAATATTTATTGAAAACAGTTATATAAATACAA
TAGTAACTAAATAATAACAATACATAAATACATACATGCAAGTATCGAAATATATACGTAATAAT
AGAAATAATAATAAAAATATACGTGGTATTAAAATATATGTACATGATATAGTTTTAAGAATATG
CACAACATGCATGGTATTAAAAATGGTAC
Found at i:66172396 original size:3 final size:3
Alignment explanation
Indices: 66172390--66172431 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
66172380 ACACTACTAT
* *
66172390 ATA ATA ATA ATA ATA ATA GTG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66172432 TAGAAATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:66172551 original size:3 final size:3
Alignment explanation
Indices: 66172537--66172662 Score: 57
Period size: 3 Copynumber: 42.0 Consensus size: 3
66172527 AAATATACAC
* * *
66172537 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA TAT TAA -AA GCTAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA
* ** *
66172584 TAA TAC TATA TAA T-A TAA TATA TATA TAA GCA TCA -AA TAA -AA TAA
1 TAA TAA TA-A TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
* * * *
66172629 TAA TAA T-A GAA CAC TAA TAA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66172663 CAGTAATAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
2 10 0.11
3 70 0.75
4 12 0.13
5 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66172605 original size:12 final size:13
Alignment explanation
Indices: 66172537--66172612 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 13
66172527 AAATATACAC
66172537 TAATATATAATAA
1 TAATATATAATAA
66172550 TAATAGTAATAATAA
1 TAATA-T-ATAATAA
66172565 TAATAT-TAA-AA
1 TAATATATAATAA
**
66172576 -GCTAT-TAATAA
1 TAATATATAATAA
*
66172587 TACTATATAAT-A
1 TAATATATAATAA
66172599 TAATATATATATAA
1 TAATATATA-ATAA
66172613 GCATCAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
12 16 0.31
13 11 0.21
14 3 0.06
15 12 0.23
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:66172664 original size:23 final size:25
Alignment explanation
Indices: 66172622--66172672 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
66172612 AGCATCAAAT
66172622 AAAATAATAATAATAGAACACTAATA
1 AAAATAATAATAATA-AACACTAATA
*
66172648 AAAAT-ATAATAAT-AACAGTAATA
1 AAAATAATAATAATAAACACTAATA
66172671 AA
1 AA
66172673 TGTAATAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATAATAATAAACACTAATA
Found at i:66173290 original size:15 final size:16
Alignment explanation
Indices: 66173272--66173301 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66173262 ATTTTTCTCC
66173272 TTTTTTAT-TTTTTAT
1 TTTTTTATGTTTTTAT
66173287 TTTTTTATGTTTTTA
1 TTTTTTATGTTTTTA
66173302 ATATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTTATGTTTTTAT
Found at i:66174069 original size:22 final size:22
Alignment explanation
Indices: 66174041--66174085 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
66174031 CAAAAGCATA
66174041 TATAGGGGACTTAGTCATTTTG
1 TATAGGGGACTTAGTCATTTTG
*
66174063 TATAGGGGACTTGGTCATTTTG
1 TATAGGGGACTTAGTCATTTTG
66174085 T
1 T
66174086 TATGTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.42
Consensus pattern (22 bp):
TATAGGGGACTTAGTCATTTTG
Found at i:66180973 original size:15 final size:14
Alignment explanation
Indices: 66180947--66180977 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
66180937 TATGGTTTTA
66180947 TATTAGATTATTAT
1 TATTAGATTATTAT
66180961 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
66180976 TA
1 TA
66180978 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:66188168 original size:16 final size:16
Alignment explanation
Indices: 66188147--66188177 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66188137 GATATTTTAA
66188147 TATATTATATTAATAT
1 TATATTATATTAATAT
*
66188163 TATATTATGTTAATA
1 TATATTATATTAATA
66188178 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:66188274 original size:12 final size:12
Alignment explanation
Indices: 66188257--66188287 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
66188247 GAAGCAGGGG
66188257 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
66188269 AGAAAAAGGGAA
1 AGAAAAAGAGAA
66188281 AGAAAAA
1 AGAAAAA
66188288 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:66193247 original size:21 final size:21
Alignment explanation
Indices: 66193222--66193262 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
66193212 GAAACGTATG
66193222 GAAGAACACAAAGAAACAAAA
1 GAAGAACACAAAGAAACAAAA
*
66193243 GAAGAACATAAAGAAACAAA
1 GAAGAACACAAAGAAACAAA
66193263 TGTGAAACAT
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:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (21 bp):
GAAGAACACAAAGAAACAAAA
Found at i:66195612 original size:43 final size:44
Alignment explanation
Indices: 66195551--66195638 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 44
66195541 CTAGTAAAAC
*
66195551 TAGAGTTTCCAGGGTAAATAGTATAAAT-CTTAAAAGATAAAGA
1 TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
*
66195594 TAGAGTTTTCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
1 TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
66195638 T
1 T
66195639 TGTATAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (44 bp):
TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
Found at i:66196867 original size:197 final size:197
Alignment explanation
Indices: 66196532--66196916 Score: 621
Period size: 197 Copynumber: 2.0 Consensus size: 197
66196522 CTGTTTTCCA
* * *
66196532 TACTTGATGCCTTTTAATGCTCAAAAATTGTTTTTCATACTTGAAGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* * * *
66196597 ACTGCTATTGATTGGCAACCATTTTTAGATTGCATCTGTATGGAAAAGTTGTTGGTACCCTACGA
66 ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTCTTGGTACCCTACAA
66196662 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
131 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
66196727 CT
196 CT
*
66196729 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAGGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* * * *
66196794 TA-TGTTTTTGA-TGGTCAACTATTTTCAGATTGCATCTATATGGAAAAGTTCTTGGTACCTTAC
66 -ACTGCTATTGATTGG-CAACCATTTTCAGATTGCATCTATATGGAAAAGTTCTTGGTACCCTAC
*
66196857 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAGTAAGTCAATACATG
129 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATG
66196917 AATATTCCTT
Statistics
Matches: 173, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
196 3 0.02
197 169 0.98
198 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (197 bp):
TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTCTTGGTACCCTACAA
TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
CT
Found at i:66206692 original size:47 final size:44
Alignment explanation
Indices: 66206572--66206744 Score: 118
Period size: 46 Copynumber: 3.8 Consensus size: 44
66206562 TCACTTGTGT
* *
66206572 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTAAGA
* * *
66206618 GAGCCAGTGTAGGACTATGTTTGGGACATGGCATCAG-CATTAAGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCATTAAGA
* * **
66206663 CGAGTGCTAGTGTAAGACATGTCTAGGACACGC-TCCAGCC-TCGAGA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCAT-CAGCCATTAAGA
* * *
66206709 CGTAAGCCAATATAAGACATGTCTGGGACATGCATC
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGCATC
66206745 GGCTACAAGA
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
45 8 0.08
46 50 0.50
47 24 0.24
48 18 0.18
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTAAGA
Found at i:66221131 original size:21 final size:22
Alignment explanation
Indices: 66221105--66221145 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66221095 CTCTTAACAC
66221105 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
66221126 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
66221146 ACATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:66231667 original size:58 final size:57
Alignment explanation
Indices: 66231529--66231672 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 57
66231519 TATCATATTA
* *
66231529 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATTCTCAGAAGAGCTTAAT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCCCAGAAGAGCTTAAT
* * * *
66231586 TAGGATTACCAGTCCAGGTTAAATCC-TTATTGTATCATATGCCCGAGAGGAG-TTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTA-TGTAACATATGCCC-AGAAGAGCTTA-AT
* **
66231644 CAGGATTACCTGTCTGGGCTAAATCCTTT
1 CAGGATTACCAGTCCAGGCTAAATCCTTT
66231673 CTATAATGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 3 0.04
57 38 0.53
58 29 0.40
59 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCCCAGAAGAGCTTAAT
Found at i:66253851 original size:16 final size:18
Alignment explanation
Indices: 66253825--66253862 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66253815 TTTAATTTGA
66253825 TTTTCTCTCTCCTCCAGC
1 TTTTCTCTCTCCTCCAGC
66253843 TTTTCTCTCTCCTCCAGC
1 TTTTCTCTCTCCTCCAGC
66253861 TT
1 TT
66253863 CTATTCCTTG
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:0.05, C:0.42, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTCTCTCTCCTCCAGC
Found at i:66254107 original size:11 final size:11
Alignment explanation
Indices: 66254091--66254115 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66254081 TTATATATAC
66254091 TAATAAAATAA
1 TAATAAAATAA
66254102 TAATAAAATAA
1 TAATAAAATAA
66254113 TAA
1 TAA
66254116 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:66254420 original size:31 final size:30
Alignment explanation
Indices: 66254385--66254443 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
66254375 CACCCTTAAA
*
66254385 ATATTTGCACTGTT-AGCCCTTCAAATTTTTC
1 ATATTTACACT-TTAAGCCC-TCAAATTTTTC
*
66254416 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAAGCCCTCAAATTTT
66254444 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAAGCCCTCAAATTTTTC
Found at i:66258468 original size:18 final size:18
Alignment explanation
Indices: 66258431--66258469 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66258421 TTGGAAATCA
*
66258431 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
66258449 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
66258467 AAA
1 AAA
66258470 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:66267908 original size:6 final size:6
Alignment explanation
Indices: 66267897--66268083 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
66267887 AACCAAAATG
*
66267897 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
66267945 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
