Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1702141
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:710887 original size:20 final size:20
Alignment explanation
Indices: 710862--710906 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
710852 GGGAGAACGA
710862 CGGACGGCGGCAACGGGTGG
1 CGGACGGCGGCAACGGGTGG
710882 CGGACGGCGGCAACGGGTGG
1 CGGACGGCGGCAACGGGTGG
710902 CGGAC
1 CGGAC
710907 CACGGGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.53, T:0.04
Consensus pattern (20 bp):
CGGACGGCGGCAACGGGTGG
Found at i:712308 original size:42 final size:43
Alignment explanation
Indices: 712252--712335 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
712242 ACTTCAGCTT
*
712252 TAGCGTACTCTTGATAAA-TCTATC-AACTCTTATCCAATTTAA
1 TAGCGTACCCTTGATAAATTCT-TCGAACTCTTATCCAATTTAA
* *
712294 TAGCTTACCCTTGATAAATTCTTCGAACTCTTATCCACTTTA
1 TAGCGTACCCTTGATAAATTCTTCGAACTCTTATCCAATTTA
712336 TATTTCTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 18 0.49
43 19 0.51
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (43 bp):
TAGCGTACCCTTGATAAATTCTTCGAACTCTTATCCAATTTAA
Found at i:712809 original size:18 final size:18
Alignment explanation
Indices: 712786--712820 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
712776 ATATGTTATT
712786 TAATTTATATAGTTTAAA
1 TAATTTATATAGTTTAAA
* *
712804 TAATTTTTTTAGTTTAA
1 TAATTTATATAGTTTAA
712821 GCCTATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TAATTTATATAGTTTAAA
Found at i:718057 original size:3 final size:3
Alignment explanation
Indices: 718049--718080 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
718039 TGTTTGCAGG
718049 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA T
718081 CTACAGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:718071 original size:16 final size:16
Alignment explanation
Indices: 718050--718080 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
718040 GTTTGCAGGT
718050 AATAATAATAATAATA
1 AATAATAATAATAATA
718066 AATAATAATAATAAT
1 AATAATAATAATAAT
718081 CTACAGAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:729594 original size:23 final size:20
Alignment explanation
Indices: 729550--729599 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
729540 ATAATACAAA
*
729550 AATACAAATTTTCTAAAGAT
1 AATACAAATTTTCTAAAAAT
729570 AATATCAAATTCTTCATAAAAAT
1 AATA-CAAATT-TTC-TAAAAAT
729593 AAT-CAAA
1 AATACAAA
729600 AACCTACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 3 0.12
23 9 0.35
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (20 bp):
AATACAAATTTTCTAAAAAT
Found at i:732581 original size:36 final size:36
Alignment explanation
Indices: 732469--732574 Score: 187
Period size: 35 Copynumber: 2.9 Consensus size: 36
732459 GCAACCAACC
732469 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
1 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
732505 TTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
1 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
*
732540 TTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 TTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
732575 GTTGAAATAT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 35 0.52
36 10 0.15
37 22 0.33
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (36 bp):
TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
Found at i:737202 original size:36 final size:36
Alignment explanation
Indices: 737090--737195 Score: 178
Period size: 35 Copynumber: 2.9 Consensus size: 36
737080 ACAACCAACC
737090 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
1 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
*
737126 TTG-AAAATTGTTTTCAAAGTTTGGTAAATGTTTCT
1 TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
*
737161 TTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 TTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
737196 GTTGAAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 34 0.52
36 9 0.14
37 22 0.34
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (36 bp):
TTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCT
Found at i:739788 original size:36 final size:37
Alignment explanation
Indices: 739741--739811 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
739731 GCAACCAACC
739741 TTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTTCT
1 TTGAAAAATGGTTTTTCAAAGTTTGGTAAATGTTTCT
*
739777 TTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 TTGAAAAATGGTTTTTCAAAGTTTGGTAAATGTTT
739812 GTTGAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 11 0.33
37 22 0.67
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (37 bp):
TTGAAAAATGGTTTTTCAAAGTTTGGTAAATGTTTCT
Found at i:742373 original size:20 final size:19
Alignment explanation
Indices: 742326--742364 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
742316 ATGACCAACA
*
742326 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
742345 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
742364 A
1 A
742365 GTATCGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:742475 original size:41 final size:41
Alignment explanation
Indices: 742386--742476 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 41
742376 CAGTTTCCAG
* * **
742386 ATTCGCAACGCGATTTTGACTATCGCAATGTGAATATGTAA
1 ATTCGCAACACGATTCTGACTATCGCAAACTGAATATGTAA
742427 ATT-GCAACACGATTCTGACTATCGCAACACTGAAT-T-TCAA
1 ATTCGCAACACGATTCTGACTATCGCAA-ACTGAATATGT-AA
742467 ATTCGCAACA
1 ATTCGCAACA
742477 GGTTTTAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 28 0.65
41 14 0.33
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (41 bp):
ATTCGCAACACGATTCTGACTATCGCAAACTGAATATGTAA
Found at i:742616 original size:22 final size:22
Alignment explanation
Indices: 742591--742642 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 22
742581 CTCTCTCCGG
742591 CGACATCCATTCCTATATCCAA
1 CGACATCCATTCCTATATCCAA
742613 CG--A--CA-TCCTATATCCAA
1 CGACATCCATTCCTATATCCAA
*
742630 CGACATCCTTTCC
1 CGACATCCATTCC
742643 CATCTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 10
0.69 0.03 0.29
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 1 0.04
20 1 0.04
21 1 0.04
22 5 0.21
ACGTcount: A:0.29, C:0.38, G:0.06, T:0.27
Consensus pattern (22 bp):
CGACATCCATTCCTATATCCAA
Found at i:742623 original size:17 final size:17
Alignment explanation
Indices: 742601--742638 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
742591 CGACATCCAT
742601 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
742618 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
742635 TCCT
1 TCCT
742639 TTCCCATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (17 bp):
TCCTATATCCAACGACA
Found at i:744328 original size:31 final size:31
Alignment explanation
Indices: 744261--744361 Score: 152
Period size: 31 Copynumber: 3.3 Consensus size: 31
744251 GAAGGACCTA
* * *
744261 TCCAGAGGTCACAAAGA-CCCCGGT-AACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
744290 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
744321 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
*
744352 TCCATAGGTC
1 TCCAGAGGTC
744362 CCGAAGAACC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 16 0.24
30 6 0.09
31 44 0.67
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (31 bp):
TCCAGAGGTCATAAAGATCCTCGGTAAACTG
Found at i:744378 original size:31 final size:31
Alignment explanation
Indices: 744285--744411 Score: 94
Period size: 31 Copynumber: 4.1 Consensus size: 31
744275 AGACCCCGGT
* * ** * *
744285 AACTATCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* ** * *
744316 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
*
744347 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* * * *
744378 AACTGTTCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCACGAAGA-ACCTAGGTA
744409 AAC
1 AAC
744412 CCTCGACTCT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 1 0.01
31 83 0.99
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (31 bp):
AACTGTCCATAGGTCACGAAGAACCTAGGTA
Found at i:744914 original size:2 final size:2
Alignment explanation
Indices: 744907--744939 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
744897 ATACAATTCC
744907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
744940 CTAACTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:745526 original size:21 final size:21
Alignment explanation
Indices: 745496--745540 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
745486 ATTCTGTCAT
* *
745496 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
745517 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
745538 TTG
1 TTG
745541 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:746282 original size:24 final size:24
Alignment explanation
Indices: 746254--746311 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
746244 TTATGAGTAC
**
746254 TGGTCAATATTCGAAATTTGATCT
1 TGGTCAATACCCGAAATTTGATCT
* *
746278 TGGTCAATACCCGGACTTTGATCT
1 TGGTCAATACCCGAAATTTGATCT
746302 TGGTCAATAC
1 TGGTCAATAC
746312 TCAGATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
TGGTCAATACCCGAAATTTGATCT
Found at i:746321 original size:24 final size:24
Alignment explanation
Indices: 746270--746323 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
