Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 13 of 14
Found at i:1974458 original size:10 final size:10
Alignment explanation
Indices: 1974422--1974461 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
1974412 TTAATTTATT
1974422 AAAATAT-TA
1 AAAATATATA
*
1974431 ATAATATAT-
1 AAAATATATA
1974440 AAAAT-TATA
1 AAAATATATA
1974449 AAAATATATA
1 AAAATATATA
1974459 AAA
1 AAA
1974462 TTAATTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 3 0.12
9 15 0.58
10 8 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATATA
Found at i:1981441 original size:20 final size:20
Alignment explanation
Indices: 1981391--1981441 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
1981381 GTTTTGATAT
1981391 AACAAATATTGAATAAAATCA
1 AACAAAT-TTGAATAAAATCA
* *
1981412 AAAAATATTTGAA-AAAATGTA
1 AACAA-ATTTGAATAAAAT-CA
1981433 AACAAATTT
1 AACAAATTT
1981442 TATTCACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.36
21 14 0.56
22 2 0.08
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (20 bp):
AACAAATTTGAATAAAATCA
Found at i:1981735 original size:20 final size:19
Alignment explanation
Indices: 1981685--1981741 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1981675 TTGTATCGAT
*
1981685 ACATTATATCGATACATGT
1 ACATTATATCGATACATGG
*
1981704 TCATTATATCGATACATGG
1 ACATTATATCGATACATGG
*
1981723 ACAATTGTATCGATACATG
1 AC-ATTATATCGATACATG
1981742 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTATATCGATACATGG
Found at i:1981805 original size:13 final size:13
Alignment explanation
Indices: 1981787--1981816 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1981777 GATACATAGG
1981787 ACATTGTATCGAT
1 ACATTGTATCGAT
*
1981800 ACATTGTATTGAT
1 ACATTGTATCGAT
1981813 ACAT
1 ACAT
1981817 GATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1981814 original size:33 final size:33
Alignment explanation
Indices: 1981770--1981837 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
1981760 CTACCACTGT
1981770 TTGTATCGATACAT-AGGACATTGTATCGATACA
1 TTGTATCGATACATGAGGA-ATTGTATCGATACA
* * *
1981803 TTGTATTGATACATGATGAATTGTATTGATACA
1 TTGTATCGATACATGAGGAATTGTATCGATACA
1981836 TT
1 TT
1981838 ACTTATAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATGAGGAATTGTATCGATACA
Found at i:1986386 original size:20 final size:20
Alignment explanation
Indices: 1986322--1986396 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
1986312 AAAAAGACAT
* * *
1986322 AATGTATCAATACATTGCAG
1 AATGTATCGATACATTGAAA
* * *
1986342 AATATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
1986362 CATGTATCGATACACTGAAA
1 AATGTATCGATACATTGAAA
* *
1986382 AATGTTTTGATACAT
1 AATGTATCGATACAT
1986397 CTGGGTAAAA
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1989550 original size:22 final size:23
Alignment explanation
Indices: 1989505--1989550 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1989495 TTTGGTCTTT
*
1989505 AGTAAAAAGACCGGGAGGTTATC
1 AGTAAAAAGACCGGGAGGTCATC
* *
1989528 AGTAAAAAGATC-GGTGGTCATC
1 AGTAAAAAGACCGGGAGGTCATC
1989550 A
1 A
1989551 AACTATAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (23 bp):
AGTAAAAAGACCGGGAGGTCATC
Found at i:1991374 original size:13 final size:13
Alignment explanation
Indices: 1991356--1991381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1991346 CAACATTCCC
1991356 TGTATCGATACAT
1 TGTATCGATACAT
1991369 TGTATCGATACAT
1 TGTATCGATACAT
1991382 AGGTAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1993890 original size:13 final size:13
Alignment explanation
Indices: 1993872--1993896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1993862 ACATTATGCT
1993872 TTGTATCGATACA
1 TTGTATCGATACA
1993885 TTGTATCGATAC
1 TTGTATCGATAC
1993897 TGTTCATTGT
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1993906 original size:18 final size:20
Alignment explanation
Indices: 1993883--1993937 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1993873 TGTATCGATA
*
1993883 CATTGTATCGATAC-T-GTT
1 CATTGTATCGATACATGGAT
1993901 CATTGTATCGATACATGGAT
1 CATTGTATCGATACATGGAT
*
1993921 AATTGTATCGATACATG
1 CATTGTATCGATACATG
1993938 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 18 0.55
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:1994686 original size:9 final size:9
Alignment explanation
Indices: 1994674--1994705 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1994664 CCAATTCTTC
1994674 CAAAATTCG
1 CAAAATTCG
1994683 CAAAATTCG
1 CAAAATTCG
1994692 CAAAATTCG
1 CAAAATTCG
1994701 -AAAAT
1 CAAAAT
1994706 AACCAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (9 bp):
CAAAATTCG
Found at i:1995587 original size:92 final size:93
Alignment explanation
Indices: 1995408--1995587 Score: 229
Period size: 92 Copynumber: 1.9 Consensus size: 93
1995398 ATTCACAATT
* * * *
1995408 AATCAACTTTTCTCTTTTTTTTAACAAAAAGAATCTAATTCTCAAATATAATCTATGCATTAGTC
1 AATCAACTTTTCTCTTCTTTTTAACAAAAAGAATCCAATTCTCAAATATAATCTATACATTAATC
*
1995473 TAATATTTACAATCTGATATTTACAGTC
66 TAATATTTACAATCTGACATTTACAGTC
** *
1995501 AATCAACTTTTCT-TTCTTTTTATTAAAAGGAATCCAATTCTCAAATATAAT-TGATACATTAAT
1 AATCAACTTTTCTCTTCTTTTTAACAAAAAGAATCCAATTCTCAAATATAATCT-ATACATTAAT
* ** *
1995564 CTAATCTTTGTAATTTGACATTTA
65 CTAATATTTACAATCTGACATTTA
1995588 TAATCTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
91 1 0.01
92 60 0.81
93 13 0.18
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (93 bp):
AATCAACTTTTCTCTTCTTTTTAACAAAAAGAATCCAATTCTCAAATATAATCTATACATTAATC
TAATATTTACAATCTGACATTTACAGTC
Found at i:1995720 original size:67 final size:67
Alignment explanation
Indices: 1995593--1995724 Score: 176
Period size: 67 Copynumber: 2.0 Consensus size: 67
1995583 ATTTATAATC
* * ** *
1995593 TATATATTAGTCTTATCAACTTTTTTTATATCAAAAGAAATTTGATTCTTATTAAGAATCTATGC
1 TATATATTAGACTTATCAACTTTTTTCATATCAAAAGAAATTTGATTCACATCAAGAATCTATGC
1995658 AT
66 AT
* * *
1995660 TATATATTAGACTTATCAA-TTTCTTTCATATCAAAAGGAATTTGATTCACATCCATAATCTATG
1 TATATATTAGACTTATCAACTTT-TTTCATATCAAAAGAAATTTGATTCACATCAAGAATCTATG
1995724 C
65 C
1995725 GTTAATCACA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 3 0.05
67 53 0.95
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (67 bp):
TATATATTAGACTTATCAACTTTTTTCATATCAAAAGAAATTTGATTCACATCAAGAATCTATGC
AT
Found at i:1996038 original size:40 final size:39
Alignment explanation
Indices: 1995915--1996045 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 39
1995905 CATTAATTTC
* * * * * *
1995915 ATCTTTT-GAATTCTAATAAAAATTTTATATATTAGTCAC
1 ATCTTTTAGATTTC-AATAAAAAATCTATACATTAATCAT
* * *
1995954 ATCTTTTAGATTTCAATAAATAATCTATACATTATTAAT
1 ATCTTTTAGATTTCAATAAAAAATCTATACATTAATCAT
* *
1995993 ATCTTTCAGATTTCAATAAAAAAAT-TCATGCATTAATCAT
1 ATCTTTTAGATTTCAAT-AAAAAATCT-ATACATTAATCAT
1996033 ATCTTTTAGATTT
1 ATCTTTTAGATTT
1996046 TAGTTAACCC
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 42 0.56
40 33 0.44
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (39 bp):
ATCTTTTAGATTTCAATAAAAAATCTATACATTAATCAT
Found at i:1997132 original size:3 final size:3
Alignment explanation
Indices: 1997124--1997166 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1997114 GATAAACTTC
1997124 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1997167 GTATATTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1998317 original size:15 final size:16
Alignment explanation
Indices: 1998290--1998327 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1998280 TGAAGATAAA
1998290 ATTTAATAAAAATATTT
1 ATTTAATAAAAAT-TTT
1998307 -TTTAA-AAAAATTTT
1 ATTTAATAAAAATTTT
1998321 ATTTAAT
1 ATTTAAT
1998328 TAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATAAAAATTTT
Found at i:1998348 original size:18 final size:18
Alignment explanation
Indices: 1998325--1998379 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 18
1998315 AATTTTATTT
1998325 AATTAATTAAAAATAATA
1 AATTAATTAAAAATAATA
*
1998343 AATTAAGTAATAAAAATATTA
1 AATTAA-T--TAAAAATAATA
1998364 AA--AATTAAAAA-AATA
1 AATTAATTAAAAATAATA
1998379 A
1 A
1998380 CATAGAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.12
16 6 0.19
18 7 0.22
19 3 0.09
21 12 0.38
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AATTAATTAAAAATAATA
Found at i:1998713 original size:17 final size:17
Alignment explanation
Indices: 1998691--1998723 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1998681 GTATAATGAT
1998691 AAATATCAATAA-AAATA
1 AAATAT-AATAATAAATA
1998708 AAATATAATAATAAAT
1 AAATATAATAATAAAT
1998724 TTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATATAATAATAAATA
Found at i:2002846 original size:14 final size:13
Alignment explanation
Indices: 2002800--2002847 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
2002790 TAAAAGAAAC
2002800 ATTTTAGTTTCTAT
1 ATTTTAGTTT-TAT
*
2002814 ATTATTAAGTTTAAT
1 ATT-TT-AGTTTTAT
2002829 ATTTTAGTATTTAT
1 ATTTTAGT-TTTAT
2002843 ATTTT
1 ATTTT
2002848 TAAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 3 0.10
14 14 0.48
15 7 0.24
16 5 0.17
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (13 bp):
ATTTTAGTTTTAT
Found at i:2006798 original size:18 final size:17
Alignment explanation
Indices: 2006775--2006808 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2006765 ATTGGTTAAA
2006775 AAATATAAGTTAATTTTT
1 AAATAT-AGTTAATTTTT
*
2006793 AAATATATTTAATTTT
1 AAATATAGTTAATTTT
2006809 AATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AAATATAGTTAATTTTT
Found at i:2008718 original size:26 final size:26
Alignment explanation
Indices: 2008689--2008738 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2008679 TCTAGAACTT
* *
2008689 AGATAAAGTTGAAGTTTATTAATCTC
1 AGATAAAGTTCAAGTTTATCAATCTC
*
2008715 AGATAAAGTTCAATTTTATCAATC
1 AGATAAAGTTCAAGTTTATCAATC
2008739 CTATCTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AGATAAAGTTCAAGTTTATCAATCTC
Found at i:2013136 original size:26 final size:26
Alignment explanation
Indices: 2013107--2013171 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
2013097 TAGAATTTTA
2013107 GATAAAGTTGAACTTTATTAATCCCT
1 GATAAAGTTGAACTTTATTAATCCCT
*
2013133 GATAAAGTTGAACTTTATTAATCCTT
1 GATAAAGTTGAACTTTATTAATCCCT
*
2013159 AATAAAGTTGAAC
1 GATAAAGTTGAAC
2013172 GTTAACAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (26 bp):
GATAAAGTTGAACTTTATTAATCCCT
Found at i:2015952 original size:18 final size:18
Alignment explanation
Indices: 2015911--2015952 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2015901 ATGGTTTGCA
2015911 AAGTTTTGAATTTTGGGT
1 AAGTTTTGAATTTTGGGT
**
2015929 TTGTTTTGTAATTTT-GGT
1 AAGTTTTG-AATTTTGGGT
2015947 AAGTTT