66267994 AGAATC A-ATAAC AGAATC AAAATC AGAATC AGTATT AGTAA-C AAAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
66268042 AGAATC AGAATC AGAATT ACGTAA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
66268084 GTGAATGCAA
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 11 0.07
6 123 0.84
7 9 0.06
8 4 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:66267912 original size:30 final size:30
Alignment explanation
Indices: 66267897--66268083 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
66267887 AACCAAAATG
*
66267897 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
66267927 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
66267957 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
66267988 AGAATCAGAATC---A--A-TAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* * *
66268012 AAAATCAGAATCAGTATTAGTAACAAAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
66268042 AGAATCAGAATCAGAATTACGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
66268073 AGAATCAGAAT
1 AGAATCAGAAT
66268084 GTGAATGCAA
Statistics
Matches: 139, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
24 20 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 70 0.50
31 44 0.32
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:66267997 original size:85 final size:85
Alignment explanation
Indices: 66267897--66268083 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
66267887 AACCAAAATG
* * *
66267897 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAAAATCAGAATCAATATTAGTAACAAAATCAGAAT
* *
66267962 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTAAC
*
66267982 AGAATCAGAATCAGAATCAATAACAGAATCAAAATCAGAATCAGTATTAGTAACAAAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAAAATCAGAATCAATATTAGTAACAAAATCAGAAT
66268047 CAGAATCAGAATTACGTAAC
66 CAGAATCAGAATTACGTAAC
66268067 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
66268084 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAAAATCAGAATCAATATTAGTAACAAAATCAGAAT
CAGAATCAGAATTACGTAAC
Found at i:66268238 original size:27 final size:26
Alignment explanation
Indices: 66268201--66268266 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
66268191 AGCATGGCTG
*
66268201 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
66268227 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
*
66268254 CCACAATCAGATA
1 CCAGAA-CAGATA
66268267 ATGTTGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:66268487 original size:22 final size:22
Alignment explanation
Indices: 66268439--66268497 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
66268429 GTAAATACGT
*
66268439 TTGGCACGAAGCCATAGTTAAG
1 TTGGCACAAAGCCATAGTTAAG
* * *
66268461 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTTAAG
* *
66268483 TTGGCATAGAGCCAT
1 TTGGCACAAAGCCAT
66268498 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTTAAG
Found at i:66268664 original size:27 final size:26
Alignment explanation
Indices: 66268585--66268667 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
66268575 TCGATCGGTC
* * *
66268585 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
66268611 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
66268638 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
66268665 AAC
1 AAC
66268668 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:66268896 original size:27 final size:27
Alignment explanation
Indices: 66268866--66269061 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
66268856 GGGGCAAAAT
* * * *
66268866 GGTAATTTTACCCCACACGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66268893 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66268920 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66268947 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66268974 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66269001 AGTAATTCTACCCTATAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
66269028 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66269055 AGTAATT
1 GGTAATT
66269062 TCACAATCAA
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66269105 original size:27 final size:27
Alignment explanation
Indices: 66269066--66269610 Score: 711
Period size: 27 Copynumber: 20.2 Consensus size: 27
66269056 GTAATTTCAC
* *
66269066 AATCAAGGCTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269093 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269120 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
66269147 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269174 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
66269201 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269228 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
66269255 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * **
66269282 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66269309 AATCGAAGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269336 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269363 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
66269390 AATCGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269417 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
66269444 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269471 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269498 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
66269525 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
66269552 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269579 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66269606 AATCG
1 AATCG
66269611 GGAGTACTTT
Statistics
Matches: 448, Mismatches: 62, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.02
27 435 0.97
28 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:66271711 original size:6 final size:6
Alignment explanation
Indices: 66271700--66271861 Score: 147
Period size: 6 Copynumber: 26.8 Consensus size: 6
66271690 AACCAAAATG
*
66271700 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
66271748 AGTAA-C AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
66271797 AGAATC A-ATAAC AGAATC AGAATC AGAATC AGTATT AGTAA-C AAAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
66271845 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
66271862 TAAGTGACAG
Statistics
Matches: 127, Mismatches: 16, Indels: 26
0.75 0.09 0.15
Matches are distributed among these distances:
5 9 0.07
6 109 0.86
7 7 0.06
8 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:66271715 original size:30 final size:30
Alignment explanation
Indices: 66271700--66271886 Score: 235
Period size: 30 Copynumber: 6.4 Consensus size: 30
66271690 AACCAAAATG
*
66271700 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
66271730 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* *
66271760 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
66271791 AGAATCAGAATC---A--A-TAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
66271815 AGAATCAGAATCAGTATTAGTAACAAAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
66271845 AGAATCAGAATCAGAATTAAGTGACAGAATC
1 AGAATCAGAATCAGAATT-AGTAACAGAATC
*
66271876 AAAATCAGAAT
1 AGAATCAGAAT
66271887 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
24 21 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 69 0.50
31 42 0.31
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:66271800 original size:85 final size:85
Alignment explanation
Indices: 66271700--66271886 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
66271690 AACCAAAATG
* *
66271700 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
*
66271765 CAAAATCAGAATTAGGTGAC
66 CAAAATCAGAATTAAGTGAC
*
66271785 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAAAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
*
66271850 CAGAATCAGAATTAAGTGAC
66 CAAAATCAGAATTAAGTGAC
*
66271870 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
66271887 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
CAAAATCAGAATTAAGTGAC
Found at i:66272041 original size:27 final size:26
Alignment explanation
Indices: 66272004--66272069 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
66271994 AGCATGGCTG
*
66272004 CCAGAACAGATATCGTAACAGAGTCA
1 CCAGAACAGATATCGTAACAGAGCCA
* **
66272030 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTAACAGAGCCA
66272057 CCAGAATCAGATA
1 CCAGAA-CAGATA
66272070 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTAACAGAGCCA
Found at i:66272074 original size:27 final size:27
Alignment explanation
Indices: 66272022--66272077 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
66272012 GATATCGTAA
* *
66272022 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGTGG
66272049 CAGAGCCACCAGA-ATCAGATAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGTGG
66272076 CA
1 CA
66272078 AACCCACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGTGG
Found at i:66272084 original size:27 final size:27
Alignment explanation
Indices: 66272028--66272085 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
66272018 GTAACAGAGT
* * *
66272028 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
66272055 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
66272082 CACC
1 CACC
66272086 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:66272290 original size:22 final size:22
Alignment explanation
Indices: 66272242--66272300 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
66272232 GTAAATACGT
*
66272242 TTGGCACGAAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* * * *
66272264 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAATCAAG
*
66272286 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
66272301 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:66272427 original size:27 final size:26
Alignment explanation
Indices: 66272388--66272471 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
66272378 TCGATCGGTC
*
66272388 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAA
* *
66272414 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAA
* * *
66272441 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAA
66272468 AACA
1 AACA
66272472 CTCCCTCCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAA
Found at i:66272699 original size:27 final size:27
Alignment explanation
Indices: 66272669--66272864 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
