Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 28 of 91
Found at i:4918066 original size:32 final size:33
Alignment explanation
Indices: 4918028--4918180 Score: 103
Period size: 32 Copynumber: 4.9 Consensus size: 33
4918018 AATTGAAAGA
*
4918028 AAATAATTAGAT-A-AATAAAAATATTAATAGAT
1 AAATAATTA-ATAATAATAAAAATAATAATAGAT
*
4918060 AAATAA-TAATAATAATAATAATAATAATAGAT
1 AAATAATTAATAATAATAAAAATAATAATAGAT
* * * *
4918092 ATATAA-TAATAATAATAATAGAT-AT-ATAAAC
1 AAATAATTAATAATAATAA-AAATAATAATAGAT
* * * *
4918123 AGATAAGTAATAATAATAAATAT-ATATTA-AT
1 AAATAATTAATAATAATAAAAATAATAATAGAT
* *
4918154 AAAT-AGTAATAATAA-ATAAATAA-AATA
1 AAATAATTAATAATAATAAAAATAATAATA
4918181 TAAAAAATAA
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
29 7 0.07
30 14 0.14
31 21 0.21
32 56 0.56
33 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (33 bp):
AAATAATTAATAATAATAAAAATAATAATAGAT
Found at i:4918069 original size:3 final size:3
Alignment explanation
Indices: 4918041--4918168 Score: 103
Period size: 3 Copynumber: 38.7 Consensus size: 3
4918031 TAATTAGATA
* *
4918041 AAT AAA AAT ATT AAT AGAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4918088 AGAT ATAT AAT AAT AAT AAT AAT AGAT ATAT AAAC AGAT AAGT AAT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT A-AT A-AT -AAT A-AT AA-T AAT AAT
* *
4918137 AAT AAAT ATAT ATT AAT AAAT AGT AAT AAT AA
1 AAT -AAT A-AT AAT AAT -AAT AAT AAT AAT AA
4918169 ATAAATAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
3 71 0.69
4 30 0.29
5 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4918073 original size:23 final size:21
Alignment explanation
Indices: 4918041--4918190 Score: 89
Period size: 23 Copynumber: 7.0 Consensus size: 21
4918031 TAATTAGATA
*
4918041 AATAAAAATATTAATAGAT-A-
1 AATAATAATATTAATA-ATAAT
*
4918061 AATAATAATAATAATAATAAT
1 AATAATAATATTAATAATAAT
4918082 AATAATAGATATATAATAATAAT
1 AATAATA-ATAT-TAATAATAAT
*
4918105 AATAATAGATATATAAACAGATAAGT
1 AATAATA-ATAT-T-AATA-ATAA-T
4918131 AATAATAATA--AAT-AT-AT
1 AATAATAATATTAATAATAAT
* *
4918148 ATTAATAAATAGTAATAATAAAT
1 AATAAT-AATATTAATAAT-AAT
* *
4918171 AAATAA-AATATAAAAAATAA
1 -AATAATAATATTAATAATAA
4918191 AAAATACAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.06
18 5 0.05
19 4 0.04
20 18 0.17
21 13 0.12
22 12 0.11
23 26 0.25
24 7 0.07
25 7 0.07
26 8 0.08
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (21 bp):
AATAATAATATTAATAATAAT
Found at i:4918080 original size:35 final size:34
Alignment explanation
Indices: 4918045--4918181 Score: 119
Period size: 32 Copynumber: 4.2 Consensus size: 34
4918035 TAGATAAATA
4918045 AAAATATTAATAGATAAATAATAATAATAATAAT
1 AAAATATTAATAGATAAATAATAATAATAATAAT
* *
4918079 --AATAATAATAGATATATAATAATAATAATAAT
1 AAAATATTAATAGATAAATAATAATAATAATAAT
* * * *
4918111 AGATATATAAACAGATAAGTAATAATAAT-A-AAT
1 A-AAATATTAATAGATAAATAATAATAATAATAAT
* * *
4918144 -ATATATTAATAAAT-AGTAATAAT-A-AATAAAT
1 AAAATATTAATAGATAAATAATAATAATAAT-AAT
4918175 AAAATAT
1 AAAATAT
4918182 AAAAAATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.02
30 9 0.11
31 14 0.17
32 35 0.42
33 3 0.04
34 1 0.01
35 20 0.24
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (34 bp):
AAAATATTAATAGATAAATAATAATAATAATAAT
Found at i:4918175 original size:21 final size:20
Alignment explanation
Indices: 4918151--4918219 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
4918141 AATATATATT
*
4918151 AATAAATAGTAATAATAAATA
1 AATAAATAGTAAAAATAAA-A
4918172 AATAAAATA-TAAAAAATAAAA
1 AAT-AAATAGT-AAAAATAAAA
*
4918193 AATACAA-AGTATAGAATAAAA
1 AATA-AATAGTA-AAAATAAAA
4918214 AATAAA
1 AATAAA
4918220 ATAAAACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
20 5 0.12
21 23 0.56
22 13 0.32
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (20 bp):
AATAAATAGTAAAAATAAAA
Found at i:4918219 original size:7 final size:7
Alignment explanation
Indices: 4918164--4918220 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
4918154 AAATAGTAAT
4918164 AATAAATA
1 AATAAA-A
4918172 AATAAAA
1 AATAAAA
*
4918179 TATAAAA
1 AATAAAA
4918186 AATAAAA
1 AATAAAA
*
4918193 AATACAA
1 AATAAAA
* * *
4918200 AGTATAG
1 AATAAAA
4918207 AATAAAA
1 AATAAAA
4918214 AATAAAA
1 AATAAAA
4918221 TAAAACAAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:4921381 original size:24 final size:23
Alignment explanation
Indices: 4921318--4921381 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
4921308 TATAGTTGAC
*
4921318 AAATCATTTAATTATTAAAATTTAT
1 AAATTATTTAA-TA-TAAAATTTAT
4921343 AAATTATTTAGATATAAAATTTAT
1 AAATTATTTA-ATATAAAATTTAT
**
4921367 TTATGTATTTAATAT
1 AAAT-TATTTAATAT
4921382 TGATTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 16 0.47
25 17 0.50
26 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AAATTATTTAATATAAAATTTAT
