Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008372.1 Hibiscus syriacus cultivar Beakdansim tig00111128_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: 1214897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:643 original size:20 final size:21
Alignment explanation
Indices: 603--645 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
593 ACCTTTTCAT
*
603 AGCACTAGTAACTCGATTTGC
1 AGCACTAGTAACTCAATTTGC
*
624 AGCACTTGTAA-TCAATTTGC
1 AGCACTAGTAACTCAATTTGC
644 AG
1 AG
646 TAGTCGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (21 bp):
AGCACTAGTAACTCAATTTGC
Found at i:5584 original size:214 final size:211
Alignment explanation
Indices: 5161--5588 Score: 669
Period size: 214 Copynumber: 2.0 Consensus size: 211
5151 AGTTGTAGGC
* *
5161 TTTACAGCCAAGATAATTATTATATTTTTCTTTGAATTAATAGAGAAATAGAGGTTTTCACAGCC
1 TTTACAGCCAAGATAATTATCATATTTTTCTTTGAATTAATAGAGAAATAGAGGTTTTAACAGCC
* *
5226 CTAAGTTGTCTAAAGCTCCATCCTCTTTCTTAATCATCTGTTTAGTCGTATTTATTTTAATTGTT
66 CTAAGTTGTCTAAAGCTCCATCCTCTTTCTTAATCATCTGTTCAATCGTATTTATTTTAATTGTT
* * * * *
5291 GCTGTTTTCCCCATTAAACTACATTAGCTCCAGATCTTCTATAGCTAAGGAATGACGTAAAATGC
131 GCTGTTTCCCCCATTAAACTACATCACCTCCAGATCTTCTATAGCTAAGGAATGACATAAAATGA
* *
5356 GGAACAATAATTCAGG
196 AGAACAACAATTCAGG
5372 TTTACAGCCAAGATGATTATTATCATATTTTTCTTTGAATTAATAGAGAAATAGAGGTTTTAACA
1 TTTACAGCCAAGAT-A--ATTATCATATTTTTCTTTGAATTAATAGAGAAATAGAGGTTTTAACA
* *
5437 GCCCTAAGTTGTCTAAAGTTCCATCCTCTTTCTTAATCATCTGTTCAATCTTATTTATTTTAATT
63 GCCCTAAGTTGTCTAAAGCTCCATCCTCTTTCTTAATCATCTGTTCAATCGTATTTATTTTAATT
* * *
5502 GTTGCTGTTTCCCGCCCTTAAACTACATCACCTTCAGATCTTCTATGGCTAAGGAATGACATAAA
128 GTTGCTGTTTCCC-CCATTAAACTACATCACCTCCAGATCTTCTATAGCTAAGGAATGACATAAA
5567 ATGAAGAAC-ACAATTCAGG
192 ATGAAGAACAACAATTCAGG
5586 TTT
1 TTT
5589 TCATACAACT
Statistics
Matches: 197, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
211 14 0.07
212 1 0.01
214 130 0.66
215 52 0.26
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (211 bp):
TTTACAGCCAAGATAATTATCATATTTTTCTTTGAATTAATAGAGAAATAGAGGTTTTAACAGCC
CTAAGTTGTCTAAAGCTCCATCCTCTTTCTTAATCATCTGTTCAATCGTATTTATTTTAATTGTT
GCTGTTTCCCCCATTAAACTACATCACCTCCAGATCTTCTATAGCTAAGGAATGACATAAAATGA
AGAACAACAATTCAGG
Found at i:17531 original size:20 final size:20
Alignment explanation
Indices: 17503--17555 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
17493 AAAATGACCA
*
17503 ACAAATTCGCAACACAAATT
1 ACAATTTCGCAACACAAATT
* **
17523 ACAATTTCGCAACTCAGTTT
1 ACAATTTCGCAACACAAATT
*
17543 CCAATTTCGCAAC
1 ACAATTTCGCAAC
17556 GCGAATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (20 bp):
ACAATTTCGCAACACAAATT
Found at i:17599 original size:21 final size:21
Alignment explanation
Indices: 17574--17655 Score: 148
Period size: 21 Copynumber: 3.9 Consensus size: 21
17564 GTAAATCGCA
17574 TTGCGATTTTTCAAATTCGTG
1 TTGCGATTTTTCAAATTCGTG
17595 TTGCGATTTTTCAAATTCGTG
1 TTGCGATTTTTCAAATTCGTG
17616 TTGCGATTTTTCAAATTCGTG
1 TTGCGATTTTTCAAATTCGTG
17637 TTGCGA-TTTTCTAAATTCG
1 TTGCGATTTTTC-AAATTCG
17656 CAAAGCAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.08
21 55 0.92
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.48
Consensus pattern (21 bp):
TTGCGATTTTTCAAATTCGTG
Found at i:17724 original size:40 final size:42
Alignment explanation
Indices: 17680--17840 Score: 117
Period size: 40 Copynumber: 4.0 Consensus size: 42
17670 AAATCACAAT
* *
17680 GCGAATTTGTAAA-TCGTAACATAGA-AGTCAAATTCGTAAC
1 GCGAATTTGTAAATTCGCAACATAGATAGTCAAATTCGCAAC
** * *
17720 GCGAAAGT-TAAATTCG-TA-ATGCGATAGTCAAATTCGCAAC
1 GCGAATTTGTAAATTCGCAACAT-AGATAGTCAAATTCGCAAC
* **
17760 GCG-A-TAGTCAAATTCGCAAC-GCGATAGTCAAATTCGCAAC
1 GCGAATTTGT-AAATTCGCAACATAGATAGTCAAATTCGCAAC
** * *
17800 GTAAATTTGTAAA-TCGCAACACAGA-AGTCAAATTCACAAC
1 GCGAATTTGTAAATTCGCAACATAGATAGTCAAATTCGCAAC
17840 G
1 G
17841 TGATAGTCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
38 2 0.02
39 9 0.09
40 75 0.78
41 7 0.07
42 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
GCGAATTTGTAAATTCGCAACATAGATAGTCAAATTCGCAAC
Found at i:17727 original size:20 final size:20
Alignment explanation
Indices: 17705--17852 Score: 149
Period size: 20 Copynumber: 7.4 Consensus size: 20
17695 GTAACATAGA
* *
17705 AGTCAAATTCGTAACGCGAA
1 AGTCAAATTCGCAACGCGAT
* * *
17725 AGTTAAATTCGTAATGCGAT
1 AGTCAAATTCGCAACGCGAT
17745 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
17765 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
**
17785 AGTCAAATTCGCAACGTAAATT
1 AGTCAAATTCGCAACG-CGA-T
* *
17807 TGT-AAA-TCGCAACACAGA-
1 AGTCAAATTCGCAACGC-GAT
* *
17825 AGTCAAATTCACAACGTGAT
1 AGTCAAATTCGCAACGCGAT
17845 AGTCAAAT
1 AGTCAAAT
17853 GTTTTTATGC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.02
19 5 0.05
20 92 0.87
21 4 0.04
22 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:17741 original size:60 final size:60
Alignment explanation
Indices: 17676--17852 Score: 180
Period size: 60 Copynumber: 3.0 Consensus size: 60
17666 ATGTAAATCA
* * * *
17676 CAATGCGAATTTGTAAATCGTAACATAGAAGTCAAATTCGTAACGCGAAAGTTAAATTCG
1 CAATGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAATTCG
* * * *
17736 TAATGCG-A-TAGTCAAATTCGCAACGC-GATAGTCAAATTCGCAACGCGATAGTCAAATTCG
1 CAATGCGAATTTGT-AAA-TCGCAACACAGA-AGTCAAATTCGCAACGCGAAAGTCAAATTCG
* ** * * *
17796 CAACGTAAATTTGTAAATCGCAACACAGAAGTCAAATTCACAACGTGATAGTCAAAT
1 CAATGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAAT
17853 GTTTTTATGC
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
58 3 0.03
59 6 0.06
60 77 0.81
61 6 0.06
62 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (60 bp):
CAATGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAATTCG
Found at i:18387 original size:20 final size:19
Alignment explanation
Indices: 18349--18403 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
18339 AAATCGCAAC
18349 GCGATTTTAGTTTCACGTT
1 GCGATTTTAGTTTCACGTT
* *
18368 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCACGTT
*
18388 GCGAATTTAAGTTTCA
1 GCG-ATTTTAGTTTCA
18404 GAAACTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCACGTT
Found at i:20513 original size:21 final size:21
Alignment explanation
Indices: 20480--20576 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
20470 GATGCACCTA
* * *
20480 TCATCATTTAAGAGGCGCCTC
1 TCATCGTTCAAGAGGCCCCTC
*
20501 TTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
20522 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* **
20543 -CTACCGTTCAAGAGG-CCCAG
1 TC-ATCGTTCAAGAGGCCCCTC
20563 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
20577 ATCTCGTCTA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
20 17 0.29
21 40 0.68
22 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:22041 original size:61 final size:62
Alignment explanation
Indices: 21941--22079 Score: 201
Period size: 65 Copynumber: 2.2 Consensus size: 62
21931 TTTTACATTG
*
21941 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
* * *
22001 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTTCTTGATTAATTGATTTGTA
22066 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
22080 GTTTCTAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
60 17 0.24
61 18 0.26
64 4 0.06
65 31 0.44
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:22434 original size:39 final size:39
Alignment explanation
Indices: 22380--22462 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
22370 TCAAGTTATA
*
22380 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
22419 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
22458 GATTT
1 GATTT
22463 TGATGAGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.46
Consensus pattern (39 bp):
GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:22833 original size:24 final size:25
Alignment explanation
Indices: 22770--22833 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
22760 AGTGGAACCG
* *
22770 AAATTTATAT-TGAAATTCAAATTC
1 AAATTTAAATATGAAATTCAAACTC
22794 AAATTTAAATAT-AAATTCAAACTC
1 AAATTTAAATATGAAATTCAAACTC
* *
22818 CAA-TTACATATGAAAT
1 AAATTTAAATATGAAAT
22834 GAATTTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.21
24 26 0.76
25 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATTTAAATATGAAATTCAAACTC
Found at i:23621 original size:18 final size:18
Alignment explanation
Indices: 23598--23633 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23588 AAGCCGGTTG
*
23598 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
23616 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
23634 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:25929 original size:24 final size:24
Alignment explanation
Indices: 25902--25948 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
25892 CAAAATCCGA
25902 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
25926 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
25949 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:25957 original size:24 final size:24
Alignment explanation
Indices: 25906--25957 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25896 ATCCGAGTAT
** *
25906 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
25930 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
25954 TGAC
1 TGAC