66272659 GGGGCAAAAT
* *
66272669 GGTAATTTTACTCC-ACAAGGGTATCTC
1 GGTAATTCTAC-CCTACAAGGGTATTTC
*
66272696 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
66272723 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
66272750 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
66272777 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
66272804 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
66272831 AGAAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
66272858 AGTAATT
1 GGTAATT
66272865 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 143 0.98
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:66272905 original size:27 final size:27
Alignment explanation
Indices: 66272869--66273413 Score: 614
Period size: 27 Copynumber: 20.2 Consensus size: 27
66272859 GTAATTTCAC
* *
66272869 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66272896 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66272923 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTATA
* * * *
66272950 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
66272977 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
66273004 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66273031 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * *
66273058 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
66273085 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66273112 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66273139 AA-CTGTGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* ** * *
66273166 AATCGAAGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
66273193 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* ** *
66273220 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66273247 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
66273274 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
66273301 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
66273328 AATTGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66273355 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66273382 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
66273409 AATCG
1 AATCG
66273414 GGAGTACTTT
Statistics
Matches: 438, Mismatches: 70, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 7 0.02
27 423 0.97
28 8 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:66273430 original size:54 final size:55
Alignment explanation
Indices: 66272874--66273412 Score: 686
Period size: 54 Copynumber: 10.0 Consensus size: 55
66272864 TTCACAATCA
66272874 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTATAAATCTG
* * * *
66272928 AGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTACAAATC-G
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * *
66272982 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * * *
66273036 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTACAAATC-G
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* *
66273090 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * * * *
66273144 TGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATAGTAATTTTACAAATC-G
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * * *
66273198 AGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * *
66273252 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATC-G
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* * * * * *
66273306 AGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTTTAAAAATC-A
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
* *
66273360 AGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATC
66273413 GGGAGTACTT
Statistics
Matches: 419, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
53 7 0.02
54 403 0.96
55 9 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (55 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCTG
Found at i:66273444 original size:108 final size:108
Alignment explanation
Indices: 66272857--66273413 Score: 811
Period size: 108 Copynumber: 5.2 Consensus size: 108
66272847 AGAGGTATTT
* * *
66272857 CAGTAATTTCAC-AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCT
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCT
* *
66272920 ATAAACTGAGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAA
65 GTAAACTGAGGGTAAAAC-GGTAATTCTGTAAATCAAGGGTAAAA
*
66272964 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
* *
66273029 TAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
66 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
*
66273072 TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
*
66273137 TAAACTGTGGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAA
66 TAAACTGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAA
* * *
66273180 TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
*
66273245 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
66 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* * * * *
66273288 CGGTAATTTTACAAATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAACAGTAATT-T-
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
* *
66273351 TAAAAATCAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
66 T-AAACT-GAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* * *
66273396 CGGTAATTCTATAAATCG
1 CAGTAATTTTACAAATCG
66273414 GGAGTACTTT
Statistics
Matches: 415, Mismatches: 28, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
106 1 0.00
107 17 0.04
108 391 0.94
109 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (108 bp):
CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
TAAACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
Found at i:66276284 original size:40 final size:40
Alignment explanation
Indices: 66276247--66276431 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
66276237 GCTACTCGTT
*
66276247 CAAATGCCTTCGGGACATAGCCCGG-TTAAAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-AAGTAACTCGCA
* *
66276287 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAAGTAACTCGCA
* * *
66276327 CCAATGCCTTCAGG-CTTAGCCCGGAATT-AGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAAGTAACTCGCA
* * * *
66276366 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTA-AGTAAC-TCGCA
66276407 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66276432 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 78 0.63
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAAGTAACTCGCA
Found at i:66276361 original size:39 final size:40
Alignment explanation
Indices: 66276276--66276384 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
66276266 GCCCGGTTAA
* *
66276276 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATT
* *
66276316 AGTAACTCGCACCAATGCCTTCAGG-CTTAGCCCGGAATT
1 AGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATT
*
66276355 AGTAACTCACACAAATGCCTTC-GGATCTTA
1 AGTAACTCGCACAAATGCCTTCAGGA-CTTA
66276385 GTCCGGATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.52
40 27 0.44
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
AGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATT
Found at i:66276415 original size:79 final size:80
Alignment explanation
Indices: 66276276--66276431 Score: 192
Period size: 79 Copynumber: 2.0 Consensus size: 80
66276266 GCCCGGTTAA
* * * *
66276276 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCAGG
1 AGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCAGG
66276341 -CTTAGCCCGGAATT
66 ACTTAGCCCGGAATT
** * * *
66276355 AGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCG
1 AGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCA
66276418 GGACTTAGCCCGGA
64 GGACTTAGCCCGGA
66276432 CATCATTCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 47 0.72
80 15 0.23
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCAGG
ACTTAGCCCGGAATT
Found at i:66285232 original size:15 final size:13
Alignment explanation
Indices: 66285212--66285245 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
66285202 TTCATTAAGT
66285212 AATTATTATTTAA
1 AATTATTATTTAA
66285225 AATT-TTATTTAA
1 AATTATTATTTAA
66285237 AA-TATTATT
1 AATTATTATT
66285246 ATTTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 15 0.75
13 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTATTATTTAA
Found at i:66286030 original size:5 final size:5
Alignment explanation
Indices: 66286014--66286045 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
66286004 CTAAGACTAG
*
66286014 TTATT TTCTT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
66286046 TATAAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:66287232 original size:33 final size:33
Alignment explanation
Indices: 66287190--66287263 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
66287180 AATGCACACG
66287190 CCCGTGTGCTTTGGGACACACCAGTGTCCCCTA
1 CCCGTGTGCTTTGGGACACACCAGTGTCCCCTA
* ** *
66287223 CCCGTGTGCTTTGGGACACGCTTGTGTGCCCTA
1 CCCGTGTGCTTTGGGACACACCAGTGTCCCCTA
66287256 CCCGTGTG
1 CCCGTGTG
66287264 GAATTAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.11, C:0.34, G:0.28, T:0.27
Consensus pattern (33 bp):
CCCGTGTGCTTTGGGACACACCAGTGTCCCCTA
Found at i:66288888 original size:27 final size:27
Alignment explanation
Indices: 66288870--66288938 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
66288860 ATAGACTAGT
66288870 ATTACTGAAATACCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
* *
66288897 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
66288924 ATTACTGAAATACCC
1 ATTACTGAAATACCC
66288939 TTGGTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAGGGTAGA
Found at i:66288977 original size:27 final size:27
Alignment explanation
Indices: 66288948--66289264 Score: 214
Period size: 27 Copynumber: 11.7 Consensus size: 27
66288938 CTTGGTTTAC
* *
66288948 AAAATTACCAAAATACCCTCGACTAGC
1 AAAATTACCAAAATACCCTCGACTTGT
* * *
66288975 AAAATTACCAAAATACCC-CTAGTTTGA
1 AAAATTACCAAAATACCCTCGA-CTTGT
* *
66289002 AAAATTATCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GACTTGT
* * *
66289029 AAAATTATCGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGACTTGT
* *
66289056 AAAATTATCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
*
66289083 AAAATTACCAAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
*** *
66289110 AAAATTACCAAAATACCC-CTTTTTTGG
1 AAAATTACCAAAATACCCTC-GACTTGT
* * **
66289137 AAAATTACAAAAATACCC-CTGATTTAC
1 AAAATTACCAAAATACCCTC-GACTTGT