Found at i:4922538 original size:2 final size:2
Alignment explanation
Indices: 4922531--4922560 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4922521 TACGGATGTA
4922531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4922561 TTTGCAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4923698 original size:1 final size:1
Alignment explanation
Indices: 4923688--4923730 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
4923678 TGTACCTTTG
* * *
4923688 TTTTTGTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4923731 CTAGGGGGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (1 bp):
T
Found at i:4923707 original size:18 final size:16
Alignment explanation
Indices: 4923684--4923730 Score: 69
Period size: 15 Copynumber: 2.9 Consensus size: 16
4923674 GTGATGTACC
4923684 TTTGTTTTTGTTTTTGTT
1 TTTGTTTTT-TTTTT-TT
4923702 TTTGTTTTTTTTTTTT
1 TTTGTTTTTTTTTTTT
4923718 TTT-TTTTTTTTTT
1 TTTGTTTTTTTTTT
4923731 CTAGGGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.34
16 5 0.17
17 5 0.17
18 9 0.31
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (16 bp):
TTTGTTTTTTTTTTTT
Found at i:4924427 original size:22 final size:24
Alignment explanation
Indices: 4924402--4924458 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
4924392 TATTAATACG
*
4924402 TTAAATATTAAA-TATA-TATTTT
1 TTAAATATTAAATTATACTATTTA
*
4924424 TTAAAATTTTAAATTATACTATTTA
1 TT-AAATATTAAATTATACTATTTA
4924449 TTATAATATT
1 TTA-AATATT
4924459 TATATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.07
23 9 0.32
24 5 0.18
25 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAAATATTAAATTATACTATTTA
Found at i:4925025 original size:14 final size:14
Alignment explanation
Indices: 4925008--4925057 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
4924998 TACAATACGC
4925008 ATAATATAATAAAA
1 ATAATATAATAAAA
*
4925022 ATAATATAATTTAAA
1 ATAATATAA-TAAAA
4925037 AT--TATAATAAAA
1 ATAATATAATAAAA
*
4925049 ATTATATAA
1 ATAATATAA
4925058 ATTTAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
14 14 0.45
15 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATAATAAAA
Found at i:4925044 original size:13 final size:12
Alignment explanation
Indices: 4925012--4925070 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
4925002 ATACGCATAA
4925012 TATAATAAAAAT
1 TATAATAAAAAT
*
4925024 AATATAATTTAAAAT
1 --TATAA-TAAAAAT
4925039 TATAATAAAAAT
1 TATAATAAAAAT
4925051 TAT-AT--AAAT
1 TATAATAAAAAT
4925060 T-TAATAAAAAT
1 TATAATAAAAAT
4925071 AAAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.18
11 6 0.15
12 9 0.23
13 5 0.13
14 5 0.13
15 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TATAATAAAAAT
Found at i:4928073 original size:18 final size:18
Alignment explanation
Indices: 4928050--4928103 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
4928040 GGGTAATAGG
*
4928050 CCTAGTGATTACTCCCGA
1 CCTAGTGATTACTCCAGA
*
4928068 CCTAGTGATTACTCCAGG
1 CCTAGTGATTACTCCAGA
4928086 CCTAGTGATTACTCCAGA
1 CCTAGTGATTACTCCAGA
4928104 TGGGGTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (18 bp):
CCTAGTGATTACTCCAGA
Found at i:4932351 original size:71 final size:71
Alignment explanation
Indices: 4932266--4932409 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
4932256 CTTACCTTCT
*
4932266 TACGCTGCATGCCTTTTATTCTTAAGCTGCGATTTTTTTATTAAAAAAATTTTTGCTTAGTAATT
1 TACGCTGCATGCCTTTTATTCTTAAGCTGCGATTTTTTTATTAAAAAAAATTTTGCTTAGTAATT
4932331 GAGGCA
66 GAGGCA
4932337 TACGCTGCATGCCTTTTATTCTTAAGCTGCGATTTTTTTATTAAAAAAAATTTTGCTTAGTAATT
1 TACGCTGCATGCCTTTTATTCTTAAGCTGCGATTTTTTTATTAAAAAAAATTTTGCTTAGTAATT
4932402 GAGGCA
66 GAGGCA
4932408 TA
1 TA
4932410 AAACCGAGGG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (71 bp):
TACGCTGCATGCCTTTTATTCTTAAGCTGCGATTTTTTTATTAAAAAAAATTTTGCTTAGTAATT
GAGGCA
Found at i:4933482 original size:15 final size:14
Alignment explanation
Indices: 4933462--4933524 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
4933452 AGTAAATGAT
4933462 TTTTAATTCATTTAA
1 TTTTAATT-ATTTAA
4933477 TTTTAA-TATTTAA
1 TTTTAATTATTTAA
*
4933490 TTTTTATATAATTTAA
1 -TTTTA-ATTATTTAA
* * *
4933506 TTATATTTATTTGA
1 TTTTAATTATTTAA
4933520 TTTTA
1 TTTTA
4933525 GAATTAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
13 6 0.15
14 16 0.41
15 11 0.28
16 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTTAATTATTTAA
Found at i:4933505 original size:16 final size:14
Alignment explanation
Indices: 4933460--4933507 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 14
4933450 TTAGTAAATG
4933460 ATTTTTAATTCATTTA
1 ATTTTTAA-T-ATTTA
4933476 A-TTTTAATATTTA
1 ATTTTTAATATTTA
4933489 ATTTTTATATAATTTA
1 ATTTTTA-AT-ATTTA
4933505 ATT
1 ATT
4933508 ATATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 8 0.28