746260 ATATTCGAAA
*
746270 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
746294 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
746318 TTTGAT
1 TTTGAT
746324 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:747487 original size:19 final size:20
Alignment explanation
Indices: 747412--747481 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
747402 TCTGAAACTT
747412 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
747432 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
747452 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
747471 AAAATCGCAAC
1 AAAATCGCAAC
747482 GAGAAAATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:748228 original size:19 final size:19
Alignment explanation
Indices: 748204--748240 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
748194 TGCGATACTG
*
748204 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
748223 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
748241 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:757522 original size:216 final size:216
Alignment explanation
Indices: 757133--757527 Score: 684
Period size: 216 Copynumber: 1.8 Consensus size: 216
757123 ATTTAAGAAT
757133 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
757198 GGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGGTACTAAATTATAT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGGTACTAAATTACAT
* * *
757263 CCCTTTAAAAAGTTATGGGCCAATTAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCATA
757328 TGCAAATAAAATTTGGAGTAC
196 TGCAAATAAAATTTGGAGTAC
*
757349 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACCTTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
757414 GGATCAAATCGAAATGATTTTAAATTGTGAGGTTGAAATTAATACAAAAATGTACTAAATTACA-
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGGTACTAAATTACAT
* *
757478 CTCATTTAAAAAGTTATTGGCCAATTAATAAATAGAAATAAGTAATAAGT
131 C-CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGT
757528 TGAGAAAAAA
Statistics
Matches: 168, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
215 1 0.01
216 167 0.99
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGGTACTAAATTACAT
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCATA
TGCAAATAAAATTTGGAGTAC
Found at i:757628 original size:42 final size:41
Alignment explanation
Indices: 757562--757658 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 41
757552 TATAGATATA
* *
757562 TATATA-TATATATATATATATATATATATATAATATATAAAC
1 TATATAGTTTATATATAAATATATATAT-TAT-ATATATAAAC
*
757604 TATATAGTTTATATATAAAGTATATGTATTATATATATAAAC
1 TATATAGTTTATATATAAA-TATATATATTATATATATAAAC
757646 TATATAGTTTATA
1 TATATAGTTTATA
757659 CATATTATGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 29 0.58
43 13 0.26
44 8 0.16
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (41 bp):
TATATAGTTTATATATAAATATATATATTATATATATAAAC
Found at i:757651 original size:2 final size:2
Alignment explanation
Indices: 757551--757642 Score: 98
Period size: 2 Copynumber: 45.5 Consensus size: 2
757541 AAAACAACTA
*
757551 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
757593 A- AT AT AT AA ACT AT AT AGT TT AT AT AT AA AGT AT AT GT AT -T
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT
757634 AT AT AT AT A
1 AT AT AT AT A
757643 AACTATATAG
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
1 2 0.03
2 70 0.93
3 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:757657 original size:22 final size:22
Alignment explanation
Indices: 757562--757663 Score: 99
Period size: 22 Copynumber: 4.8 Consensus size: 22
757552 TATAGATATA
* *
757562 TATATA-TATATATATATATA-
1 TATATAGTTTATATATATAAAC
*
757582 TATATA-TATATAATATATAAAC
1 TATATAGTTTAT-ATATATAAAC
*
757604 TATATAG-TT-TATATATAAAG
1 TATATAGTTTATATATATAAAC
757624 TATAT-GTATTATATATATAAAC
1 TATATAGT-TTATATATATAAAC
*
757646 TATATAGTTTATACATAT
1 TATATAGTTTATATATAT
757664 TATGTATAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 11 0.16
22 31 0.44
23 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
TATATAGTTTATATATATAAAC
Found at i:757658 original size:20 final size:20
Alignment explanation
Indices: 757557--757882 Score: 105
Period size: 20 Copynumber: 16.4 Consensus size: 20
757547 ACTAATATAG
* *
757557 ATATATATA-TATATA-TAT
1 ATATATAAACTATATAGTTT
* *
757575 ATATATATA-TATATA-TATA
1 ATATATAAACTATATAGT-TT
757594 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAGTTT
*
757614 ATATATAAAGTATAT-GTATTAT
1 ATATATAAACTATATAG--TT-T
757636 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAGTTT
* ** * *
757656 ATACATATTATGTATAAAGTAT
1 AT--ATATAAACTATATAGTTT
* * *
757678 AAACTATATA-TACCAT-GTTT
1 ATA-TATAAACTA-TATAGTTT
*
757698 AAACTATAATACTATATAGTTT
1 ATA-TATAA-ACTATATAGTTT
* *
757720 ATATATGAACTAT-TGAG-CT
1 ATATATAAACTATAT-AGTTT
* *
757739 ATATAGAAACTACATAG-TT
1 ATATATAAACTATATAGTTT
* *
757758 -TATATAAAGTATAT-GAATT
1 ATATATAAACTATATAG-TTT
* *
757777 ATATATAAACTATACAATTT
1 ATATATAAACTATATAGTTT
* * *
757797 ATATTTATA-TAT-TATGTATA
1 ATATATAAACTATATA-GT-TT
757817 ATTATATATAA-TATATA--TT
1 A-TATATA-AACTATATAGTTT
* *
757836 -GA-ATAAATTATATAGTTT
1 ATATATAAACTATATAGTTT
*
757854 ATTAATATAAATTATATAGTTT
1 A-T-ATATAAACTATATAGTTT
757876 ATATATA
1 ATATATA
757883 TATATAGTAT
Statistics
Matches: 232, Mismatches: 44, Indels: 62
0.69 0.13 0.18
Matches are distributed among these distances:
15 2 0.01
16 9 0.04
17 2 0.01
18 30 0.13
19 31 0.13
20 74 0.32
21 23 0.10
22 58 0.25
23 3 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (20 bp):
ATATATAAACTATATAGTTT
Found at i:757816 original size:17 final size:17
Alignment explanation
Indices: 757796--757888 Score: 66
Period size: 17 Copynumber: 5.2 Consensus size: 17
757786 CTATACAATT
* *
757796 TATATTTATATATTATG
1 TATATTTATATATAATA
*
757813 TATAATTATATATAATA
1 TATATTTATATATAATA
*
757830 TATATTGA-ATA-AATTA
1 TATATTTATATATAA-TA
757846 TATAGTTTATTAATATAAATTA
1 TATA-TTTA-T-ATAT-AA-TA
757868 TATAGTTTATATAT-ATA
1 TATA-TTTATATATAATA
757885 TATA
1 TATA
757889 GTATATATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.03
16 9 0.14
17 29 0.46
18 1 0.02
20 7 0.11
21 1 0.02
22 14 0.22
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TATATTTATATATAATA
Found at i:757866 original size:22 final size:24
Alignment explanation
Indices: 757758--757895 Score: 90
Period size: 24 Copynumber: 5.6 Consensus size: 24
757748 CTACATAGTT
* *
757758 TATATAAAGTATATGAATTATATATA
1 TATATAAATTATAT-AGTT-TATATA
*
757784 AACTATACAATT-TATA-TTTATATA
1 TA-TATA-AATTATATAGTTTATATA
* *
757808 TTATGTATAATTATATA--TAATATA
1 -TATATA-AATTATATAGTTTATATA
757832 TATTGAATAAATTATATAGTTTAT-TA
1 TA-T--ATAAATTATATAGTTTATATA
757858 -ATATAAATTATATAGTTTATATA
1 TATATAAATTATATAGTTTATATA
* *
757881 TATATATAGTATATA
1 TATATAAATTATATA
757896 TGATTTAGGG
Statistics
Matches: 91, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
22 18 0.20
23 4 0.04
24 33 0.36
25 17 0.19
26 6 0.07
27 10 0.11
28 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (24 bp):
TATATAAATTATATAGTTTATATA
Found at i:757889 original size:17 final size:16
Alignment explanation
Indices: 757796--757902 Score: 60
Period size: 17 Copynumber: 6.5 Consensus size: 16
757786 CTATACAATT
*
757796 TATATTTATATATTATG
1 TATATTTATATA-TATA
*
757813 TATAATTATATATAATA
1 TATATTTATATAT-ATA
* *
757830 TATATTGA-ATAAATTA
1 TATATTTATATATA-TA
757846 TATAGTTTAT-TA-ATA
1 TATA-TTTATATATATA
* *
757861 TA-AATTATATAGTTTA
1 TATATTTATATA-TATA
*
757877 TATATATATATAGTATA
1 TATATTTATATA-TATA
757894 TATGATTTA
1 TAT-ATTTA
757903 GGGTTTAGGG
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 5 0.07
16 15 0.22
17 38 0.55
18 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATTTATATATATA
Found at i:758003 original size:20 final size:20
Alignment explanation
Indices: 757933--758005 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
757923 TATAAACTAC
*
757933 ATACTATAATTTATACTTAT
1 ATACTATAATTTATATTTAT
* *
757953 ATATTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
*
757976 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
757998 ATACTATA
1 ATACTATA
758006 TATATGAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 11 0.26
23 10 0.23
24 2 0.05
25 5 0.12
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:758004 original size:33 final size:32
Alignment explanation
Indices: 757956--758048 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 32
757946 TACTTATATA
*
757956 TTATATTTTATACTATTTATATAAACTATAGT
1 TTATATTTTATACTATATATATAAACTATAGT
*
757988 TTATATTTATATACTATATATATGAACTATAGT
1 TTATATTT-TATACTATATATATAAACTATAGT
* * *
758021 TTACATATGA-ACTATATATATAAA-TATA
1 TTATATTTTATACTATATATATAAACTATA
758049 TATATACTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.07
31 13 0.24
32 9 0.17
33 28 0.52
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (32 bp):
TTATATTTTATACTATATATATAAACTATAGT
Found at i:758081 original size:65 final size:65
Alignment explanation
Indices: 758004--758168 Score: 321
Period size: 65 Copynumber: 2.5 Consensus size: 65
757994 TTATATACTA
758004 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
758069 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