* * *
66289164 AAAATTACAAAAATACCCTTGACTTTT
1 AAAATTACCAAAATACCCTCGACTTGT
* * * * *
66289191 AAAAATTA-TAGAAATACCAT-TAGTTTGC
1 -AAAATTACCA-AAATACCCTCGA-CTTGT
* * **
66289219 AAAATTACCAAAATACGCTTGGTTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
* *
66289246 AAATTTACCAAAACACCCT
1 AAAATTACCAAAATACCCT
66289265 TTTAGGGTAA
Statistics
Matches: 239, Mismatches: 41, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
26 3 0.01
27 216 0.90
28 20 0.08
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGACTTGT
Found at i:66289008 original size:81 final size:81
Alignment explanation
Indices: 66288923--66289127 Score: 227
Period size: 81 Copynumber: 2.5 Consensus size: 81
66288913 TGTAGGGTAG
* * **
66288923 AATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-CTAGCAAAATTACCAAA
1 AATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGACCT-GCAAAATTACCAAA
*
66288987 ATACCCCTAG-TTTGAAA
65 ATA-CCCTAGACTTGAAA
* * * * * *
66289004 AATTA-TCAAAATACCCCTGATTTGTAAAATTATCGAAATACCCTCGACCTGTAAAATTATCGAA
1 AATTACT-AAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGACCTGCAAAATTACCAAA
* *
66289068 ATACCCTCGACTTGTAA
65 ATACCCTAGACTTGAAA
* *
66289085 AATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC
1 AATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCC
66289128 CTTTTTTGGA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
80 6 0.06
81 94 0.92
82 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (81 bp):
AATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGACCTGCAAAATTACCAAAA
TACCCTAGACTTGAAA
Found at i:66289562 original size:41 final size:41
Alignment explanation
Indices: 66289504--66289626 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
66289494 GAAGGAAGAA
* * * *
66289504 ATTAAGGATTGCTTGGTTGCTTAACGACCATGGATCCACCG
1 ATTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCG
* *
66289545 ATTAAGGATCGCATGGTTGCTTGATGACCGTGGATCCACTG
1 ATTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCG
66289586 ATTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCG
1 ATTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCG
66289627 GTGGCTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
ATTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCG
Found at i:66289820 original size:22 final size:22
Alignment explanation
Indices: 66289768--66289832 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
66289758 GCCAATTATT
* **
66289768 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
66289790 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
66289812 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
66289833 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:66292075 original size:43 final size:43
Alignment explanation
Indices: 66292024--66292219 Score: 315
Period size: 43 Copynumber: 4.6 Consensus size: 43
66292014 CGGCATTACG
66292024 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
* * *
66292067 CCTACTAGGCACGAAGGCCAGAATACACATCACCGGC-CGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
66292109 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
* *
66292152 CCTGCCAGGCACGAACGCCCGAATACACATCACCGGCAC-AAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
66292194 GCCTGCTAGGAACGAAGGCCCGAATA
1 -CCTGCTAGGCACGAAGGCCCGAATA
66292220 TAATACCAGC
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 42 0.30
43 98 0.70
ACGTcount: A:0.33, C:0.35, G:0.23, T:0.09
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:66292166 original size:85 final size:86
Alignment explanation
Indices: 66292023--66292219 Score: 333
Period size: 85 Copynumber: 2.3 Consensus size: 86
66292013 CCGGCATTAC
* *
66292023 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTACTAGGCACGAAGGCCAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTACCAGGCACGAACGCCAG
*
66292088 AATACACATCACCGGC-CGAA
66 AATACACATCACCGGCACAAA
* *
66292108 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTGCCAGGCACGAACGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTACCAGGCACGAACGCCAG
66292173 AATACACATCACCGGCACAAA
66 AATACACATCACCGGCACAAA
*
66292194 GCCTGCTAGGAACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
66292220 TAATACCAGC
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 77 0.73
86 28 0.27
ACGTcount: A:0.32, C:0.35, G:0.24, T:0.09
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTACCAGGCACGAACGCCAG
AATACACATCACCGGCACAAA
Found at i:66292260 original size:38 final size:38
Alignment explanation
Indices: 66292212--66292413 Score: 271
Period size: 38 Copynumber: 5.3 Consensus size: 38
66292202 GGAACGAAGG
* * * *
66292212 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
66292250 CCCGGATATAATACCAGCACGAATCCTGC-GAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAG-GATTTAA
** * *
66292288 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA
* *
66292327 GCCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
66292366 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
66292404 CCCGGATATA
1 CCCGGATATA
66292414 CATCGAATAT
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 103 0.73
39 11 0.08
40 27 0.19
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:66292341 original size:78 final size:76
Alignment explanation
Indices: 66292212--66292413 Score: 287
Period size: 78 Copynumber: 2.6 Consensus size: 76
66292202 GGAACGAAGG
* * * * *
66292212 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTATCCCGGATATAATACCAGCACGAATCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCT
66292277 GCGAGATTTAA
66 GCGAGATTTAA
** * * *
66292288 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATATAATACTAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
66292353 CTGCGGGATTTAA
64 CTGCGAGATTTAA
66292366 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
66292414 CATCGAATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 36 0.33
77 9 0.08
78 64 0.59
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGAGATTTAA
Found at i:66294930 original size:47 final size:47
Alignment explanation
Indices: 66294872--66295074 Score: 293
Period size: 47 Copynumber: 4.3 Consensus size: 47
66294862 TGTACAAGTA
* *
66294872 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
66294919 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
66294966 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
66295013 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
66295060 TATAAATGTGATAAG
1 TATATATGTGATAAG
66295075 TCCCGAAGGG
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 137 0.97
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:66294952 original size:22 final size:22
Alignment explanation
Indices: 66294925--66295046 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
66294915 CATGTGTATG
66294925 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
66294947 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
66294972 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
66294994 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
66295019 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
66295041 TGTGAT
1 TGTGAT
66295047 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:66301433 original size:38 final size:38
Alignment explanation
Indices: 66301385--66301586 Score: 269
Period size: 38 Copynumber: 5.3 Consensus size: 38
66301375 GGCACGAAGG
* * * *
66301385 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
66301423 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * **
66301461 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTG-CGGGATTTAA
*
66301500 GCCAGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
66301539 CCCGGATATAATACCAACACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
66301577 CCCGGATATA
1 CCCGGATATA
66301587 CATCGAATAT
Statistics
Matches: 142, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 104 0.73
39 13 0.09
40 25 0.18
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:66311228 original size:7 final size:7
Alignment explanation
Indices: 66311218--66311322 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
66311208 ATGTATTTTC
66311218 ATTATAT
1 ATTATAT
*
66311225 ATTATTT
1 ATTATAT
66311232 ATT-T-T
1 ATTATAT
*
66311237 ACTATAT
1 ATTATAT
* *
66311244 TTTATCT
1 ATTATAT
66311251 ATTATATT
1 ATTATA-T
*
66311259 ATTATAC
1 ATTATAT
*
66311266 ATT-TTT
1 ATTATAT
*
66311272 AATTTTTAT
1 -A-TTATAT
*
66311281 CATATATTT
1 -AT-TATAT
66311290 ATTATAT
1 ATTATAT
66311297 ATTATAT
1 ATTATAT
66311304 ATT-TAT
1 ATTATAT
66311310 ATT-TAT
1 ATTATAT
66311316 ATTATAT
1 ATTATAT
66311323 GTTTTTAGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.04
6 15 0.20
7 39 0.52
8 12 0.16
9 6 0.08
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTATAT
Found at i:66311248 original size:19 final size:19
Alignment explanation
Indices: 66311194--66311253 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
66311184 TATTTGCATC
*
66311194 TTACTATATGTTATATGTATT
1 TTACTATAT-TT-TATCTATT
* * *
66311215 TTCATTATATATTATTTATT
1 TT-ACTATATTTTATCTATT
66311235 TTACTATATTTTATCTATT
1 TTACTATATTTTATCTATT
66311254 ATATTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 14 0.44
20 9 0.28
21 3 0.09
22 6 0.19
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (19 bp):
TTACTATATTTTATCTATT
Found at i:66311261 original size:17 final size:16
Alignment explanation
Indices: 66311204--66311378 Score: 61
Period size: 17 Copynumber: 10.9 Consensus size: 16
66311194 TTACTATATG
66311204 TTATATGTATTTTCATTA
1 TTATAT-TATTTT-ATTA
66311222 -TATATTA-TTTATT-
1 TTATATTATTTTATTA
66311235 TTACTA-TATTTTATCTA
1 TTA-TATTATTTTAT-TA
* *
66311252 TTATATTATTATACATTT
1 TTATATTATT-T-TATTA
66311270 TTA-ATT-TTTATCATATA
1 TTATATTATTT-T-AT-TA
*
66311287 TT-TATTA-TATATTA
1 TTATATTATTTTATTA
66311301 -TATATTTATATTTA-TA
1 TTATA-TTAT-TTTATTA
*
66311317 TTATATGT-TTTTAGTA
1 TTATAT-TATTTTATTA
* * *
66311333 -CATATTATTCTATAA
1 TTATATTATTTTATTA
*
66311348 TTATATTATTCATATTA
1 TTATATTATT-TTATTA
*
66311365 TTATA-CATTTTATT
1 TTATATTATTTTATT
66311379 TATAAATTTA
Statistics
Matches: 120, Mismatches: 15, Indels: 47
0.66 0.08 0.26
Matches are distributed among these distances:
13 1 0.01
14 12 0.10
15 34 0.28
16 27 0.22
17 39 0.32
18 5 0.04
19 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATATTATTTTATTA
Found at i:66311329 original size:21 final size:20