16 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTAATATTTA
Found at i:4933540 original size:35 final size:35
Alignment explanation
Indices: 4933499--4933570 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4933489 ATTTTTATAT
4933499 AATTTAATTATATTTATTTGATTTTAGAATTAACA
1 AATTTAATTATATTTATTTGATTTTAGAATTAACA
4933534 AATTTAATTATATTTATTTGATTTTAGAATTAACA
1 AATTTAATTATATTTATTTGATTTTAGAATTAACA
4933569 AA
1 AA
4933571 CTGTGTCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (35 bp):
AATTTAATTATATTTATTTGATTTTAGAATTAACA
Found at i:4935098 original size:2 final size:2
Alignment explanation
Indices: 4935091--4935123 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4935081 TGTTTATAGT
4935091 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4935124 AGTGGATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4935627 original size:45 final size:45
Alignment explanation
Indices: 4935578--4935670 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
4935568 CAGAGTATAC
* *
4935578 AAATTGACTAATATAAAAGGAAAATGTATAAATACAGATGGTAAT
1 AAATTGACTAATATAAAAGGAAAATATATAAATACAAATGGTAAT
*
4935623 AAATTGACTAATATAAATGGAAAATATATAAATACAAATGGTAAT
1 AAATTGACTAATATAAAAGGAAAATATATAAATACAAATGGTAAT
4935668 AAA
1 AAA
4935671 ATTAAATCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (45 bp):
AAATTGACTAATATAAAAGGAAAATATATAAATACAAATGGTAAT
Found at i:4938035 original size:12 final size:13
Alignment explanation
Indices: 4938020--4938058 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
4938010 TCATTTAAAT
4938020 ATATAATAA-ATC
1 ATATAATAATATC
4938032 ATATAA-AATATC
1 ATATAATAATATC
*
4938044 ATGTAATAATATC
1 ATATAATAATATC
4938057 AT
1 AT
4938059 GCCTAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 2 0.08
12 14 0.58
13 8 0.33
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (13 bp):
ATATAATAATATC
Found at i:4938150 original size:18 final size:18
Alignment explanation
Indices: 4938093--4938202 Score: 93
Period size: 18 Copynumber: 6.0 Consensus size: 18
4938083 TGCAAGAATG
4938093 TCATGCAAATATATTAATTA
1 TCATGCAAATATA-TAA-TA
* *
4938113 GCATGC-AATA-ATAACAA
1 TCATGCAAATATATAA-TA
*
4938130 TCATGTAAATATATAATA
1 TCATGCAAATATATAATA
4938148 TCATGCAAATATAT--TA
1 TCATGCAAATATATAATA
*
4938164 TCATGCAATAATATAAAATA
1 TCATGC-A-AATATATAATA
*
4938184 TCATACAAATATATTAATA
1 TCATGCAAATATA-TAATA
4938203 ACCATTTAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
16 8 0.11
17 9 0.12
18 31 0.42
19 13 0.18
20 12 0.16
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
TCATGCAAATATATAATA
Found at i:4938202 original size:55 final size:54
Alignment explanation
Indices: 4938093--4938202 Score: 127
Period size: 55 Copynumber: 2.0 Consensus size: 54
4938083 TGCAAGAATG
* **
4938093 TCATGCAAATATATTAATTAGCATGCAATAATAACAATCATGTAAATATATAATA
1 TCATGCAAATATATTAATTA-CATGCAATAATAAAAATCATACAAATATATAATA
4938148 TCATGCAAATATATT-A-T-CATGCAATAATATAAAATATCATACAAATATATTAATA
1 TCATGCAAATATATTAATTACATGCAAT-A-ATAAAA-ATCATACAAATATA-TAATA
4938203 ACCATTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
51 8 0.17
52 1 0.02
53 6 0.12
54 13 0.27
55 20 0.42
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (54 bp):
TCATGCAAATATATTAATTACATGCAATAATAAAAATCATACAAATATATAATA
Found at i:4938352 original size:24 final size:24
Alignment explanation
Indices: 4938323--4938384 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
4938313 AATATCATTC
4938323 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATTATATCATGCAAT
*
4938346 ATAATATAATATAATATCATGCAAT
1 A-AATATAATATTATATCATGCAAT
*
4938371 AAATATAAAATTAT
1 AAATATAATATTAT
4938385 GCAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 22 0.65
25 11 0.32
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (24 bp):
AAATATAATATTATATCATGCAAT
Found at i:4938377 original size:19 final size:19
Alignment explanation
Indices: 4938348--4938391 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4938338 CATGCAATAT
*
4938348 AATATAATATAATATCATGC
1 AATA-AATATAAAATCATGC
*
4938368 AATAAATATAAAATTATGC
1 AATAAATATAAAATCATGC
4938387 AATAA
1 AATAA
4938392 TAATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAAATATAAAATCATGC
Found at i:4938397 original size:19 final size:19
Alignment explanation
Indices: 4938351--4938397 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
4938341 GCAATATAAT
*
4938351 ATAAT-ATAATATCATGCA
1 ATAATAATAAAATCATGCA
*
4938369 ATAA-ATATAAAATTATGCA
1 ATAATA-ATAAAATCATGCA
4938388 ATAATAATAA
1 ATAATAATAA
4938398 TAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 4 0.17
19 19 0.79
20 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAATAATAAAATCATGCA
Found at i:4938460 original size:32 final size:32
Alignment explanation
Indices: 4938413--4938603 Score: 101