*
758134 TATATATGAACTATAGTTTACATATAAACTATATA
1 TATATATGAACTATAGTTTACATATGAACTATATA
758169 GTTTATATAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 99 1.00
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (65 bp):
TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
Found at i:758088 original size:18 final size:18
Alignment explanation
Indices: 758067--758279 Score: 96
Period size: 18 Copynumber: 11.9 Consensus size: 18
758057 AAGGTTGATA
758067 TTTATATATGAACTATAG
1 TTTATATATGAACTATAG
*
758085 TTTACATATGAACTATA-
1 TTTATATATGAACTATAG
758102 --TATATA--AA-TATA-
1 TTTATATATGAACTATAG
* * **
758114 TATATACTAAG-GTTGATA-
1 TTTATA-TATGAACT-ATAG
758132 TTTATATATGAACTATAG
1 TTTATATATGAACTATAG
* *
758150 TTTACATATAAACTATATAG
1 TTTATATATGAAC--TATAG
758170 TTTATATACT-AACTATAG
1 TTTATATA-TGAACTATAG
* *
758188 TTTACATATAAACTATAG
1 TTTATATATGAACTATAG
*
758206 TTGATATTTACATATGAACTATAA
1 TT--TA--T--ATATGAACTATAG
*
758230 TTTACATATGAACTATA-
1 TTTATATATGAACTATAG
758247 --TATATA--AACTATATAG
1 TTTATATATGAAC--TATAG
*
758263 TTTACATATGAACTATA
1 TTTATATATGAACTATA
758280 TATATAGTTT
Statistics
Matches: 152, Mismatches: 17, Indels: 52
0.69 0.08 0.24
Matches are distributed among these distances:
12 4 0.03
13 5 0.03
14 4 0.03
15 16 0.11
17 8 0.05
18 79 0.52
20 20 0.13
21 1 0.01
22 2 0.01
24 13 0.09
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
TTTATATATGAACTATAG
Found at i:758174 original size:38 final size:39
Alignment explanation
Indices: 758129--758251 Score: 160
Period size: 38 Copynumber: 3.1 Consensus size: 39
758119 ACTAAGGTTG
758129 ATATTTATATATGAACTATAGTTTACATATAAACTATAT
1 ATATTTATATATGAACTATAGTTTACATATAAACTATAT
*
758168 A-GTTTATATACT-AACTATAGTTTACATATAAACTATAGTT
1 ATATTTATATA-TGAACTATAGTTTACATATAAACTATA--T
* * *
758208 GATATTTACATATGAACTATAATTTACATATGAACTATAT
1 -ATATTTATATATGAACTATAGTTTACATATAAACTATAT
758248 ATAT
1 ATAT
758252 AAACTATATA
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
38 33 0.45
39 6 0.08
40 2 0.03
41 2 0.03
42 30 0.41
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (39 bp):
ATATTTATATATGAACTATAGTTTACATATAAACTATAT
Found at i:758224 original size:80 final size:75
Alignment explanation
Indices: 758125--758279 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 75
758115 ATATACTAAG
* * *
758125 GTTGATATTTATATATGAACTATAGTTTACATATAAACTATATAGTTTATATACTAACTATAGTT
1 GTTGATATTTACATATGAACTATAATTTACATATAAACTATATA---TATAAACT-A-TATAGTT
758190 TACATATAAACTATA
61 TACATATAAACTATA
*
758205 GTTGATATTTACATATGAACTATAATTTACATATGAACTATATATATAAACTATATAGTTTACAT
1 GTTGATATTTACATATGAACTATAATTTACATATAAACTATATATATAAACTATATAGTTTACAT
*
758270 ATGAACTATA
66 ATAAACTATA
758280 TATATAGTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 21 0.30
76 1 0.01
77 7 0.10
80 41 0.59
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (75 bp):
GTTGATATTTACATATGAACTATAATTTACATATAAACTATATATATAAACTATATAGTTTACAT
ATAAACTATA
Found at i:758257 original size:31 final size:33
Alignment explanation
Indices: 758217--758285 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
758207 TGATATTTAC
*
758217 ATATGAACTATA-A-TTTACATATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
758248 ATATAAACTATATAGTTTACATATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
758281 ATATA
1 ATATA
758286 GTTTATTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 11 0.31
32 1 0.03
33 23 0.66
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (33 bp):
ATATAAACTATATAGTTTACATATGAACTATAT
Found at i:758276 original size:20 final size:20
Alignment explanation
Indices: 758132--758281 Score: 112
Period size: 18 Copynumber: 8.0 Consensus size: 20
758122 AAGGTTGATA
*
758132 TTTATATATGAAC--TATAG
1 TTTACATATGAACTATATAG
*
758150 TTTACATATAAACTATATAG
1 TTTACATATGAACTATATAG
*
758170 TTTATATACT-AAC--TATAG
1 TTTACATA-TGAACTATATAG
* *
758188 TTTACATATAAACTATAGTTGATA
1 TTTACATATGAACTATA--T-A-G
758212 TTTACATATGAACTATA-A-
1 TTTACATATGAACTATATAG
758230 TTTACATATGAACTATATA-
1 TTTACATATGAACTATATAG
758249 --T--ATA--AACTATATAG
1 TTTACATATGAACTATATAG
758263 TTTACATATGAACTATATA
1 TTTACATATGAACTATATA
758282 TATAGTTTAT
Statistics
Matches: 108, Mismatches: 6, Indels: 34
0.73 0.04 0.23
Matches are distributed among these distances:
13 9 0.08
15 3 0.03
16 1 0.01
17 2 0.02
18 46 0.43
19 1 0.01
20 27 0.25
21 1 0.01
22 1 0.01
23 1 0.01
24 16 0.15
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTACATATGAACTATATAG
Found at i:758283 original size:24 final size:24
Alignment explanation
Indices: 758256--758305 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
758246 ATATATAAAC
758256 TATATAGTTTACATA-TGAACTATA
1 TATATAGTTTA-ATAGTGAACTATA
*
758280 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTAATAGTGAACTATA
758304 TA
1 TA
758306 CACTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATAGTTTAATAGTGAACTATA
Found at i:758318 original size:2 final size:2
Alignment explanation
Indices: 758313--758408 Score: 59
Period size: 2 Copynumber: 44.0 Consensus size: 2
758303 ATACACTATT
* * *
758313 TA TA TA CTA TA TA CTA TA TA CTA TA TA TA TA AA AA CTA TA GTT TA
1 TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA
* *
758358 TA TT TA TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
758400 TA TA GTA TA
1 TA TA -TA TA
758409 ATTTACATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
1 1 0.01
2 60 0.79
3 15 0.20
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:758325 original size:7 final size:7
Alignment explanation
Indices: 758313--758408 Score: 65
Period size: 7 Copynumber: 13.6 Consensus size: 7
758303 ATACACTATT
758313 TATATAC
1 TATATAC
758320 TATATAC
1 TATATAC
758327 TATATAC
1 TATATAC
758334 TATATA-
1 TATATAC
*
758340 TATAAAAAC
1 TAT--ATAC
*
758349 TATAGT-T
1 TATA-TAC
*
758356 TATAT-T
1 TATATAC
758362 TATATAC
1 TATATAC
*
758369 TATATAT
1 TATATAC
758376 TATATA-
1 TATATAC
*
758382 TATAAAC
1 TATATAC
758389 TATATATAC
1 --TATATAC
*
758398 TATATAG
1 TATATAC
758405 TATA
1 TATA
758409 ATTTACATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
6 15 0.21
7 47 0.64
8 2 0.03
9 9 0.12
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (7 bp):
TATATAC
Found at i:758343 original size:20 final size:20
Alignment explanation
Indices: 758300--758408 Score: 91
Period size: 20 Copynumber: 5.3 Consensus size: 20
758290 ATTAGTGAAC
758300 TATATAC-ACTAT-TTATATA
1 TATATACTA-TATATTATATA
758319 CTATATACTATATACTATATATA
1 -TATATACTATATA-T-TATATA
* * *
758342 TAAAAACTATAGT-TTATATT
1 TATATACTATA-TATTATATA
758362 TATATACTATATATTATATA
1 TATATACTATATATTATATA
*
758382 TATAAACTATATA-TACTATA
1 TATATACTATATATTA-TATA
758402 TAGTATA
1 TA-TATA
758409 ATTTACATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.04
20 48 0.66
21 5 0.07
22 10 0.14
23 7 0.10
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATACTATATATTATATA
Found at i:758425 original size:34 final size:36
Alignment explanation
Indices: 758320--758430 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 36
758310 ATTTATATAC
* * * * *
758320 TATATACTATATACTATATA-TATAAAAACTATAGTT
1 TATATACTATATACTATATATTATACATA-TAAACTA
* *
758356 TATAT-TTATATACTATATATTATATATATAAACTA
1 TATATACTATATACTATATATTATACATATAAACTA
* *
758391 TATATACTATATAGTATA-ATT-TACATATGAACTA
1 TATATACTATATACTATATATTATACATATAAACTA
758425 TATATA
1 TATATA
758431 AAAATCCTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
34 17 0.27
35 25 0.40
36 21 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (36 bp):
TATATACTATATACTATATATTATACATATAAACTA
Found at i:758569 original size:33 final size:32
Alignment explanation
Indices: 758473--758603 Score: 138
Period size: 33 Copynumber: 3.8 Consensus size: 32
758463 TATATAGTTT
**
758473 TAGTATATATAAACTATATGATATATA-TAGAC
1 TAGTATATATAAACTATAT-ATATATAGTTCAC
758505 TATATGGTATATATAAACTATGCATTATATATAGTTCAC
1 --TA--GTATATATAAACTAT--A-TATATATAGTTCAC
*
758544 TAGTATATATAAACTATATACTATATAGTTCAT
1 TAGTATATATAAACTATATA-TATATAGTTCAC
758577 TAGTATATATAAACTATATAGTATATA
1 TAGTATATATAAACTATATA-TATATA
758604 TAAACTATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.02
33 38 0.44
34 2 0.02
35 15 0.17
36 15 0.17
37 2 0.02
38 8 0.09
39 4 0.05
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (32 bp):
TAGTATATATAAACTATATATATATAGTTCAC
Found at i:758587 original size:17 final size:17
Alignment explanation
Indices: 758530--758587 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
758520 AACTATGCAT
*
758530 TATATATAGTTCACTAG
1 TATATATAGTTCATTAG
**
758547 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
758562 TACTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
758580 TATATATA
1 TATATATA
758588 AACTATATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 17 0.55
18 3 0.10
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:758720 original size:18 final size:18
Alignment explanation
Indices: 758473--758720 Score: 173
Period size: 18 Copynumber: 14.1 Consensus size: 18
758463 TATATAGTTT
758473 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
758491 T-GATATATATAGACTATA
1 TAG-TATATATAAACTATA
* *
758509 TGGTATATATAAACTATG
1 TAGTATATATAAACTATA
* * *
758527 CA-T-TATATATAGT-TCA