25958 TAGTACTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:26887 original size:21 final size:20
Alignment explanation
Indices: 26820--27011 Score: 103
Period size: 20 Copynumber: 9.6 Consensus size: 20
26810 ACTAAAACCT
*
26820 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
26839 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
*
26858 GTGGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-CGC
* *
26879 GTTGCGAATTTG-ACTTCTGT
1 GTTGCGAATTTGAAATTC-GC
*
26899 GTTGTG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* *
26919 GTTGTGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
** *
26940 AATGCG-ATTT-ACATATTCAC
1 GTTGCGAATTTGA-A-ATTCGC
* * *
26960 GTTGCGAAATTGGAAACT-GG
1 GTTGCG-AATTTGAAATTCGC
* * *
26980 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAATTTGAAATTCGC
27000 GTTGCGAATTTG
1 GTTGCGAATTTG
27012 TTGGTCATTT
Statistics
Matches: 128, Mismatches: 29, Indels: 31
0.68 0.15 0.16
Matches are distributed among these distances:
18 1 0.01
19 38 0.30
20 54 0.42
21 28 0.22
22 5 0.04
23 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:31377 original size:15 final size:16
Alignment explanation
Indices: 31357--31389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31347 TAAATATATG
*
31357 ACAAGAA-ATACAAAT
1 ACAAGAATATAAAAAT
31372 ACAAGAATATAAAAAT
1 ACAAGAATATAAAAAT
31388 AC
1 AC
31390 TTTAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (16 bp):
ACAAGAATATAAAAAT
Found at i:36069 original size:23 final size:23
Alignment explanation
Indices: 36036--36079 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36026 GAGTCGAGGG
*
36036 TCTACGCGGTCTTTCGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
36059 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
36080 TATATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:46736 original size:5 final size:5
Alignment explanation
Indices: 46723--46754 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
46713 TTATTTATTG
*
46723 ATTAG ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA AT
46755 ATTTCATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:47726 original size:23 final size:23
Alignment explanation
Indices: 47658--47726 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
47648 TCGCAGAAGA
* *
47658 AGTCTTCAATTAAGGCGTGGGCA
1 AGTCTTCAGTTAAGGCGTGGGCG
47681 AGTCTTCAGTTAAGGCGTGGGCG
1 AGTCTTCAGTTAAGGCGTGGGCG
47704 AGTCTTCAGTTAAGGCGTGGGCG
1 AGTCTTCAGTTAAGGCGTGGGCG
47727 CGCCTTACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.26
Consensus pattern (23 bp):
AGTCTTCAGTTAAGGCGTGGGCG
Found at i:51481 original size:18 final size:18
Alignment explanation
Indices: 51458--51524 Score: 107
Period size: 18 Copynumber: 3.7 Consensus size: 18
51448 GTTTACCTAT
*
51458 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACACAGTG
51476 GTCCTTCGGGACACAGTG
1 GTCCTTCGGGACACAGTG
*
51494 GTCCTTTGGGACACAGTG
1 GTCCTTCGGGACACAGTG
*
51512 GTCCTTCAGGACA
1 GTCCTTCGGGACA
51525 AATTCTACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (18 bp):
GTCCTTCGGGACACAGTG
Found at i:54864 original size:32 final size:31
Alignment explanation
Indices: 54781--54869 Score: 135
Period size: 31 Copynumber: 2.8 Consensus size: 31
54771 GAGCCGAGGG
54781 TTTACCTATGTCCTTCGGGACATATGGACAA
1 TTTACCTATGTCCTTCGGGACATATGGACAA
54812 TTTACCTATGTCCTTCGGGACATATGGAC-A
1 TTTACCTATGTCCTTCGGGACATATGGACAA
* *
54842 TGATTACCTATGGCCTTTGGGACATATG
1 T--TTACCTATGTCCTTCGGGACATATG
54870 AATAGTGGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 2 0.04
31 29 0.54
32 23 0.43
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (31 bp):
TTTACCTATGTCCTTCGGGACATATGGACAA
Found at i:54894 original size:18 final size:18
Alignment explanation
Indices: 54871--54907 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54861 GGACATATGA
54871 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
* *
54889 ATAGTGGTCTTTCGTGAC
1 ATAGTGGTCCTTCGGGAC
54907 A
1 A
54908 AATTTTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:56501 original size:20 final size:20
Alignment explanation
Indices: 56449--56518 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
56439 GCAATTAGTA
* *
56449 CATCGATGCATCATGATGTC
1 CATCGATGCATCCTGATGTG
* *
56469 CATCGATACATCCTGTTGTG
1 CATCGATGCATCCTGATGTG
*
56489 CATCGATGCATCCTGCTGTG
1 CATCGATGCATCCTGATGTG
*
56509 CATCCATGCA
1 CATCGATGCA
56519 CGAAGGCTGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (20 bp):
CATCGATGCATCCTGATGTG
Found at i:61029 original size:36 final size:36
Alignment explanation
Indices: 60989--61092 Score: 199
Period size: 36 Copynumber: 2.9 Consensus size: 36
60979 TTTTCATACA
*
60989 AATGACATCCTCATAGTCCCCTCACAACAGCCACCT
1 AATGACATCCTCATAGTCCCCTCACAGCAGCCACCT
61025 AATGACATCCTCATAGTCCCCTCACAGCAGCCACCT
1 AATGACATCCTCATAGTCCCCTCACAGCAGCCACCT
61061 AATGACATCCTCATAGTCCCCTCACAGCAGCC
1 AATGACATCCTCATAGTCCCCTCACAGCAGCC
61093 CTCTTCCTAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.29, C:0.41, G:0.11, T:0.19
Consensus pattern (36 bp):
AATGACATCCTCATAGTCCCCTCACAGCAGCCACCT
Found at i:64012 original size:20 final size:20
Alignment explanation
Indices: 63986--64058 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
63976 AATGCAATTA
63986 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
* *
64006 ATGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGCT
64026 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
64046 GTGCATCCATGCA
1 GTGCATCGATGCA
64059 CCAAGGCTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:64968 original size:23 final size:23
Alignment explanation
Indices: 64924--64968 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
64914 TTTTATATAT
* * *
64924 TTTAAAATATAGTTAATATAAAA
1 TTTAAAATAAAATAAATATAAAA
*
64947 TTTAAAATAAAATAAATTTAAA
1 TTTAAAATAAAATAAATATAAA
64969 CAATTATTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TTTAAAATAAAATAAATATAAAA
Found at i:65304 original size:26 final size:26
Alignment explanation
Indices: 65274--65325 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
65264 AACACAAAGT
65274 AGACTTTAAAGTTCAAACTATGAAGC
1 AGACTTTAAAGTTCAAACTATGAAGC
65300 AGACTTTAAAGTTCAAACTATGAAGC
1 AGACTTTAAAGTTCAAACTATGAAGC
65326 TTAAGGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (26 bp):
AGACTTTAAAGTTCAAACTATGAAGC
Found at i:65706 original size:83 final size:82
Alignment explanation
Indices: 65499--65707 Score: 251
Period size: 83 Copynumber: 2.5 Consensus size: 82
65489 TTTAGTTGTA
* * * *
65499 TTTTTATACAAACGCCACAATAGGTCCATCTATAGTGG-TGTTTTTCAATAAACGCCGCAACAGA
1 TTTTTATACAAACGCCATAATAGGTTCACCTATAGTGGTTTTTTTTCAATAAACGCCGCAACAGA
* *
65563 TTAGTACTATAGCGGTG
66 TTAGAACTATAGCGGCG
* * * * *
65580 -TTTTATACAAACGCCATAATAGTTTCACCTATAGTGTCATTTTTTTTCAATAAATGTCGTAACA
1 TTTTTATACAAACGCCATAATAGGTTCACCTATAGTG--GTTTTTTTTCAATAAACGCCGCAACA
*
65644 GATTAGAACTTTAGCGGCG
64 GATTAGAACTATAGCGGCG
* *
65663 TTTTTATACAAATGTCATAATAGGGTTCACCTATAGTGGTTTTTT
1 TTTTTATACAAACGCCATAATA-GGTTCACCTATAGTGGTTTTTT
65708 CTCACGAATG
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 32 0.30
83 42 0.39
84 19 0.18
85 14 0.13
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (82 bp):
TTTTTATACAAACGCCATAATAGGTTCACCTATAGTGGTTTTTTTTCAATAAACGCCGCAACAGA
TTAGAACTATAGCGGCG
Found at i:67767 original size:271 final size:271
Alignment explanation
Indices: 67280--67822 Score: 989
Period size: 271 Copynumber: 2.0 Consensus size: 271
67270 AAGGACCTGA
67280 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAATAATTTTTTAAGAACCGTGACTTGGAG
1 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAATAATTTTTTAAGAACCGTGACTTGGAG
67345 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTACAATTAGATTTATTTAGAG
66 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTACAATTAGATTTATTTAGAG
* *
67410 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGTTGGTTGCTAATGAAGAGGGTTGCTTC
131 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGTTGGTTGCTAATGAAGAGCGTCGCTTC
*
67475 AGTGTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCTT
196 AGTGTGTTATGAATTCGTGAGAGGGTGTAATATTATGTTGGTTGGTTTAGTTTATTTGTTGTCTT
67540 ATTTTGCATTG
261 ATTTTGCATTG
*
67551 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAA-GATTTTTTAAGAACCGTGACTTGGAG
1 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAATAATTTTTTAAGAACCGTGACTTGGAG
* *
67615 GGGGAAGGGATCAATTGACCTTACTGTTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
66 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTACAATTAGATTTATTTAGAG
*
67680 CTTGGTGGTAAATTTATAAATTTGGTGTTGATGAAGGGGTTGGTTGCTAATGAAGAGCGTCGCTT
131 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAA-GGGTTGGTTGCTAATGAAGAGCGTCGCTT
*
67745 CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTATGTTGGTTGGTTTAGTTTATTTGTTGTCT
195 CAGTGTGTTATGAATTCGTGAGAGGGTGTAATATTATGTTGGTTGGTTTAGTTTATTTGTTGTCT
*
67810 TATTTTGTATTG
260 TATTTTGCATTG
67822 T
1 T
67823 TGGTTTTTTA
Statistics
Matches: 262, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
270 122 0.47
271 140 0.53
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (271 bp):
TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAATAATTTTTTAAGAACCGTGACTTGGAG
GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTACAATTAGATTTATTTAGAG
CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGTTGGTTGCTAATGAAGAGCGTCGCTTC
AGTGTGTTATGAATTCGTGAGAGGGTGTAATATTATGTTGGTTGGTTTAGTTTATTTGTTGTCTT
ATTTTGCATTG
Found at i:73217 original size:20 final size:20
Alignment explanation
Indices: 73194--73264 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 20
73184 AATATGTAAA
73194 TCGCAACAG-GATTTTCAAAT
1 TCGCAAC-GCGATTTTCAAAT
73214 TCGCAACGCGATTTTCAAAAT
1 TCGCAACGCGATTTTC-AAAT
*
73235 AATCCGCAACGCGATTTTCAAAA
1 --T-CGCAACGCGATTTTCAAAT
73258 TCGCAAC
1 TCGCAAC
73265 ACAGTTTCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.02
20 20 0.44
21 5 0.11
23 4 0.09
24 15 0.33
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAAAT
Found at i:73300 original size:21 final size:20
Alignment explanation
Indices: 73250--73303 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
73240 GCAACGCGAT
73250 TTTCAAAA-TCGCAACACAG
1 TTTCAAAATTCGCAACACAG
* * *
73269 TTTCTAAATTCGTAACTCAG
1 TTTCAAAATTCGCAACACAG
73289 TTTCGAAAATTCGCA
1 TTTC-AAAATTCGCA
73304 TTGCGATAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 7 0.25
20 13 0.46
21 8 0.29
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (20 bp):
TTTCAAAATTCGCAACACAG
Found at i:73382 original size:20 final size:20
Alignment explanation
Indices: 73359--73399 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
73349 TTGAAAATCG
*
73359 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTATTTA
*
73379 CATTGCGATAGTACTATTTA
1 CATTGCGATAATACTATTTA
73399 C
1 C
73400 TTATATCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTATTTA
Found at i:73429 original size:77 final size:77
Alignment explanation
Indices: 73302--73464 Score: 263
Period size: 77 Copynumber: 2.1 Consensus size: 77
73292 CGAAAATTCG
** * *
73302 CATTGCGATAGTTGTGTTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGA
73367 TAATACTGTTTA
66 TAATACTGTTTA
* *
73379 CATTGCGATAGTACTATTTACTTATATCGGTAATTAACGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGA
*
73444 TAGTACTGTTTA
66 TAATACTGTTTA
73456 CATTGCGAT
1 CATTGCGAT
73465 TTTCAAATTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (77 bp):
CATTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGA
TAATACTGTTTA
Found at i:76188 original size:21 final size:21
Alignment explanation
Indices: 76146--76188 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76136 TTTCTGGGCT
* *
76146 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
76167 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
76188 A
1 A
76189 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:76240 original size:20 final size:20
Alignment explanation
Indices: 76215--76252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76205 GAATGCTAGA
*
76215 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
76235 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
76253 TATAAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:81012 original size:21 final size:21
Alignment explanation
Indices: 80970--81012 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
80960 TTTCTGGGCT
* * *
80970 AGGGGAATCGGTACCTATTCA
1 AGGGGAATCGATACCCACTCA
*
80991 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
81012 A
1 A
81013 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:81064 original size:20 final size:20
Alignment explanation
Indices: 81039--81076 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
81029 GAATGCTAGA
*
81039 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
81059 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
81077 TATAAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:87122 original size:21 final size:21
Alignment explanation
Indices: 87080--87122 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87070 ATTTCGGGCT
* *
87080 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
87101 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
87122 A
1 A
87123 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:92610 original size:2 final size:2
Alignment explanation
Indices: 92603--92654 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
92593 CTCCTATAGT
92603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92645 TA TA TA TA TA
1 TA TA TA TA TA
92655 ATCACTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93547 original size:13 final size:13
Alignment explanation
Indices: 93529--93561 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
93519 TATAGTTAAA
93529 TTTTAAAC-TGCAC
1 TTTTAAACAT-CAC
93542 TTTTAAACATCAC
1 TTTTAAACATCAC
93555 TTTTAAA
1 TTTTAAA
93562 AGTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (13 bp):
TTTTAAACATCAC
Found at i:93677 original size:17 final size:17
Alignment explanation
Indices: 93631--93677 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
93621 AGTAAGGTGT
*
93631 ATAATATATATATTTCTA
1 ATAATTTATA-ATTTCTA
* *
93649 AT-ATTTAAAATTTTTA
1 ATAATTTATAATTTCTA
93665 ATAATTTATAATT
1 ATAATTTATAATT
93678 ATCTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.33
17 14 0.58
18 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTTATAATTTCTA
Found at i:96706 original size:30 final size:30
Alignment explanation
Indices: 96670--96733 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
96660 GAAGGACCTG
* *
96670 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
96700 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
96730 TCCA
1 TCCA
96734 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:97520 original size:64 final size:64
Alignment explanation
Indices: 97413--97568 Score: 224
Period size: 64 Copynumber: 2.5 Consensus size: 64
97403 TAATGAAGGT
* * * ** *
97413 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTTTTATTTAACGGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTTTTATTTAAAAGAG
* *
97477 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTTTATTTAAAAGAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTTTTATTTAAAAGAG
*
97541 -TGCATCGATGCACTACCTATGCATCGAT
1 ATGCATCGATGCACTACTTATGCATCGAT
97569 ACACCTTCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
63 27 0.33
64 56 0.67
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTTTTATTTAAAAGAG
Found at i:99829 original size:15 final size:17
Alignment explanation
Indices: 99803--99834 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
99793 TTTTTTAAAA
99803 ATTTTAAACTTT-ATAT
1 ATTTTAAACTTTGATAT
99819 ATTTT-AACTTTGATAT
1 ATTTTAAACTTTGATAT
99835 TTAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAACTTTGATAT
Found at i:101168 original size:14 final size:14
Alignment explanation
Indices: 101149--101183 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
101139 GTAGGCCTAA
101149 AGCCCATTTATTTG
1 AGCCCATTTATTTG
101163 AGCCCATTTATTTG
1 AGCCCATTTATTTG
101177 AGCCCAT
1 AGCCCAT
101184 CAAATATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (14 bp):
AGCCCATTTATTTG
Found at i:103782 original size:23 final size:23
Alignment explanation
Indices: 103727--103771 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
103717 TTACTGTTTG
* * *
103727 CAAATACGTTTGTTTAACGTTCA
1 CAAATATGTTCGTTTAACATTCA
103750 CAAATATGTTCGTTTAACATTC
1 CAAATATGTTCGTTTAACATTC
103772 GCTAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (23 bp):
CAAATATGTTCGTTTAACATTCA
Found at i:105247 original size:31 final size:31
Alignment explanation
Indices: 105151--105247 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
105141 ATTAAATCCT
*
105151 TAAACTATGACTCTCATTCTAAATTAG-TCC
1 TAAACTATGAATCTCATTCTAAATTAGTTCC
* *
105181 TTAAACTTTTGAA---CATTCTAATTTCA-TCTCC
1 -TAAAC-TATGAATCTCATTCTAAATT-AGT-TCC
*
105212 -AAACTATGAATCTCATTCTAAATTGGTTCC
1 TAAACTATGAATCTCATTCTAAATTAGTTCC
105242 TAAACT
1 TAAACT
105248 TTTAGATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
28 5 0.10
29 14 0.27
30 4 0.08
31 24 0.47
32 4 0.08
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (31 bp):
TAAACTATGAATCTCATTCTAAATTAGTTCC
Found at i:105264 original size:60 final size:60
Alignment explanation
Indices: 105092--105274 Score: 203
Period size: 60 Copynumber: 3.0 Consensus size: 60
105082 ATATATCTCT
* * ** **
105092 AAACTATG-ATCCTCATT-TCAAATTAGGCCTTAAACTTTTTAACATTCCAATTAAATCCTT
1 AAACTATGAAT-CTCATTCT-AAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
* * *
105152 AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCTCC
1 AAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
* *
105212 AAACTATGAATCTCATTCTAAATTGGTTCC-TAAACTTTTAGATC-TTCCAATTTCATCCCC
1 AAACTATGAATCTCATTCTAAATTAG-TCCTTAAACTTTT-GAACATTCCAATTTCATCCCC
105272 AAA
1 AAA
105275 TCCATCCAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
60 97 0.92
61 8 0.08
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (60 bp):
AAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
Found at i:105578 original size:59 final size:59
Alignment explanation
Indices: 105468--105580 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
105458 ACAATTTGGG
* * *
105468 GATGAAAATGAAAGGTTCAAAAGTTTGAGGACTAATCTAAAATAATAGTCATATTTTAT
1 GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATATTTTAT
* * * * * * *
105527 GATGAAATTGAAATGTTTAAAAGTTTAAGGACCAATTTGAAATGAGGGTCATAT
1 GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATAT
105581 ATTTGGGATG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (59 bp):
GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATATTTTAT
Found at i:107666 original size:9 final size:9
Alignment explanation
Indices: 107652--107708 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 9
107642 GGCTGCTGGA
107652 AACCGGTTT
1 AACCGGTTT
107661 AACCGGTTTT
1 AACCGG-TTT
107671 CAACCGGTTCT
1 -AACCGGTT-T
*
107682 GACCGGTTT
1 AACCGGTTT
*
107691 GACCGGTTT
1 AACCGGTTT
107700 CAACCGGTT
1 -AACCGGTT
107709 CGACCGGTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 16 0.38
10 19 0.45
11 7 0.17
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.32
Consensus pattern (9 bp):
AACCGGTTT
Found at i:107697 original size:19 final size:19
Alignment explanation
Indices: 107673--107735 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
107663 CCGGTTTTCA
107673 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCGGTTTG
* *
107692 ACCGGTT-TCAACCGGTTCG
1 ACCGGTTCT-GACCGGTTTG
107711 ACCGG-TCTGAGCCGGTTTG
1 ACCGGTTCTGA-CCGGTTTG
107730 ACCGGT
1 ACCGGT
107736 CCGACCTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 3 0.08
19 33 0.92
ACGTcount: A:0.13, C:0.29, G:0.32, T:0.27
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:107714 original size:9 final size:9
Alignment explanation
Indices: 107673--107741 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
107663 CCGGTTTTCA
107673 ACCGGTTCTG
1 ACCGGTTC-G
*
107683 ACCGGTTTG
1 ACCGGTTCG
*
107692 ACCGGTTTCA
1 ACCGG-TTCG
107702 ACCGGTTCG
1 ACCGGTTCG
107711 ACCGG-TCTG
1 ACCGGTTC-G
*
107720 AGCCGGTTTG
1 A-CCGGTTCG
*
107730 ACCGGTCCG
1 ACCGGTTCG
107739 ACC
1 ACC
107742 TGACCCGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.04
9 25 0.52
10 20 0.42
11 1 0.02
ACGTcount: A:0.13, C:0.32, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTTCG
Found at i:107726 original size:38 final size:38
Alignment explanation
Indices: 107653--107735 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
107643 GCTGCTGGAA
107653 ACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 ACCGGTTTAACCGG-TTTCAACCGGTTCTGACCGGTTTG
*
107692 ACCGGTTTCAACCGG-TTCGACCGG-TCTGAGCCGGTTTG
1 ACCGGTTT-AACCGGTTTCAACCGGTTCTGA-CCGGTTTG
107730 ACCGGT
1 ACCGGT
107736 CCGACCTGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
37 5 0.12
38 22 0.54
39 8 0.20
40 6 0.15
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (38 bp):
ACCGGTTTAACCGGTTTCAACCGGTTCTGACCGGTTTG
Found at i:107751 original size:5 final size:5
Alignment explanation
Indices: 107736--107817 Score: 65
Period size: 5 Copynumber: 15.2 Consensus size: 5
107726 TTTGACCGGT
* * * *
107736 CCGAC CTGAC CCGAC CGTTGAC CCGAC CCGAT CCGAC CGTTGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC C--CGAC CCGAC
*
107785 CCGAC CCGAC CGTTGAC CCGAC CCGAC CCGAC C
1 CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC C
107818 GTTGACCGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
5 49 0.80
7 12 0.20
ACGTcount: A:0.18, C:0.50, G:0.22, T:0.10
Consensus pattern (5 bp):
CCGAC
Found at i:107762 original size:22 final size:22
Alignment explanation
Indices: 107736--107824 Score: 160
Period size: 22 Copynumber: 4.0 Consensus size: 22
107726 TTTGACCGGT
*
107736 CCGACCTGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
*
107758 CCGACCCGATCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
107780 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
107802 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
107824 C
1 C
107825 GTTGACCGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.11
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:108791 original size:32 final size:31
Alignment explanation
Indices: 108707--108783 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
108697 CTAATGTGAC
* *
108707 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
108738 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
108770 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
108784 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:108809 original size:63 final size:63
Alignment explanation
Indices: 108707--108830 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
108697 CTAATGTGAC
* ** * *
108707 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
108770 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
108831 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:114238 original size:9 final size:9
Alignment explanation
Indices: 114216--114332 Score: 87
Period size: 9 Copynumber: 12.7 Consensus size: 9
114206 CCGGTTTTCA
114216 ACCGGTTCTG
1 ACCGGTT-TG
114226 ACCGGTTTG
1 ACCGGTTTG
*
114235 ACCGGTTTCA
1 ACCGGTTT-G
*
114245 ACC---CTG
1 ACCGGTTTG
114251 ACCGGTTTG
1 ACCGGTTTG
*
114260 ACCGGTTTCA
1 ACCGGTTT-G
*
114270 ACCGGTTCG
1 ACCGGTTTG
114279 AACCGGTTTG
1 -ACCGGTTTG
*
114289 ACCGGTCTG
1 ACCGGTTTG
*
114298 AATCGGTTTG
1 -ACCGGTTTG
*
114308 ACCGGTCTG
1 ACCGGTTTG
114317 AGCCGGTTTG
1 A-CCGGTTTG
*
114327 ATCGGT
1 ACCGGT
114333 CCGACCCTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
6 3 0.04
7 1 0.01
9 40 0.48
10 40 0.48
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:114257 original size:25 final size:25
Alignment explanation
Indices: 114223--114272 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
114213 TCAACCGGTT
114223 CTGACCGGTTTGACCGGTTTCAACC
1 CTGACCGGTTTGACCGGTTTCAACC
114248 CTGACCGGTTTGACCGGTTTCAACC
1 CTGACCGGTTTGACCGGTTTCAACC
114273 GGTTCGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (25 bp):
CTGACCGGTTTGACCGGTTTCAACC
Found at i:114333 original size:19 final size:19
Alignment explanation
Indices: 114216--114333 Score: 95
Period size: 19 Copynumber: 6.4 Consensus size: 19
114206 CCGGTTTTCA
114216 ACCGGTTCTG-ACCGGTTTG
1 ACCGG-TCTGAACCGGTTTG
* * *
114235 ACCGGTTTCAACC---CTG
1 ACCGGTCTGAACCGGTTTG
* *
114251 ACCGGTTTG-ACCGGTTTCA
1 ACCGGTCTGAACCGGTTT-G
114270 ACCGGT-TCGAACCGGTTTG
1 ACCGGTCT-GAACCGGTTTG
*
114289 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTGAACCGGTTTG
*
114308 ACCGGTCTGAGCCGGTTTG
1 ACCGGTCTGAACCGGTTTG
*
114327 ATCGGTC
1 ACCGGTC
114334 CGACCCTATC
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.04
16 10 0.12
18 4 0.05
19 54 0.68
20 9 0.11
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:115212 original size:32 final size:31
Alignment explanation
Indices: 115128--115204 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
115118 CTAATGTGAC
* *
115128 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
115159 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
115191 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
115205 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:115230 original size:63 final size:63
Alignment explanation
Indices: 115128--115251 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
115118 CTAATGTGAC
* ** * *
115128 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
115191 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
115252 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:122532 original size:41 final size:43
Alignment explanation
Indices: 122442--122536 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 43
122432 AATTGATACT
* * * *
122442 TTAGCGGCGTTTTTAGTAAAAACGCTGCAATATAATTGACATA
1 TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
** *
122485 TT-GCGGCGTTTTT-CTAAAAACGCCGCAATA-GGGTGATAAA
1 TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
122525 TTAGCGGCGTTT
1 TTAGCGGCGTTT
122537 ATATCACAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 7 0.16
41 24 0.55
42 11 0.25
43 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
Found at i:122597 original size:41 final size:41
Alignment explanation
Indices: 122552--122683 Score: 115
Period size: 41 Copynumber: 3.2 Consensus size: 41
122542 ACAAACGCTT
122552 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
* ** * * ** * *
122593 CAATATAGTGGTAAA-CTGGTAGCGTTTTTA-CCACAAACGCCA
1 CAATAGA-TTATAAATTTTGCGGCG-ATTTAGCCA-AAACGCCG
* * *
122635 CAATAGAGTATAAATTTTGCGGCGATTGAGTCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
122676 CAATAGAT
1 CAATAGAT
122684 CGGTAAATTG
Statistics
Matches: 64, Mismatches: 22, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
41 35 0.55
42 29 0.45
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
Found at i:122689 original size:83 final size:83
Alignment explanation
Indices: 122501--122722 Score: 248
Period size: 83 Copynumber: 2.7 Consensus size: 83
122491 CGTTTTTCTA
* * * * * * * ** *
122501 AAAACGCCGCAATAGGGTGATAAATTAGCGGCGTTTATATCACAAACGCTTCAATAGATTATAAA
1 AAAACGCCGCAATAGAGTGGTAAACTGGCAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
*
122566 TTTTGCGGCGATTTAGCC
66 TTTTGCGGCGATTGAGCC
* *
122584 AAAACGCCGCAATATAGTGGTAAACTGGTAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
1 AAAACGCCGCAATAGAGTGGTAAACTGGCAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
*
122649 TTTTGCGGCGATTGAGTC
66 TTTTGCGGCGATTGAGCC
* * * * * *
122667 AAAACGCCGCAATAGA-TCGGTAAATTGGCGGCGTTTTGACAAAAAACGCCGCAATA
1 AAAACGCCGCAATAGAGT-GGTAAACTGGCAGCGTTTTTACCACAAACGCCACAATA
122723 TATTACAAAT
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