Alignment explanation
Indices: 66311218--66311322 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 20
66311208 ATGTATTTTC
*
66311218 ATTATATATTATTTATTT-T
1 ATTATATATTATATATTTAT
* * *
66311237 ACTATATTTTATCTA-TTAT
1 ATTATATATTATATATTTAT
* *
66311256 ATTAT-TA-TACATTTTTA-
1 ATTATATATTATATATTTAT
* *
66311273 ATT-TTTATCATATA-TT-T
1 ATTATATATTATATATTTAT
66311290 ATTATATATTATATATTTAT
1 ATTATATATTATATATTTAT
66311310 ATT-TATATTATAT
1 ATTATATATTATAT
66311323 GTTTTTAGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
16 1 0.02
17 13 0.20
18 18 0.28
19 29 0.45
20 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATATATTATATATTTAT
Found at i:66311383 original size:36 final size:34
Alignment explanation
Indices: 66311253--66311383 Score: 101
Period size: 36 Copynumber: 3.8 Consensus size: 34
66311243 TTTTATCTAT
*
66311253 TATATTATTATACATTTTTAATT-T--TTATCA-TA
1 TATATTATTATACA-TTTTATTTATAATTAT-ATTA
* *
66311285 TAT-TTATTATATATTATATATTTATATTTATATTA
1 TATATTATTATACATT-T-TATTTATAATTATATTA
* * *
66311320 TATGTTTTTAGTACATATTATTCTATAATTATATTA
1 TATATTATTA-TACATTTTATT-TATAATTATATTA
66311356 TTCATATTATTATACATTTTATTTATAA
1 -T-ATATTATTATACATTTTATTTATAA
66311384 ATTTAGTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
30 2 0.03
31 10 0.13
32 7 0.09
33 1 0.01
34 1 0.01
35 13 0.16
36 23 0.29
37 15 0.19
38 7 0.09
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (34 bp):
TATATTATTATACATTTTATTTATAATTATATTA
Found at i:66311518 original size:14 final size:14
Alignment explanation
Indices: 66311482--66311519 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
66311472 ATACGTTCTT
*
66311482 CATATATTGTATTA
1 CATATATTTTATTA
*
66311496 TATATATTTTATTA
1 CATATATTTTATTA
66311510 CATATATTTT
1 CATATATTTT
66311520 TATTGCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (14 bp):
CATATATTTTATTA
Found at i:66311529 original size:14 final size:16
Alignment explanation
Indices: 66311483--66311555 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 16
66311473 TACGTTCTTC
*
66311483 ATATATTGTATT--AT
1 ATATATTTTATTACAT
66311497 ATATATTTTATTACAT
1 ATATATTTTATTACAT
*
66311513 ATAT-TTTTATTGC-T
1 ATATATTTTATTACAT
*
66311527 ATATGATTTATATTA-TT
1 ATAT-ATTT-TATTACAT
*
66311544 ACATATTTTATT
1 ATATATTTTATT
66311556 TATAAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.33
15 12 0.24
16 13 0.27
17 8 0.16
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (16 bp):
ATATATTTTATTACAT
Found at i:66327646 original size:23 final size:22
Alignment explanation
Indices: 66327586--66327647 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
66327576 TCAAAATGCG
* *
66327586 TAATATAAG-TAAAGTAATTAT
1 TAATATAAGTTAAAATAAGTAT
* *
66327607 TAACATATAAATAAAAATAAGTAT
1 T-A-ATATAAGTTAAAATAAGTAT
66327631 ATAATATAAGTTAAAAT
1 -TAATATAAGTTAAAAT
66327648 CTTTAATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 18 0.58
24 10 0.32
25 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (22 bp):
TAATATAAGTTAAAATAAGTAT
Found at i:66327678 original size:14 final size:16
Alignment explanation
Indices: 66327656--66327692 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
66327646 ATCTTTAATA
*
66327656 ATAATAATAT-ATAG-
1 ATAAAAATATAATAGT
66327670 ATAAAAATATAATAGT
1 ATAAAAATATAATAGT
66327686 ATAAAAA
1 ATAAAAA
66327693 ATGACATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAAAAATATAATAGT
Found at i:66327792 original size:37 final size:33
Alignment explanation
Indices: 66327746--66327840 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 33
66327736 TATATAATAT
66327746 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
**
66327782 AGTATAAATAATAATGTAAATAATAATAATTTAAAA
1 A-TATAAATAATAA--TAAATAATAATAAAGTAAAA
66327818 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
66327841 TGAAATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 7 0.13
35 5 0.10
36 14 0.27
37 20 0.38
38 6 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:66327808 original size:15 final size:14
Alignment explanation
Indices: 66327788--66327850 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
66327778 AAAAAGTATA
66327788 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
66327803 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
66327817 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
66327831 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
66327847 AATA
1 AATA
66327851 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:66327830 original size:28 final size:28
Alignment explanation
Indices: 66327736--66327839 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
66327726 GTTATATATG
*
66327736 TATATAATATAT-ATAAATAA-TTAATAAA
1 TATATAATAAATAAT-AATAATTTAA-AAA
* *
66327764 TATATAATACAAGTAA-AA-AGTATAAATAA
1 TATATAATA-AA-TAATAATAATTTAAA-AA
*
66327793 TA-AT-GTAAATAATAATAATTTAAAAA
1 TATATAATAAATAATAATAATTTAAAAA
66327819 TATATAATAAATAATAATAAT
1 TATATAATAAATAATAATAAT
66327840 ATGAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 10 0.17
28 27 0.45
29 10 0.17
30 1 0.02
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TATATAATAAATAATAATAATTTAAAAA
Found at i:66327998 original size:20 final size:19
Alignment explanation
Indices: 66327970--66328011 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
66327960 AAGAAGGTAT
66327970 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
66327989 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
66328009 TAA
1 TAA
66328012 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:66330183 original size:204 final size:204
Alignment explanation
Indices: 66329694--66330240 Score: 801
Period size: 205 Copynumber: 2.7 Consensus size: 204
66329684 TCTGAAGGTG
* * *
66329694 AGATCTGCTACGTATCTGCTCCCCATTGAAGTGGAGATGCCAGACTTCGATTTGCTCTCTGACAA
1 AGATCTGCTATGTGTCTGCTCCCCATTGAAGTGGAGATGCCAGACTTCGATTTGATCTCTGACAA
66329759 TACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATG
66 TACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATG
*
66329824 TCTTCGATTTAATCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTCCAGATAAACAT
131 TCTTCGATTTAATCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTACTCCAGATAAACAT
66329889 ATGAAGGCC
196 ATGAAGGCC
* * ** * * * *
66329898 AGATCTGCTATGTGTCTGCTCTCTACCGAATATGGAGACGCCAAACTTCGATTTGACCTCTGACA
1 AGATCTGCTATGTGTCTGCTCCCCATTGAA-GTGGAGATGCCAGACTTCGATTTGATCTCTGACA
* * *
66329963 ACACAGAGATGCCAAATCATCTTAG-TTTGCCTCATCGTAAGCACGTGAAAGCCAAAATCAGCTA
65 ATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCC-AAATCAGCTA
** * * *
66330027 TGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAGA
129 TGTCTTCGATTTAATCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTACTCCAG-ATAAA
* ***
66330092 CATCTGAAGTTT
193 CATATGAAGGCC
* *
66330104 GGATCTGCTATGTGTCTGC-CCCCATTGAAGTGGAGATGCCAGACTTCGATTTGTTCTCTGACAA
1 AGATCTGCTATGTGTCTGCTCCCCATTGAAGTGGAGATGCCAGACTTCGATTTGATCTCTGACAA
* *
66330168 TACAGAGATGCCAAATCATCTTAGATTTTCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
66 TACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATG
66330233 TCTTCGAT
131 TCTTCGAT
66330241 CTACTCTCCG
Statistics
Matches: 300, Mismatches: 39, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
204 123 0.41
205 147 0.49
206 30 0.10
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (204 bp):
AGATCTGCTATGTGTCTGCTCCCCATTGAAGTGGAGATGCCAGACTTCGATTTGATCTCTGACAA
TACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCGATTTAATCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTACTCCAGATAAACAT
ATGAAGGCC
Found at i:66330554 original size:132 final size:132
Alignment explanation
Indices: 66330300--66330580 Score: 431
Period size: 132 Copynumber: 2.1 Consensus size: 132
66330290 CTTTGACAAT
* *
66330300 ACAGAGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
* * * * *
66330365 CCTCGATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTATTATTTTCGATTTGTTCCCTATAA
66 CCTCCATCTGCTTCGCTGTAAGCACAAGAATGTAAGATCTACTATTTTCGATCTGTTCCCTATAA
66330430 AC
131 AC
*
66330432 ACAGGGATGCCAAATCTGCTATCTTCAACTTGCTT-CCTATAAACACAGGGATGCCATGCTGAAA
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTG-TTCCCTATAAACACAGGGATACCATGCTGAAA
* * *
66330496 TCTTCCATCTGCTTCGCTGTAAGCACAGGAATGTAAGATCTGCTATCTTT-GATCTGTTCCCTAT
65 TCCTCCATCTGCTTCGCTGTAAGCACAAGAATGTAAGATCTACTAT-TTTCGATCTGTTCCCTAT
66330560 AAAC
129 AAAC
66330564 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
66330581 TGTTTCTTTG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
132 131 0.96
133 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
CCTCCATCTGCTTCGCTGTAAGCACAAGAATGTAAGATCTACTATTTTCGATCTGTTCCCTATAA
AC
Found at i:66330594 original size:44 final size:45
Alignment explanation
Indices: 66330256--66330580 Score: 171
Period size: 44 Copynumber: 7.4 Consensus size: 45
66330246 CTCCGCCAAT
* * * * *
66330256 ACAGAGATGCCAAATCTGGTATCTTTGATCTGC-T--CTTTGACAAT
1 ACAGGGATGCCAAATCTGCTATCTTTCATCTGCTTCCCTAT-A-AAC
* *
66330300 ACAGAGATGCCAAATCTGCTATCTTT-AACTTG-TTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTTCATC-TGCTTCCCTATAAAC
* ** * * * *
66330344 ACAGGGATACC--ATGCTGAAATC-CTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTTC-ATCTGCTTCCCTATAAAC
* * * ** *
66330388 ACA-AGAGTGTCAGATCTATTAT-TTTCGATTTG-TTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTTC-ATCTGCTTCCCTATAAAC
*
66330432 ACAGGGATGCCAAATCTGCTATC-TTCAACTTGCTT-CCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTTCATC-TGCTTCCCTATAAAC
** * * * *
66330476 ACAGGGATGCC--ATGCTGAAATCTTCCATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTTCATCTGCTTCCCTATAAAC
* * *
66330520 ACAGGAATG-TAAGATCTGCTATCTTTGATCTG-TTCCCTATAAAC
1 ACAGGGATGCCAA-ATCTGCTATCTTTCATCTGCTTCCCTATAAAC
66330564 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
66330581 TGTTTCTTTG
Statistics
Matches: 209, Mismatches: 49, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
42 5 0.02
43 24 0.11
44 142 0.68
45 31 0.15
46 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
ACAGGGATGCCAAATCTGCTATCTTTCATCTGCTTCCCTATAAAC
Found at i:66331442 original size:46 final size:46
Alignment explanation
Indices: 66331382--66331501 Score: 179
Period size: 46 Copynumber: 2.6 Consensus size: 46
66331372 TTTGACGTGA
* * * *
66331382 TGCCATAGTGTCTTTCAACTATGGTCTTACTCCTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTTCATGTCACGT
*