1 TAGTATATATAAACTAT-A
758543 CTAGTATATATAAACTATA
1 -TAGTATATATAAACTATA
* *
758562 TACTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
758577 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
758595 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
***
758613 TA-T-TATATAGTTTAT-
1 TAGTATATATAAACTATA
*
758628 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
* *
758646 TAGTATATGATATAC-AAA
1 TAGTATAT-ATAAACTATA
* *
758664 CTA-TATATATATAGT-TCA
1 -TAGTATATATAAACTAT-A
*
758682 TTAGTATATATAAATTATA
1 -TAGTATATATAAACTATA
758701 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
758719 TA
1 TA
758721 TTAAATTATT
Statistics
Matches: 179, Mismatches: 30, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.01
15 11 0.06
16 21 0.12
17 21 0.12
18 95 0.53
19 28 0.16
20 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:758744 original size:106 final size:107
Alignment explanation
Indices: 758548--758744 Score: 301
Period size: 106 Copynumber: 1.9 Consensus size: 107
758538 GTTCACTAGT
*
758548 ATATATAAACTATATACTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATA
1 ATATACAAACTATATACTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATA
* * * *
758613 TATTATATAGTTTATTAGTATATATAACCTATATAGTATATG
66 TATTAAATAGTTAATTAGAAAATATAACCTATATAGTATATG
*
758655 ATATACAAACTATATA-TATATAGTTCATTAGTATATATAAATTATATAGTATATATAAACTATA
1 ATATACAAACTATATACTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATA
758719 TATTAAATTA-TTAATATA-AAAATATA
66 TATTAAA-TAGTTAAT-TAGAAAATATA
758745 TATTAATTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
106 63 0.77
107 19 0.23
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (107 bp):
ATATACAAACTATATACTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATA
TATTAAATAGTTAATTAGAAAATATAACCTATATAGTATATG
Found at i:761908 original size:15 final size:17
Alignment explanation
Indices: 761890--761921 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
761880 ATATAAAAAT
761890 CAAATT-TA-TAATATA
1 CAAATTATATTAATATA
761905 CAAATTATATTAATATA
1 CAAATTATATTAATATA
761922 AAACTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
CAAATTATATTAATATA
Found at i:764830 original size:21 final size:20
Alignment explanation
Indices: 764789--764841 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
764779 TATAGTTTTA
764789 ATTTTATTTTAATCACTATTT
1 ATTTTATTTTAATCAC-ATTT
764810 ATTTATATTTTAATTCA-ATTT
1 ATTT-TATTTTAA-TCACATTT
764831 A--TTATTTTAAT
1 ATTTTATTTTAAT
764842 TTTATATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 8 0.27
19 1 0.03
21 9 0.30
22 8 0.27
23 3 0.10
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTAATCACATTT
Found at i:767092 original size:43 final size:43
Alignment explanation
Indices: 767025--767110 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
767015 TGGCTTTAGA
* *
767025 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
* *
767068 GAAGTTAGGACTGAAAGATGTCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
767111 TGATGCACGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (43 bp):
GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
Found at i:767403 original size:15 final size:15
Alignment explanation
Indices: 767367--767405 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
767357 AATTTACATG
767367 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
767381 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
767396 TTTGCATTTG
1 TTTACATTTG
767406 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:770618 original size:22 final size:22
Alignment explanation
Indices: 770592--770635 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
770582 TATTATACTC
770592 ATCCAGCAAAGAAAGAAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAA
*
770614 ATCCAGCAAAGAAAGGAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAA
770636 GAAAAAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.14, G:0.16, T:0.05
Consensus pattern (22 bp):
ATCCAGCAAAGAAAGAAAAAAA
Found at i:770651 original size:10 final size:9
Alignment explanation
Indices: 770630--770694 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
770620 CAAAGAAAGG
770630 AAAAA-AGA
1 AAAAAGAGA
770638 AAAAAGAGGA
1 AAAAAGA-GA
*
770648 AAAAAGAAA
1 AAAAAGAGA
770657 AAAAAG-GA
1 AAAAAGAGA
*
770665 AAGAAATAGA
1 AA-AAAGAGA
* *
770675 AAAAAAACA
1 AAAAAGAGA
770684 AAAAAGA-A
1 AAAAAGAGA
770692 AAA
1 AAA
770695 GAAAAAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 12 0.26
9 22 0.47
10 13 0.28
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:770675 original size:20 final size:17
Alignment explanation
Indices: 770625--770694 Score: 88
Period size: 17 Copynumber: 4.0 Consensus size: 17
770615 TCCAGCAAAG
770625 AAAGGAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
*
770642 AGAGGAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
770659 AAAGGAAAGAAATAGAAAAA
1 AAAGG-AA-AAA-AGAAAAA
*
770679 AAA-CAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
770695 GAAAAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 7 0.15
17 23 0.49
18 4 0.09
19 3 0.06
20 10 0.21
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (17 bp):
AAAGGAAAAAAGAAAAA
Found at i:775737 original size:22 final size:22
Alignment explanation
Indices: 775709--775830 Score: 210
Period size: 22 Copynumber: 5.6 Consensus size: 22
775699 ACATCTACAT
775709 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
775731 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
775753 TTTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
775775 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
775797 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
775819 T-TTCAAAGATGA
1 TCTTCAAAGATGA
775831 AAGCTTTATT
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
21 10 0.11
22 85 0.89
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:777138 original size:112 final size:112
Alignment explanation
Indices: 776227--777119 Score: 1302
Period size: 112 Copynumber: 7.9 Consensus size: 112
776217 TAGCAAAGAT
* * * **
776227 TTAAATCCATCATTCAATGGATCAACATTTTCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
776292 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * **
776339 TTAAATTCATCCCTCGGTGGATCAATATTTTCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
776404 AGAAGAAGAAGACGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGAAG-A-A-GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * *
776454 TTAAATTCATCACTCGGTGGATCAACAGTGCCAGTTAGAGTTCATAATGAAAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
* *
776519 AAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * * ** * *
776566 TTAAATTCATCACTTGATGGATCAACTTTTCTAGAGAAAGTTCATAATGATAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
776631 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * *
776678 TTAAATTCATCCCTC-AGTGGATCAGCAATGCCAATTAGAGTTCATAATGAGAAGAACTCATCTG
1 TTAAATTCATCACTCGA-TGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTG
776742 AAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * * *
776790 TTAAATTCATCCCTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATAAGAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
776855 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * *
776902 TTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAAAAGAACTCATCTGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
* * *
776967 AAAAGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
* * * * ** * *
777014 TTAAATTCATCACTTGATGGATCAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATATGA
1 TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
*
777079 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
66 AGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
777120 CTTTGTTTGA
Statistics
Matches: 712, Mismatches: 63, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
111 1 0.00
112 570 0.80
113 36 0.05
114 2 0.00
115 103 0.14
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (112 bp):
TTAAATTCATCACTCGATGGATCAACATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
Found at i:778812 original size:21 final size:20
Alignment explanation
Indices: 778771--778823 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
778761 TATAGTTTTA
778771 ATTTTATTTTAATCACTATTT
1 ATTTTATTTTAATCAC-ATTT
778792 ATTTATATTTTAATTCA-ATTT
1 ATTT-TATTTTAA-TCACATTT
778813 A--TTATTTTAAT
1 ATTTTATTTTAAT
778824 TTTATATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 8 0.27
19 1 0.03
21 9 0.30
22 8 0.27
23 3 0.10
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTAATCACATTT
Found at i:779262 original size:144 final size:144
Alignment explanation
Indices: 778934--779381 Score: 527
Period size: 144 Copynumber: 3.2 Consensus size: 144
778924 TTATATATAT
* *
778934 TAAATAAATATCTTACATTTATA-AATTATATATTAATCTATTTATTATTATTATTTTTATAAAA
1 TAAATAAATATCTT--ATTTATATAAAT-TATA-T-ATCTATTTATTATTATTATTTTTAGAAAA
* * * * *
778998 ATGTTTTTATATTTATTCA-TTTTCAATATCGAAGAGAATAGATGTCTTAAGGCACCTAGAAG-C
61 ATGTTTTTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCC
779061 ACTTTTCTGATATTT-TCAAA
126 A-TTTTCTGATATTTCT-AAA
*
779081 TAAATAAATATCTTA-TTATATTAAA--ATA-A---ATTT-TTA-T-TT-TTTTAAG-AAAATG-