82 1 0.01
83 115 0.99
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (83 bp):
AAAACGCCGCAATAGAGTGGTAAACTGGCAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
TTTTGCGGCGATTGAGCC
Found at i:123488 original size:23 final size:21
Alignment explanation
Indices: 123441--123480 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
123431 CGAGCAATTA
123441 GTTTTTTACTGAACACGAAAT
1 GTTTTTTACTGAACACGAAAT
123462 GTTTTTTACTGAACACGAA
1 GTTTTTTACTGAACACGAA
123481 TGATGTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTTTTTACTGAACACGAAAT
Found at i:129680 original size:21 final size:21
Alignment explanation
Indices: 129662--129738 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
129652 ATGAAGCAAG
*
129662 GGAAACAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
129683 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
129704 GGAAGCAGAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
129725 GGCAGCACAGAGAG
1 GGAAGCAGAGAGAG
129739 AGGCAGTGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.40, T:0.01
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:129739 original size:21 final size:21
Alignment explanation
Indices: 129670--129762 Score: 89
Period size: 21 Copynumber: 4.4 Consensus size: 21
129660 AGGGAAACAG
*
129670 AGAGAGCAGCAGCGGAAGCAGC
1 AGAGAGAAGCAGCGGAAGCA-C
* * *
129692 -TAGAGCAGCAGCGGAAGCAG
1 AGAGAGAAGCAGCGGAAGCAC
*
129712 AGAGAGAAGCAGCGGCAGCAC
1 AGAGAGAAGCAGCGGAAGCAC
* * * *
129733 AGAGAGAGGCAGTGGCAGAAC
1 AGAGAGAAGCAGCGGAAGCAC
129754 AGAGAGAAG
1 AGAGAGAAG
129763 TAATATATCA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.39, C:0.18, G:0.41, T:0.02
Consensus pattern (21 bp):
AGAGAGAAGCAGCGGAAGCAC
Found at i:130233 original size:43 final size:43
Alignment explanation
Indices: 130186--130281 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
130176 AAAAATCTAC
**
130186 TGCGGCGTTTTTGTAGA-AAACGCCGCTAAACATCAACGA-CTAT
1 TGCGGCGTTTTAAT-GATAAACGCCGCTAAACATCAA-GACCTAT
* * *
130229 TGCGGCGTTTTAATGATAAACGCCGCTAAATATCAATACCTTT
1 TGCGGCGTTTTAATGATAAACGCCGCTAAACATCAAGACCTAT
130272 TGCGGCGTTT
1 TGCGGCGTTT
130282 GTTGAACAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.07
43 43 0.93
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TGCGGCGTTTTAATGATAAACGCCGCTAAACATCAAGACCTAT
Found at i:130378 original size:15 final size:15
Alignment explanation
Indices: 130347--130406 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
130337 CGCCGCAAAC
* *
130347 TTTAGCGGCGCTATT
1 TTTAGCGGCGTTTTT
130362 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
*
130377 TTTA-CGCCGTATGTGTT
1 TTTAGCGGCGT-T-T-TT
130394 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
130407 AAAAACGCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.14
15 18 0.49
16 2 0.05
17 7 0.19
18 5 0.14
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTAGCGGCGTTTTT
Found at i:133482 original size:92 final size:91
Alignment explanation
Indices: 133322--133686 Score: 365
Period size: 92 Copynumber: 4.0 Consensus size: 91
133312 GGTAAGACCT
* * ** * *
133322 TACGGA-CTTAAGGATATCCTTGGGTAGGCATATTGGCCCCAATTCATATTTTTAGGTTGGTTCT
1 TACGGATC-TAAGGATACCCTTAGGTAGGCATATT-GCCCCAAGGCATATCTTTAGGTTGGTTCC
133386 CTTTTTTACTGTGTGCTTAAGGTAACCC
64 CTTTTTTACTGTGTGCTTAAGGTAACCC
133414 TACGGATCTAAGGATACCCTTAGGTAGGCATATTCGCCCCAAGGCATATCTTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCATATT-GCCCCAAGGCATATCTTTAGGTTGGTTCCC
133479 TTTTGTTA---TGTGCTTAAGGTAACCC
65 TTTT-TTACTGTGTGCTTAAGGTAACCC
* * *
133504 TACAGATCTAAGGATACCCTTTGGTAGGC-TATATGCCCCAAGGCATATCCTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCATAT-TGCCCCAAGGCATATCTTTAGGTTGGTTCCC
** *
133568 ---TTCGCTGTGTGCTGAAGGTAACCC
65 TTTTTTACTGTGTGCTTAAGGTAACCC
** * ** * ** * *
133592 TACGGATCTAAGGATATACTTGGGTAGGCCCATAGACCCCAAGATATATCCTTAGGTTGGCTT-T
1 TACGGATCTAAGGATACCCTTAGGTAGGCATATTG-CCCCAAGGCATATCTTTAGGTTGG-TTCC
*
133656 C-TTTTTATTGTGTGC-TAAGGGTAAGCCC
64 CTTTTTTACTGTGTGCTTAA-GGTAA-CCC
133684 TAC
1 TAC
133687 AGATGTAGTT
Statistics
Matches: 234, Mismatches: 26, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
88 42 0.18
89 57 0.24
90 49 0.21
91 14 0.06
92 66 0.28
93 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (91 bp):
TACGGATCTAAGGATACCCTTAGGTAGGCATATTGCCCCAAGGCATATCTTTAGGTTGGTTCCCT
TTTTTACTGTGTGCTTAAGGTAACCC
Found at i:133632 original size:89 final size:89
Alignment explanation
Indices: 133322--133651 Score: 342
Period size: 89 Copynumber: 3.7 Consensus size: 89
133312 GGTAAGACCT
* * * * ** **
133322 TACGGA-CTTAAGGATATCCTTGGGTAGGCATATTGGCCCCAATTCATATTTTTAGGTTGGTTCT
1 TACGGATC-TAAGGATACCCTTAGGTAGGCCTA-TAGCCCCAAGGCATATCCTTAGGTTGGTTC-
* **
133386 CTTTTTTACTGTGTGCTTAAGGTAACCC
63 C-CTTTCGCTGTGTGCTTAAGGTAACCC
* * *
133414 TACGGATCTAAGGATACCCTTAGGTAGGCATATTCGCCCCAAGGCATATCTTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCCTA-TAGCCCCAAGGCATATCCTTAGGTTGGTTCCC
* * *
133479 TTTTGTTATGTGCTTAAGGTAACCC
65 TTTCGCTGTGTGCTTAAGGTAACCC
* *
133504 TACAGATCTAAGGATACCCTTTGGTAGG-CTATATGCCCCAAGGCATATCCTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCCTATA-GCCCCAAGGCATATCCTTAGGTTGGTTCCC
*
133568 -TTCGCTGTGTGCTGAAGGTAACCC
65 TTTCGCTGTGTGCTTAAGGTAACCC
** * * **
133592 TACGGATCTAAGGATATACTTGGGTAGGCCCATAGACCCCAAGATATATCCTTAGGTTGG
1 TACGGATCTAAGGATACCCTTAGGTAGGCCTATAG-CCCCAAGGCATATCCTTAGGTTGG
133652 CTTTCTTTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
88 46 0.22
89 57 0.27
90 48 0.23
91 1 0.00
92 55 0.26
93 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (89 bp):
TACGGATCTAAGGATACCCTTAGGTAGGCCTATAGCCCCAAGGCATATCCTTAGGTTGGTTCCCT
TTCGCTGTGTGCTTAAGGTAACCC
Found at i:142143 original size:13 final size:13
Alignment explanation
Indices: 142127--142151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
142117 TATTGAAGTT
142127 ATTATTTTCTTTC
1 ATTATTTTCTTTC
142140 ATTATTTTCTTT
1 ATTATTTTCTTT
142152 TCACAATGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTCTTTC
Found at i:148381 original size:18 final size:19
Alignment explanation
Indices: 148358--148400 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
148348 CCAGTAATCC
148358 TATTCC-CTGGCAATCTTA
1 TATTCCACTGGCAATCTTA
*
148376 TATTCCACTGGTAATCTTA
1 TATTCCACTGGCAATCTTA
*
148395 CATTCC
1 TATTCC
148401 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (19 bp):
TATTCCACTGGCAATCTTA
Found at i:148766 original size:2 final size:2
Alignment explanation
Indices: 148759--148783 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
148749 ATTGTAAGTT
148759 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
148784 TCTTTCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:149257 original size:20 final size:20
Alignment explanation
Indices: 149234--149271 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
149224 GACCGAGTCG
149234 ATCGAGCCACGATCGAGCTA
1 ATCGAGCCACGATCGAGCTA
* *
149254 ATCGAGCCGCGATTGAGC
1 ATCGAGCCACGATCGAGC
149272 CTCATGACCG
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:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (20 bp):
ATCGAGCCACGATCGAGCTA
Found at i:154435 original size:27 final size:25
Alignment explanation
Indices: 154405--154481 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
154395 TTTAAATGAA
*
154405 AATAAAATATTTTTAAATTAAGTTCAT
1 AATAAAATATTTTT-AA-TAAGTTAAT
**
154432 AATAAAATATACTTAATAAGTTAAT
1 AATAAAATATTTTTAATAAGTTAAT
*
154457 ATAAAAAATATTTTT--TAAGTTAAT
1 A-ATAAAATATTTTTAATAAGTTAAT
154481 A
1 A
154482 TATATAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 10 0.23
25 9 0.21
26 12 0.28
27 12 0.28
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (25 bp):
AATAAAATATTTTTAATAAGTTAAT
Found at i:155760 original size:160 final size:160
Alignment explanation
Indices: 155496--155815 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
155486 AAAAAATATG
155496 AAAATTATAGGTAATATATGAACATCAATGGAGTTAAATGAATCAACTAAATGAATAGAAAATAC
1 AAAATTATAGGTAATATATGAACATCAATGGAGTTAAATGAATCAACTAAATGAATAGAAAATAC
155561 AAAGTCAAGGCATGGAGATGAGTATTTGGTAGCTCGTTTCGTTTATTTCGTATCCTCTACTCTCC
66 AAAGTCAAGGCATGGAGATGAGTATTTGGTAGCTCGTTTCGTTTATTTCGTATCCTCTACTCTCC
155626 CACACGACCAATGATGTCCTGATGTGCGTT
131 CACACGACCAATGATGTCCTGATGTGCGTT
155656 AAAATTATAGGTAATATATGAACATCAATGGAGTTAAATGAATCAACTAAATGAATAGAAAATAC
1 AAAATTATAGGTAATATATGAACATCAATGGAGTTAAATGAATCAACTAAATGAATAGAAAATAC
155721 AAAGTCAAGGCATGGAGATGAGTATTTGGTAGCTCGTTTCGTTTATTTCGTATCCTCTACTCTCC
66 AAAGTCAAGGCATGGAGATGAGTATTTGGTAGCTCGTTTCGTTTATTTCGTATCCTCTACTCTCC
155786 CACACGACCAATGATGTCCTGATGTGCGTT
131 CACACGACCAATGATGTCCTGATGTGCGTT
155816 GAATTAATAA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (160 bp):
AAAATTATAGGTAATATATGAACATCAATGGAGTTAAATGAATCAACTAAATGAATAGAAAATAC
AAAGTCAAGGCATGGAGATGAGTATTTGGTAGCTCGTTTCGTTTATTTCGTATCCTCTACTCTCC
CACACGACCAATGATGTCCTGATGTGCGTT
Found at i:157647 original size:23 final size:23
Alignment explanation
Indices: 157621--157675 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
157611 AGAGCTTTGC
* *
157621 AGAGAGTTTTACAGTGAGATTGG
1 AGAGAGCTTTACAGTGAGACTGG
*
157644 AGAGAGCTTTACCGTGAGACTGG
1 AGAGAGCTTTACAGTGAGACTGG
157667 AGAGAGCTT
1 AGAGAGCTT
157676 CGCCGTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (23 bp):