1 AAGTTT
2015953 AGGGACTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (18 bp):
AAGTTTTGAATTTTGGGT
Found at i:2017755 original size:19 final size:19
Alignment explanation
Indices: 2017723--2017760 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2017713 AGCTTGAAAC
2017723 AATATTTTTATATTAAAAT
1 AATATTTTTATATTAAAAT
*
2017742 AATATATTTT-TATTTAAAT
1 AATAT-TTTTATATTAAAAT
2017761 TTAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTTATATTAAAAT
Found at i:2022030 original size:27 final size:27
Alignment explanation
Indices: 2021979--2022030 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2021969 AGAAAAATAA
* *
2021979 TATTTATATATTATATTATATTATTTG
1 TATTTATATATTATATTAAAATATTTG
2022006 TATTTATATATT-TATTTAAAATATT
1 TATTTATATATTATA-TTAAAATATT
2022031 GATGTAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTATATATTATATTAAAATATTTG
Found at i:2027537 original size:19 final size:19
Alignment explanation
Indices: 2027493--2027548 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2027483 TTGTCAGTTT
***
2027493 CATGTATCGATATAATTGTG
1 CATGTATCGATATAA-TAAA
2027513 CATGTATCGATATAATAAA
1 CATGTATCGATATAATAAA
*
2027532 CATGTATCGATACAATA
1 CATGTATCGATATAATA
2027549 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
CATGTATCGATATAATAAA
Found at i:2030012 original size:13 final size:13
Alignment explanation
Indices: 2029994--2030019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2029984 TAGTAACCCA
2029994 TGTATCGATACAT
1 TGTATCGATACAT
2030007 TGTATCGATACAT
1 TGTATCGATACAT
2030020 CTAGGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2036298 original size:19 final size:19
Alignment explanation
Indices: 2036274--2036311 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2036264 TTGTGCATGT
2036274 AACATGTATCGATACAATG
1 AACATGTATCGATACAATG
2036293 AACATGTATCGATACAATG
1 AACATGTATCGATACAATG
2036312 TATCGATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AACATGTATCGATACAATG
Found at i:2037965 original size:28 final size:29
Alignment explanation
Indices: 2037928--2038001 Score: 116
Period size: 28 Copynumber: 2.6 Consensus size: 29
2037918 AAAATAAAAT
2037928 CGGGGTTGGAGTATCCCCT-CGAAAATAA
1 CGGGGTTGGAGTATCCCCTGCGAAAATAA
**
2037956 TTGGGTTGGAGTAT-CCCTGCGAAAATAA
1 CGGGGTTGGAGTATCCCCTGCGAAAATAA
2037984 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2038002 GATTGTGAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.10
28 33 0.82
29 3 0.08
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTGCGAAAATAA
Found at i:2038002 original size:107 final size:106
Alignment explanation
Indices: 2037875--2038076 Score: 280
Period size: 107 Copynumber: 1.9 Consensus size: 106
2037865 TGGTGATAAC
** * *
2037875 AACGGGGCTGGAGTATCCCCGATTATGAAAAATTGATGTTCTGA-AAATAAAATCGGGGTTGGAG
1 AACGGGGCTGGAGTATCCCCGATTATGAAAAATCAATATT-TGAGAAATAAAACCGGGGTTGGAG
*
2037939 TATCCCCTCGAAAATAATTGGGTTGGAGTATCCCTGCGAAAAT
65 TATCCCCTCGAAAATAA-GGGGTTGGAGTATCCCTGCGAAAAT
* * * * *
2037982 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGT
1 AACGGGGCTGGAGTATCCCCGATTATGAAAAATCAATATTTGAGAAATAAAACCGGGGTTGGAGT
*
2038047 ATCCCCTCGGAAATAAGGGGTTGGAGTATC
66 ATCCCCTCGAAAATAAGGGGTTGGAGTATC
2038077 TCCGATTGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 15 0.18
107 68 0.82
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (106 bp):
AACGGGGCTGGAGTATCCCCGATTATGAAAAATCAATATTTGAGAAATAAAACCGGGGTTGGAGT
ATCCCCTCGAAAATAAGGGGTTGGAGTATCCCTGCGAAAAT
Found at i:2038041 original size:79 final size:79
Alignment explanation
Indices: 2037958--2038319 Score: 629
Period size: 79 Copynumber: 4.6 Consensus size: 79
2037948 GAAAATAATT
2037958 GGGTTGGAGTAT-CCCTGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 GGGTTGGAGTATCCCCT-CGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
2038022 TTAGAAATAAAGCCG
65 TTAGAAATAAAGCCG
* *
2038037 GGGTTGGAGTATCCCCTCGGAAATAA-GGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
*
2038101 TAAAAATAAAGCCG
66 TAGAAATAAAGCCG
* *
2038115 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
*
2038180 TAGAAATAAAGCCA
66 TAGAAATAAAGCCG
*
2038194 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
2038259 TAGAAATAAAGCCG
66 TAGAAATAAAGCCG
*
2038273 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2038320 GAATTAATGT
Statistics
Matches: 268, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
78 76 0.28
79 188 0.70
80 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGAAATAAAGCCG
Found at i:2038408 original size:51 final size:51
Alignment explanation
Indices: 2038331--2038460 Score: 188
Period size: 51 Copynumber: 2.5 Consensus size: 51
2038321 AATTAATGTG
* * *
2038331 GTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGAA
* * **
2038382 GTTGGAGTATCCCTGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGAA
*
2038433 GTTGAAGTATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTATGAAAAATT
2038461 GAGAAACTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGAA
Found at i:2040766 original size:20 final size:20
Alignment explanation
Indices: 2040741--2040884 Score: 139
Period size: 20 Copynumber: 6.8 Consensus size: 20
2040731 AAAATGCCTG
*
2040741 AATGTATCGATACATTGTAA-
1 AATGTATCGATACAATG-AAC
*
2040761 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
2040781 AATGTATCGATACAATGCAA-
1 AATGTATCGATACAATG-AAC
*
2040801 AATGTATCGATACATCTGGGTAAACCC
1 AATGTATCGATACA-AT--G--AA--C
2040828 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
*
2040850 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
2040870 AATGTATCGATACAA
1 AATGTATCGATACAA
2040885 ATTGTGAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.01
20 81 0.76
21 2 0.02
22 1 0.01
23 1 0.01
24 4 0.04
26 1 0.01
28 1 0.01
29 14 0.13
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:2044035 original size:19 final size:20
Alignment explanation
Indices: 2044008--2044050 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2043998 ATCCACCCTA
*
2044008 AATTAAATCAAACA-AACAT
1 AATTAAATCAAAAACAACAT
*
2044027 AATTCAATCAAAAACAACAT
1 AATTAAATCAAAAACAACAT
2044047 AATT
1 AATT
2044051 GATCATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.23
Consensus pattern (20 bp):
AATTAAATCAAAAACAACAT
Found at i:2048468 original size:3 final size:3
Alignment explanation
Indices: 2048460--2048484 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2048450 GAGTCAACTG
2048460 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
2048485 TTTGATGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:2050110 original size:13 final size:13
Alignment explanation
Indices: 2050092--2050122 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2050082 ATAATTCTTC
2050092 ATGTATCAATACA
1 ATGTATCAATACA
*
2050105 ATGTATCGATACA
1 ATGTATCAATACA
2050118 ATGTA
1 ATGTA
2050123 CCATGTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:2050212 original size:19 final size:19
Alignment explanation
Indices: 2050167--2050222 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2050157 CTGCCAGTTT
*
2050167 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
2050187 TATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
2050206 CATGTATCGTTACAATG
1 CATGTATCGATACAATG
2050223 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2052645 original size:103 final size:102
Alignment explanation
Indices: 2052511--2052871 Score: 392
Period size: 103 Copynumber: 3.5 Consensus size: 102
2052501 TATTAAATTC
* *
2052511 TTATTCATGGGGATACTCCAA-CTTCGACCTTTCGAAGGGATACTCCAACCCCGGTCTTTGAAAT
1 TTATTCATGGGGATACTCCAACCCT-GACCTTTCGAAGGGATACTCCAACCCCGCTCTTTGAAAT
*
2052575 TTGTCAAGATTCAAACTTTTCCTTTGTCAAAATTATTTG
65 TTGTCAAGATT-AAACTTTTCTTTTGTCAAAATTATTTG
* * * *
2052614 TTATTCATGGGGATACTCTAACCCTGGCCTTTCGAAAGGATACTCCAACCTCGCTCTTTGAAATT
1 TTATTCATGGGGATACTCCAACCCTGACCTTTCGAAGGGATACTCCAACCCCGCTCTTTGAAATT
* *** *
2052679 TGTCAAGATTAGAAGTTTTCTTTTGTCAAAATCGCTGG
66 TGTCAAGATTA-AACTTTTCTTTTGTCAAAATTATTTG
* * * **
2052717 TCATTCATGGGGATACTCCAACCCCGACCTTTCG-AGGGAATACTCTAACCCCGCTCTTCAAAAT
1 TTATTCATGGGGATACTCCAACCCTGACCTTTCGAAGGG-ATACTCCAACCCCGCTCTTTGAAAT
* *
2052781 TTGTCAAGATTTGAATTTTTCTTTTGTCAAAATTATTT-
65 TTGTCAAGA-TTAAACTTTTCTTTTGTCAAAATTATTTG
* * * *
2052819 TTCA-TCTACGGAGATACTCCAACCC-CATCTTTCCG-AGGAGATACTCCAACCCC
1 TT-ATTC-ATGGGGATACTCCAACCCTGACCTTT-CGAAGG-GATACTCCAACCCC
2052872 ACATTTCAAC
Statistics
Matches: 217, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
102 12 0.06
103 200 0.92
104 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (102 bp):
TTATTCATGGGGATACTCCAACCCTGACCTTTCGAAGGGATACTCCAACCCCGCTCTTTGAAATT
TGTCAAGATTAAACTTTTCTTTTGTCAAAATTATTTG
Found at i:2052672 original size:27 final size:26
Alignment explanation
Indices: 2052624--2052676 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2052614 TTATTCATGG
* *
2052624 GGATACTCTAACCCTGGCCTTTCGAAA
1 GGATACTCCAACCCTCGCCTTT-GAAA
2052651 GGATACTCCAA-CCTCGCTCTTTGAAA
1 GGATACTCCAACCCTCGC-CTTTGAAA
2052677 TTTGTCAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (26 bp):
GGATACTCCAACCCTCGCCTTTGAAA
Found at i:2054328 original size:16 final size:17
Alignment explanation
Indices: 2054309--2054349 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2054299 CCCAAATCCA
2054309 AAATGACCT-GAACTCG
1 AAATGACCTCGAACTCG
*
2054325 AAATGA-TTCGAACTCG
1 AAATGACCTCGAACTCG
2054341 AAATGACCT
1 AAATGACCT
2054350 AAACAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (17 bp):
AAATGACCTCGAACTCG
Found at i:2056997 original size:23 final size:23
Alignment explanation
Indices: 2056967--2057014 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2056957 CCAAATTGAC
*
2056967 TCTACTTGCACATTGTTTAAACT
1 TCTACTTGCACATCGTTTAAACT
2056990 TCTACTTGCACATCGTTTAAACT
1 TCTACTTGCACATCGTTTAAACT
2057013 TC
1 TC
2057015 ATCACCCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (23 bp):
TCTACTTGCACATCGTTTAAACT
Found at i:2058190 original size:25 final size:25
Alignment explanation
Indices: 2058159--2058234 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
2058149 TAATCCGAAG
2058159 TTCATTTTACTAATTATTTTAGATA
1 TTCATTTTACTAATTATTTTAGATA
* *
2058184 TTCATTTTGCTAATTATTTTTGA-A
1 TTCATTTTACTAATTATTTTAGATA
*
2058208 -T-ATTTTACTAACTATTTTTCAGATA
1 TTCATTTTACTAATTA-TTTT-AGATA
2058233 TT
1 TT
2058235 TTACTAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 11 0.26
23 5 0.12
24 3 0.07
25 22 0.52
26 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (25 bp):
TTCATTTTACTAATTATTTTAGATA
Found at i:2058233 original size:23 final size:22
Alignment explanation