1 TAAATAAATATCTTATTTATA-TAAATTATATATCTATTTATTATTATTATTTTTAGAAAAATGT
* * *
779133 TTTTAGTTATTTACTT-ATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGTACCTAGAAGCCC
65 TTTTA--TATTTA-TTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCA
779197 TTTTCTGATATTTCTAAA
127 TTTTCTGATATTTCTAAA
* *
779215 TAAGTAAATATCTTATTTTTATAAATTATATATCTATTTATTATTATTATTTTTAGAAAAATGTT
1 TAAATAAATATCTTATTTATATAAATTATATATCTATTTATTATTATTATTTTTAGAAAAATGTT
* * *
779280 TTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTT
66 TTTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCATTTT
779345 CTGATATTTCTAAA
131 CTGATATTTCTAAA
779359 TAAATAAATATCTTATTTATATA
1 TAAATAAATATCTTATTTATATA
779382 TGTATATTAA
Statistics
Matches: 257, Mismatches: 22, Indels: 47
0.79 0.07 0.14
Matches are distributed among these distances:
131 5 0.02
132 6 0.02
133 12 0.05
134 74 0.29
135 7 0.03
136 6 0.02
137 5 0.02
140 5 0.02
141 3 0.01
142 1 0.00
143 7 0.03
144 98 0.38
145 7 0.03
146 7 0.03
147 14 0.05
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (144 bp):
TAAATAAATATCTTATTTATATAAATTATATATCTATTTATTATTATTATTTTTAGAAAAATGTT
TTTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCATTTT
CTGATATTTCTAAA
Found at i:780506 original size:214 final size:214
Alignment explanation
Indices: 780137--780564 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
780127 CGAGGAAACT
780137 TCACCAGGGAAGAAGAGGAAACCATAATCCAACTGCAAAAGAAGCTGGGGAATCGATGGTCAGCT
1 TCACCAGGGAAGAAGAGGAAACCATAATCCAACTGCAAAAGAAGCTGGGGAATCGATGGTCAGCT
780202 ATAGCAGCAAGGCTTCCTCAAAGAACAGACAACTATATTAAAAACTACTGGAACACTCCCTTGAA
66 ATAGCAGCAAGGCTTCCTCAAAGAACAGACAACTATATTAAAAACTACTGGAACACTCCCTTGAA
780267 GAAAAGATCAGTAATATCGGAGAACAACAACTCAGTATCGGCAACTTCAGAAAACAGTTCCAGCG
131 GAAAAGATCAGTAATATCGGAGAACAACAACTCAGTATCGGCAACTTCAGAAAACAGTTCCAGCG
780332 TTGAGGAGAATTCGTGTGA
196 TTGAGGAGAATTCGTGTGA
780351 TCACCAGGGAAGAAGAGGAAACCATAATCCAACTGCAAAAGAAGCTGGGGAATCGATGGTCAGCT
1 TCACCAGGGAAGAAGAGGAAACCATAATCCAACTGCAAAAGAAGCTGGGGAATCGATGGTCAGCT
780416 ATAGCAGCAAGGCTTCCTCAAAGAACAGACAACTATATTAAAAACTACTGGAACACTCCCTTGAA
66 ATAGCAGCAAGGCTTCCTCAAAGAACAGACAACTATATTAAAAACTACTGGAACACTCCCTTGAA
780481 GAAAAGATCAGTAATATCGGAGAACAACAACTCAGTATCGGCAACTTCAGAAAACAGTTCCAGCG
131 GAAAAGATCAGTAATATCGGAGAACAACAACTCAGTATCGGCAACTTCAGAAAACAGTTCCAGCG
780546 TTGAGGAGAATTCGTGTGA
196 TTGAGGAGAATTCGTGTGA
780565 CGCTGAGTTC
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (214 bp):
TCACCAGGGAAGAAGAGGAAACCATAATCCAACTGCAAAAGAAGCTGGGGAATCGATGGTCAGCT
ATAGCAGCAAGGCTTCCTCAAAGAACAGACAACTATATTAAAAACTACTGGAACACTCCCTTGAA
GAAAAGATCAGTAATATCGGAGAACAACAACTCAGTATCGGCAACTTCAGAAAACAGTTCCAGCG
TTGAGGAGAATTCGTGTGA
Found at i:784928 original size:21 final size:20
Alignment explanation
Indices: 784897--784951 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
784887 ATTTATGGAT
784897 TTTTTTATTTTTTGGTTTTTC
1 TTTTTT-TTTTTTGGTTTTTC
* *
784918 TCTTTTTTTTTTTGTTTTTTG
1 T-TTTTTTTTTTTGGTTTTTC
784939 TTTTTATTTTTTT
1 TTTTT-TTTTTTT
784952 CAATGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTTTGGTTTTTC
Found at i:784935 original size:27 final size:25
Alignment explanation
Indices: 784896--784951 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
784886 GATTTATGGA
*
784896 TTTTTTTATTTTTTGGTTTTTCTCTT
1 TTTTTTTATTTTTTGGTTTTTAT-TT
* *
784922 TTTTTTTTTGTTTTTTGTTTTTATTT
1 TTTTTTTAT-TTTTTGGTTTTTATTT
784948 TTTT
1 TTTT
784952 CAATGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.86
Consensus pattern (25 bp):
TTTTTTTATTTTTTGGTTTTTATTT
Found at i:786599 original size:30 final size:29
Alignment explanation
Indices: 786563--786619 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
786553 GCTGTTGGAA
786563 ACCGGTTTAACCGATTTTCAACCGGTTCTG
1 ACCGGTTTAACCGA-TTTCAACCGGTTCTG
* *
786593 ACCGGTTTGACCGATTTCGACCGGTTC
1 ACCGGTTTAACCGATTTCAACCGGTTC
786620 GAACTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.32
Consensus pattern (29 bp):
ACCGGTTTAACCGATTTCAACCGGTTCTG
Found at i:786672 original size:22 final size:22
Alignment explanation
Indices: 786647--786690 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
786637 CTGACCCGAT
786647 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
786669 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
786691 GTTGACTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.23, T:0.09
Consensus pattern (22 bp):
CGACCCGACCCGACCGTTGACC
Found at i:793865 original size:9 final size:9
Alignment explanation
Indices: 793845--793892 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
793835 TGCTGGAAAT
793845 CGGTTCTGAC
1 CGGTT-TGAC
793855 CGGTTTGAC
1 CGGTTTGAC
793864 CGGTTTGAAC
1 CGGTTTG-AC
*
793874 CGGTTTGAT
1 CGGTTTGAC
*
793883 CGGTCTGAC
1 CGGTTTGAC
793892 C
1 C
793893 CGACCCGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:793875 original size:10 final size:10
Alignment explanation
Indices: 793853--793881 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
793843 ATCGGTTCTG
793853 ACCGGTTTG-
1 ACCGGTTTGA
793862 ACCGGTTTGA
1 ACCGGTTTGA
793872 ACCGGTTTGA
1 ACCGGTTTGA
793882 TCGGTCTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (10 bp):
ACCGGTTTGA
Found at i:793899 original size:5 final size:5
Alignment explanation
Indices: 793889--793924 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
793879 TGATCGGTCT
793889 GACCC GACCC GA-CC GACCC GACCC GACCC GACCC GA
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GA
793925 TCGTTGACCG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:793904 original size:9 final size:9
Alignment explanation
Indices: 793892--793921 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
793882 TCGGTCTGAC
793892 CCGACCCGA
1 CCGACCCGA
793901 CCGACCCGA
1 CCGACCCGA
793910 CCCGACCCGA
1 -CCGACCCGA
793920 CC
1 CC
793922 CGATCGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (9 bp):
CCGACCCGA
Found at i:793938 original size:7 final size:7
Alignment explanation
Indices: 793926--793953 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
793916 CCGACCCGAT
793926 CGTTGAC
1 CGTTGAC
793933 CGTTGAC
1 CGTTGAC
793940 CGTTGAC
1 CGTTGAC
793947 CGTTGAC
1 CGTTGAC
793954 TTCATTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
CGTTGAC
Found at i:795927 original size:22 final size:22
Alignment explanation
Indices: 795901--795942 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
795891 TTAATATAAA
*
795901 TTATCATTCATGTGCATTCATT
1 TTATCATTCATATGCATTCATT
795923 TTATCATTCATATGCATTCA
1 TTATCATTCATATGCATTCA
795943 CATTCATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATCATTCATATGCATTCATT
Found at i:797422 original size:29 final size:29
Alignment explanation
Indices: 797389--797446 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
797379 ATTCATCTTG
*
797389 AAAAAAAAATATTCCAAAAATTAAAAAAAC
1 AAAAATAAA-ATTCCAAAAATTAAAAAAAC
***
797419 AAAAATAAAATTTTGAAAATTAAAAAAA
1 AAAAATAAAATTCCAAAAATTAAAAAAA
797447 AAGAAAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (29 bp):
AAAAATAAAATTCCAAAAATTAAAAAAAC
Found at i:798690 original size:65 final size:64
Alignment explanation
Indices: 798619--798775 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 64
798609 TTTTTCAGAG
* *
798619 TGATGCACCAATCCATGCATCGATGCACCATGA-ATTAAAT-TGAACATCGAATGCATTTCATGC
1 TGATGCACCAA-CCATGCATCGATGCACC-TGAGATTAAATGAGAACATCGAATGCATTTCAAGC
798682 AT
64 -T
* ** *
798684 TGATGCA-CACACCATGCACCGATGCA-CTGAGGATTTTATGAGAACATCGAATGCATTTGAAGC
1 TGATGCACCA-ACCATGCATCGATGCACCTGA-GATTAAATGAGAACATCGAATGCATTTCAAGC
798747 T
64 T
*
798748 TCGATGCACCAGCCATGCATCGATGCAC
1 T-GATGCACCAACCATGCATCGATGCAC
798776 TCTGGCTATT
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.04
63 1 0.01
64 23 0.30
65 48 0.62
66 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (64 bp):
TGATGCACCAACCATGCATCGATGCACCTGAGATTAAATGAGAACATCGAATGCATTTCAAGCT
Found at i:798776 original size:65 final size:65
Alignment explanation
Indices: 798660--798820 Score: 179
Period size: 65 Copynumber: 2.5 Consensus size: 65
798650 GAATTAAATT
* * *
798660 GAACATCGAATGCATTTCATGCATTGATGCACACACCATGCACCGATGCACTGAGGAT-TTTATG
1 GAACATCGAATGCATTTGAAGCATTGATGCACACACCATGCACCGATGCACTCAGGATATTT-TG
798724 A
65 A
* * *
798725 GAACATCGAATGCATTTGAAGC-TTCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTTT
1 GAACATCGAATGCATTTGAAGCATT-GATGCACACA-CCATGCACCGATGCACTCAGGATATTTT
798788 GA
64 GA
* *
798790 -AACATCGAATGCACTTGATGCATCT-ATGCAC
1 GAACATCGAATGCATTTGAAGCAT-TGATGCAC
798821 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
64 29 0.35
65 50 0.60
66 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (65 bp):
GAACATCGAATGCATTTGAAGCATTGATGCACACACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:803852 original size:22 final size:22
Alignment explanation
Indices: 803826--803867 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
803816 TTAATATAAA
*
803826 TTATCATTCATGTGCATTCATT
1 TTATCATTCACGTGCATTCATT
803848 TTATCATTCACGTGCATTCA
1 TTATCATTCACGTGCATTCA
803868 CATTCATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (22 bp):
TTATCATTCACGTGCATTCATT
Found at i:804097 original size:17 final size:17
Alignment explanation