AGAGAGCTTTACAGTGAGACTGG
Found at i:157681 original size:23 final size:23
Alignment explanation
Indices: 157634--157682 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
157624 GAGTTTTACA
* *
157634 GTGAGATTGGAGAGAGCTTTACC
1 GTGAGACTGGAGAGAGCTTCACC
*
157657 GTGAGACTGGAGAGAGCTTCGCC
1 GTGAGACTGGAGAGAGCTTCACC
157680 GTG
1 GTG
157683 GGAGGGGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.22
Consensus pattern (23 bp):
GTGAGACTGGAGAGAGCTTCACC
Found at i:157691 original size:23 final size:23
Alignment explanation
Indices: 157642--157691 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
157632 CAGTGAGATT
* *
157642 GGAGAGAGCTTTACCGTGAGACT
1 GGAGAGAGCTTCACCGTGAGACG
* * *
157665 GGAGAGAGCTTCGCCGTGGGAGG
1 GGAGAGAGCTTCACCGTGAGACG
157688 GGAG
1 GGAG
157692 TTGAGAGACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.46, T:0.16
Consensus pattern (23 bp):
GGAGAGAGCTTCACCGTGAGACG
Found at i:159150 original size:37 final size:36
Alignment explanation
Indices: 159078--159151 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
159068 GTTGGAAAAT
* *
159078 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
*
159114 ATTTATATAATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAA
159151 A
1 A
159152 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 15 0.45
38 10 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:165783 original size:2 final size:2
Alignment explanation
Indices: 165778--165808 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
165768 AATTAAAAAA
165778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
165809 ACATAAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:180801 original size:21 final size:20
Alignment explanation
Indices: 180777--180820 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
180767 TTAAATATTT
*
180777 TTAATTCAAAAAAGTGTATAA
1 TTAATTCAAAAAA-TATATAA
* *
180798 TTAATTTAAATAATATATAA
1 TTAATTCAAAAAATATATAA
180818 TTA
1 TTA
180821 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAATTCAAAAAATATATAA
Found at i:181080 original size:181 final size:180
Alignment explanation
Indices: 180796--181136 Score: 553
Period size: 181 Copynumber: 1.9 Consensus size: 180
180786 AAAAGTGTAT
180796 AATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATA
1 AATTAATTTAAATAATATATAATTATAAAATAAAAATTT-A-ATAAATTTTTTAATTAATTAATA
* *
180861 TTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATTGTTTGGGCTTA
64 TTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTAA
180926 GCCCAAATGTTATATATAATATATATAATATTTTTTAATTAAAAAAACAATTTAC
129 GCCCAAATGTTATATAT-ATAT-T-TAATATTTTTTAATTAAAAAAACAATTTAC
*
180981 AATTAATTTAAAT-A-ATATAATTATAAAATAAAAAATTT-ATATATTTTTTAATTAATTAATAT
1 AATTAATTTAAATAATATATAATTATAAAAT-AAAAATTTAATAAATTTTTTAATTAATTAATAT
* *
181043 TGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTAAG
65 TGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTAAG
*
181108 CCCATATGTTATATATATATTTAATATTT
130 CCCAAATGTTATATATATATTTAATATTT
181137 AAAATTTAAT
Statistics
Matches: 149, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
178 8 0.05
179 1 0.01
180 4 0.03
181 99 0.66
183 15 0.10
184 9 0.06
185 13 0.09
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (180 bp):
AATTAATTTAAATAATATATAATTATAAAATAAAAATTTAATAAATTTTTTAATTAATTAATATT
GATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTAAGC
CCAAATGTTATATATATATTTAATATTTTTTAATTAAAAAAACAATTTAC
Found at i:181161 original size:9 final size:9
Alignment explanation
Indices: 181142--181175 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
181132 TATTTAAAAT
181142 TTAATTTCGG
1 TTAA-TTCGG
181152 TTAATTCGG
1 TTAATTCGG
181161 TTAATTCGG
1 TTAATTCGG
181170 TTAATT
1 TTAATT
181176 AACCGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (9 bp):
TTAATTCGG
Found at i:181909 original size:17 final size:17
Alignment explanation
Indices: 181889--181932 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
181879 GATAATATAT
*
181889 TTTTCTTAATAAAAATA
1 TTTTATTAATAAAAATA
*
181906 TTTTATTTATAAAAATA
1 TTTTATTAATAAAAATA
181923 --TTATTAATAA
1 TTTTATTAATAA
181933 GTTATCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 9 0.38
17 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTATTAATAAAAATA
Found at i:184414 original size:19 final size:18
Alignment explanation
Indices: 184392--184432 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
184382 ATATTTAAAC
184392 ATAATATAAATACCAAAAT
1 ATAATATAAATA-CAAAAT
**
184411 ATAATATATTTACAAAAT
1 ATAATATAAATACAAAAT
184429 ATAA
1 ATAA
184433 GTATCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATATAAATACAAAAT
Found at i:186339 original size:64 final size:64
Alignment explanation
Indices: 186235--186392 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 64
186225 TTCAGTGTGT
* * * * * *
186235 ATCGATGCACAGGAAAGTGCATCGATGCATCCACTAAAAATGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAGG-TAGTGCATCGATGCACCCACTAAAAATGAAAACATCAAAGGCAATTAGTGC
* * * ** * *
186300 ATCGATGCATAAGG-AGTGCGTCGATGCACCCCCTTAAAATGAAAACATCAAAGGTGATTTGTGT
1 ATCGATGCAT-AGGTAGTGCATCGATGCACCCACTAAAAATGAAAACATCAAAGGCAATTAGTGC
*
186364 ATCGATGCATGGGTAGTGCATCGATGCAC
1 ATCGATGCATAGGTAGTGCATCGATGCAC
186393 ATGTTAAGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
63 2 0.03
64 63 0.82
65 9 0.12
66 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCACCCACTAAAAATGAAAACATCAAAGGCAATTAGTGC
Found at i:186407 original size:24 final size:20
Alignment explanation
Indices: 186380--186437 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
186370 GCATGGGTAG
*
186380 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TG-T-A-GAA
*
186404 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
186424 TGCATCGATGCACT
1 TGCATCGATGCACT
186438 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:187669 original size:20 final size:20
Alignment explanation
Indices: 187598--187670 Score: 58
Period size: 22 Copynumber: 3.5 Consensus size: 20
187588 CCTGAGAAAT
* *
187598 GATCTAAGTTATATGATAT-
1 GATCTATGTTATATGACATG
*
187617 GATCTACGTGATTATATGCACTTTG
1 GATCTA--TG-TTATATG-AC-ATG
*
187642 GATATATGTTATATGACATG
1 GATCTATGTTATATGACATG
187662 GATCTATGT
1 GATCTATGT
187671 GACTACGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 3 0.07
22 14 0.33
23 3 0.07
24 1 0.02
25 5 0.12
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (20 bp):
GATCTATGTTATATGACATG
Found at i:188015 original size:23 final size:23
Alignment explanation
Indices: 187980--188047 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
187970 AATCTTATAT
187980 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * * *
188003 GGTACTACAGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
188026 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
188048 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:190429 original size:160 final size:161
Alignment explanation
Indices: 190248--190569 Score: 637
Period size: 160 Copynumber: 2.0 Consensus size: 161
190238 TAAGGAAAGG
190248 TTATGTGTGTGTTACCTTACACTTATGAGTTGTGGGAACAACTTTAACCTCACCCAATGACCTAT
1 TTATGTGTGTGTTACCTTACACTTATGAGTTGTGGGAACAACTTTAACCTCACCCAATGACCTAT
190313 TTCTCTTTACCTTCTTTATTTCATTTCTCTTACATGCCAAAAGTAAATTAATACTTACTAAC-TA
66 TTCTCTTTACCTTCTTTATTTCATTTCTCTTACATGCCAAAAGTAAATTAATACTTACTAACTTA
190377 CTTGAAGGTTTATAGAAAGTAAAAACATGAT
131 CTTGAAGGTTTATAGAAAGTAAAAACATGAT
190408 TTATGTGTGTGTTACCTTACACTTATGAGTTGTGGGAACAACTTTAACCTCACCCAATGACCTAT
1 TTATGTGTGTGTTACCTTACACTTATGAGTTGTGGGAACAACTTTAACCTCACCCAATGACCTAT
190473 TTCTCTTTACCTTCTTTATTTCATTTCTCTTACATGCCAAAAGTAAATTAATACTTACTAACTTA
66 TTCTCTTTACCTTCTTTATTTCATTTCTCTTACATGCCAAAAGTAAATTAATACTTACTAACTTA
190538 CTTGAAGGTTTATAGAAAGTAAAAACATGAT
131 CTTGAAGGTTTATAGAAAGTAAAAACATGAT
190569 T
1 T
190570 CTAAACTCTT
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 127 0.79
161 34 0.21
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (161 bp):
TTATGTGTGTGTTACCTTACACTTATGAGTTGTGGGAACAACTTTAACCTCACCCAATGACCTAT
TTCTCTTTACCTTCTTTATTTCATTTCTCTTACATGCCAAAAGTAAATTAATACTTACTAACTTA
CTTGAAGGTTTATAGAAAGTAAAAACATGAT
Found at i:194227 original size:42 final size:42
Alignment explanation
Indices: 194168--194247 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
194158 CTGAAAAACG
*
194168 ATGAACTTGTGAGAACTAGCTCCGTTGGGGTACATTGGCGGT
1 ATGAACTTGTGAGAACTAGCTCCGTTAGGGTACATTGGCGGT
* *
194210 ATGAACTTGTGAGAACTAGCTTCGTTAGGGTACCTTGG
1 ATGAACTTGTGAGAACTAGCTCCGTTAGGGTACATTGG
194248 TGGTGTATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (42 bp):
ATGAACTTGTGAGAACTAGCTCCGTTAGGGTACATTGGCGGT
Found at i:197633 original size:53 final size:53
Alignment explanation
Indices: 197576--197704 Score: 231
Period size: 53 Copynumber: 2.4 Consensus size: 53
197566 GAGATTTATC
** *
197576 ATGAACTACTCAATTATGCTTCATGAACTTAATTAATCATTTATGCACATTTA
1 ATGAACTACTCAAGCATGCCTCATGAACTTAATTAATCATTTATGCACATTTA
197629 ATGAACTACTCAAGCATGCCTCATGAACTTAATTAATCATTTATGCACATTTA
1 ATGAACTACTCAAGCATGCCTCATGAACTTAATTAATCATTTATGCACATTTA
197682 ATGAACTACTCAAGCATGCCTCA
1 ATGAACTACTCAAGCATGCCTCA
197705 AATGACGAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (53 bp):
ATGAACTACTCAAGCATGCCTCATGAACTTAATTAATCATTTATGCACATTTA
Found at i:197634 original size:31 final size:31