66331428 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATCCTTTTCATGTCACGT
66331474 TGCCATGGTATCTTTCAACCATGGTCTT
1 TGCCATGGTATCTTTCAACCATGGTCTT
66331502 TGTAACACCC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 7 0.10
46 61 0.90
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCCTTTTCATGTCACGT
Found at i:66332339 original size:37 final size:37
Alignment explanation
Indices: 66332262--66332340 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
66332252 TTATTACGAA
* * * *
66332262 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
* *
66332299 GTCTTACCCGGACAAAATCCCCACACGTAGTCATATG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
66332336 GTCTT
1 GTCTT
66332341 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
Found at i:66332537 original size:47 final size:47
Alignment explanation
Indices: 66332459--66332648 Score: 308
Period size: 47 Copynumber: 4.0 Consensus size: 47
66332449 CCCTTCGGGA
* * * * * *
66332459 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66332506 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66332553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66332600 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66332647 CT
1 CT
66332649 CACTTTCACA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66332796 original size:47 final size:47
Alignment explanation
Indices: 66332720--66332838 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
66332710 CTTCGGGACT
* * * *
66332720 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
66332767 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
66332814 TATCACATATATATACATTCACATC
1 TATCACATATATACACTTTCACATC
66332839 ACAATTATCC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:66334043 original size:7 final size:7
Alignment explanation
Indices: 66334023--66334114 Score: 130
Period size: 7 Copynumber: 12.6 Consensus size: 7
66334013 TTTAAAATAG
66334023 AAACCCT
1 AAACCCT
66334030 AAAACCCT
1 -AAACCCT
66334038 AAACCCT
1 AAACCCT
66334045 AAACCCT
1 AAACCCT
66334052 AAAACCCT
1 -AAACCCT
66334060 AAACCCCT
1 AAA-CCCT
66334068 AAACCCT
1 AAACCCT
*
66334075 AAACCAT
1 AAACCCT
*
66334082 AACCCCT
1 AAACCCT
66334089 AAACCCT
1 AAACCCT
66334096 AAACCCT
1 AAACCCT
66334103 AAAACCCT
1 -AAACCCT
66334111 AAAC
1 AAAC
66334115 TCGAAAAAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
7 49 0.64
8 28 0.36
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:66334043 original size:15 final size:14
Alignment explanation
Indices: 66334023--66334114 Score: 130
Period size: 15 Copynumber: 6.3 Consensus size: 14
66334013 TTTAAAATAG
66334023 AAACCCTAAAACCCT
1 AAACCCT-AAACCCT
66334038 AAACCCTAAACCCT
1 AAACCCTAAACCCT
66334052 AAAACCCTAAACCCCT
1 -AAACCCTAAA-CCCT
*
66334068 AAACCCTAAACCAT
1 AAACCCTAAACCCT
*
66334082 AACCCCTAAACCCT
1 AAACCCTAAACCCT
66334096 AAACCCTAAAACCCT
1 AAACCCT-AAACCCT
66334111 AAAC
1 AAAC
66334115 TCGAAAAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
14 28 0.40
15 38 0.54
16 4 0.06
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:66343458 original size:15 final size:15
Alignment explanation
Indices: 66343428--66343458 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
66343418 ATTCTGGTTC
66343428 AATTTCATTTAGAAA
1 AATTTCATTTAGAAA
66343443 AATTT-ATTTAGAAA
1 AATTTCATTTAGAAA
66343457 AA
1 AA
66343459 GAATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTTCATTTAGAAA
Found at i:66346572 original size:84 final size:84
Alignment explanation
Indices: 66346431--66346603 Score: 346
Period size: 84 Copynumber: 2.1 Consensus size: 84
66346421 ATTTTGAAAA
66346431 TTAGGGTTCACTCAAAGTATGGACACTAAGTTAGCCTTTTTGAAAATCCCTATCTCGAAACAACA
1 TTAGGGTTCACTCAAAGTATGGACACTAAGTTAGCCTTTTTGAAAATCCCTATCTCGAAACAACA
66346496 AAACGCCATATCCAATAAG
66 AAACGCCATATCCAATAAG
66346515 TTAGGGTTCACTCAAAGTATGGACACTAAGTTAGCCTTTTTGAAAATCCCTATCTCGAAACAACA
1 TTAGGGTTCACTCAAAGTATGGACACTAAGTTAGCCTTTTTGAAAATCCCTATCTCGAAACAACA
66346580 AAACGCCATATCCAATAAG
66 AAACGCCATATCCAATAAG
66346599 TTAGG
1 TTAGG
66346604 ACATATTGCT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (84 bp):
TTAGGGTTCACTCAAAGTATGGACACTAAGTTAGCCTTTTTGAAAATCCCTATCTCGAAACAACA
AAACGCCATATCCAATAAG
Found at i:66347511 original size:23 final size:21
Alignment explanation
Indices: 66347460--66347521 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
66347450 TCAAAATGTG
* *
66347460 TAATATAAGTAAAGTAATTAT
1 TAATATAAGTAAAATAAGTAT
66347481 TGACATATAAGTAAAAATAAGTAT
1 T-A-ATATAAGT-AAAATAAGTAT
66347505 ATAATATAAGTTAAAAT
1 -TAATATAAG-TAAAAT
66347522 CTTTAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 20 0.59
24 11 0.32
25 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (21 bp):
TAATATAAGTAAAATAAGTAT
Found at i:66347554 original size:14 final size:16
Alignment explanation
Indices: 66347535--66347566 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66347525 TAATAACAAT
66347535 AATAT-ATAG-ATAAA
1 AATATAATAGTATAAA
66347549 AATATAATAGTATAAA
1 AATATAATAGTATAAA
66347565 AA
1 AA
66347567 ATGACATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATATAATAGTATAAA
Found at i:66347662 original size:37 final size:33
Alignment explanation
Indices: 66347620--66347714 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 33
66347610 TATATAATAT
66347620 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
**
66347656 AGTATAAATAATAATGTAAATAATAATAATTTAAAA
1 A-TATAAATAATAA--TAAATAATAATAAAGTAAAA
66347692 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
66347715 TGAAATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 7 0.13
35 5 0.10
36 14 0.27
37 20 0.38
38 6 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:66347682 original size:15 final size:14
Alignment explanation
Indices: 66347662--66347724 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
66347652 AAAAAGTATA
66347662 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
66347677 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
66347691 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
66347705 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
66347721 AATA
1 AATA
66347725 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:66347704 original size:28 final size:28
Alignment explanation
Indices: 66347610--66347713 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
66347600 GGTACATATG
*
66347610 TATATAATATAT-ATAAATAA-TTAATAAA
1 TATATAATAAATAAT-AATAATTTAA-AAA
* *
66347638 TATATAATACAAGTAA-AA-AGTATAAATAA
1 TATATAATA-AA-TAATAATAATTTAAA-AA
*
66347667 TA-AT-GTAAATAATAATAATTTAAAAA
1 TATATAATAAATAATAATAATTTAAAAA
66347693 TATATAATAAATAATAATAAT
1 TATATAATAAATAATAATAAT
66347714 ATGAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 10 0.17
28 27 0.45
29 10 0.17
30 1 0.02
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TATATAATAAATAATAATAATTTAAAAA
Found at i:66349875 original size:131 final size:134
Alignment explanation
Indices: 66349634--66349907 Score: 509
Period size: 131 Copynumber: 2.1 Consensus size: 134
66349624 ATATATCATT
*
66349634 TATGTATTAAATGTTATTTTATAATTATTATTTGATGTTATATTTTATGAACATGTACATTGATA
1 TATGT-TTTAATGTTATTTTATAATTATTATTTGATGTTATATTTTATGAACATGTACATTGATA
66349699 TTATATTATTTTTTATATATATTAAATTGTATATCATGCATCATTTTTTAATTATTACTTTATAT
65 TTATATTATTTTTTATATATATTAAATTGTATATCATGCATCATTTTTTAATTATTACTTTATAT
66349764 GTTTG
130 GTTTG
66349769 TATGTTTTAATGTTATTTTATAATTATTATTTGATGTTATATTTTATGAACATGTACATTGATA-
1 TATGTTTTAATGTTATTTTATAATTATTATTTGATGTTATATTTTATGAACATGTACATTGATAT
66349833 T-TATT-TTTTTTATATATATTAAATTGTATATCATGCATCATTTTTTAATTATTACTTTATATG
66 TATATTATTTTTTATATATATTAAATTGTATATCATGCATCATTTTTTAATTATTACTTTATATG
66349896 TTTG
131 TTTG
66349900 TATGTTTT
1 TATGTTTT
66349908 GTTTATTCGT
Statistics
Matches: 138, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
131 70 0.51
132 4 0.03
133 1 0.01
134 58 0.42
135 5 0.04
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.57
Consensus pattern (134 bp):
TATGTTTTAATGTTATTTTATAATTATTATTTGATGTTATATTTTATGAACATGTACATTGATAT
TATATTATTTTTTATATATATTAAATTGTATATCATGCATCATTTTTTAATTATTACTTTATATG
TTTG
Found at i:66350491 original size:210 final size:210
Alignment explanation
Indices: 66350126--66350544 Score: 793
Period size: 210 Copynumber: 2.0 Consensus size: 210
66350116 AACAAGATTC
66350126 CAAAGTTTTCAAAAATAAAAAGGCAATGCTTGGTGTTTGGAAGCTTCGAGAAAAGTAGTGCCCTA
1 CAAAGTTTTCAAAAATAAAAAGGCAATGCTTGGTGTTTGGAAGCTTCGAGAAAAGTAGTGCCCTA
*
66350191 ACTTATTGGGTTGCAATTTTTCTCGTTGAGTTCGAATAGTCAAGTACCCTTCTAAGTTTTTTAAA
66 ACTTATTGGGTTGCAATTTTTCTCGTTGAGTTCAAATAGTCAAGTACCCTTCTAAGTTTTTTAAA
* *
66350256 ATTTTCAAAATATGAGCATCTGTCTTGGAATTTCAAAGCGTTGTGTCCTAACTTACTGGATGTGG
131 ATTTTCAAAATATGAGCAACTGTCTTGAAATTTCAAAGCGTTGTGTCCTAACTTACTGGATGTGG
66350321 CGTTTTGTCGTTTCA
196 CGTTTTGTCGTTTCA
*
66350336 CAAAGTTTTCAAAAATAAAAAGGCAATGCTTGGTGTTTGGAAGCTTCGAGAAAAGTAGTGTCCTA
1 CAAAGTTTTCAAAAATAAAAAGGCAATGCTTGGTGTTTGGAAGCTTCGAGAAAAGTAGTGCCCTA
66350401 ACTTATTGGGTTGCAATTTTTCTCGTTGAGTTCAAATAGTCAAGTACCCTTCTAAGTTTTTTAAA
66 ACTTATTGGGTTGCAATTTTTCTCGTTGAGTTCAAATAGTCAAGTACCCTTCTAAGTTTTTTAAA
*
66350466 ATTTTCAAAATATGAGCAACTGTCTTGAAATTTCAAAGCGTTGTGTCCTAACTTACTGGGTGTGG
131 ATTTTCAAAATATGAGCAACTGTCTTGAAATTTCAAAGCGTTGTGTCCTAACTTACTGGATGTGG
66350531 CGTTTTGTCGTTTC
196 CGTTTTGTCGTTTC
66350545 GAAATAGGGA
Statistics
Matches: 204, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 204 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (210 bp):
CAAAGTTTTCAAAAATAAAAAGGCAATGCTTGGTGTTTGGAAGCTTCGAGAAAAGTAGTGCCCTA
ACTTATTGGGTTGCAATTTTTCTCGTTGAGTTCAAATAGTCAAGTACCCTTCTAAGTTTTTTAAA
ATTTTCAAAATATGAGCAACTGTCTTGAAATTTCAAAGCGTTGTGTCCTAACTTACTGGATGTGG
CGTTTTGTCGTTTCA
Found at i:66362557 original size:206 final size:206
Alignment explanation
Indices: 66362192--66363120 Score: 1441
Period size: 206 Copynumber: 4.5 Consensus size: 206
66362182 GCAGATCTGG
* ** *
66362192 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCT
* * *
66362257 GATTTGG-TTTC-CGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTT
65 GATTTGGCTTTCACG--TGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
*
66362320 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCCAACC
128 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACC
66362385 TTCAGATGTTTATA
193 TTCAGATGTTTATA
*
66362399 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTG
*
66362464 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