Indices: 804075--804110 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
804065 CGTCAAACAT
804075 CATGGAACACTTGATAA
1 CATGGAACACTTGATAA
804092 CATGGAACACTTGATAA
1 CATGGAACACTTGATAA
804109 CA
1 CA
804111 GCTTGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (17 bp):
CATGGAACACTTGATAA
Found at i:806182 original size:71 final size:71
Alignment explanation
Indices: 806100--806245 Score: 292
Period size: 71 Copynumber: 2.1 Consensus size: 71
806090 ATATATTATC
806100 TTTTAGGTTTTAAGATTTAGTTTGGAGAGATTTAATATGTCTGTTAAAAGTTCAAATTGTGAAAA
1 TTTTAGGTTTTAAGATTTAGTTTGGAGAGATTTAATATGTCTGTTAAAAGTTCAAATTGTGAAAA
806165 ACATCT
66 ACATCT
806171 TTTTAGGTTTTAAGATTTAGTTTGGAGAGATTTAATATGTCTGTTAAAAGTTCAAATTGTGAAAA
1 TTTTAGGTTTTAAGATTTAGTTTGGAGAGATTTAATATGTCTGTTAAAAGTTCAAATTGTGAAAA
806236 ACATCT
66 ACATCT
806242 TTTT
1 TTTT
806246 TTAAGAAGAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (71 bp):
TTTTAGGTTTTAAGATTTAGTTTGGAGAGATTTAATATGTCTGTTAAAAGTTCAAATTGTGAAAA
ACATCT
Found at i:806906 original size:14 final size:14
Alignment explanation
Indices: 806887--806913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
806877 GTCGATCAAA
806887 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
806901 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
806914 GATTAGTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:808510 original size:2 final size:2
Alignment explanation
Indices: 808505--808541 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
808495 TTATTCTTAT
808505 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
808542 TATCTTCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:808631 original size:21 final size:19
Alignment explanation
Indices: 808601--808691 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
808591 TATATATTTA
*
808601 TTATATATATTATTAATTAT
1 TTATATATATCATT-ATTAT
*
808621 TTTTCATATATCATTATTAT
1 TTAT-ATATATCATTATTAT
* *
808641 TTATATATAT-ACTATAAT
1 TTATATATATCATTATTAT
*
808659 TTATGTTATAT-ATTTATTAT
1 TTAT-ATATATCA-TTATTAT
*
808679 TT-TATATTTCATT
1 TTATATATATCATT
808692 TCTTTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
18 16 0.28
19 14 0.25
20 18 0.32
21 9 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (19 bp):
TTATATATATCATTATTAT
Found at i:808638 original size:17 final size:17
Alignment explanation
Indices: 808590--808648 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
808580 ATATTCTTCG
808590 TTATATAT--TTATTAT
1 TTATATATCATTATTAT
* *
808605 ATATATTATTAATTATT-T
1 TTATA-TA-TCATTATTAT
808623 TTCATATATCATTATTAT
1 TT-ATATATCATTATTAT
808641 TTATATAT
1 TTATATAT
808649 ATACTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 4 0.11
16 2 0.06
17 14 0.40
18 7 0.20
19 8 0.23
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATCATTATTAT
Found at i:808683 original size:5 final size:5
Alignment explanation
Indices: 808675--808818 Score: 52
Period size: 5 Copynumber: 28.2 Consensus size: 5
808665 TATATATTTA
*
808675 TTATT TTATAT TTCA-T TTCTT TTATT TT-TT TT-TT ATCTATT TTATT
1 TTATT TTAT-T TT-ATT TTATT TTATT TTATT TTATT -T-TATT TTATT
* * * * * *
808721 TT-GT ATATT GTTATT GTTA-T ATATC TTCTT -TATT TTA-T GTATT TTATT
1 TTATT TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT
* *
808769 TATATT ATT-TT TTATT TTTTT TTGCCTCT TTATT TTATT TTATT TTATT
1 T-TATT -TTATT TTATT TTATT TT--AT-T TTATT TTATT TTATT TTATT
808818 T
1 T
808819 ATCTTGCTTA
Statistics
Matches: 105, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
4 18 0.17
5 60 0.57
6 19 0.18
7 5 0.05
8 3 0.03
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:808683 original size:16 final size:16
Alignment explanation
Indices: 808590--808786 Score: 69
Period size: 16 Copynumber: 12.1 Consensus size: 16
808580 ATATTCTTCG
808590 TTATATATTTATTA-T
1 TTATATATTTATTATT
* *
808605 ATATATTATTAATTATTT
1 TTATA-TATTTATTA-TT
808623 TTCATATATCATTATTATT
1 TT-ATATAT--TTATTATT
*
808642 TATATATATACTATAATTTATG
1 T-TATATAT--T-T-A-TTATT
808664 TTATATATTTATTATT
1 TTATATATTTATTATT
*
808680 TTATAT-TTCATT-TCT
1 TTATATATTTATTAT-T
808695 TT-TAT-TTT-TT-TT
1 TTATATATTTATTATT
*
808707 TTATCTA-TT-TTATT
1 TTATATATTTATTATT
* *
808721 TTGTATA-TTGTTATT
1 TTATATATTTATTATT
*
808736 GTTATATATCTTCTTTATT
1 -TTATATAT-TT-ATTATT
*
808755 TTATGTA-TT-TTA-T
1 TTATATATTTATTATT
*
808768 TTATATTATTTTTTATT
1 TTATA-TATTTATTATT
808785 TT
1 TT
808787 TTTTTGCCTC
Statistics
Matches: 142, Mismatches: 17, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
12 3 0.02
13 14 0.10
14 20 0.14
15 19 0.13
16 29 0.20
17 4 0.03
18 14 0.10
19 19 0.13
20 7 0.05
21 8 0.06
22 5 0.04
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (16 bp):
TTATATATTTATTATT
Found at i:808684 original size:14 final size:14
Alignment explanation
Indices: 808667--808785 Score: 54
Period size: 14 Copynumber: 8.5 Consensus size: 14
808657 ATTTATGTTA
808667 TATATTTATTATTT
1 TATATTTATTATTT
808681 TATATTTCATT-TCTT
1 TATATTT-ATTAT-TT
*
808696 T-TATTT-TTTTTT
1 TATATTTATTATTT
*
808708 TATCTATT-TTATTT
1 TATAT-TTATTATTT
* *
808722 TGTATATTGTTATTGT
1 TATAT-TTATTATT-T
* * *
808738 TATATATCTT-CTT
1 TATATTTATTATTT
808751 TAT-TTTATGTATTT
1 TATATTTAT-TATTT
808765 TAT-TTATATTATTT
1 TATATT-TATTATTT
*
808779 TTTATTT
1 TATATTT
808786 TTTTTTGCCT
Statistics
Matches: 82, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
12 8 0.10
13 8 0.10
14 42 0.51
15 19 0.23
16 5 0.06
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (14 bp):
TATATTTATTATTT
Found at i:808776 original size:9 final size:9
Alignment explanation
Indices: 808657--808820 Score: 52
Period size: 9 Copynumber: 17.7 Consensus size: 9
808647 ATATACTATA
*
808657 ATTTATGTT
1 ATTTATTTT
*
808666 ATATA-TTT
1 ATTTATTTT
808674 A-TTATTTT
1 ATTTATTTT
*
808682 A--TATTTC
1 ATTTATTTT
*
808689 ATTTCTTTT
1 ATTTATTTT
*
808698 ATTTTTTTTTT
1 A--TTTATTTT
*
808709 ATCTATTTT
1 ATTTATTTT
*
808718 ATTT-TGTAT
1 ATTTAT-TTT
808727 ATTGTTATTGTT
1 A-T-TTATT-TT
* *
808739 ATATATCTT
1 ATTTATTTT
*
808748 CTTTATTTT
1 ATTTATTTT
*
808757 ATGTATTTT
1 ATTTATTTT
*
808766 ATTTATATT
1 ATTTATTTT
808775 ATTT-TTTAT
1 ATTTATTT-T
* *
808784 TTTTTTTTGCCT
1 ATTTATTT---T
*
808796 CTTTATTTT
1 ATTTATTTT
808805 ATTTTATTTT
1 A-TTTATTTT
808815 ATTTAT
1 ATTTAT
808821 CTTGCTTACA
Statistics
Matches: 113, Mismatches: 27, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
7 8 0.07
8 10 0.09
9 57 0.50
10 16 0.14
11 12 0.11
12 10 0.09
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (9 bp):
ATTTATTTT
Found at i:819536 original size:110 final size:110
Alignment explanation
Indices: 819340--819544 Score: 338
Period size: 110 Copynumber: 1.9 Consensus size: 110
819330 GAATTTTCCA
* * *
819340 CAGAGTCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
1 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACA
*
819405 ACAAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATT
66 ACAAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATT
*
819450 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCACA
1 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACA
* * *
819515 GCGAAGGGGCGGCTGACTGTCAACAAACAA
66 ACAAAGGGGCGACTGACTGTCAACAAACAA
819545 TTTCCAGAGC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (110 bp):
CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACA
ACAAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATT
Found at i:821085 original size:19 final size:18
Alignment explanation
Indices: 821061--821134 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 18
821051 ATTCTTTTTC
821061 ATATATCATTATTATTTAT
1 ATATAT-ATTATTATTTAT
821080 ATATAT-TT-TTA-TTA-
1 ATATATATTATTATTTAT
*
821094 CTATA-ATTA-TATGTTAT
1 ATATATATTATTAT-TTAT
821111 ATATATATTTATTATTT-T
1 ATATATA-TTATTATTTAT
821129 ATATAT
1 ATATAT
821135 TTCATTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
14 8 0.18
15 3 0.07
16 6 0.13
17 6 0.13
18 8 0.18
19 11 0.24
20 3 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
ATATATATTATTATTTAT
Found at i:821132 original size:20 final size:19
Alignment explanation
Indices: 821081--821134 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
821071 ATTATTTATA
821081 TATATTTT-TATTACTATAAT
1 TATATTTTATA-TA-TATAAT
* *
821101 TATATGTTATATATATATT
1 TATATTTTATATATATAAT
821120 TATTATTTTATATAT
1 TA-TATTTTATATAT
821135 TTCATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.24
20 20 0.69
21 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATTTTATATATATAAT
Found at i:821187 original size:20 final size:20
Alignment explanation
Indices: 821140--821193 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
821130 TATATTTCAT
*
821140 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
821161 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
821181 TGTTATTGTTATT
1 T-TTATTTTTATT
821194 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:821235 original size:14 final size:15
Alignment explanation
Indices: 821061--821238 Score: 57
Period size: 15 Copynumber: 11.3 Consensus size: 15
821051 ATTCTTTTTC
821061 ATATATCATTATTATTT
1 ATATAT-ATT-TTATTT
821078 ATATATATTTT-TATT
1 ATATATATTTTAT-TT
*
821093 ACTATA-ATTATATGTT
1 A-TATATATTTTAT-TT
821109 ATATATATATTTATTATT
1 ATATATAT-TTTA-T-TT
* *
821127 TTATATATTTCATTTT