Period size: 32 Copynumber: 5.9 Consensus size: 32
4938403 AATAACTATG
* *
4938413 CAAAAAAATATATTAATAATCATACAATCACA
1 CAAATAAATAAATTAATAATCATACAATCACA
* * *
4938445 CAAATAAATAAATTAATAATCATGCAATTAAA
1 CAAATAAATAAATTAATAATCATACAATCACA
* * * *
4938477 TATATAATCATGTAAA-TAATAAT-ATATAAAC-CA
1 CAAATAA--A--TAAATTAATAATCATACAATCACA
* **
4938510 TGCAAAT-AA-ACATGTAATTAA--ATACATTATCATG
1 --CAAATAAATAAAT-TAA-TAATCATACA--ATCACA
*
4938544 CAAATAAA-AATATTAATAATCATGCAATCACA
1 CAAATAAATAA-ATTAATAATCATACAATCACA
*
4938576 CAAATAAATAAATTAATAATCATGCAAT
1 CAAATAAATAAATTAATAATCATACAAT
4938604 TAGACATGCA
Statistics
Matches: 119, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
29 2 0.02
31 7 0.06
32 73 0.61
33 11 0.09
34 12 0.10
35 10 0.08
36 4 0.03
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (32 bp):
CAAATAAATAAATTAATAATCATACAATCACA
Found at i:4938501 original size:20 final size:20
Alignment explanation
Indices: 4938450--4938519 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
4938440 TCACACAAAT
4938450 AAATAAAT-TAATAATCATGC
1 AAATAAATAT-ATAATCATGC
* *
4938470 AATTAAATATATAATCATGT
1 AAATAAATATATAATCATGC
*
4938490 AAATAATAATATATAAACCATGC
1 AAAT-A-AATATAT-AATCATGC
4938513 AAATAAA
1 AAATAAA
4938520 CATGTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
20 19 0.46
21 4 0.10
22 8 0.20
23 10 0.24
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATAAATATATAATCATGC
Found at i:4938516 original size:23 final size:22
Alignment explanation
Indices: 4938475--4938518 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4938465 CATGCAATTA
* *
4938475 AATATATAATCATGTAAATAAT
1 AATATATAACCATGCAAATAAT
4938497 AATATATAAACCATGCAAATAA
1 AATATAT-AACCATGCAAATAA
4938519 ACATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (22 bp):
AATATATAACCATGCAAATAAT
Found at i:4938710 original size:31 final size:30
Alignment explanation
Indices: 4938656--4938716 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
4938646 ATAATCATGC
*
4938656 AAATAATAATACGTAAATCATGCAATAATAT
1 AAATAATAATACATAAATCATGCAA-AATAT
*
4938687 AAATAATAATATATAAA-CTATGCAAAATAT
1 AAATAATAATACATAAATC-ATGCAAAATAT
4938717 GTAATTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATAATAATACATAAATCATGCAAAATAT
Found at i:4939325 original size:12 final size:13
Alignment explanation
Indices: 4939308--4939342 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
4939298 CTTAAAAAAT
4939308 AAAAATTAAAC-C
1 AAAAATTAAACTC
*
4939320 AAAAATTAAACTT
1 AAAAATTAAACTC
4939333 AAAAATTAAA
1 AAAAATTAAA
4939343 ATGCCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATTAAACTC
Found at i:4941609 original size:6 final size:6
Alignment explanation
Indices: 4941586--4941681 Score: 106
Period size: 6 Copynumber: 16.0 Consensus size: 6
4941576 TTTTTTCTTC
* *
4941586 TTTA-T TTTATT TTCATT TTTATT TTTATT TTTATT TTTATT TTTAAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
4941633 TTTATT TTTATT TTTTTT ATTCTATT TCTA-T TTTATT ATTATT ATTATT
1 TTTATT TTTATT TTTATT -TT-TATT TTTATT TTTATT TTTATT TTTATT
4941682 GTTGTTTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
5 8 0.10
6 64 0.82
7 3 0.04
8 3 0.04
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:4941611 original size:18 final size:18
Alignment explanation
Indices: 4941574--4941666 Score: 95
Period size: 18 Copynumber: 5.2 Consensus size: 18
4941564 GTCTATGTTC
4941574 TTTT-TTTTC-TTCTTTA-
1 TTTTATTTTCATT-TTTAT
4941590 TTTTATTTTCATTTTTAT
1 TTTTATTTTCATTTTTAT
*
4941608 TTTTATTTTTATTTTTAT
1 TTTTATTTTCATTTTTAT
4941626 TTTTAATTTT-ATTTTTAT
1 TTTT-ATTTTCATTTTTAT
* *
4941644 TTTTTTTATTCTATTTCTAT
1 TTTTATT-TTC-ATTTTTAT
4941664 TTT
1 TTT
4941667 ATTATTATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.06
17 11 0.16
18 37 0.55
19 5 0.07
20 10 0.15
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTCATTTTTAT
Found at i:4941844 original size:21 final size:22
Alignment explanation
Indices: 4941815--4941858 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4941805 TATTATTTAA
4941815 TTTTAATTTATCTG-TTAATTT
1 TTTTAATTTATCTGATTAATTT
* *
4941836 TTTTGATTTATCTGATTTATTT
1 TTTTAATTTATCTGATTAATTT
4941858 T
1 T
4941859 CATATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTTAATTTATCTGATTAATTT
Found at i:4941885 original size:13 final size:13
Alignment explanation
Indices: 4941869--4941893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4941859 CATATGATTT
4941869 TTTTTATTTTTTA
1 TTTTTATTTTTTA
4941882 TTTTTATTTTTT
1 TTTTTATTTTTT
4941894 GGTTTATCCG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:4942241 original size:19 final size:19
Alignment explanation
Indices: 4942219--4942269 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
4942209 CAGATTTCGA