Indices: 2058187--2058241 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2058177 TTAGATATTC
* * *
2058187 ATTTTGCTAATTATTTTTGAAT
1 ATTTTACTAACTATTTTTCAAT
2058209 ATTTTACTAACTATTTTTCAGAT
1 ATTTTACTAACTATTTTTCA-AT
2058232 ATTTTACTAA
1 ATTTTACTAA
2058242 TCAATTTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTACTAACTATTTTTCAAT
Found at i:2058249 original size:23 final size:23
Alignment explanation
Indices: 2058207--2058250 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2058197 TTATTTTTGA
*
2058207 ATATTTTACTAACTATTTTTCAG
1 ATATTTTACTAACTAATTTTCAG
2058230 ATATTTTACTAA-TCAATTTTC
1 ATATTTTACTAACT-AATTTTC
2058251 GTATGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATTTTACTAACTAATTTTCAG
Found at i:2059180 original size:187 final size:188
Alignment explanation
Indices: 2058966--2059323 Score: 709
Period size: 187 Copynumber: 1.9 Consensus size: 188
2058956 AAATAGTAGT
2058966 TAATGGAAACAAAAAATAAAATAGCTAGCAATAAAAAAATAATAGTTATATATTTTATAATTAAT
1 TAATGGAAACAAAAAATAAAATAGCTAGCAATAAAAAAATAATAGTTATATATTTTATAATTAAT
2059031 TTAAATAAATTTATTTTATGAAAGAAAAAGTATTAAATAATAGTTATATATTAAATAAAAACCTA
66 TTAAATAAATTTATTTTATGAAAGAAAAAGTATTAAATAATAGTTATATATTAAATAAAAACCTA
2059096 AACCCCTCTAAATTAAACCCCAAAAATATTTATCATGGCTAGCAAGCAATAAAATAGC
131 AACCCCTCTAAATTAAACCCCAAAAATATTTATCATGGCTAGCAAGCAATAAAATAGC
2059154 TAATGGAAAC-AAAAATAAAATAGCTAGCAATAAAAAAATAATAGTTATATATTTTATAATTAAT
1 TAATGGAAACAAAAAATAAAATAGCTAGCAATAAAAAAATAATAGTTATATATTTTATAATTAAT
2059218 TTAAATAAATTTATTTTATGAAAGAAAAAGTATTAAATAATAGTTATATATTAAATAAAAACCTA
66 TTAAATAAATTTATTTTATGAAAGAAAAAGTATTAAATAATAGTTATATATTAAATAAAAACCTA
2059283 AACCCCTCTAAATTAAACCCCAAAAATATTTATCATGGCTA
131 AACCCCTCTAAATTAAACCCCAAAAATATTTATCATGGCTA
2059324 ACTACTATAA
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
187 160 0.94
188 10 0.06
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (188 bp):
TAATGGAAACAAAAAATAAAATAGCTAGCAATAAAAAAATAATAGTTATATATTTTATAATTAAT
TTAAATAAATTTATTTTATGAAAGAAAAAGTATTAAATAATAGTTATATATTAAATAAAAACCTA
AACCCCTCTAAATTAAACCCCAAAAATATTTATCATGGCTAGCAAGCAATAAAATAGC
Found at i:2060128 original size:16 final size:17
Alignment explanation
Indices: 2060107--2060154 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
2060097 ATGAAAATAA
2060107 ATATTTATAAATAA-TT
1 ATATTTATAAATAACTT
*
2060123 ATATTTTAAAAATAACTT
1 ATA-TTTATAAATAACTT
2060141 -TATTTATAATATAA
1 ATATTTATAA-ATAA
2060155 ATCATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.33
17 16 0.59
18 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTTATAAATAACTT
Found at i:2061597 original size:28 final size:29
Alignment explanation
Indices: 2061541--2061598 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2061531 AAATAGTAAG
2061541 TAAAATTAATAATTAGAAAAATTCATGTA
1 TAAAATTAATAATTAGAAAAATTCATGTA
** * *
2061570 TAAAATTCCTAATTA-AAAATTTTATGTA
1 TAAAATTAATAATTAGAAAAATTCATGTA
2061598 T
1 T
2061599 GAGTATATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
TAAAATTAATAATTAGAAAAATTCATGTA
Found at i:2062385 original size:16 final size:16
Alignment explanation
Indices: 2062366--2062403 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2062356 CCAAACTCAT
2062366 AAAAA-ATTTATGAGAA
1 AAAAATATTTATG-GAA
2062382 AAAAATATTTATGGAA
1 AAAAATATTTATGGAA
2062398 AAAAAT
1 AAAAAT
2062404 CTGTATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (16 bp):
AAAAATATTTATGGAA
Found at i:2062386 original size:17 final size:16
Alignment explanation
Indices: 2062366--2062402 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2062356 CCAAACTCAT
2062366 AAAAAATTTATGAGAAA
1 AAAAAATTTATG-GAAA
*
2062383 AAAATATTTATGGAAA
1 AAAAAATTTATGGAAA
2062399 AAAA
1 AAAA
2062403 TCTGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (16 bp):
AAAAAATTTATGGAAA
Found at i:2062970 original size:10 final size:10
Alignment explanation
Indices: 2062947--2062982 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
2062937 ATCACACTTA
2062947 TTTTTTAAGGTT
1 TTTTTTAA--TT
2062959 TTTTTTAATT
1 TTTTTTAATT
2062969 TTTTTTAATT
1 TTTTTTAATT
2062979 TTTT
1 TTTT
2062983 ATGACATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 16 0.67
12 8 0.33
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:2063373 original size:3 final size:3
Alignment explanation
Indices: 2063365--2063400 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2063355 TAATCTGTAA
2063365 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2063401 ATTTTACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2065685 original size:2 final size:2
Alignment explanation
Indices: 2065678--2065706 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2065668 TAGGTTTAAG
2065678 TC TC 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 TC TC T
2065707 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2065711 original size:2 final size:2
Alignment explanation
Indices: 2065706--2065731 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2065696 TCTCTCTCTC
2065706 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
2065732 CACACACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2070324 original size:34 final size:35
Alignment explanation
Indices: 2070252--2070326 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
2070242 GCTACAGTGC
*
2070252 TACCTTGGACTTGAAAGGTAAGAATTTAAATGTTA
1 TACCTTAGACTTGAAAGGTAAGAATTTAAATGTTA
* ** *
2070287 TACCTTAGCCTTGAAAGGT-AGGTTTTAGATGTTA
1 TACCTTAGACTTGAAAGGTAAGAATTTAAATGTTA
2070321 TACCTT
1 TACCTT
2070327 GACCTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 18 0.51
35 17 0.49
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (35 bp):
TACCTTAGACTTGAAAGGTAAGAATTTAAATGTTA
Found at i:2077981 original size:18 final size:18
Alignment explanation
Indices: 2077958--2078012 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
2077948 TATAATTATA
2077958 TATAAAATATTTTATATT
1 TATAAAATATTTTATATT
*
2077976 TATAAAAATATTAATATATT
1 TAT-AAAATATT-TTATATT
* * *
2077996 AATAATATATATTATAT
1 TATAAAATATTTTATAT
2078013 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.27
19 14 0.47
20 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAAATATTTTATATT
Found at i:2077993 original size:20 final size:20
Alignment explanation
Indices: 2077944--2078032 Score: 69
Period size: 20 Copynumber: 4.4 Consensus size: 20
2077934 ATATTTTATT
2077944 ATATT-ATA-ATTATATATAAA
1 ATATTAATATATT-TATA-AAA
*
2077964 ATATT-TTATATTTATAAAA
1 ATATTAATATATTTATAAAA
* *
2077983 ATATTAATATATTAATAATAT
1 ATATTAATATATTTATAA-AA
*
2078004 ATATTATATAAATTTA-AAATA
1 ATATTA-ATATATTTATAAA-A
2078025 ATATTAAT
1 ATATTAAT
2078033 TTTAATTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
19 8 0.14
20 24 0.42
21 18 0.32
22 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATATATTTATAAAA
Found at i:2078285 original size:32 final size:33
Alignment explanation
Indices: 2078224--2078292 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2078214 TTTGAAATAT
*
2078224 TAAAGTTGCCCAACGTTTTAATTTATTTATTTA
1 TAAAGTTGCACAACGTTTTAATTTATTTATTTA
* *
2078257 TAAAGTTGCACAA-TTTTTTATTTATTTATTTA
1 TAAAGTTGCACAACGTTTTAATTTATTTATTTA
2078289 TAAA
1 TAAA
2078293 TTTTTCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (33 bp):
TAAAGTTGCACAACGTTTTAATTTATTTATTTA
Found at i:2079314 original size:25 final size:27
Alignment explanation
Indices: 2079254--2079318 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
2079244 ATCACATACA
*
2079254 ATATAAAAAAAAAAAAACTAAAACATG
1 ATATAAAAATAAAAAAACTAAAACATG
*
2079281 ATATAAAAATAAAAATACTAAAA-AT-
1 ATATAAAAATAAAAAAACTAAAACATG
2079306 ATAGT-AAAATAAA
1 ATA-TAAAAATAAA
2079319 TAAATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 11 0.31
26 3 0.09
27 21 0.60
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (27 bp):
ATATAAAAATAAAAAAACTAAAACATG
Found at i:2079914 original size:1 final size:1
Alignment explanation
Indices: 2079908--2079933 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2079898 ACCGCCAACA
2079908 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
2079934 GCGGGAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2083188 original size:13 final size:13
Alignment explanation
Indices: 2083170--2083195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2083160 CAATTTTTTG
2083170 TGTATCGATACAT
1 TGTATCGATACAT
2083183 TGTATCGATACAT
1 TGTATCGATACAT
2083196 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2083260 original size:21 final size:21
Alignment explanation
Indices: 2083234--2083309 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2083224 CTGCCAAGAA
*
2083234 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2083255 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2083275 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2083296 ATGTATCGATACAT
1 ATGTATCGATACAT
2083310 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2083280 original size:20 final size:20
Alignment explanation
Indices: 2083255--2083327 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2083245 CATCTTTTTT
2083255 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2083275 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2083296 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2083316 ATGTATCGATAC
1 ATGTATCGATAC
2083328 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2083291 original size:41 final size:41
Alignment explanation
Indices: 2083234--2083327 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2083224 CTGCCAAGAA
*
2083234 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2083275 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2083316 ATGTATCGATAC
1 ATGTATCGATAC
2083328 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2085798 original size:13 final size:13
Alignment explanation
Indices: 2085780--2085818 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2085770 ATAATCACCC
*
2085780 TGTATCGATACAG
1 TGTATCGATACAA
2085793 TGTATCGATACAA
1 TGTATCGATACAA
2085806 TGTATCGATACAA
1 TGTATCGATACAA
2085819 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2085829 original size:20 final size:20
Alignment explanation
Indices: 2085804--2085882 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2085794 GTATCGATAC
2085804 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2085824 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2085849 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2085869 CATGTATCGATACA
1 AATGTATCGATACA
2085883 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2087916 original size:15 final size:15