1 ATATATATTTTA-TTT
* *
821143 ATCTTTTATTTT-TTT
1 AT-ATATATTTTATTT
* *
821158 ATCTTCTATTTTTATTT
1 AT-ATATA-TTTTATTT
*
821175 -T-TGTATTGTTATTGT
1 ATATATATT-TTATT-T
*
821190 -TATTATCTTCTTTATTT
1 ATA-TAT-AT-TTTATTT
*
821207 -TATGTATTTTATTT
1 ATATATATTTTATTT
821221 ATATATATTTT-TTT
1 ATATATATTTTATTT
821235 ATAT
1 ATAT
821239 TTGTTTTTGT
Statistics
Matches: 128, Mismatches: 17, Indels: 35
0.71 0.09 0.19
Matches are distributed among these distances:
13 2 0.02
14 23 0.18
15 35 0.27
16 23 0.18
17 28 0.22
18 16 0.12
19 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (15 bp):
ATATATATTTTATTT
Found at i:821236 original size:32 final size:32
Alignment explanation
Indices: 821166--821242 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
821156 TTATCTTCTA
821166 TTTTTATTTTTGTATTGTTATTGTTATTATCT
1 TTTTTATTTTTGTATTGTTATTGTTATTATCT
*
821198 TCTTTATTTTATGTATT-TTATT-TATATATAT-T
1 TTTTTATTTT-TGTATTGTTATTGT-TAT-TATCT
*
821230 TTTTTATATTTGT
1 TTTTTATTTTTGT
821243 TTTTGTGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 4 0.10
32 26 0.67
33 9 0.23
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.71
Consensus pattern (32 bp):
TTTTTATTTTTGTATTGTTATTGTTATTATCT
Found at i:822031 original size:3 final size:3
Alignment explanation
Indices: 822023--822057 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
822013 ATCCTACTTA
822023 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
822058 ATTAATTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:827144 original size:3 final size:3
Alignment explanation
Indices: 827136--827170 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
827126 TCCAGATAGC
*
827136 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
827171 CAGCCGTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:829829 original size:20 final size:20
Alignment explanation
Indices: 829804--829896 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
829794 TTTTCCCAAT
829804 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
829824 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
829844 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
829865 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
829886 TCGCAATGCGA
1 TCGCAATGCGA
829897 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:829846 original size:41 final size:41
Alignment explanation
Indices: 829801--829896 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
829791 CGATTTTCCC
829801 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
829842 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
829883 AAATCGCAATGCGA
1 AATTCGCAATGCGA
829897 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:829850 original size:21 final size:20
Alignment explanation
Indices: 829804--829896 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
829794 TTTTCCCAAT
*
829804 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
829824 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
829844 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
829865 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
829886 TCGCAATGCGA
1 TCGCAATGCGA
829897 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:829909 original size:41 final size:41
Alignment explanation
Indices: 829823--829957 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
829813 GAATAAGTAA
* * *
829823 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
829864 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
829905 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
829946 TTCGCAACGCGA
1 ATCGCAACGCGA
829958 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:829910 original size:20 final size:20
Alignment explanation
Indices: 829885--829979 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
829875 AATTGGGAAA
*
829885 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
829905 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
829926 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
829946 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
829966 TTCGCAACGCGATA
1 ATCGCAACGCGATA
829980 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:830196 original size:22 final size:22
Alignment explanation
Indices: 830168--830211 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
830158 CACTCTCTCA
830168 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
830190 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
830212 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:830481 original size:20 final size:20
Alignment explanation
Indices: 830456--830493 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
830446 CGATTCTCTC
830456 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
830476 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
830494 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:831835 original size:18 final size:18
Alignment explanation
Indices: 831814--831858 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
831804 TCCACTTCGG
*
831814 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
831832 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
831850 GAGCCATCA
1 GAGCCATCA
831859 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:832385 original size:19 final size:20
Alignment explanation
Indices: 832331--832397 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
832321 TAGTTTACTT
* *
832331 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
832351 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
832371 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
832390 TCGCAACG
1 TCGCAACG
832398 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:832405 original size:14 final size:14
Alignment explanation
Indices: 832386--832441 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
832376 ATGCGAAATG
832386 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
832400 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
832416 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
832432 AAAATCGCAA
1 AAAATCGCAA
832442 TGCGATTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:832428 original size:32 final size:33
Alignment explanation
Indices: 832370--832446 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 33
832360 GGAAATGGCT
832370 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
832403 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
832435 ATCGCAATGCGA
1 ATCGCAATGCGA
832447 TTTGTGTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 27 0.64
33 15 0.36
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:832502 original size:19 final size:19
Alignment explanation
Indices: 832472--832576 Score: 95
Period size: 20 Copynumber: 5.4 Consensus size: 19
832462 GCGATTTTGT
832472 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
832490 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
832509 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
832529 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
* *
832549 TGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
832569 TGTTGCGA
1 CGTTGCGA
832577 AAGTAAACTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
18 8 0.11
19 23 0.32
20 39 0.53
21 3 0.04
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:834449 original size:14 final size:14
Alignment explanation
Indices: 834430--834465 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
834420 ATTGTTTAAT
834430 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
834444 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
834458 TGATTTGT
1 TGATTTGT
834466 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:834591 original size:14 final size:15
Alignment explanation
Indices: 834572--834648 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
834562 CGAAATGGCT
834572 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
834586 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
834604 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
834623 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
834637 ATCGCAATGCGA
1 ATCGCAA-GCGA
834649 TTATCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:834604 original size:19 final size:19
Alignment explanation
Indices: 834582--834648 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
834572 ATCGCAACGA
834582 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
834601 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
834619 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
834633 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
834649 TTATCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:834710 original size:20 final size:20
Alignment explanation
Indices: 834655--834710 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
834645 GCGATTATCA
* *
834655 TTTCGCGTTGCGATAACCAT
1 TTTCACGTTGCGATAGCCAT
834675 TTTCACGTTGCGATAGCCAT
1 TTTCACGTTGCGATAGCCAT
834695 TTTCACGTTGCGATAG
1 TTTCACGTTGCGATAG
834711 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTCACGTTGCGATAGCCAT
Found at i:835076 original size:14 final size:14
Alignment explanation
Indices: 835057--835092 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