66362529 GAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGCACATAGTAGATCCAACCTTC
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
66362594 AGATATTTATA
196 AGATGTTTATA
* *
66362605 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGAAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAG--AAAATCGAAGACATAGC
66362669 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
66362734 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGATGGAGGGCAGACACATAGTAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCT
66362799 TCAGATGTTTATA
194 TCAGATGTTTATA
66362812 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTG
*
66362877 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * * *
66362942 GAACAAATCGAAGTTTGGCGTTTCCATATTCGACAGAGAGCAGACACATAACAGATCTAACTTTC
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* * *
66363007 AGACGATTAGA
196 AGATGTTTATA
* * * * * * *
66363018 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGAAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTG
* *
66363083 ATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
66363121 CATCTCTATA
Statistics
Matches: 671, Mismatches: 46, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
205 5 0.01
206 457 0.68
207 203 0.30
208 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:66362959 original size:413 final size:412
Alignment explanation
Indices: 66362192--66363120 Score: 1470
Period size: 413 Copynumber: 2.2 Consensus size: 412
66362182 GCAGATCTGG
* *
66362192 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCT
* * *
66362257 GATTTGG-TTTC-CGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTT
65 GATTTGGCTTTCACG--TGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
*
66362320 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCCAACC
128 AGAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACC
*
66362385 TTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAAT
193 TTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAAT
*
66362450 CGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATC
258 CGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATC
* * * *
66362515 TCTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGCACATAG
323 TCTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACAGAGAGCAGACACATAA
* * *
66362580 TAGATCCAACCTTCAGA-TATTTATA
388 CAGATCCAACCTTCAGACGA-TTAGA
* * * *
66362605 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGAAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAG--AAAATCGAAGACATAGC
66362669 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
66362734 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGATGGAGGGCAGACACATAGTAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACCT
66362799 TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATC
194 TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATC
66362864 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCT
259 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCT
* *
66362929 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTTTCCATATTCGACAGAGAGCAGACACATAAC
324 CTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACAGAGAGCAGACACATAAC
* *
66362994 AGATCTAACTTTCAGACGATTAGA
389 AGATCCAACCTTCAGACGATTAGA
* * * * * *
66363018 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGAAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCTG
* *
66363083 ATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
66363121 CATCTCTATA
Statistics
Matches: 473, Mismatches: 37, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
411 5 0.01
412 82 0.17
413 375 0.79
414 9 0.02
415 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACCTTC
AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGA
AGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCT
GTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACAGAGAGCAGACACATAACAG
ATCCAACCTTCAGACGATTAGA
Found at i:66364757 original size:38 final size:38
Alignment explanation
Indices: 66364687--66364770 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
66364677 TGACTATATG
* *
66364687 TAGAGATTATGTCCGGCTAAAGACCCGATGGCTAT-GTA
1 TAGAGATTATGTCCGGATAAAGACCCGATGGCT-TCATA
*
66364725 TAGAGATTATGTCCGGATTAAGACCC-ACTGGCTTCATA
1 TAGAGATTATGTCCGGATAAAGACCCGA-TGGCTTCATA
66364763 TAGAGATT
1 TAGAGATT
66364771 TCATCCGAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 2 0.05
38 39 0.95
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (38 bp):
TAGAGATTATGTCCGGATAAAGACCCGATGGCTTCATA
Found at i:66364859 original size:40 final size:40
Alignment explanation
Indices: 66364802--66365033 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
66364792 ACGATGATCT
* *
66364802 GGGCTAAGTCCCGAAGGGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
* *
66364842 TGGCTAAATCCCAAAGGGCATTCGTGCCGGTGTTATATCC
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
*
66364882 GGGCTAAATCTCGAAGGGCATTCGTGCCGGTGTTATATCC
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
*
66364922 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATTC
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
* * *
66364962 GGGCTAAATCCTGAAGGGTATTCGTGCCGATGTTATATCC
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
* *
66365002 GGGCTAAGTCCCGAAGGGCATTCGTGCAGGTG
1 GGGCTAAATCCCGAAGGGCATTCGTGCCGGTG
66365034 ATATGTATTC
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (40 bp):
GGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATCC
Found at i:66369493 original size:47 final size:47
Alignment explanation
Indices: 66369442--66369546 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
66369432 TAGTATTAAT
*
66369442 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
66369489 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
66369536 AATGTGATAAG
1 TATGTGATAAG
66369547 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:66383824 original size:27 final size:27
Alignment explanation
Indices: 66383786--66383898 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
66383776 AGCATGGCTG
* *
66383786 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
66383812 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
66383840 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
66383867 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
66383894 CCAGA
1 CCAGA
66383899 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:66383850 original size:54 final size:54
Alignment explanation
Indices: 66383786--66383900 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
66383776 AGCATGGCTG
* *
66383786 CCAGAACAGATA-ATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
66383840 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
66383894 CCAGAAC
1 CCAGAAC
66383901 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:66385556 original size:26 final size:26
Alignment explanation
Indices: 66385518--66385601 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
66385508 CATGAAATTC
* *
66385518 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
66385544 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66385570 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66385596 TTATCA
1 TTATCA
66385602 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:66403751 original size:36 final size:36
Alignment explanation
Indices: 66403704--66403776 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
66403694 CGGGCCGGGC
66403704 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
1 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
* *
66403740 AACAAGTGTTACATAGCTTTCAGTAGTTGTTCAATA
1 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
66403776 A
1 A
66403777 GTTAGGTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (36 bp):
AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
Found at i:66408745 original size:29 final size:29
Alignment explanation
Indices: 66408678--66408829 Score: 136
Period size: 29 Copynumber: 5.3 Consensus size: 29
66408668 ACCCCTACAT
* *
66408678 ACATGCATATGGCCCA-CTATGCCC-ATTC
1 ACATTCATATGGCCCATCT-GGCCCAATTC
* *
66408706 TCATTTATATGGCCCATCTGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
* * *
66408735 ACGTTCATATGACCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
66408764 ACATTCATATAGCCCAT-TAGGCCCAATCTC
1 ACATTCATATGGCCCATCT-GGCCCAAT-TC
* * *
66408794 A-TTTC-TATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATCTGGCCCAATTC
66408821 ACATT-ATAT
1 ACATTCATAT
66408830 TCATGCTCAC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
27 3 0.03
28 38 0.38
29 55 0.56
30 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:66408787 original size:58 final size:56
Alignment explanation
Indices: 66408710--66408829 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 56
66408700 CCATTCTCAT
*
66408710 TTATATGGCCCATCTGGCCCAAT-TCACGTTCATATGACCCATCAGGCCCAATTCACA
1 TTATATAGCCCATCTGGCCCAATCTCA-GTTC-TATGACCCATCAGGCCCAATTCACA
* * * *
66408767 TTCATATAGCCCAT-TAGGCCCAATCTCATTTCTATGGCCCATCCGGCCCAAATCACA
1 TT-ATATAGCCCATCT-GGCCCAATCTCAGTTCTATGACCCATCAGGCCCAATTCACA
66408824 TTATAT
1 TTATAT
66408830 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 4 0.07
57 27 0.49
58 21 0.38
59 3 0.05
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (56 bp):
TTATATAGCCCATCTGGCCCAATCTCAGTTCTATGACCCATCAGGCCCAATTCACA
Found at i:66412732 original size:29 final size:29
Alignment explanation
Indices: 66412661--66412812 Score: 143
Period size: 29 Copynumber: 5.3 Consensus size: 29
66412651 ACCCCTACAT
* *
66412661 ACATGCATATGGCCCA-CTAGGTCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * * * *
66412689 TCATTTATATAGCCCATCCGACCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
66412718 ACGTTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
66412747 ACATTCATATGGCCCATTAGGCCCAATCTC
1 ACATTCATATGGCCCATCAGGCCCAAT-TC
* * *
66412777 A-TTTC-TATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
66412804 ACATT-ATAT
1 ACATTCATAT
66412813 TCATGCTCAC
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
27 3 0.03
28 39 0.39
29 54 0.55
30 3 0.03
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:66412744 original size:57 final size:58
Alignment explanation
Indices: 66412666--66412812 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 58
66412656 TACATACATG
* * * *