Alignment explanation
Indices: 2087896--2087926 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2087886 ATTTCGTTTG
*
2087896 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2087911 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2087926 G
1 G
2087927 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2091984 original size:13 final size:13
Alignment explanation
Indices: 2091966--2091991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2091956 CAATTTTTTG
2091966 TGTATCGATACAT
1 TGTATCGATACAT
2091979 TGTATCGATACAT
1 TGTATCGATACAT
2091992 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2092056 original size:21 final size:21
Alignment explanation
Indices: 2092030--2092105 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2092020 CTGCCAAGAA
*
2092030 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2092051 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2092071 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2092092 ATGTATCGATACAT
1 ATGTATCGATACAT
2092106 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2092076 original size:20 final size:20
Alignment explanation
Indices: 2092051--2092123 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2092041 CATCTTTTTT
2092051 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2092071 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2092092 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2092112 ATGTATCGATAC
1 ATGTATCGATAC
2092124 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2092087 original size:41 final size:41
Alignment explanation
Indices: 2092030--2092123 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2092020 CTGCCAAGAA
*
2092030 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2092071 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2092112 ATGTATCGATAC
1 ATGTATCGATAC
2092124 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2097698 original size:22 final size:21
Alignment explanation
Indices: 2097673--2097717 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2097663 TTTTGGTCAT
*
2097673 AAAAATTGCATTTTTTTCATTC
1 AAAAAATGCA-TTTTTTCATTC
*
2097695 AAAAAATGTATTTTTTCATTC
1 AAAAAATGCATTTTTTCATTC
2097716 AA
1 AA
2097718 TCAATCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (21 bp):
AAAAAATGCATTTTTTCATTC
Found at i:2098568 original size:21 final size:21
Alignment explanation
Indices: 2098542--2098614 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 21
2098532 TTCTACAATT
*
2098542 TGTATCGATACAATAAGTTAA
1 TGTATCGATACAATAAGTGAA
2098563 TGTATCGATACAA-AAGTGAA
1 TGTATCGATACAATAAGTGAA
*
2098583 TGTATCGATAC-ATAAATGAA
1 TGTATCGATACAATAAGTGAA
*
2098603 TGTATCAATACA
1 TGTATCGATACA
2098615 TGCTTGAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 1 0.02
20 33 0.70
21 13 0.28
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:2098615 original size:20 final size:20
Alignment explanation
Indices: 2098542--2098634 Score: 98
Period size: 20 Copynumber: 4.5 Consensus size: 20
2098532 TTCTACAATT
* *
2098542 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAATGAA
2098563 TGTATCGATACA-AAAGTGAA
1 TGTATCGATACATAAA-TGAA
2098583 TGTATCGATACATAAATGAA
1 TGTATCGATACATAAATGAA
* ***
2098603 TGTATCAATACATGCTTGAAA
1 TGTATCGATACATAAATG-AA
2098624 TGTATCGATAC
1 TGTATCGATAC
2098635 TGGACCATGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.03
20 34 0.55
21 26 0.42
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAATGAA
Found at i:2101082 original size:96 final size:96
Alignment explanation
Indices: 2100883--2101070 Score: 234
Period size: 96 Copynumber: 2.0 Consensus size: 96
2100873 TTTATTCATT
* * ** * *
2100883 AGGATACATCAACCCATTCTTCCGAGTGGATACTCCAACCCTGTTTTTAAAATTTTCAAGATTTA
1 AGGATACTTCAACCCATTCTTCCGAGGGGATACTCCAACCCAATTTTTAAAATTATCAAAATTTA
* * *
2100948 AATCTTATTTTTGATTAAATTGTCATCACTG
66 AATATTATTTTTGACTAAATTATCATCACTG
* * *
2100979 AGGATACTTCAACCCCATTCTTTCGAGGGGATACTCTAA-CCAATTTTTAAACTTATCAAAATTT
1 AGGATACTTCAA-CCCATTCTTCCGAGGGGATACTCCAACCCAATTTTTAAAATTATCAAAATTT
* *
2101043 AACTATTATTTTTGCCTAAATTATCATC
65 AAATATTATTTTTGACTAAATTATCATC
2101071 GTTAGGGATA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 54 0.70
97 23 0.30
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (96 bp):
AGGATACTTCAACCCATTCTTCCGAGGGGATACTCCAACCCAATTTTTAAAATTATCAAAATTTA
AATATTATTTTTGACTAAATTATCATCACTG
Found at i:2111335 original size:156 final size:156
Alignment explanation
Indices: 2111039--2111696 Score: 704
Period size: 156 Copynumber: 4.2 Consensus size: 156
2111029 TGGTACCCCT
* * * * *
2111039 AAAGGACT-TAAAAAGGATGAACCTATCCTAAATACCAACCTTTAACCTGAAAGCAAACCCAGTG
1 AAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTTAGCATAAAAGCAGACCCAGTG
* * * ** ** * * * *
2111103 ACAACTTAGGACTTGGCTCCAAAAAATTATC-AAAATGCCTTTAGAGGACACATTCGATGTGAAA
66 ATAACCTAGGACTCGATTTTAAAAAATTA-CAAAAATACCCTTAGAGGATACATTCGACGTGAAA
*
2111167 GTATCCTAGTACCCCTAAAGGACTTTA
130 GTATCCTAGTACCCCTAAAGGACTTAA
* * * *
2111194 AAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTCAGTATAAAAGCGGACCCAGAG
1 AAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTTAGCATAAAAGCAGACCCAGTG
* * * * * *
2111259 ATAACCTAGGACTCGGTTCTT-AAAAATTACTAAAATACCCTTAGGGGAAACTTTCGACATGAAA
66 ATAACCTAGGACTCGATT-TTAAAAAATTACAAAAATACCCTTAGAGGATACATTCGACGTGAAA
* * *
2111323 GTATCCTGGTACCCCTAAAGAACTTAC
130 GTATCCTAGTACCCCTAAAGGACTTAA
* * * * *
2111350 AAAGGACTATAAAAGGGATGGAGCTATCCTAAATACTC-ACATTTGGCATAAAAGCAGACCCGGT
1 AAAGGACTATAAAAGGGATGAACCTATCCTAAATAC-CAACCTTTAGCATAAAAGCAGACCCAGT
* * * * * * *
2111414 GGTAACCTAGGACTCGATTTTGAAAAATTACAAAAATGCCCGTAGAAGATACATTCAATGTGAAA
65 GATAACCTAGGACTCGATTTTAAAAAATTACAAAAATACCCTTAGAGGATACATTCGACGTGAAA
* * *
2111479 ATATCCCAGTACCCCTACAGGACTTAA
130 GTATCCTAGTACCCCTAAAGGACTTAA
*** *
2111506 AAAGGACTAT-AAAGGGATGAACCTATCCTAAATATTGACCTTT-GACATAAAAGCAGACCCGGT
1 AAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTTAG-CATAAAAGCAGACCCAGT
* * * * *
2111569 GATAACCTAAGACTCAATTTTAAAAAATTACAAAAATACCCTTA-AGGGATACTTTTGACCTGAA
65 GATAACCTAGGACTCGATTTTAAAAAATTACAAAAATACCCTTAGA-GGATACATTCGACGTGAA
2111633 AGTATCC-AGTACCCCTATAA-GACTTAA
129 AGTATCCTAGTACCCCTA-AAGGACTTAA
*
2111660 AAAGGACTATAAAAGAGATGAACCTATCCTAAATACC
1 AAAGGACTATAAAAGGGATGAACCTATCCTAAATACC
2111697 CACTTTCGAC
Statistics
Matches: 418, Mismatches: 75, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
154 29 0.07
155 136 0.33
156 252 0.60
157 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (156 bp):
AAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTTAGCATAAAAGCAGACCCAGTG
ATAACCTAGGACTCGATTTTAAAAAATTACAAAAATACCCTTAGAGGATACATTCGACGTGAAAG
TATCCTAGTACCCCTAAAGGACTTAA
Found at i:2111635 original size:311 final size:312
Alignment explanation
Indices: 2111124--2111738 Score: 803
Period size: 311 Copynumber: 2.0 Consensus size: 312
2111114 CTTGGCTCCA
** * * * *
2111124 AAAAATTATCAAAATGCCTTTAGAGGACACATTCGATGTGAAAGTATCCTAGTACCCCTAAAGGA
1 AAAAATTATCAAAATGCCCGTAGAAGACACATTCAATGTGAAAATATCCCAGTACCCCTAAAGGA
* * *
2111189 CTTTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTCAGTATAAAAGCGGACC
66 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTCAGCATAAAAGCAGACC
* ** * *
2111254 CAGAGATAACCTAGGACTCGGTTCTTAAAAATTACTAAAATACCCTTAGGGGAAACTTTCGACAT
131 CAGAGATAACCTAAGACTCAATTCTTAAAAATTACAAAAATACCCTTAAGGGAAACTTTCGACAT
* * * * *
2111319 GAAAGTATCCTGGTACCCCTA-AAGAACTTACAAAGGACTATAAAAGGGATGGAGCTATCCTAAA
196 GAAAGTATCC-AGTACCCCTATAAG-ACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAAA
* * *
2111383 TACTCACATTT-GGCAT-AAAAGCAGACCCGGTGGTAACCTAGGACTCGATTTTG
259 TACCCAC-TTTCGACATAAAAAGCAGACCCGGTAGTAACCTAGGACTCGATTTTG
* *
2111436 AAAAATTA-CAAAAATGCCCGTAGAAGATACATTCAATGTGAAAATATCCCAGTACCCCTACAGG
1 AAAAATTATC-AAAATGCCCGTAGAAGACACATTCAATGTGAAAATATCCCAGTACCCCTAAAGG
*** *
2111500 ACTTAAAAAGGACTAT-AAAGGGATGAACCTATCCTAAATATTGACCTT-TGACATAAAAGCAGA
65 ACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTCAG-CATAAAAGCAGA
* * * *
2111563 CCCGGTGATAACCTAAGACTCAATT-TTAAAAAATTACAAAAATACCCTTAAGGGATACTTTTGA
129 CCCAGAGATAACCTAAGACTCAATTCTT-AAAAATTACAAAAATACCCTTAAGGGAAACTTTCGA
*
2111627 CCTGAAAGTATCCAGTACCCCTATAAGACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAA
193 CATGAAAGTATCCAGTACCCCTATAAGACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAA
** *
2111692 ATACCCACTTTCGACATAAAAAGTGGACCCGGTAGTTACCTAGGACT
258 ATACCCACTTTCGACATAAAAAGCAGACCCGGTAGTAACCTAGGACT
2111739 TGGTTTCGTA
Statistics
Matches: 261, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
309 3 0.01
310 57 0.22
311 132 0.51
312 69 0.26
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.24
Consensus pattern (312 bp):
AAAAATTATCAAAATGCCCGTAGAAGACACATTCAATGTGAAAATATCCCAGTACCCCTAAAGGA
CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCAACCTTCAGCATAAAAGCAGACC
CAGAGATAACCTAAGACTCAATTCTTAAAAATTACAAAAATACCCTTAAGGGAAACTTTCGACAT
GAAAGTATCCAGTACCCCTATAAGACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAAATA
CCCACTTTCGACATAAAAAGCAGACCCGGTAGTAACCTAGGACTCGATTTTG
Found at i:2112467 original size:129 final size:128
Alignment explanation
Indices: 2112288--2112629 Score: 501
Period size: 128 Copynumber: 2.7 Consensus size: 128
2112278 GAAACCTGCC
* * *
2112288 AAGATACAAAAAA--TTTGAAATCTTTTAATACCCTTATGGATACCCATAGGAATATAAAAGATT
1 AAGATAAAAAAAAGTTTTGAAATCTTTT-ATACCCTTACGGATACCCATAGGAATATAAAAAATT
* * *
2112351 AAAAACGATTAATGTTTATTTATTTTTGGAAAAAAAATCATTTCATACCTTAATGGATACCCGAA
65 AAAAATGATTAATATTTATTTATGTTTGGAAAAAAAA-CATTTCATACCTTAATGGATACCCGAA
** * * *
2112416 AAGAT-ACGAAAAGTTTTTGAAATCTTTTATACCCCTACAGATACCTATAGGAATATAAAAAATT
1 AAGATAAAAAAAAG-TTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAAATT
* * *
2112480 AAAAATGATTAATATTTATTTATGTTTGGAAAGAAAACATTTCGTACCTTAATGGATACTCGAA
65 AAAAATGATTAATATTTATTTATGTTTGGAAAAAAAACATTTCATACCTTAATGGATACCCGAA
*
2112544 AAGATAAAAAAAAGTTTTGAAATCTTTTATACCCTTTCGGATACCCATAGGAATATAAAAAATTA
1 AAGATAAAAAAAAGTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAAATTA
2112609 AAAATGATTAATATTTATTTA
66 AAAATGATTAATATTTATTTA
2112630 AATTAACGAG
Statistics
Matches: 190, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
127 4 0.02
128 103 0.54
129 70 0.37
130 13 0.07
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (128 bp):
AAGATAAAAAAAAGTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAAATTA
AAAATGATTAATATTTATTTATGTTTGGAAAAAAAACATTTCATACCTTAATGGATACCCGAA
Found at i:2114590 original size:166 final size:164
Alignment explanation