835047 ATTGTTTAAT
835057 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
835071 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
835085 TGATTTGT
1 TGATTTGT
835093 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:835218 original size:14 final size:15
Alignment explanation
Indices: 835199--835275 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
835189 CGAAATGGCT
835199 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
835213 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
835231 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
835250 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
835264 ATCGCAATGCGA
1 ATCGCAA-GCGA
835276 TTATCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:835231 original size:19 final size:19
Alignment explanation
Indices: 835209--835275 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
835199 ATCGCAACGA
835209 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
835228 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
835246 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
835260 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
835276 TTATCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:835337 original size:20 final size:20
Alignment explanation
Indices: 835282--835337 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
835272 GCGATTATCA
* *
835282 TTTCGCGTTGCGATAACCAT
1 TTTCACGTTGCGATAGCCAT
835302 TTTCACGTTGCGATAGCCAT
1 TTTCACGTTGCGATAGCCAT
835322 TTTCACGTTGCGATAG
1 TTTCACGTTGCGATAG
835338 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTCACGTTGCGATAGCCAT
Found at i:835704 original size:14 final size:14
Alignment explanation
Indices: 835685--835720 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
835675 ATTGTTTAAT
835685 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
835699 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
835713 TGATTTGT
1 TGATTTGT
835721 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:835846 original size:628 final size:628
Alignment explanation
Indices: 834180--836480 Score: 4568
Period size: 628 Copynumber: 3.7 Consensus size: 628
834170 TGGTAAGTCA
834180 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
834245 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
834310 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
834375 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
834440 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
*
834505 TTGATTTATTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
834570 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
391 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
834635 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
456 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
834700 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
521 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
834765 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
586 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
834808 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTA-CTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
834872 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
834937 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
835002 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
835067 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
835132 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
835197 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
391 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
835262 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
456 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
835327 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
521 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
835392 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
586 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
835435 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
835500 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
835565 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
835630 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
835695 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
835760 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
*
835825 CTATCGTAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
391 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
835890 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
456 AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
835955 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
521 CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
836020 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
586 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
836063 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
836128 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
836193 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
836258 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
836323 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
836388 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
*
836453 TTATCGCAACGAGAAAATCGCAATGCGA
391 CTATCGCAACGAGAAAATCGCAATGCGA
836481 TTTTCTCGTT
Statistics
Matches: 1668, Mismatches: 4, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
627 626 0.38
628 1042 0.62
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (628 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
CTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGA
AAATCGCAATGCGATTATCATTTCGCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCA
CGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATACA
TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
Found at i:835859 original size:19 final size:19
Alignment explanation
Indices: 835837--835903 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
835827 ATCGTAACGA
835837 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
835856 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
835874 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
835888 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
835904 TTATCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:835965 original size:20 final size:20
Alignment explanation
Indices: 835910--835965 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
835900 GCGATTATCA
* *
835910 TTTCGCGTTGCGATAACCAT
1 TTTCACGTTGCGATAGCCAT
835930 TTTCACGTTGCGATAGCCAT
1 TTTCACGTTGCGATAGCCAT
835950 TTTCACGTTGCGATAG
1 TTTCACGTTGCGATAG
835966 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTCACGTTGCGATAGCCAT
Found at i:836332 original size:14 final size:14
Alignment explanation
Indices: 836313--836348 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
836303 ATTGTTTAAT
836313 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
836327 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
836341 TGATTTGT
1 TGATTTGT
836349 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:837626 original size:24 final size:24
Alignment explanation
Indices: 837570--837628 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
837560 AGTCAGTATT
* *
837570 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
837594 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
837618 CGAATTTTGAT
1 CGAAATTTGAT
837629 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:837820 original size:12 final size:12
Alignment explanation
Indices: 837803--837827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
837793 ATATAATCCT
837803 GAAGAAGAAAAA
1 GAAGAAGAAAAA
837815 GAAGAAGAAAAA
1 GAAGAAGAAAAA
837827 G
1 G
837828 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:840142 original size:19 final size:19
Alignment explanation
Indices: 840120--840217 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
840110 GGAAATTACT
840120 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
840139 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
840153 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
840172 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
840186 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
840205 ATCGCAACGCGAA
1 ATCGCAATGCGAA
840218 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:840162 original size:33 final size:33
Alignment explanation
Indices: 840120--840213 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
840110 GGAAATTACT
840120 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
840153 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
840186 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
840214 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:840235 original size:19 final size:20
Alignment explanation
Indices: 840213--840255 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
840203 AAATCGCAAC
840213 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
840232 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
840252 GCGA
1 GCGA
840256 TTCTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Done.