66412666 CATATGGCCCA-CTAGGTCCAA-TCTCATTTATATAGCCCATCCGACCCAAT-TCACGTT
1 CATATGGCCCATC-AGGCCCAATTCACATTCATATAGCCCATCAGACCCAATCTCA-GTT
* * * *
66412723 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
1 CATATGGCCCATCAGGCCCAATTCACATTCATATAGCCCATCAGACCCAATCTCAGTT
* *
66412781 C-TATGGCCCATCCGGCCCAAATCACATT-ATAT
1 CATATGGCCCATCAGGCCCAATTCACATTCATAT
66412813 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.05
57 43 0.56
58 27 0.35
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (58 bp):
CATATGGCCCATCAGGCCCAATTCACATTCATATAGCCCATCAGACCCAATCTCAGTT
Found at i:66412894 original size:17 final size:17
Alignment explanation
Indices: 66412872--66412912 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
66412862 TGCCTAATAT
66412872 GGGCCCAATAGCCCCTC
1 GGGCCCAATAGCCCCTC
66412889 GGGCCCAATAGCCCCTC
1 GGGCCCAATAGCCCCTC
*
66412906 GAGCCCA
1 GGGCCCA
66412913 TTTAGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.46, G:0.24, T:0.10
Consensus pattern (17 bp):
GGGCCCAATAGCCCCTC
Found at i:66423265 original size:36 final size:36
Alignment explanation
Indices: 66423224--66423298 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
66423214 CTTCCTTGTC
66423224 CTAATTTTTTCCAAGAACTTAAAATTGGTCAAATTT
1 CTAATTTTTTCCAAGAACTTAAAATTGGTCAAATTT
*
66423260 CTAATTTTTTCCATGAACTTAAAATTGGTCAAATTT
1 CTAATTTTTTCCAAGAACTTAAAATTGGTCAAATTT
66423296 CTA
1 CTA
66423299 TTTAAGATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (36 bp):
CTAATTTTTTCCAAGAACTTAAAATTGGTCAAATTT
Found at i:66423974 original size:85 final size:85
Alignment explanation
Indices: 66423848--66424016 Score: 320
Period size: 85 Copynumber: 2.0 Consensus size: 85
66423838 AAACACATCA
*
66423848 TGAATCTTCTCTAATTCAGGTGGTAGCGCTAGCCGATATGCCACTAGTCCAACTTTTTCAATTAT
1 TGAATCTTCTCTAATTCAGGTGGTAGCGCTAGCCGATATGCCACCAGTCCAACTTTTTCAATTAT
66423913 TTCATACGATCCAATAAAAG
66 TTCATACGATCCAATAAAAG
66423933 TGAATCTTCTCTAATTCAGGTGGTAGCGCTAGCCGATATGCCACCAGTCCAACTTTTTCAATTAT
1 TGAATCTTCTCTAATTCAGGTGGTAGCGCTAGCCGATATGCCACCAGTCCAACTTTTTCAATTAT
*
66423998 TTCATACGGTCCAATAAAA
66 TTCATACGATCCAATAAAA
66424017 CACGGACTTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (85 bp):
TGAATCTTCTCTAATTCAGGTGGTAGCGCTAGCCGATATGCCACCAGTCCAACTTTTTCAATTAT
TTCATACGATCCAATAAAAG
Found at i:66426193 original size:113 final size:113
Alignment explanation
Indices: 66425995--66426219 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 113
66425985 TGTCCAGGTA
66425995 TGGCCGAAATATGCGATTCATTAAGTCCATAAACACAGCAGGAGCATTTGTCAACCCGAATGGCA
1 TGGCCGAAATATGCGATTCATTAAGTCCATAAACACAGCAGGAGCATTTGTCAACCCGAATGGCA
66426060 TAACTAAAAATTCATAATGACCGTACCTTGTTCTAAAAGCAGTTTTAT
66 TAACTAAAAATTCATAATGACCGTACCTTGTTCTAAAAGCAGTTTTAT
*
66426108 TGGCCGAAATATGCGATTCATTAAGTCCATAAACACAGCAGGAGTATTTGTCAACCCGAATGGCA
1 TGGCCGAAATATGCGATTCATTAAGTCCATAAACACAGCAGGAGCATTTGTCAACCCGAATGGCA
66426173 TAACTAAAAATTCATAATGACCGTACCTTGTTCTAAAAGCAGTTTTA
66 TAACTAAAAATTCATAATGACCGTACCTTGTTCTAAAAGCAGTTTTA
66426220 GGCACATCTG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (113 bp):
TGGCCGAAATATGCGATTCATTAAGTCCATAAACACAGCAGGAGCATTTGTCAACCCGAATGGCA
TAACTAAAAATTCATAATGACCGTACCTTGTTCTAAAAGCAGTTTTAT
Found at i:66437082 original size:17 final size:18
Alignment explanation
Indices: 66437060--66437099 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
66437050 GTATGAAAGG
* *
66437060 AATTAATTTATTGTAT-A
1 AATTAATATATTGCATGA
66437077 AATTAATATATTGCATGA
1 AATTAATATATTGCATGA
66437095 AATTA
1 AATTA
66437100 TTACTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (18 bp):
AATTAATATATTGCATGA
Found at i:66449668 original size:36 final size:36
Alignment explanation
Indices: 66449621--66449693 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
66449611 CGGGCCGGGC
66449621 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
1 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
*
66449657 AACAAGTGTTACATAGCTTACAGTAGTTGTTCAATA
1 AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
66449693 A
1 A
66449694 GTTAGGTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (36 bp):
AACAAGTGTTACATAGCTTACAGTACTTGTTCAATA
Found at i:66453715 original size:17 final size:18
Alignment explanation
Indices: 66453693--66453726 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66453683 CACATTGAAG
66453693 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
66453710 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
66453727 CTTCCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:66454833 original size:29 final size:29
Alignment explanation
Indices: 66454766--66454911 Score: 131
Period size: 29 Copynumber: 5.1 Consensus size: 29
66454756 ACCCCTACAT
* *
66454766 ACATGCATATGGCCCA-CTATGCCC-ATTC
1 ACATTCATATGGCCCATCT-GGCCCAATTC
* *
66454794 TCATTTATATGGCCCATCTGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
* * *
66454823 ACGTTCATATGACCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
66454852 ACATTCATATAGCCCAT-TAGGCCCAATCTC
1 ACATTCATATGGCCCATCT-GGCCCAAT-TC
* * *
66454882 A-TTTC-TATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATCTGGCCCAATTC
66454909 ACA
1 ACA
66454912 GTATATTCAT
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
27 3 0.03
28 33 0.35
29 55 0.59
30 3 0.03
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:66455136 original size:16 final size:16
Alignment explanation
Indices: 66455117--66455152 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66455107 AACTTTCGGC
66455117 TTTTCGGCATTTCAGA
1 TTTTCGGCATTTCAGA
* *
66455133 TTTTCGGTATTTCAGC
1 TTTTCGGCATTTCAGA
66455149 TTTT
1 TTTT
66455153 ACCGATCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTTCGGCATTTCAGA
Found at i:66459406 original size:57 final size:58
Alignment explanation
Indices: 66459343--66459489 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 58
66459333 TACATACATG
* * * *
66459343 CATATGGCCCA-CTAGGTCCAA-TCTCATTTATATAGCCCATTCGACCCAAT-TCACGTT
1 CATATGGCCCATC-AGGCCCAATTCACATTCATATAGCCCATTAGACCCAATCTCA-GTT
* * *
66459400 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
1 CATATGGCCCATCAGGCCCAATTCACATTCATATAGCCCATTAGACCCAATCTCAGTT
* *
66459458 C-TATGGCCCATCCGGCCCAAATCACATT-ATAT
1 CATATGGCCCATCAGGCCCAATTCACATTCATAT
66459490 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
56 4 0.05
57 43 0.55
58 28 0.36
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.28
Consensus pattern (58 bp):
CATATGGCCCATCAGGCCCAATTCACATTCATATAGCCCATTAGACCCAATCTCAGTT
Found at i:66459409 original size:29 final size:29
Alignment explanation
Indices: 66459338--66459489 Score: 134
Period size: 29 Copynumber: 5.3 Consensus size: 29
66459328 ACCCCTACAT
* * * *
66459338 ACATGCATATGGCCCACTAGGTCCAA-TC
1 ACATTCATATGGCCCATTCGGCCCAATTC
* * * *
66459366 TCATTTATATAGCCCATTCGACCCAATTC
1 ACATTCATATGGCCCATTCGGCCCAATTC
*
66459395 ACGTTCATATGGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCATTC-GGCCCAATTC
*
66459424 ACATTCATATGGCCCATTAGGCCCAATCTC
1 ACATTCATATGGCCCATTCGGCCCAAT-TC
* * *
66459454 A-TTTC-TATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATTCGGCCCAATTC
66459481 ACATT-ATAT
1 ACATTCATAT
66459490 TCATGCTCAC
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
27 3 0.03
28 42 0.43
29 49 0.50
30 4 0.04
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTCGGCCCAATTC
Found at i:66459571 original size:17 final size:17
Alignment explanation
Indices: 66459549--66459589 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
66459539 TGCCTAATAT
66459549 GGGCCCAATAGCCCCTC
1 GGGCCCAATAGCCCCTC
66459566 GGGCCCAATAGCCCCTC
1 GGGCCCAATAGCCCCTC
*
66459583 GAGCCCA
1 GGGCCCA
66459590 TTTAGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.46, G:0.24, T:0.10
Consensus pattern (17 bp):
GGGCCCAATAGCCCCTC
Found at i:66469579 original size:225 final size:225
Alignment explanation
Indices: 66469257--66469703 Score: 867
Period size: 225 Copynumber: 2.0 Consensus size: 225
66469247 TTATCAACCC
66469257 GAGGGTTAAGAACATACCTGTCCAAAGTGTCCATTTCACAACACTTACCAATACGTCGCTTGCAT
1 GAGGGTTAAGAACATACCTGTCCAAAGTGTCCATTTCACAACACTTACCAATACGTCGCTTGCAT
66469322 CTTAAGTGTTCTTTCATTTCACTAGAAATTTCACCCGTTGAACACATCGGAATACAACTCGGATA
66 CTTAAGTGTTCTTTCATTTCACTAGAAATTTCACCCGTTGAACACATCGGAATACAACTCGGATA
66469387 CACGGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTG
131 CACGGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTG
66469452 AACTCAGACTCAACTCAACGAGCTCGGCCG
196 AACTCAGACTCAACTCAACGAGCTCGGCCG
66469482 GAGGGTTAAGAACATACCTGTCCAAAGTGTCCATTTCACAACACTTACCAATACGTCGCTTGCAT
1 GAGGGTTAAGAACATACCTGTCCAAAGTGTCCATTTCACAACACTTACCAATACGTCGCTTGCAT
66469547 CTTAAGTGTTCTTTCATTTCACTAGAAATTTCACCCGTTGAACACATCGGAATACAACTCGGATA
66 CTTAAGTGTTCTTTCATTTCACTAGAAATTTCACCCGTTGAACACATCGGAATACAACTCGGATA
*
66469612 CACGGATAATTTGTACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTG
131 CACGGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTG
* *
66469677 AACTCGGACTCAACTCAACGAGTTCGG
196 AACTCAGACTCAACTCAACGAGCTCGG
66469704 ATGCTCAACC
Statistics
Matches: 219, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
225 219 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (225 bp):
GAGGGTTAAGAACATACCTGTCCAAAGTGTCCATTTCACAACACTTACCAATACGTCGCTTGCAT
CTTAAGTGTTCTTTCATTTCACTAGAAATTTCACCCGTTGAACACATCGGAATACAACTCGGATA
CACGGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTG
AACTCAGACTCAACTCAACGAGCTCGGCCG
Found at i:66477207 original size:93 final size:93
Alignment explanation
Indices: 66477098--66477268 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66477088 GCCCCTAAGT
* * *
66477098 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
66477163 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
66477191 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66477256 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66477269 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66477265 original size:46 final size:46
Alignment explanation
Indices: 66477093--66477265 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
66477083 AACCCGCCCC
* * *
66477093 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
66477139 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
66477187 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
66477232 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66477266 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Done.