Indices: 2114223--2114827 Score: 707
Period size: 166 Copynumber: 3.6 Consensus size: 164
2114213 AATTTCAACA
* * * *
2114223 AAAAAAATCCAAAACTCATGAAAATGAATTAATTTTTTAAAACTGAATTAATATG-AATCAAATG
1 AAAAAAATCAAAAACTCAAGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAAT-AAATG
* * * * ** *
2114287 ATGATATTTGATGAAATCTAGAAATTGAAAACTGAGAAAAATTCCCTCGAAAAAATTTACGGAGT
65 ATAATATTTGATG-AATTTAAAAATTAAAAACCAAGAAAAA-TCCCTCGAAAAATTTTAC-GAGT
* * *
2114352 AGAAATTACCGTATTTAGGAAAAATAGGAGTTTCAAGG
127 AGAAAATACTGTATTTAGAAAAAATAGGAGTTTCAAGG
* **
2114390 AAAAAAATAAAAAACTCTTGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGA
1 AAAAAAATCAAAAACTCAAGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGA
* *
2114455 TAATATTTTATGAATTTAAAAATTAAAAACCAATAAAAATCCCTC-AAAATATTTTACGAAGTAG
66 TAATATTTGATGAATTTAAAAATTAAAAACCAAGAAAAATCCCTCGAAAA-ATTTTACG-AGTAG
**
2114519 AAAATACTGTATTTTAGAAAAAATCTGAGTTTCAAGG
129 AAAATACTGTA-TTTAGAAAAAATAGGAGTTTCAAGG
* *
2114556 AAAAAAATCAAAAACTCAAGAAAATGATTGAATTTTTGAAAACTGAATTACTATGAAATAAATGA
1 AAAAAAATCAAAAACTCAAGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGA
* * *
2114621 TAATATTTGATTAATTTGAAAAATTAAAAACCAAGAAAAATCTCCTCGAAAAAATTTAATGAGTA
66 TAATATTTGATGAATTT-AAAAATTAAAAACCAAGAAAAATC-CCTCG-AAAAATTTTACGAGTA
* * *
2114686 GAAAACACTATATTTCGAAAAAAATAGGAGTTTCAAGG
128 GAAAATACTGTATTTAG-AAAAAATAGGAGTTTCAAGG
* * ** * * *
2114724 --AAAAAT-AAAAAATGAATGAAAATGAATGAATTTTCAAAAACTTAATTAATGTGGAATAAATG
1 AAAAAAATCAAAAACTCAA-GAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATG
* * *
2114786 ATAATATTTGATGAATTTTAAAAATTGAAAACTATGAAAAAT
65 ATAATATTTGATGAA-TTTAAAAATTAAAAACCAAGAAAAAT
2114828 TCTCCCAAAA
Statistics
Matches: 380, Mismatches: 47, Indels: 23
0.84 0.10 0.05
Matches are distributed among these distances:
164 5 0.01
165 34 0.09
166 196 0.52
167 96 0.25
168 39 0.10
169 6 0.02
170 4 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (164 bp):
AAAAAAATCAAAAACTCAAGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGA
TAATATTTGATGAATTTAAAAATTAAAAACCAAGAAAAATCCCTCGAAAAATTTTACGAGTAGAA
AATACTGTATTTAGAAAAAATAGGAGTTTCAAGG
Found at i:2118447 original size:31 final size:28
Alignment explanation
Indices: 2118389--2118486 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 28
2118379 CATCCTATGT
* * *
2118389 TTAAAAAAATGGAAAATGAAATGAAAAAA
1 TTAAAAAAATGCAAAA-AAAATCAAAAAA
2118418 TTCAAAAAAAT-CTAAAAAAAAGTCAAAAAA
1 TT-AAAAAAATGC-AAAAAAAA-TCAAAAAA
* *
2118448 TAAAAAAATAATGCCAAAAAAATCAAAAAAA
1 T-TAAAAA-AATGCAAAAAAAATC-AAAAAA
2118479 TTAAAAAA
1 TTAAAAAA
2118487 GAAAAAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
29 6 0.11
30 32 0.57
31 17 0.30
32 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (28 bp):
TTAAAAAAATGCAAAAAAAATCAAAAAA
Found at i:2118522 original size:9 final size:9
Alignment explanation
Indices: 2118391--2118522 Score: 54
Period size: 9 Copynumber: 13.8 Consensus size: 9
2118381 TCCTATGTTT
2118391 AAAAAAATGG
1 AAAAAAAT-G
2118401 AAAATGAAATG
1 AAAA--AAATG
* *
2118412 AAAAAATTC
1 AAAAAAATG
*
2118421 AAAAAAATCT
1 AAAAAAAT-G
*
2118431 AAAAAAAAG
1 AAAAAAATG
* *
2118440 TCAAAAAATAA
1 -AAAAAAAT-G
2118451 AAAAATAATG
1 AAAAA-AATG
*
2118461 CCAAAAAAATC
1 --AAAAAAATG
2118472 AAAAAAAT-
1 AAAAAAATG
*
2118480 TAAAAAA-G
1 AAAAAAATG
2118488 -AAAAAATG
1 AAAAAAATG
* *
2118496 ACAAAAATT
1 AAAAAAATG
2118505 ATCAAAAAATG
1 A--AAAAAATG
2118516 AAAAAAA
1 AAAAAAA
2118523 CAAAAAACGA
Statistics
Matches: 92, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
7 6 0.07
8 7 0.08
9 31 0.34
10 21 0.23
11 18 0.20
12 9 0.10
ACGTcount: A:0.73, C:0.06, G:0.07, T:0.14
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2119875 original size:29 final size:30
Alignment explanation
Indices: 2119800--2119980 Score: 122
Period size: 29 Copynumber: 6.2 Consensus size: 30
2119790 CCCTAGTGAA
* **
2119800 GGCACCC-TTTTCAAAGTCTACAACTCCGT
1 GGCACCCATTTTCAAAGTCCACAACTTAGT
** ** * *
2119829 GGTGCCTTTTTTCGAAGTCCATAACTTAGT
1 GGCACCCATTTTCAAAGTCCACAACTTAGT
* **
2119859 AGCA-CCATTTTCAAAGTCCACAACTCCGT
1 GGCACCCATTTTCAAAGTCCACAACTTAGT
* * * **
2119888 GCCA-CCTTTTTTAAAGTTTACAACTCT-GT
1 GGCACCCATTTTCAAAGTCCACAACT-TAGT
*
2119917 GGCATCC-TTTTCAAAAGTCCACAACTTAGT
1 GGCACCCATTTTC-AAAGTCCACAACTTAGT
* *
2119947 GGCACCCATTTTCAAAGTCCA-GACTCAGT
1 GGCACCCATTTTCAAAGTCCACAACTTAGT
2119976 GGCAC
1 GGCAC
2119981 TTTTTTTAAA
Statistics
Matches: 115, Mismatches: 31, Indels: 12
0.73 0.20 0.08
Matches are distributed among these distances:
29 63 0.55
30 47 0.41
31 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (30 bp):
GGCACCCATTTTCAAAGTCCACAACTTAGT
Found at i:2119934 original size:30 final size:29
Alignment explanation
Indices: 2119800--2120030 Score: 100
Period size: 29 Copynumber: 7.9 Consensus size: 29
2119790 CCCTAGTGAA
* *
2119800 GGCACCCTTTTC-AAAGTCTACAACTCCGT
1 GGCA-CCTTTTCAAAAGTCCACAACTCTGT
** * *
2119829 GGTGCCTTTTTTC-GAAGTCCATAACT-TAGT
1 GGCACC--TTTTCAAAAGTCCACAACTCT-GT
* *
2119859 AGCACCATTTTC-AAAGTCCACAACTCCGT
1 GGCACC-TTTTCAAAAGTCCACAACTCTGT
* ** **
2119888 GCCACCTTTTTTAAAGTTTACAACTCTGT
1 GGCACCTTTTCAAAAGTCCACAACTCTGT
2119917 GGCATCCTTTTCAAAAGTCCACAACT-TAGT
1 GGCA-CCTTTTCAAAAGTCCACAACTCT-GT
* *
2119947 GGCACCCATTTTC-AAAGTCCA-GACTCAGT
1 GGCA-CC-TTTTCAAAAGTCCACAACTCTGT
* ** * * **
2119976 GGCACTTTTTTTAAAGTCTACGACTCAAT
1 GGCACCTTTTCAAAAGTCCACAACTCTGT
* *
2120005 GGCATCCTTTT-TAAAGTCCACGACTC
1 GGCA-CCTTTTCAAAAGTCCACAACTC
2120031 AACGGCACTC
Statistics
Matches: 157, Mismatches: 33, Indels: 24
0.73 0.15 0.11
Matches are distributed among these distances:
27 4 0.03
28 14 0.09
29 76 0.48
30 58 0.37
31 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
GGCACCTTTTCAAAAGTCCACAACTCTGT
Found at i:2119986 original size:88 final size:87
Alignment explanation
Indices: 2119843--2120025 Score: 242
Period size: 88 Copynumber: 2.1 Consensus size: 87
2119833 CCTTTTTTCG
* * *
2119843 AAGTCCATAACTTAGTAGCACCATTTTCAAAGTCCACAACTCCGTGCCACCTTTTTTAAAGTTTA
1 AAGTCCACAACTTAGTAGCACCATTTTCAAAGTCCACAACTCAGTGCCACCTTTTTTAAAGTCTA
**
2119908 CAACTCTGTGGCATCCTTTTCAA
66 CAACTCAATGGCATCCTTTT-AA
* * * *
2119931 AAGTCCACAACTTAGTGGCACCCATTTTCAAAGTCCA-GACTCAGTGGCACTTTTTTTAAAGTCT
1 AAGTCCACAACTTAGTAGCA-CCATTTTCAAAGTCCACAACTCAGTGCCACCTTTTTTAAAGTCT
* *
2119995 ACGACTCAATGGCATCCTTTTTA
65 ACAACTCAATGGCATCCTTTTAA
2120018 AAGTCCAC
1 AAGTCCAC
2120026 GACTCAACGG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
87 9 0.11
88 58 0.70
89 16 0.19
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (87 bp):
AAGTCCACAACTTAGTAGCACCATTTTCAAAGTCCACAACTCAGTGCCACCTTTTTTAAAGTCTA
CAACTCAATGGCATCCTTTTAA
Found at i:2119987 original size:29 final size:29
Alignment explanation
Indices: 2119916--2120037 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
2119906 TACAACTCTG
* * * *
2119916 TGGCATCCTTTTCAAAAGTCCACAACTTAG
1 TGGCATCCTTTT-TAAAGTCCACGACTCAA
* * *
2119946 TGGCACCCATTTTCAAAGTCCA-GACTCAG
1 TGGCATCC-TTTTTAAAGTCCACGACTCAA
* *
2119975 TGGCA-CTTTTTTTAAAGTCTACGACTCAA
1 TGGCATC-CTTTTTAAAGTCCACGACTCAA
2120004 TGGCATCCTTTTTAAAGTCCACGACTCAA
1 TGGCATCCTTTTTAAAGTCCACGACTCAA
*
2120033 CGGCA
1 TGGCA
2120038 CTCTTTCAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
28 12 0.16
29 45 0.58
30 16 0.21
31 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
TGGCATCCTTTTTAAAGTCCACGACTCAA
Found at i:2120043 original size:29 final size:29
Alignment explanation
Indices: 2119930--2120043 Score: 115
Period size: 29 Copynumber: 3.9 Consensus size: 29
2119920 ATCCTTTTCA
* * * * *
2119930 AAAGTCCACAACTTAGTGGCACCCATTTTC
1 AAAGTCCACGACTCAATGGCACTC-TTTTT
* *
2119960 AAAGTCCA-GACTCAGTGGCACTTTTTTT
1 AAAGTCCACGACTCAATGGCACTCTTTTT
*
2119988 AAAGTCTACGACTCAATGGCA-TCCTTTTT
1 AAAGTCCACGACTCAATGGCACT-CTTTTT
*
2120017 AAAGTCCACGACTCAACGGCACTCTTT
1 AAAGTCCACGACTCAATGGCACTCTTT
2120044 CAAAGCCCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
28 12 0.17
29 50 0.70
30 9 0.13
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAGTCCACGACTCAATGGCACTCTTTTT
Found at i:2120118 original size:33 final size:33
Alignment explanation
Indices: 2120045--2120167 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 33
2120035 GCACTCTTTC
* * *
2120045 AAAGCCCACATAAGTTGGTGGCAATCC--TTTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTTA
*
2120076 AAAGCCCACACAAGTTGGTGGCTACCCTTTTTA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTTA
* *
2120109 AAAGCCCACACAAGTTCGTGGCAACCTTTTTTA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTTTA
2120142 AAAGCCCACACAAGTTGGTGGCAACC
1 AAAGCCCACACAAGTTGGTGGCAACC
2120168 TTTCAAAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 24 0.29
33 58 0.71
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (33 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTTTA
Found at i:2120213 original size:28 final size:30
Alignment explanation
Indices: 2120045--2120219 Score: 93
Period size: 33 Copynumber: 5.6 Consensus size: 30
2120035 GCACTCTTTC
* * ***
2120045 AAAGCCCACATAAGTTGGTGGCAATCCTTTC
1 AAAGCCCACACAAGTTGGCGGCAA-CCTCAA
* * **
2120076 AAAGCCCACACAAGTTGGTGGCTACCCTTTTTA
1 AAAGCCCACACAAGTTGGCGGC-AACC--TCAA
* * **
2120109 AAAGCCCACACAAGTTCGTGGCAACCTTTTTTA
1 AAAGCCCACACAAGTTGGCGGCAACC---TCAA
*
2120142 AAAGCCCACACAAGTTGGTGGCAACCTTTCAA
1 AAAGCCCACACAAGTTGGCGGCAACC--TCAA
* ***
2120174 AAAACTTGCACAAGTTGGCGGC-ACC-CAA
1 AAAGCCCACACAAGTTGGCGGCAACCTCAA
2120202 AAAGCCCACACAAGTTGG
1 AAAGCCCACACAAGTTGG
2120220 TAGCACTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.14
31 26 0.21
32 25 0.20
33 55 0.45
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (30 bp):
AAAGCCCACACAAGTTGGCGGCAACCTCAA
Found at i:2120806 original size:207 final size:208
Alignment explanation
Indices: 2120288--2120881 Score: 516
Period size: 208 Copynumber: 2.9 Consensus size: 208
2120278 TCCTTTAAGC
* * ** * ** * * * *
2120288 CCAATGTCGTTGGCCTAAAATCAGCACATTGACATTTTTATCATCTTAAAGTTCGATATCACTAG
1 CCAATATCGATGGCCTTGAATCAGCACATTGGCATCCTTGTCATCTTTAAGTTCAATGTCACTAG
* * * * *** * ** * * * * *
2120353 CTTTGAATCAGCATATTGGAATATTTATCATCTTTAAGTCCGATATCGCT-AGCTTTGAATTAGC
66 CCTTAAATTAGCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGCTGA-CCTTCAATCAAC
* * * * * *
2120417 ATATTGGCACCATTATCATCTTTAAGTCCCATATCACTA-CCTTTGAATAAACATATTAGCACCT
130 ACATTGGCACCCTTATCATCTTTAAGTCCAATATCGCTAGCC-TTGAATCAACACATTAGCACCT
* * *
2120481 TTATCGTCTTTAAGT
194 TTAACATCTTAAAGT
** * * * *
2120496 TTAATGTCGATGGCCTTGAATCAGCATATTGGTATCCTTGTCATCTTTAAGTTTAATGTCACTAG
1 CCAATATCGATGGCCTTGAATCAGCACATTGGCATCCTTGTCATCTTTAAGTTCAATGTCACTAG
* * * * *