Alignment explanation
Indices: 197598--197688 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
197588 ATTATGCTTC
197598 ATGAACTTAATTAATCATTTATGCACATTTA
1 ATGAACTTAATTAATCATTTATGCACATTTA
* * * *
197629 ATGAAC-TACTCAAGC----ATGC-C---TC
1 ATGAACTTAATTAATCATTTATGCACATTTA
197651 ATGAACTTAATTAATCATTTATGCACATTTA
1 ATGAACTTAATTAATCATTTATGCACATTTA
197682 ATGAACT
1 ATGAACT
197689 ACTCAAGCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
22 7 0.16
23 6 0.14
25 1 0.02
26 4 0.09
27 4 0.09
28 1 0.02
30 6 0.14
31 14 0.33
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (31 bp):
ATGAACTTAATTAATCATTTATGCACATTTA
Found at i:198034 original size:23 final size:23
Alignment explanation
Indices: 198002--198048 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
197992 ATTTATTTTC
*
198002 TTTATCTGATGATAAAATTATTT
1 TTTATCTGATGATAAAAGTATTT
* *
198025 TTTATTTGATTATAAAAGTATTT
1 TTTATCTGATGATAAAAGTATTT
198048 T
1 T
198049 CCATTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTATCTGATGATAAAAGTATTT
Found at i:198094 original size:25 final size:23
Alignment explanation
Indices: 198061--198107 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
198051 ATTATATATA
* *
198061 TGATTTCTGATAAAGTATATTTTTG
1 TGATATCTG-TAAAATAT-TTTTTG
198086 TGATATCTGTAAAATATTTTTT
1 TGATATCTGTAAAATATTTTTT
198108 AAAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (23 bp):
TGATATCTGTAAAATATTTTTTG
Found at i:198365 original size:18 final size:18
Alignment explanation
Indices: 198342--198397 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
198332 CTTTTATTTT
198342 TATTTAAAAAAAATAAAA
1 TATTTAAAAAAAATAAAA
* *
198360 TATTTAACAATAATAAAA
1 TATTTAAAAAAAATAAAA
* *
198378 TATTGAAATAAATATAAAA
1 TATTTAAA-AAAAATAAAA
198397 T
1 T
198398 TAAATGAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TATTTAAAAAAAATAAAA
Found at i:198791 original size:23 final size:23
Alignment explanation
Indices: 198761--198804 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
198751 AAAGCAATGC
198761 TCTTTTGTCTTTTATGTTAAAAT
1 TCTTTTGTCTTTTATGTTAAAAT
198784 TCTTTTGTCTTTTATGTTAAA
1 TCTTTTGTCTTTTATGTTAAA
198805 GTTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.61
Consensus pattern (23 bp):
TCTTTTGTCTTTTATGTTAAAAT
Found at i:198812 original size:23 final size:23
Alignment explanation
Indices: 198763--198812 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
198753 AGCAATGCTC
*
198763 TTTTGTCTTTTATGTTAAAATTC
1 TTTTGTCTTTTATGTTAAAATTA
*
198786 TTTTGTCTTTTATGTTAAAGTTA
1 TTTTGTCTTTTATGTTAAAATTA
198809 TTTT
1 TTTT
198813 AATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.10, T:0.64
Consensus pattern (23 bp):
TTTTGTCTTTTATGTTAAAATTA
Found at i:199840 original size:69 final size:70
Alignment explanation
Indices: 199581--199849 Score: 253
Period size: 70 Copynumber: 3.8 Consensus size: 70
199571 AGTATTTTAA
* * * * * *
199581 GTGCTCTCCTATGAGTTACTCTAATCCTTCGGGGACT-TCAATATGAGTCACCTGAAATTAAATA
1 GTGCTCTCGTACGAGTCACTCTAATTCTTCGGGG-CTCTC-ATACGAGTCACCTAAAATTAAATA
199645 CAATTA-
64 CAATTAT
* * * * *
199651 GATGCTC-CTATACGAGTCACTCTAATGCTTCGGGGCTCCCGTACGAATCACCTAAAATTAAATA
1 G-TGCTCTC-GTACGAGTCACTCTAATTCTTCGGGGCTCTCATACGAGTCACCTAAAATTAAATA
**
199715 TGATT-T
64 CAATTAT
* * * *
199721 GGTACTCTCGTATGAGTCACTCTAA-TCTTTCGGGGCTCTCGTACAAGTCACCT-AAATTAAATA
1 -GTGCTCTCGTACGAGTCACTCTAATTC-TTCGGGGCTCTCATACGAGTCACCTAAAATTAAATA
199784 CAATTAT
64 CAATTAT
* * * *
199791 GTGCTCTCGTACGAGTCACTCTAATTCTTCAGGGCTCTCATATGTGTCACCCAAAATTA
1 GTGCTCTCGTACGAGTCACTCTAATTCTTCGGGGCTCTCATACGAGTCACCTAAAATTA
199850 TATATAACCA
Statistics
Matches: 161, Mismatches: 28, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
69 55 0.34
70 76 0.47
71 30 0.19
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (70 bp):
GTGCTCTCGTACGAGTCACTCTAATTCTTCGGGGCTCTCATACGAGTCACCTAAAATTAAATACA
ATTAT
Found at i:199841 original size:139 final size:141
Alignment explanation
Indices: 199584--199854 Score: 336
Period size: 139 Copynumber: 1.9 Consensus size: 141
199574 ATTTTAAGTG
* **
199584 CTCTCCTATGAGTTACTCTAATCCTTCGGGGACTTCAATATGAGTCACCTGAAATTAAATACAAT
1 CTCTCCTATGAGTCACTCTAATCCTTCGGGGACTTCAATACAAGTCACCTGAAATTAAATACAAT
* * *
199649 TAGATGCTCCTATACGAGTCACTCTAATGCTTCGGGGCTCCCGTACGAATCACCTAAAATTAAAT
66 TAGATGCTCCTATACGAGTCACTCTAATGCTTCAGGGCTCCCATACGAATCACCCAAAATTAAAT
199714 ATGATTTGGTA
131 ATGATTTGGTA
* * *
199725 CTCTCGTATGAGTCACTCTAATCTTTCGGGG-CTCTC-GTACAAGTCACCT-AAATTAAATACAA
1 CTCTCCTATGAGTCACTCTAATCCTTCGGGGACT-TCAATACAAGTCACCTGAAATTAAATACAA
* * * * **
199787 TTATG-TGCT-CTCGTACGAGTCACTCTAATTCTTCAGGGCTCTCATATGTGTCACCCAAAATTA
65 TTA-GATGCTCCT-ATACGAGTCACTCTAATGCTTCAGGGCTCCCATACGAATCACCCAAAATTA
*
199850 TATAT
128 AATAT
199855 AACCAGGTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 2 0.02
139 66 0.59
140 13 0.12
141 30 0.27
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (141 bp):
CTCTCCTATGAGTCACTCTAATCCTTCGGGGACTTCAATACAAGTCACCTGAAATTAAATACAAT
TAGATGCTCCTATACGAGTCACTCTAATGCTTCAGGGCTCCCATACGAATCACCCAAAATTAAAT
ATGATTTGGTA
Found at i:200289 original size:76 final size:76
Alignment explanation
Indices: 200151--200299 Score: 190
Period size: 76 Copynumber: 2.0 Consensus size: 76
200141 GTACTTACAC
* * * *
200151 CAGTGAAACTGAACATAGACTTATATCAGTGAAACTAACACTTAATTCCAAAACTGAGCTTAACA
1 CAGTGAAACTGAACATAGACTTACACCAGTGAAACAAACACTTAATTCCAAAACTGAACTTAACA
200216 CATAATTCTAT
66 CATAATTCTAT
* * * * * ** *
200227 CAGTGAAACTTAACATAGACTTACACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACA
1 CAGTGAAACTGAACATAGACTTACACCAGTGAAACAAACACTTAATTCCAAAACTGAACTTAACA
200292 CATAATTC
66 CATAATTC
200300 CATTAGTAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (76 bp):
CAGTGAAACTGAACATAGACTTACACCAGTGAAACAAACACTTAATTCCAAAACTGAACTTAACA
CATAATTCTAT
Found at i:200341 original size:123 final size:123
Alignment explanation
Indices: 200186--200431 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
200176 TCAGTGAAAC
200186 TAACACTTAATTCCAAAACTGAGCTTAACACATAATTCTATCAGTGAAACTTAACATAGACTTAC
1 TAACACTTAATTCCAAAACTGAGCTTAACACATAATTCTATCAGTGAAACTTAACATAGACTTAC
200251 ACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACACATAATTCCATTAGTAA
66 ACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACACATAATTCCATTAGTAA
200309 TAACACTTAATTCCAAAACTGAGCTTAACACATAATTCTATCAGTGAAACTTAACATAGACTTAC
1 TAACACTTAATTCCAAAACTGAGCTTAACACATAATTCTATCAGTGAAACTTAACATAGACTTAC
200374 ACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACACATAATTCCATTAGTAA
66 ACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACACATAATTCCATTAGTAA
200432 ATCTTAACAT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (123 bp):
TAACACTTAATTCCAAAACTGAGCTTAACACATAATTCTATCAGTGAAACTTAACATAGACTTAC
ACCGGTTAAACAAACATTTAATTTCAGTATTGAACTTAACACATAATTCCATTAGTAA
Found at i:200890 original size:23 final size:24
Alignment explanation
Indices: 200838--200898 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
200828 ATTTCAAAAT
*
200838 TATAATTATAAA-AAAATAAATTTA
1 TATATTTATAAATAAAAT-AATTTA
200862 TATATTTATAAATAAAAT-ATTTA
1 TATATTTATAAATAAAATAATTTA
* *
200885 TTTATTTAGAAATA
1 TATATTTATAAATA
200899 TCAGAAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.52
24 11 0.33
25 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TATATTTATAAATAAAATAATTTA
Found at i:202278 original size:3 final size:3
Alignment explanation
Indices: 202272--202327 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
202262 ATTATTTTTT
202272 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
202319 TAA TAA TAA
1 TAA TAA TAA
202328 ATAAGAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:202864 original size:113 final size:113
Alignment explanation
Indices: 202596--203684 Score: 1571
Period size: 113 Copynumber: 9.6 Consensus size: 113
202586 AGAATCATGC
* * * *
202596 AAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTTAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
202661 TATGAACTCGACCTGGTAA---TGATCCATTGAATGATGAATTCAAGC-
65 TATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
* *
202706 AAAAGTTGAAC-AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
202770 ATGAACTCAACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
202818 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
202883 ATGAACTCAACCTGATAATGCTTATCCATTGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
*
202931 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
202996 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
*
203044 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
203109 ATGAACTCGACCTGGTAATGCCGATCCATTGAATGATGAATTCAAGTA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
* *
203157 AAAAGTTGAACTAGTTCTTCTCATTATGAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
203222 ATGAACTCGACCTGGTAATGCTGATACATTGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
**
203270 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTTCTTACTTCTTCTTCCTTCTTA-GAGTTCTTC
1 AAAAGTTGAACAAGTTCTTCTCATTATGAA-TTTCTT-CTTC--CTT-CTTCAGATGAGTTCTTC
* **** * * ** * **
203334 TCTTTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCA
61 TCATTATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
* *