4942219 TTGAATTTTTCGGCGAAGG
1 TTGAATTTTTCGGCGAAGG
*
4942238 TTGAATTTTTCGACGAAGG
1 TTGAATTTTTCGGCGAAGG
4942257 TTGAATTTTTCGG
1 TTGAATTTTTCGG
4942270 TGACAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (19 bp):
TTGAATTTTTCGGCGAAGG
Found at i:4942790 original size:11 final size:11
Alignment explanation
Indices: 4942776--4942853 Score: 86
Period size: 11 Copynumber: 6.8 Consensus size: 11
4942766 TTTAATGTTC
*
4942776 TTTTATCTTTA
1 TTTTATTTTTA
4942787 TTTTATTTTTA
1 TTTTATTTTTA
4942798 TTTTATTTTTA
1 TTTTATTTTTA
4942809 CTTTT-TTTTTA
1 -TTTTATTTTTA
*
4942820 TTTTCACTTTTA
1 TTTT-ATTTTTA
*
4942832 TTTTGTTTTATTA
1 TTTT-ATTT-TTA
4942845 TTTTATTTT
1 TTTTATTTT
4942854 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
10 4 0.07
11 28 0.49
12 18 0.32
13 7 0.12
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:4942796 original size:17 final size:16
Alignment explanation
Indices: 4942776--4942853 Score: 77
Period size: 17 Copynumber: 4.6 Consensus size: 16
4942766 TTTAATGTTC
4942776 TTTTATCTTTATTTTAT
1 TTTTAT-TTTATTTTAT
4942793 TTTTATTTTATTTTTACT
1 TTTTATTTTA-TTTTA-T
*
4942811 TTTT-TTTTATTTTCAC
1 TTTTATTTTATTTT-AT
*
4942827 TTTTATTTTGTTTTATT
1 TTTTATTTTATTTTA-T
4942844 ATTTTATTTT
1 -TTTTATTTT
4942854 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
16 13 0.25
17 25 0.48
18 14 0.27
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:4942952 original size:59 final size:59
Alignment explanation
Indices: 4942870--4943579 Score: 802
Period size: 59 Copynumber: 12.0 Consensus size: 59
4942860 ATAAAATCCA
4942870 AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* **
4942927 AAAAAAGTTTTTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
1 AAAAAA--TATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* *
4942989 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTAAAAAT-AAA-TTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* * * * ** *
4943046 AAAAAAAAAAGTTTTTAAGGAACAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCC
1 --AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* * * * *
4943108 AAAAAATATTTTCG-GGAAAAGTTGAAAGTAGCAATTTTCCTTGAAAATAAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
*
4943166 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* ***
4943223 AAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGTAAATCAAAGTTTTC
1 --AAAAA-A-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* *
4943286 AAAAAATATTTTTGTGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAAT-AAA-TTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* * * *
4943343 AAAAAAGTTTTTTTTGAGGAACAGTTGAAAGTATCAATTTTCCTGAAAAATCAAAGTTTAC
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* ** * *
4943404 AAAAAATATTTTCGA-GAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
*
4943462 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAA--TTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAAGTTTTC
* * * *
4943519 AAAAAATAAAATTTTTTGAGG-AAAGTTGAAAGTATCACATTTTTCATCAAAATTAAAGTTT
1 AAAAAAT---A-TTTTTGAGGAAAAGTTGAAAGTATCA-ATTTTCCTTAAAAATCAAAGTTT
4943580 AAAAGATATA
Statistics
Matches: 559, Mismatches: 62, Indels: 58
0.82 0.09 0.09
Matches are distributed among these distances:
57 36 0.06
58 112 0.20
59 194 0.35
60 115 0.21
61 77 0.14
62 18 0.03
63 7 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
Found at i:4943000 original size:119 final size:117
Alignment explanation
Indices: 4942870--4943579 Score: 818
Period size: 119 Copynumber: 6.0 Consensus size: 117
4942860 ATAAAATCCA
4942870 AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAA
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAAA
*
4942932 AGTTTTTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
65 A--TATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCCTCGAAAAT-AAAGTTTTC
* *
4942989 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTAAAAAT-AAA-TTTTCAAAAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC--AAAA
* * * * *
4943052 AAAAGTTTTTAAGGAACAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCC
64 AATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT-AAAGTTTTC
* * * * *
4943108 AAAAAATATTTTCG-GGAAAAGTTGAAAGTAGCAATTTTCCTTGAAAATAAAAGTTTCCAAAAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAAAA
* **
4943172 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
66 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTTC
* ***
4943223 AAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGTAAATCAAAGTTTTCAA
1 --AAAAA-A-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAA
* * **
4943288 AAAATATTTTTGTGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAA-TTTTC
62 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTTC
* * * *