2120561 CCTTAAATTAGCATATTGGAATCCTTGTCATCTTTAAGTTTAATGTCG-TTAGTCTTCAATCAAC
66 CCTTAAATTAGCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGCTGA-CCTTCAATCAAC
* ** * *
2120625 AGATTGGCACCCTTATCATCTTTAAGTCTGATATCGCTAGCCTTGAATCAATACATTGGCACCTT
130 ACATTGGCACCCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAACACATTAGCACCTT
2120690 TAACATCTTAAAGT
195 TAACATCTTAAAGT
* * * **
2120704 CCGATAT-GCTGGCCTTGAATCAGCACATTGGCA-CTCTTTTCATCTTTAA-TTCCAATGTCGTT
1 CCAATATCGATGGCCTTGAATCAGCACATTGGCATC-CTTGTCATCTTTAAGTT-CAATGTCACT
* * * * *
2120766 GGCCTTGAATTAGCACATTGGCACCCTTTTCATCTTTAAGTCTAATGTCGCTGACCTTGAATCAA
64 AGCCTTAAATTAGCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGCTGACCTTCAATCAA
* * * *
2120831 CACATTAGCACTCTCATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCA
129 CACATTGGCACCCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCA
2120882 GTATATTAAC
Statistics
Matches: 311, Mismatches: 70, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
206 3 0.01
207 140 0.45
208 166 0.53
209 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (208 bp):
CCAATATCGATGGCCTTGAATCAGCACATTGGCATCCTTGTCATCTTTAAGTTCAATGTCACTAG
CCTTAAATTAGCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGCTGACCTTCAATCAACA
CATTGGCACCCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAACACATTAGCACCTTT
AACATCTTAAAGT
Found at i:2120897 original size:207 final size:207
Alignment explanation
Indices: 2120506--2120898 Score: 495
Period size: 207 Copynumber: 1.9 Consensus size: 207
2120496 TTAATGTCGA
* * *
2120506 TGGCCTTGAATCAGCATATTGGTATCCTTGTCATCTTTAAGTTTAATGTCACTAGCCTTAAATTA
1 TGGCCTTGAATCAGCACATTGGCATCCTTGTCATCTTTAAGTTCAATGTCACTAGCCTTAAATTA
* * * * * * *
2120571 GCATATTGGAATCCTTGTCATCTTTAAGTTTAATGTCGTTAGTCTTCAATCAACAGATTGGCACC
66 GCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGTGAGCCTTCAATCAACACATTAGCACC
* ** **
2120636 CTTATCATCTTTAAGTCTGATATCGCTAGCCTTGAATCAATACATTGGCACCTTTAACATCTTAA
131 CTCATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAATACATTAACACCTTTAACATCTTAA
2120701 AGTCCGATATGC
196 AGTCCGATATGC
* ** * *
2120713 TGGCCTTGAATCAGCACATTGGCA-CTCTTTTCATCTTTAA-TTCCAATGTCGTTGGCCTTGAAT
1 TGGCCTTGAATCAGCACATTGGCATC-CTTGTCATCTTTAAGTT-CAATGTCACTAGCCTTAAAT
* * *
2120776 TAGCACATTGGCACCCTTTTCATCTTTAAGTCTAATGTCGCTGA-CCTTGAATCAACACATTAGC
64 TAGCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCG-TGAGCCTTCAATCAACACATTAGC
* * * *
2120840 ACTCTCATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTATATTAACACCTTTA
128 ACCCTCATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAATACATTAACACCTTTA
2120899 CCATATTTAA
Statistics
Matches: 156, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
206 3 0.02
207 151 0.97
208 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (207 bp):
TGGCCTTGAATCAGCACATTGGCATCCTTGTCATCTTTAAGTTCAATGTCACTAGCCTTAAATTA
GCACATTGGAACCCTTGTCATCTTTAAGTCTAATGTCGTGAGCCTTCAATCAACACATTAGCACC
CTCATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAATACATTAACACCTTTAACATCTTAA
AGTCCGATATGC
Found at i:2120908 original size:52 final size:52
Alignment explanation
Indices: 2120280--2120882 Score: 430
Period size: 52 Copynumber: 11.6 Consensus size: 52
2120270 GTGGCCTTTC
* * * ** * **
2120280 CTTTAAGCCCAATGTCGTTGGCCTAAAATCAGCACATTGACATTTTTATCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
* * * * * * * * **
2120332 CTTAAAGTTCGATATCACTAGCTTTGAATCAGCATATTGGAATATTTATCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
* * * * * *
2120384 CTTTAAGTCCGATATCGCTAGCTTTGAATTAGCATATTGGCACCATTATCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
* * * * * * * *
2120436 CTTTAAGTCCCATATCACTA-CCTTTGAATAAACATATTAGCACCTTTATCGT
1 CTTTAAGTCCAATGTCGCTAGCC-TTGAATCAGCACATTGGCACCTTTATCAT
** * * * * *
2120488 CTTTAAGTTTAATGTCGATGGCCTTGAATCAGCATATTGGTATCC-TTGTCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CCTTTATCAT
** * * * * * *
2120540 CTTTAAGTTTAATGTCACTAGCCTTAAATTAGCATATTGGAATCC-TTGTCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CCTTTATCAT
** * * * * * *
2120592 CTTTAAGTTTAATGTCGTTAGTCTTCAATCAACAGATTGGCACCCTTATCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
** * ** *
2120644 CTTTAAGTCTGATATCGCTAGCCTTGAATCAATACATTGGCACCTTTAACAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
* * * *
2120696 CTTAAAGTCCGATAT-GCTGGCCTTGAATCAGCACATTGGCACTCTTT-TCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCAC-CTTTATCAT
* * * *
2120747 CTTTAATTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCCTTT-TCAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CCTTTATCAT
* * * *
2120799 CTTTAAGTCTAATGTCGCT-GACCTTGAATCAACACATTAGCA-CTCTCATCAT
1 CTTTAAGTCCAATGTCGCTAG-CCTTGAATCAGCACATTGGCACCT-TTATCAT
2120851 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAG
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAG
2120883 TATATTAACA
Statistics
Matches: 450, Mismatches: 90, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.00
51 43 0.10
52 399 0.89
53 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCAT
Found at i:2120919 original size:104 final size:103
Alignment explanation
Indices: 2120618--2120920 Score: 299
Period size: 104 Copynumber: 2.9 Consensus size: 103
2120608 GTTAGTCTTC
* * ** * *
2120618 AATCAACAGATTGGCACCCTTATCATCTTTAAGTCTGATATCGCTAGCCTTGAATCAATACATTG
1 AATCAACACATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTACATTG
* * * *
2120683 GCACCTTTAACATCTTAAAGTC-CGATAT-GCTGGCCTTG
66 GCACCTTTAACATTTTAAA-TCAAG-TGTCGCTGACCTTG
* * * * * * *
2120721 AATCAGCACATTGGCACTCTTTTCATCTTTAATTCCAATGTCGTTGGCCTTGAATTAGCACATTG
1 AATCAACACATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTACATTG
* *
2120786 GCACCCTTT-TCATCTTTAAGTCTAA-TGTCGCTGACCTTG
66 GCA-CCTTTAACAT-TTTAAATC-AAGTGTCGCTGACCTTG
* * * *
2120825 AATCAACACATTAGCACTCTCATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTATATTA
1 AATCAACACATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTACATTG
* *
2120890 ACACCTTTACCATATTTAAATCAAGTGTCGC
66 GCACCTTTAACAT-TTTAAATCAAGTGTCGC
2120921 AGGCCTTAAA
Statistics
Matches: 159, Mismatches: 34, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
103 69 0.43
104 90 0.57
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (103 bp):
AATCAACACATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGTACATTG
GCACCTTTAACATTTTAAATCAAGTGTCGCTGACCTTG
Found at i:2122157 original size:167 final size:167
Alignment explanation
Indices: 2121707--2122274 Score: 631
Period size: 167 Copynumber: 3.4 Consensus size: 167
2121697 TCACACATCG
* * * ** * * ** *
2121707 AAATTCTTCAAATATTATCATTTAATTCCCATCAAATAATTTTTGAAAAATTCTTTTATTTT-TT
1 AAATTCATCAAATATTATTATTTATTTCATATTAAATCATTTTTGAAAAATTAATTTATTTTCAT
* * ** * *
2121771 GCA-TTATTGATTTTCTT-TT-AGAATTCTCCCTATTTCTTAAATACAGAGTTTTCTACTCCGTA
66 G-AGTTTTTGATTTTTTTCTTGA-AATT-TCCCTATTTCCGAAATAGAGAGTTTTCTACTTCGTA
*
2121833 AATTTTTTGT-G-GTA-ATTTTTCTTGGTTTTTAATTTTTA
128 AATTTTTT-TCGAGAAGATTTTTCTTGGTTTTTAATTTTTA
** * * *
2121871 AAATTCATCAAATATTATTA--TATTTCATAGAAAATCAGTTTTCAAAAATTCA-TTATTTTCAT
1 AAATTCATCAAATATTATTATTTATTTCATATTAAATCATTTTTGAAAAATTAATTTATTTTCAT
* * * *
2121933 GAGTTTTTTAATTTTTTTCTTGAAA-TTCTTCTATTTTCGAAATACG-GAGTTTTCTACTTCTTA
66 GAG-TTTTTGATTTTTTTCTTGAAATTTC-CCTATTTCCGAAATA-GAGAGTTTTCTACTTCGTA
* *
2121996 AATTTTTTTCGAAAAGATTTTTCTTGGTTTTTAAATTTTA
128 AATTTTTTTCGAGAAGATTTTTCTTGGTTTTTAATTTTTA
*
2122036 AAATTCATCAAATATTATTATTTATTTCATATTAAATCATTTTTGAAAAATTAATTCATTTTCAT
1 AAATTCATCAAATATTATTATTTATTTCATATTAAATCATTTTTGAAAAATTAATTTATTTTCAT
*
2122101 GAGTTTTTGATTTTTTTCTTGAAATTTCCCTATTTCCGAAATAGAGAGTCTTCTACTTCGTAAAT
66 GAGTTTTTGATTTTTTTCTTGAAATTTCCCTATTTCCGAAATAGAGAGTTTTCTACTTCGTAAAT
* *
2122166 TATTTTCGAGGAGATTTTTCTTGGTTTTTAATTTTTA
131 TTTTTTCGAGAAGATTTTTCTTGGTTTTTAATTTTTA
* * * * *
2122203 AAATTTATCAAATATCATTATTTGA-TTCATAATAAAACTTTTTTGAAAAATTAATTTATTTTCA
1 AAATTCATCAAATATTATTATTT-ATTTCATATTAAATCATTTTTGAAAAATTAATTTATTTTCA
*
2122267 TAAGTTTT
65 TGAGTTTT
2122275 GAATATTTTT
Statistics
Matches: 341, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
161 8 0.02
162 28 0.08
163 47 0.14
164 23 0.07
165 44 0.13
166 1 0.00
167 174 0.51
168 16 0.05
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (167 bp):
AAATTCATCAAATATTATTATTTATTTCATATTAAATCATTTTTGAAAAATTAATTTATTTTCAT
GAGTTTTTGATTTTTTTCTTGAAATTTCCCTATTTCCGAAATAGAGAGTTTTCTACTTCGTAAAT
TTTTTTCGAGAAGATTTTTCTTGGTTTTTAATTTTTA
Found at i:2124729 original size:155 final size:154
Alignment explanation
Indices: 2124401--2124731 Score: 439
Period size: 155 Copynumber: 2.1 Consensus size: 154
2124391 TTTACGTTGG
* * * * * *
2124401 AGGTATCTCTTAGAGGCATTTTTATAATTTTTCTAGAGCCATGTCCTAGGTCGTCACCGGGTTCG
1 AGGTATCCCTTAGGGGTATTTTCATAATTTTTCTAGAGCCATATCCTAGGTCGTCACCGGGTCCG
*
2124466 CTTTTATGCCGTAGGTGGGTATTAAGATAGGTACATCCCATCTAAATCCTTTTTAGGTCCTTTAG
66 CTTTTATGCCGAAGGTGGGTATTAAGATAGGTACATCCCATCTAAATCCTTTTTAGGTCCTTTAG
* * *
2124531 GGCTACTAGGTACTTTTACGTCGA
131 GGCTACCAAGTACTTTTACATCGA
* * * * * *
2124555 AGGTATCCCCTAGGAGTATTTTCATAATTTTTTTAGAGTCGTATCCTAGGTCGTCATCGGGTCCG
1 AGGTATCCCTTAGGGGTATTTTCATAATTTTTCTAGAGCCATATCCTAGGTCGTCACCGGGTCCG
* ** * *
2124620 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTAAATCTTTTTTAGGTCTTTTA
66 CTTTTATGCCGAAGGTGGGTA-TTAAGATAGGTACATCCCATCTAAATCCTTTTTAGGTCCTTTA
*
2124685 GGGGTACCAAGTACTTTTACAT-GAA
130 GGGCTACCAAGTACTTTTACATCG-A
2124710 AGGTATCCCTTAGGGGTATTTT
1 AGGTATCCCTTAGGGGTATTTT
2124732 AGTATTTTTT
Statistics
Matches: 151, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
154 74 0.49
155 77 0.51
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (154 bp):
AGGTATCCCTTAGGGGTATTTTCATAATTTTTCTAGAGCCATATCCTAGGTCGTCACCGGGTCCG
CTTTTATGCCGAAGGTGGGTATTAAGATAGGTACATCCCATCTAAATCCTTTTTAGGTCCTTTAG
GGCTACCAAGTACTTTTACATCGA
Found at i:2128204 original size:18 final size:20
Alignment explanation
Indices: 2128155--2128219 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 20
2128145 TAAGAAACAC
*
2128155 AAAAAAAATGAAAGAAATGA
1 AAAAAAAAAGAAAGAAATGA
*
2128175 AAAATGAGAAAGAAA-AAA-GA
1 AAAA--AAAAAGAAAGAAATGA
* *
2128195 AAAAAAAAAGCATGAAAT-A
1 AAAAAAAAAGAAAGAAATGA
2128214 AAAAAA
1 AAAAAA
2128220 GTGCAGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 6 0.17
19 10 0.28
20 10 0.28
21 3 0.08
22 7 0.19
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAATGA
Found at i:2128972 original size:112 final size:113
Alignment explanation
Indices: 2128767--2128982 Score: 269
Period size: 112 Copynumber: 1.9 Consensus size: 113
2128757 AGCTTGGAAG
* * *
2128767 AACATCAAATTTGTTTGATTTTTGAAGAAATTCATACTTCATACATTCTGATCAATTCGTGCTTA