203387 AAATGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
**** * * * * **
203452 ATGAACTTTTTCTGGAAAAGCTGATCCA-TCAAGTGATGGATTTGAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAA-TGATGAATTCAAGCA
* *
203500 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * * * **
203565 ATGAACTTTAACTGGAAATGTTGATCCATTGAATGATGGATTTGAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
* *
203613 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
203678 ATGAACT
66 ATGAACT
203685 TTTTCTGGAA
Statistics
Matches: 916, Mismatches: 50, Indels: 23
0.93 0.05 0.02
Matches are distributed among these distances:
108 66 0.07
109 6 0.01
110 5 0.01
111 26 0.03
112 18 0.02
113 688 0.75
114 8 0.01
115 8 0.01
116 6 0.01
117 80 0.09
118 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
Found at i:203567 original size:569 final size:561
Alignment explanation
Indices: 202596--203684 Score: 1628
Period size: 569 Copynumber: 1.9 Consensus size: 561
202586 AGAATCATGC
* *
202596 AAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTTAT
1 AAAAGATTGAACAAATTCTTCTCATTATGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
*
202661 TATGAACTCGACCTGGTAATGATCCATTGAATGATGAATTCAAGCAAAAGTTGAACAGTTCTTCT
66 TATGAACTCGACCTGGTAATGATACATTGAATGATGAATTCAAGCAAAAGTTGAACAGTTCTTCT
* *
202726 CATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCAACCTGGTAATGC
131 CATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCAACCTGGAAAAGC
** *
202791 TGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCT
196 TGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCT
* * *
202856 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCTGATAATGCTTATCCATTGAATGATG
261 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCTGATAAAGCTGATCCATTCAATGATG
*
202921 AATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
326 AATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
* *
202986 TCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCAAAAAGTT
391 TCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATTGAATGATGAATTCAAGCAAAAAGTT
*
203051 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
456 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
203116 CGACCTGGTAATGCCGATCCATTGAATGATGAATTCAAGTA
521 CGACCTGGTAATGCCGATCCATTGAATGATGAATTCAAGTA
* * *
203157 AAAAG-TTGAACTAGTTCTTCTCATTATGAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAATTCTTCTCATTATGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
203221 TATGAACTCGACCTGGTAATGCTGATACATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGTT
66 TATGAACTCGACCTGGTAA---TGATACATTGAATGATGAATTCAAGC-AAAAGTTGAAC-AGTT
** * ****
203286 CTTCTCATTATGAACTTTCTTACTTCTTCTTCCTTCTTA-GAGTTCTTCTCTTTATGAACTTTTT
126 CTTCTCATTATGAAC-TTCTT-CTTC--CTT-CTTCAAATGAGTTCTTCTCATTATGAACTCAAC
* ** *
203350 CTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAATGTTGAACAAATTCTTCTCATTATG
186 CTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATG
****
203415 AATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA-AAAGCTGATCC
251 AATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCT-GATAAAGCTGATCC
* ** * *
203479 A-TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTT
315 ATTCAA-TGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
** * * *
203543 CTTCAGATGAGTTCTTCTCATTATGAACTTTAACTGGAAATGTTGATCCATTGAATGATGGATTT
379 CTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATTGAATGATGAATTC
* * *
203608 GAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
444 AAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
203673 TCATTATGAACT
509 TCATTATGAACT
203685 TTTTCTGGAA
Statistics
Matches: 470, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
560 73 0.16
561 5 0.01
563 25 0.05
564 11 0.02
565 19 0.04
566 5 0.01
567 4 0.01
568 3 0.01
569 318 0.68
570 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (561 bp):
AAAAGATTGAACAAATTCTTCTCATTATGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
TATGAACTCGACCTGGTAATGATACATTGAATGATGAATTCAAGCAAAAGTTGAACAGTTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCAACCTGGAAAAGC
TGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCTGATAAAGCTGATCCATTCAATGATG
AATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
TCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATTGAATGATGAATTCAAGCAAAAAGTT
GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
CGACCTGGTAATGCCGATCCATTGAATGATGAATTCAAGTA
Found at i:205667 original size:35 final size:35
Alignment explanation
Indices: 205607--205673 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
205597 TCTTGTTGAG
205607 ATGAGCCTCCAAGAATGCCCAAATATTCATATTGTT
1 ATGAGCCTCCAAGAATGCCCAAATATTC-TATTGTT
* *
205643 ATGAGCCTTCAA-AATGCCCCAATATTCTATT
1 ATGAGCCTCCAAGAATGCCCAAATATTCTATT
205674 TCTGGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.14
35 14 0.48
36 11 0.38
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
ATGAGCCTCCAAGAATGCCCAAATATTCTATTGTT
Found at i:206012 original size:24 final size:24
Alignment explanation
Indices: 205984--206031 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
205974 CGTATGAGAT
205984 ATGTGCCTTTTCTGAATGAGGTGA
1 ATGTGCCTTTTCTGAATGAGGTGA
206008 ATGTGCCTTTTCTGAATGAGGTGA
1 ATGTGCCTTTTCTGAATGAGGTGA
206032 CCATTTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (24 bp):
ATGTGCCTTTTCTGAATGAGGTGA
Found at i:208456 original size:11 final size:11
Alignment explanation
Indices: 208433--208488 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
208423 CTTGATTCAA
*
208433 TTTTCCTTCTT
1 TTTTTCTTCTT
208444 TTTTT-TTCTT
1 TTTTTCTTCTT
*
208454 TTTTGT-TTTTT
1 TTTT-TCTTCTT
208465 TTTCTTCTTCTT
1 TTT-TTCTTCTT
208477 TTTTTCTTCTT
1 TTTTTCTTCTT
208488 T
1 T
208489 CTTGCTGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 9 0.23
11 22 0.56
12 8 0.21
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:208464 original size:17 final size:16
Alignment explanation
Indices: 208442--208488 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
208432 ATTTTCCTTC
*
208442 TTTTTTTTTCTTTTTT
1 TTTTTTTTTCTTTTCT
208458 GTTTTTTTTTCTTCTTCT
1 -TTTTTTTTTCTT-TTCT
*
208476 TTTTTTCTTCTTT
1 TTTTTTTTTCTTT
208489 CTTGCTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 23 0.85
18 3 0.11
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTCTTTTCT
Found at i:208478 original size:14 final size:14
Alignment explanation
Indices: 208461--208487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
208451 CTTTTTTGTT
208461 TTTTTTTCTTCTTC
1 TTTTTTTCTTCTTC
208475 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
208488 TCTTGCTGGA
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:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTCTTC
Found at i:210798 original size:12 final size:12
Alignment explanation
Indices: 210778--210813 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
210768 TGGAAATATG
* *
210778 CAAATGTAAATA
1 CAAACGTAAAAA
210790 CAAACGTAAAAA
1 CAAACGTAAAAA
210802 CAAACGTAAAAA
1 CAAACGTAAAAA
210814 TGCAAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.64, C:0.14, G:0.08, T:0.14
Consensus pattern (12 bp):
CAAACGTAAAAA
Found at i:212883 original size:26 final size:27
Alignment explanation
Indices: 212849--212902 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
212839 CTTTCAAAAT
212849 TATAATTATAAA-AAAATATTAATTTA
1 TATAATTATAAATAAAATATTAATTTA
* *
212875 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
212902 T
1 T
212903 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:213034 original size:115 final size:117
Alignment explanation
Indices: 212866--213085 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 117
212856 ATAAAAAAAT
* * *
212866 ATTAATTTATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAG-AAAAGGACTTCTAG
1 ATTAATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAAAGACATCTAG
*
212930 GTACCTTAAGAC-AGCTC-TTTTCTTTATATTAAAAAATAAAATAATTAAAACA
66 GTACCTTAAGACTA--TCATTTTCTTGATATTAAAAAATAAAATAATTAAAACA
*
212982 ATTAATATATA-ATTT-TAAAAGTAAAATA-TTATTTATTTA-AAATTATCTGAAAAAAGACATC
1 ATTAATATATATATTTAT-AAA-TAAAATATTTATTTATTTAGAAA-TATCAGAAAAAAGACATC
* * *
213043 TAGTTGCTTTAAGACTATCATTTTCTTGATATTAAAAAATAAA
63 TAGGTACCTTAAGACTATCATTTTCTTGATATTAAAAAATAAA
213086 TAAACATTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
114 4 0.04
115 25 0.28
116 60 0.67
117 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (117 bp):
ATTAATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAAAGACATCTAG
GTACCTTAAGACTATCATTTTCTTGATATTAAAAAATAAAATAATTAAAACA
Found at i:213169 original size:20 final size:19
Alignment explanation
Indices: 213121--213169 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
213111 AAATTAATCA
*
213121 AAAATATATTAATATGATT
1 AAAATATATTAATATAATT
*
213140 AAAATAATATTATTATTAATT
1 AAAAT-ATATTAATA-TAATT
*
213161 TAAATATAT
1 AAAATATAT
213170 AACAATAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAATATATTAATATAATT
Found at i:214371 original size:2 final size:2
Alignment explanation
Indices: 214366--214392 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
214356 TTTTTTAATA
214366 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
214393 ATAATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.