4943343 AAAAAAGTTTTTTTTGAGGAACAGTTGAAAGTATCAATTTTCCTGAAAAATCAAAGTTTACAAAA
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAA
* *
4943408 AATATTTTCGA-GAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
64 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT-AAAGTTTTC
*
4943462 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAA--TTTCAAAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAAGTTTTCAAAAA
*
4943524 ATAAAATTTTTTGAGG-AAAGTTGAAAGTATCACATTTTTCATC-AAAATTAAAGTTT
65 AT---A-TTTTTGAGGAAAAGTTGAAAGTATCA-A-TTTTCCTCGAAAA-TAAAGTTT
4943580 AAAAGATATA
Statistics
Matches: 519, Mismatches: 49, Indels: 45
0.85 0.08 0.07
Matches are distributed among these distances:
115 14 0.03
116 3 0.01
117 107 0.21
118 115 0.22
119 138 0.27
120 128 0.25
121 14 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAAAA
TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTTC
Found at i:4943395 original size:296 final size:297
Alignment explanation
Indices: 4942870--4943579 Score: 1130
Period size: 296 Copynumber: 2.4 Consensus size: 297
4942860 ATAAAATCCA
*
4942870 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
4942934 -TTTTTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAATAT
66 ATTTTTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAATAT
* * *
4942998 TTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTA
130 TTTTGAGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTA
* * *
4943063 AGGAACAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAAATATTTTCGGGAAAA
195 AGGAACAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTACAAAAAATATTTTCGAGAAAA
*
4943128 GTTGAAAGTAGCAATTTTCCTTGAAAATAAAAGTTTCC
260 GTTGAAAGTAGCAATTTTCCTCGAAAATAAAAGTTTCC
4943166 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
*
4943231 ATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGTAAATCAAAGTTTTCAAAAAATATT
66 ATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAATATT
* **** *
4943296 TTTGTGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAATTTTC-AAAAAAGTTTTTTTTGA
131 TTTGAGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAA
4943360 GGAACAGTTGAAAGTATCAATTTTCCT-GAAAAATCAAAGTTTACAAAAAATATTTTCGAGAAAA
196 GGAACAGTTGAAAGTATCAATTTTCCTCG-AAAATCAAAGTTTACAAAAAATATTTTCGAGAAAA
*
4943424 GTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
260 GTTGAAAGTAGCAATTTTCCTCGAAAATAAAAGTTTCC
4943462 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAA-TTTCAAAAAAT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTCAAAAAA-
** * *
4943526 A-AAATTTTTTGAGG-AAAGTTGAAAGTATCACATTTTTCATC-AAAATTAAAGTTT
64 AGATTTTTTTTGAGGAAAAGTTGAAAGTATCA-A-TTTTCCTCGAAAATCAAAGTTT
4943580 AAAAGATATA
Statistics
Matches: 386, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
295 17 0.04
296 239 0.62
297 110 0.28
298 20 0.05
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (297 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
ATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAATATT
TTTGAGGAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAA
GGAACAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTACAAAAAATATTTTCGAGAAAAG
TTGAAAGTAGCAATTTTCCTCGAAAATAAAAGTTTCC
Found at i:4950276 original size:9 final size:9
Alignment explanation
Indices: 4950262--4950295 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
4950252 TACTATGCTT
4950262 AAAAAAATA
1 AAAAAAATA
4950271 AAAAAAAT-
1 AAAAAAATA
4950279 AAAAAAATGA
1 AAAAAAAT-A
4950289 AAAAAAA
1 AAAAAAA
4950296 ATGAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:4950281 original size:17 final size:18
Alignment explanation
Indices: 4950261--4950295 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4950251 ATACTATGCT
4950261 TAAAAAAAT-AAAAAAAA
1 TAAAAAAATGAAAAAAAA
4950278 TAAAAAAATGAAAAAAAA
1 TAAAAAAATGAAAAAAAA
4950296 ATGAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (18 bp):
TAAAAAAATGAAAAAAAA
Found at i:4950291 original size:15 final size:15
Alignment explanation
Indices: 4950262--4950307 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4950252 TACTATGCTT
4950262 AAAAAAATAAA--AA
1 AAAAAAATAAATGAA
4950275 AAATAAAA-AAATGAA
1 AAA-AAAATAAATGAA
*
4950290 AAAAAAATGAATGAA
1 AAAAAAATAAATGAA
4950305 AAA
1 AAA
4950308 GGAGGACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 14 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAATGAA
Found at i:4951351 original size:41 final size:41
Alignment explanation
Indices: 4951306--4951520 Score: 225
Period size: 42 Copynumber: 5.1 Consensus size: 41
4951296 ATGATTGCCA
* * *
4951306 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* * *
4951347 AGGAGTAATTTACTTTTCAAAATCGTGGTA-CCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTTG-AGCCTCTGTTTAG
* * * *