1 AACATCAAATTTGTCTGATTTTTGAAGAAATTCATACTTCATACATTCTGATCAATTCATGCCTA
** *
2128832 AGAAAATGCAGCACTTATCCTATGAGTTTTGAAACTTTTTAGCCCAAC
66 AGAAAATGCAGCACGGATCCTATCAGTTTTGAAACTTTTTAGCCCAAC
* * *
2128880 AACATTAAATTTGTCTGATTTTTG-AGAAATTCATGC-TCTATACGATT-TGATCCATTCATGCC
1 AACATCAAATTTGTCTGATTTTTGAAGAAATTCATACTTC-ATAC-ATTCTGATCAATTCATGCC
* **
2128942 TAGGAAAATGGGGCACGGA-CCTAATCAGTTTTGAAACTTTT
64 TAAGAAAATGCAGCACGGATCCT-ATCAGTTTTGAAACTTTT
2128983 AGGGCCACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
111 5 0.06
112 58 0.66
113 25 0.28
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (113 bp):
AACATCAAATTTGTCTGATTTTTGAAGAAATTCATACTTCATACATTCTGATCAATTCATGCCTA
AGAAAATGCAGCACGGATCCTATCAGTTTTGAAACTTTTTAGCCCAAC
Found at i:2130374 original size:51 final size:51
Alignment explanation
Indices: 2130307--2130421 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
2130297 AATAACGGGG
* * * *
2130307 TTGGAGTCTCCTCGATTGTGAAAAAAT-GATGA-TTTAGAAATAAAATCGAGA
1 TTGGAGTATCCCCGATTAT-AAAAAATCGAT-ACTTTAAAAATAAAATCGAGA
* *
2130358 TTGGAGTATCCCCGATTATAGAAAATCGATACTTTAAAAATAAAATCGGGA
1 TTGGAGTATCCCCGATTATAAAAAATCGATACTTTAAAAATAAAATCGAGA
2130409 TTGGAGTATCCCC
1 TTGGAGTATCCCC
2130422 ATGAAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 7 0.12
51 49 0.88
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTATAAAAAATCGATACTTTAAAAATAAAATCGAGA
Found at i:2130441 original size:79 final size:78
Alignment explanation
Indices: 2130358--2130607 Score: 333
Period size: 79 Copynumber: 3.2 Consensus size: 78
2130348 AAAATCGAGA
* * * *
2130358 TTGGAGTATCCCCGATTAT-AGAAAATCGATACTTTAAAAATAAAATCGGGATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAG-AAATCAATATTTTAGAAATAAAGTCGGG-TTGGAGTATCCCC
*
2130422 AT-GAAAATAATGGGG
64 -TCGGAAATAATGGGG
*
2130437 TTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGTCGAGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTCG-GGTTGGAGTATCCCCT
* *
2130502 CGGAAATAATAGGA
65 CGGAAATAATGGGG
* * *
2130516 TTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTC-GGGTTGGAGTATCCCCT
*
2130581 CGGAAATAACGGGG
65 CGGAAATAATGGGG
2130595 TTGGAGTATCCCC
1 TTGGAGTATCCCC
2130608 TCGGAAATAA
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 146 0.96
80 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (78 bp):
TTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGTTGGAGTATCCCCTC
GGAAATAATGGGG
Found at i:2130597 original size:28 final size:28
Alignment explanation
Indices: 2130562--2130636 Score: 150
Period size: 28 Copynumber: 2.7 Consensus size: 28
2130552 GGAATAAAGC
2130562 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2130590 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2130618 CGGGGTTGGAGTATCCCCT
1 CGGGGTTGGAGTATCCCCT
2130637 AATTGTGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:2130681 original size:108 final size:107
Alignment explanation
Indices: 2130486--2130755 Score: 398
Period size: 108 Copynumber: 2.5 Consensus size: 107
2130476 ATAAAGTCGA
* *
2130486 GGTTGGAGTATCCCCTCGGAAATAATAGGATTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 GGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
* * *
2130551 AGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGG
66 AGAAATAAAACCGCGGTTGGAGTATCCCCTCGGAAATAACGG
* *
2130593 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTAATTGTGAGAAATCAATATTT
1 GGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCC-GATTGTGAGAAATCAATATTT
* *
2130658 TAGAAATAAAACCGCGGTTGGAGTATCTCTTCGGAAATAACGG
65 TAGAAATAAAACCGCGGTTGGAGTATCCCCTCGGAAATAACGG
*** * *
2130701 GGTTGGAGTATCCCCGATG-ATTAATGGGGTTGGAGTATCCCCGATTGTGAAAAAT
1 GGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAAT
2130756 TGGTGTTTTG
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
106 11 0.08
107 61 0.42
108 74 0.51
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
AGAAATAAAACCGCGGTTGGAGTATCCCCTCGGAAATAACGG
Found at i:2130807 original size:51 final size:51
Alignment explanation
Indices: 2130729--2131012 Score: 379
Period size: 51 Copynumber: 5.6 Consensus size: 51
2130719 GATTAATGGG
*
2130729 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
2130780 GATGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *
2130831 GTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTCGAAAATACAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
2130882 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
2130933 GTTGGAGTATCCCCGATTTTGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* *
2130984 GTTGGAGTATCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGGAAAATTG
2131013 AGAAACTTAA
Statistics
Matches: 208, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 208 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:2130908 original size:153 final size:153
Alignment explanation
Indices: 2130729--2131012 Score: 435
Period size: 153 Copynumber: 1.9 Consensus size: 153
2130719 GATTAATGGG
* * * *
2130729 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGATGGAGTATCCTC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGATGGAGTATCCCC
* * * * *
2130794 GATTATAGAAAATTGGTGTTTT-GAAAATAAAATCGGGGTTGGAGTATCCTCGATTGTGGAAAAT
66 GATTATAGAAAATTAGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAAT
2130858 TGGTGTTTCGAAAATACAATCGGA
130 TGGTGTTTCGAAAATACAATCGGA
* *
2130882 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGATGGAGTATCCCC
* *
2130947 GATTTTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
66 GATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
2131012 G
131 G
2131013 AGAAACTTAA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
153 116 0.99
154 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (153 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGATGGAGTATCCCC
GATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
GGTGTTTCGAAAATACAATCGGA
Found at i:2133321 original size:20 final size:20
Alignment explanation
Indices: 2133296--2133369 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
2133286 AAAATCCCTG
* *
2133296 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGCAA
* * *
2133316 AATGTATCCATAAAATACAA
1 AATGTATCGATACAATGCAA
*
2133336 AATGTATCGATAGAATGCAA
1 AATGTATCGATACAATGCAA
2133356 AATGTATCGATACA
1 AATGTATCGATACA
2133370 TCTGGGTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:2134016 original size:61 final size:60
Alignment explanation
Indices: 2133913--2134271 Score: 434
Period size: 61 Copynumber: 6.1 Consensus size: 60
2133903 GAAAAAGGAG
* * ** * * *
2133913 AAAAGGAAAAGGTGCCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGCGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
*
2133974 GAAAAGAAAAGGCGTCCTGCTCTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2134035 AAAATGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTTCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
2134096 -----AAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
2134151 GAAAGGAGAAA-GCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 -AAAAGA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
*
2134212 ----G-AAAGGCGTCATGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
2134267 AAAAG
1 AAAAG
2134272 GCGTCCTACT
Statistics
Matches: 261, Mismatches: 23, Indels: 29
0.83 0.07 0.09
Matches are distributed among these distances:
54 3 0.01
55 99 0.38
56 1 0.00
59 1 0.00
60 4 0.02
61 146 0.56
62 7 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:2134138 original size:116 final size:116
Alignment explanation
Indices: 2133928--2134272 Score: 483
Period size: 116 Copynumber: 2.9 Consensus size: 116
2133918 GAAAAGGTGC
** * *
2133928 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGCGGGCTTTGAAAAGAAAAGGCGTCCTG
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTG
* * * *
2133993 CTCTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAGGCGT
60 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCAT
* * *
2134050 CCTGCTCTTTGAGGACTGGGAAGTTCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
* * *
2134115 GAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCAT
66 GAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCAT
* * *
2134166 CTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATGCTCTTT
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
2134231 GAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
66 GAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
2134273 CGTCCTACTC
Statistics
Matches: 200, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
116 161 0.81
122 39 0.19
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (116 bp):
CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
GAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCAT
Found at i:2135272 original size:12 final size:10
Alignment explanation
Indices: 2135254--2135313 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
2135244 AAGCAGGTTC
2135254 TTTTTTTTCT
1 TTTTTTTTCT
*
2135264 CTCTTTTTTCTT
1 -TTTTTTTTC-T
2135276 TGTTTTTTTCT
1 T-TTTTTTTCT
*
2135287 TTTTTTTTGT
1 TTTTTTTTCT
*
2135297 TGTTTTTTTGT
1 T-TTTTTTTCT
2135308 TTTTTT
1 TTTTTT
2135314 CTTGAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 14 0.33
11 21 0.49
12 8 0.19
ACGTcount: A:0.00, C:0.08, G:0.07, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:2135291 original size:21 final size:21
Alignment explanation
Indices: 2135251--2135313 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
2135241 CTTAAGCAGG
* *
2135251 TTCTTT-TTTTTCTCTCTTTT
1 TTCTTTGTTTTTTTCTTTTTT
2135271 TTCTTTGTTTTTTTCTTTTTT
1 TTCTTTGTTTTTTTCTTTTTT
*
2135292 TT-TGTTGTTTTTTTGTTTTTT
1 TTCT-TTGTTTTTTTCTTTTTT
2135313 T
1 T
2135314 CTTGAAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.18
21 31 0.82
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (21 bp):
TTCTTTGTTTTTTTCTTTTTT
Found at i:2135306 original size:29 final size:32
Alignment explanation
Indices: 2135251--2135316 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 32
2135241 CTTAAGCAGG
*
2135251 TTCTTTTTTTTCTCTCTTTTTTCTTTGTTTTT
1 TTCTTTTTTTTCTCTCTGTTTTCTTTGTTTTT
*
2135283 TTCTTTTTTTT-TGT-TGTTTT-TTTGTTTTT
1 TTCTTTTTTTTCTCTCTGTTTTCTTTGTTTTT
2135312 TTCTT
1 TTCTT
2135317 GAAAAAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 14 0.44
30 5 0.16
31 2 0.06
32 11 0.34
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (32 bp):
TTCTTTTTTTTCTCTCTGTTTTCTTTGTTTTT
Found at i:2147771 original size:51 final size:51
Alignment explanation
Indices: 2147709--2147823 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
2147699 AATAACAGGG
* *
2147709 TTGGAGTATCCCCAATTGT-GAAAAATCGATGA-TTTAGAAATAAAATTGGGA
1 TTGGAGTATCCCCAATTATAG-AAAATCGAT-ACTTTAAAAATAAAATTGGGA
*
2147760 TTGGAGTATCCCCGATTATAGAAAATCGATACTTTAAAAATAAAATTGGGA
1 TTGGAGTATCCCCAATTATAGAAAATCGATACTTTAAAAATAAAATTGGGA
*
2147811 TTAGAGTATCCCC
1 TTGGAGTATCCCC
2147824 GTGAAAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.02
51 56 0.97
52 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCAATTATAGAAAATCGATACTTTAAAAATAAAATTGGGA
Found at i:2147843 original size:79 final size:79
Alignment explanation
Indices: 2147755--2147933 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 79
2147745 GAAATAAAAT
* * **
2147755 TGGGATTGGAGTATCCCCGATTAT-AGAAAATCGATACTTTAAAAATAAAATTG-GGATTAGAGT
1 TGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATACTTTAAAAATAAAACCGCGG-TTAGAGT
2147818 ATCCCCGT-GAAAATAA
64 ATCCCC-TCGAAAATAA
* * * *
2147834 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATAAAGCCGCGGTTGGAGTAT
1 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATACTTTAAAAATAAAACCGCGGTTAGAGTAT
*
2147899 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
2147913 CGGGGTTGGAGTATCCCCGAT
1 TGGGGTTGGAGTATCCCCGAT
2147934 GATTAACGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.94
80 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (79 bp):
TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATACTTTAAAAATAAAACCGCGGTTAGAGTAT
CCCCTCGAAAATAA
Found at i:2147921 original size:28 final size:27
Alignment explanation
Indices: 2147888--2147959 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2147878 ATAAAGCCGC
**
2147888 GGTTGGAGTATCCCCTCGGAAATAACGG
1 GGTTGGAGTATCCCCGAGG-AATAACGG
* *
2147916 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGAGGAATAACGG
*
2147943 GGTTGAAGTATCCCCGA
1 GGTTGGAGTATCCCCGA
2147960 TTGTGAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGAGGAATAACGG
Found at i:2148025 original size:51 final size:51
Alignment explanation
Indices: 2147940--2148227 Score: 380
Period size: 51 Copynumber: 5.6 Consensus size: 51
2147930 CGATGATTAA
* * * *
2147940 CGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAAT
* * *
2147991 CGGAGTTGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAAT
* * *
2148042 CGGGGTTAGAGTATCCCTGATTATGGAAAATTGGTGTTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAAT
* * * * * *
2148093 CGGAGTTGGAGTATCCCCAATTGTGGAAATTTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGA-AAATAAAAT
* * *
2148144 CGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAAT
*
2148195 CGGGGTTGGAGTATCCCCGATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATTG
2148228 AGAAACTTAA
Statistics
Matches: 207, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
50 1 0.00
51 205 0.99
52 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAAT
Found at i:2148157 original size:153 final size:153
Alignment explanation
Indices: 2147944--2148227 Score: 424
Period size: 153 Copynumber: 1.9 Consensus size: 153
2147934 GATTAACGGG
* * * * *
2147944 GTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCTC
1 GTTGAAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
* * * * *
2148009 GATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTAGAGTATCCCTGATTATGGAAAATT
66 GATTATAGAAAATTAGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGAAAAATT
2148074 GGTGTTTCGAAAATAAAATCGGA
131 GGTGTTTCGAAAATAAAATCGGA
* * * *
2148097 GTTGGAGTATCCCCAATTGTGGAAATTTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGAAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
* *
2148162 GATTATGGAAAATTAGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
66 GATTATAGAAAATTAGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGAAAAATT
2148227 G
131 G
2148228 AGAAACTTAA
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 115 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (153 bp):
GTTGAAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
GATTATAGAAAATTAGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGAAAAATT
GGTGTTTCGAAAATAAAATCGGA
Found at i:2150551 original size:33 final size:33
Alignment explanation
Indices: 2150509--2150593 Score: 161
Period size: 33 Copynumber: 2.6 Consensus size: 33
2150499 AAAATGCCTG
2150509 AATGTATCGATACAATGCATCAATACAATGAGC
1 AATGTATCGATACAATGCATCAATACAATGAGC
*
2150542 AATGTATCGATACAATGCATCGATACAATGAGC
1 AATGTATCGATACAATGCATCAATACAATGAGC
2150575 AATGTATCGATACAATGCA
1 AATGTATCGATACAATGCA
2150594 AAATGTATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAATGCATCAATACAATGAGC
Found at i:2150554 original size:20 final size:20
Alignment explanation
Indices: 2150521--2150591 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
2150511 TGTATCGATA
* *
2150521 CAATGCATCAATACAATGAG
1 CAATGTATCGATACAATGAG
2150541 CAATGTATCGATACAAT--G
1 CAATGTATCGATACAATGAG
2150559 C-----ATCGATACAATGAG
1 CAATGTATCGATACAATGAG
2150574 CAATGTATCGATACAATG
1 CAATGTATCGATACAATG
2150592 CAAAATGTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
18 2 0.05
20 27 0.64
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
CAATGTATCGATACAATGAG
Found at i:2150590 original size:13 final size:13
Alignment explanation
Indices: 2150509--2150571 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 13
2150499 AAAATGCCTG
*
2150509 AATGTATCGATAC
1 AATGCATCGATAC
*
2150522 AATGCATCAATAC
1 AATGCATCGATAC
2150535 AATG-A--G---C
1 AATGCATCGATAC
*
2150542 AATGTATCGATAC
1 AATGCATCGATAC
2150555 AATGCATCGATAC
1 AATGCATCGATAC
2150568 AATG
1 AATG
2150572 AGCAATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.03
10 1 0.03
12 1 0.03
13 32 0.80
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (13 bp):
AATGCATCGATAC
Found at i:2150598 original size:20 final size:20
Alignment explanation
Indices: 2150555--2150608 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2150545 GTATCGATAC
* *
2150555 AATGCATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
2150575 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
*
2150595 AATGTATTGATACA
1 AATGTATCGATACA
2150609 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:2151257 original size:44 final size:43
Alignment explanation
Indices: 2151209--2151355 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 43
2151199 TAACATTCGC
*
2151209 ATTTGCATCGTTTCATGTGCATTTACTATTTTATTGATGCTTGA
1 ATTTGCATCATTTCATGTGCATTTAC-ATTTTATTGATGCTTGA
* ** * *
2151253 ATTTGCATCGTTTCACCTACATTTTCATTTTA--GATGACATTGA
1 ATTTGCATCATTTCATGTGCATTTACATTTTATTGATG-C-TTGA
* * * * *
2151296 TATTTACATCATTTCATCG-GCATTTGCCACTTTATTAATGCTTGC
1 -ATTTGCATCATTTCAT-GTGCATTT-ACATTTTATTGATGCTTGA
2151341 ATTTGCATCATTTCA
1 ATTTGCATCATTTCA
2151356 CTCATATCTG
Statistics
Matches: 82, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 10 0.12
44 54 0.66
45 9 0.11
46 1 0.01
47 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (43 bp):
ATTTGCATCATTTCATGTGCATTTACATTTTATTGATGCTTGA
Found at i:2151283 original size:176 final size:176
Alignment explanation
Indices: 2151021--2151337 Score: 395
Period size: 176 Copynumber: 1.8 Consensus size: 176
2151011 TTTGCATTCA
* * * * *
2151021 GATAACATTGGCATTTGCATCATTTAATATGCGTTTGCCATTTTACTAATGCATGTATTTACATT
1 GATAACATTCGCATTTGCATCATTTAATATGCATTTACCATTTTACTAATGCATGAATTTACATC
* * * * *
2151086 GTTTCATGCATATTTTCATTTTACACGACATTGTTATCTGCATCATATCATATGCATTTGCC-CT
66 GTTTCATCCACATTTTCATTTTACACGACATTGATATCTACATCATATCATAGGCATTTGCCAC-
2151150 TTTATTAATGCTCGTAGTTATGTCATTTCACGTATATTCGTAGTTTT
130 TTTATTAATGCTCGTAGTTATGTCATTTCACGTATATTCGTAGTTTT
* * * * * * * *
2151197 GATAACATTCGCATTTGCATCGTTTCATGTGCATTTACTATTTTATTGATGCTTGAATTTGCATC
1 GATAACATTCGCATTTGCATCATTTAATATGCATTTACCATTTTACTAATGCATGAATTTACATC
* * * * *
2151262 GTTTCA-CCTACATTTTCATTTTAGATGACATTGATATTTACATCATTTCATCGGCATTTGCCAC
66 GTTTCATCC-ACATTTTCATTTTACACGACATTGATATCTACATCATATCATAGGCATTTGCCAC
2151326 TTTATTAATGCT
130 TTTATTAATGCT
2151338 TGCATTTGCA
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
175 1 0.01
176 114 0.98
177 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (176 bp):
GATAACATTCGCATTTGCATCATTTAATATGCATTTACCATTTTACTAATGCATGAATTTACATC
GTTTCATCCACATTTTCATTTTACACGACATTGATATCTACATCATATCATAGGCATTTGCCACT
TTATTAATGCTCGTAGTTATGTCATTTCACGTATATTCGTAGTTTT
Found at i:2151293 original size:88 final size:87
Alignment explanation
Indices: 2151193--2151356 Score: 197
Period size: 88 Copynumber: 1.9 Consensus size: 87
2151183 ATATTCGTAG
* * * * *
2151193 TTTTGATAACATTCG-CATTTGCATCGTTTCAT-GTGCATTTACTATTTTATTGATGCTTGAATT
1 TTTTGATAACATT-GACATTTACATCATTTCATCG-GCATTTACCACTTTATTAATGCTTGAATT
*
2151256 TGCATCGTTTCACCTACATTTTCA
64 TGCATCATTTCACCTACATTTTCA
* * * *
2151280 TTTTAGATGACATTGATATTTACATCATTTCATCGGCATTTGCCACTTTATTAATGCTTGCATTT
1 TTTT-GATAACATTGACATTTACATCATTTCATCGGCATTTACCACTTTATTAATGCTTGAATTT
2151345 GCATCATTTCAC
65 GCATCATTTCAC
2151357 TCATATCTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
87 5 0.08
88 58 0.91
89 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (87 bp):
TTTTGATAACATTGACATTTACATCATTTCATCGGCATTTACCACTTTATTAATGCTTGAATTTG
CATCATTTCACCTACATTTTCA
Found at i:2151867 original size:89 final size:88
Alignment explanation
Indices: 2151716--2152078 Score: 439
Period size: 89 Copynumber: 4.1 Consensus size: 88
2151706 TCCTAATCAT
* * * *
2151716 TAGATGGTACTGATGCATCACAAAGCTTGATTTTCTCGAGGCAAGGTGTAGCCCACACATTCCTA
1 TAGATGGTACTGATGCATCACAAAGCCTGATTTTCTAG-GGCAAGGTGCAACCCACACATTCCTA
2151781 ATCATATCCCTTTCATTCAACCAC
65 ATCATATCCCTTTCATTCAACCAC
2151805 TAGATGGTACTGATGCATCACAAAGCCTGATTTTCCTAGGGCAAGGTGCAACCCACACATTCCTA
1 TAGATGGTACTGATGCATCACAAAGCCTGATTTT-CTAGGGCAAGGTGCAACCCACACATTCCTA
* *
2151870 ATCATATCTCC-TTCATTCAACTAG
65 ATCATATC-CCTTTCATTCAACCAC
* * * * *
2151894 TAGATGGTACTGATGCATTACAAAGCTTGACTTTCTTGGGCAAAGTGCAACCCACACATTCCTAA
1 TAGATGGTACTGATGCATCACAAAGCCTGATTTTCTAGGGCAAGGTGCAACCCACACATTCCTAA
* *
2151959 TCATATCCCTCTT--TCCTAACTAC
66 TCATATCCCT-TTCATTC-AACCAC
* **
2151982 TAGATGGTACTAATGCATCACAAAGCCTGATTTTCCTAGGGC-AGGATGCGGCCCACACATTCAC
1 TAGATGGTACTGATGCATCACAAAGCCTGATTTT-CTAGGGCAAGG-TGCAACCCACACATTC-C
* ** *
2152046 -AATCCTATCTTTTTCTTTCAACCAC
63 TAATCATATCCCTTTCATTCAACCAC
2152071 TAGATGGT
1 TAGATGGT
2152079 GTGATTCAGG
Statistics
Matches: 238, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
87 4 0.02
88 75 0.32
89 151 0.63
90 8 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (88 bp):
TAGATGGTACTGATGCATCACAAAGCCTGATTTTCTAGGGCAAGGTGCAACCCACACATTCCTAA
TCATATCCCTTTCATTCAACCAC
Done.