4951388 AGGAGAAATTTATTTTTCAAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTTGAGCCTCTGTTTAG
* * * *
4951430 AGGAGCCATTTAATTTTCCAAAGTCGTTGAGCCTCTGATCAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTTGAGCCTCTGTTTAG
* * *
4951472 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTTGAGCCTCTGTTTAG
4951515 AGGAGC
1 AGGAGC
4951521 TTGGATCGAA
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
41 53 0.36
42 64 0.43
43 31 0.21
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
Found at i:4951545 original size:11 final size:11
Alignment explanation
Indices: 4951529--4951561 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4951519 GCTTGGATCG
4951529 AAAACAAAAAA
1 AAAACAAAAAA
4951540 AAAACAAAAAA
1 AAAACAAAAAA
4951551 ATAAA-AAAAAA
1 A-AAACAAAAAA
4951562 CTAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:4951754 original size:6 final size:6
Alignment explanation
Indices: 4951726--4951852 Score: 71
Period size: 6 Copynumber: 21.2 Consensus size: 6
4951716 GTCTATGTTC
* * *
4951726 TTTTTT TTTTTC TTCTTTA -TTTTA TTTTTA TTTTTA TTTTTA -TTCTA
1 TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * * * * * * *
4951773 TTTCTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTG
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
4951821 TTTATATA TATATA TTTTT- CTTTTA TTTTTA T
1 TTT-T-TA TTTTTA TTTTTA TTTTTA TTTTTA T
4951853 CTTAGGTATT
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
5 12 0.12
6 82 0.81
7 4 0.04
8 3 0.03
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:4951785 original size:3 final size:3
Alignment explanation
Indices: 4951742--4951819 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
4951732 TTTTTCTTCT
* * * *
4951742 TTA TT- TTA TTT TTA TTT TTA TTT TTA TT- CTA TT- TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
4951785 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4951820 GTTTATATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.06
3 58 0.92
4 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:4952923 original size:5 final size:5
Alignment explanation
Indices: 4952892--4952986 Score: 63
Period size: 5 Copynumber: 18.6 Consensus size: 5
4952882 TTAGATTAGG
* * * *
4952892 TTTAT TTAAT GTTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTAT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTAT
*
4952940 TTT-T ATTT-T TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT
1 TTTAT -TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT
4952984 TTT
1 TTT
4952987 CTTTAAATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 44 0.61
6 17 0.24
7 4 0.06
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:4952926 original size:6 final size:6
Alignment explanation
Indices: 4952906--4952986 Score: 62
Period size: 6 Copynumber: 13.5 Consensus size: 6
4952896 TTTAATGTTC
* *
4952906 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAT TTTTATTT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT
* *
4952954 TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
4952987 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 11 0.19
6 40 0.68
7 2 0.03
8 6 0.10
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:4952926 original size:17 final size:16
Alignment explanation
Indices: 4952906--4952986 Score: 76
Period size: 17 Copynumber: 4.9 Consensus size: 16
4952896 TTTAATGTTC
4952906 TTTTATCTTTATTTTAT
1 TTTTAT-TTTATTTTAT
*
4952923 TTTTATTTTTGTTTTAT
1 TTTTA-TTTTATTTTAT
4952940 TTTTA-TTT-TTTTAT
1 TTTTATTTTATTTTAT
* *
4952954 TTTCACTTTTATTTTGTT
1 TTTTA-TTTTATTTT-AT
4952972 TTATTATTTTATTTT
1 TT-TTATTTTATTTT
4952987 CTTTAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 3 0.06
17 23 0.43
18 13 0.24
19 2 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:4952955 original size:36 final size:39
Alignment explanation
Indices: 4952911--4952991 Score: 116
Period size: 36 Copynumber: 2.2 Consensus size: 39
4952901 TGTTCTTTTA
*
4952911 TCTTTATTTT-ATTTTTATTTTTGTTTTA-T-TTTTATTT
1 TCTTTATTTTCACTTTTA-TTTTGTTTTATTATTTTATTT
4952948 T-TTTATTTTCACTTTTATTTTGTTTTATTATTTTATTT
1 TCTTTATTTTCACTTTTATTTTGTTTTATTATTTTATTT
4952986 TCTTTA
1 TCTTTA
4952992 AATAAAATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 18 0.46
37 8 0.21
38 9 0.23
39 4 0.10
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (39 bp):
TCTTTATTTTCACTTTTATTTTGTTTTATTATTTTATTT
Found at i:4952968 original size:25 final size:24
Alignment explanation
Indices: 4952913--4952986 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
4952903 TTCTTTTATC
**
4952913 TTTATTTTA--TTTTTATTTTTGT
1 TTTATTTTATTTTTTTATTTTACT
4952935 TTTATTTTTATTTTTTTATTTTCACT
1 TTTA-TTTTATTTTTTTATTTT-ACT
* *
4952961 TTTATTTTGTTTTATTATTTTA-T
1 TTTATTTTATTTTTTTATTTTACT
4952984 TTT
1 TTT
4952987 CTTTAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 1 0.02
25 25 0.57
26 5 0.11
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (24 bp):
TTTATTTTATTTTTTTATTTTACT
Found at i:4952976 original size:30 final size:31
Alignment explanation
Indices: 4952914--4952987 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
4952904 TCTTTTATCT
* * * *
4952914 TTATTTTATTTTTATTTTTGTTTTATTTTTA
1 TTATTTTATTTTCACTTTTATTTTAGTTTTA
*
4952945 TTTTTTTATTTTCACTTTTATTTT-GTTTTA
1 TTATTTTATTTTCACTTTTATTTTAGTTTTA
4952975 TTATTTTATTTTC
1 TTATTTTATTTTC
4952988 TTTAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (31 bp):
TTATTTTATTTTCACTTTTATTTTAGTTTTA
Found at i:4953221 original size:59 final size:57
Alignment explanation
Indices: 4953003--4953571 Score: 676
Period size: 59 Copynumber: 9.7 Consensus size: 57
4952993 ATAAAATCCA
* * ** *
4953003 AAAAAATATTTTTGGGGAGAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * ** *
4953060 AAAAAACAGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAATTTCC
1 -AAAAA-A--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
4953122 AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
4953179 AAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAATAAATTTTC
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
4953238 AAAAAAAAAGGTTTTTGAGGAACAGTTGAAAGTATCAATTTTTCTTAAAAATCAAAGTTTTC
1 -AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
* * *
4953300 AAAAAATATTTTCGA-GAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAATTTTC
** * **
4953357 AAAAAAGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
*
4953416 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** * *
4953473 AAAAAATAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
4953532 AAAAGAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
4953572 TCCTGCACAA
Statistics
Matches: 447, Mismatches: 43, Indels: 42
0.84 0.08 0.08
Matches are distributed among these distances:
57 49 0.11
58 130 0.29
59 158 0.35
60 49 0.11
61 50 0.11
62 11 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:4953229 original size:117 final size:114
Alignment explanation
Indices: 4953003--4953571 Score: 642
Period size: 117 Copynumber: 4.8 Consensus size: 114
4952993 ATAAAATCCA
* * ** *
4953003 AAAAAATATTTTTGGGGAGAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTCAAAAAACA
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAA-A
* * **
4953068 GTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAATTTCC
64 --TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCC
4953122 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGT
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA--
* * *
4953187 TTTTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAATAAATTTTCA
64 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
* * *
4953239 AAAAAAAAGGTTTTT-GAGGAACAGTTGAAAGTATCAATTTTTCTTAAAAATCAAAGTTTTCAAA
1 AAAAAATA--TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAA
* * * *
4953303 AAATATTTTCGA-GAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTTC
61 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAATTTCC
** * **
4953357 AAAAAAGGTTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAAA
1 AAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAA
* *
4953421 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
63 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* ** * *
4953473 AAAAAATAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGA
1 AAAAAAT--ATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA-A
4953538 ATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTT
63 ATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
4953572 TCCTGCACAA
Statistics
Matches: 399, Mismatches: 38, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
116 91 0.23
117 113 0.28
118 77 0.19
119 104 0.26
120 3 0.01
121 11 0.03
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (114 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:4953570 original size:27 final size:27
Alignment explanation
Indices: 4953481--4953572 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
4953471 TCAAAAAATA
*
4953481 AATTTTTGGGGAAAAGTTGAAAGTATC
1 AATTTTTGGGAAAAAGTTGAAAGTATC
* * * *
4953508 AATTTTCCTCGAAATTAAAGTTTCAAAAGAAT-
1 AATTTT--TGGGAA--AAAG-TT-GAAAGTATC
4953540 -ATTTTTGGGAAAAAGTTGAAAGTATC
1 AATTTTTGGGAAAAAGTTGAAAGTATC
4953566 AATTTTT
1 AATTTTT
4953573 CCTGCACAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 16 0.33
29 7 0.15
31 9 0.19
32 2 0.04
33 6 0.12
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTTTTGGGAAAAAGTTGAAAGTATC
Found at i:4958675 original size:99 final size:100
Alignment explanation
Indices: 4958539--4958844 Score: 375
Period size: 99 Copynumber: 3.0 Consensus size: 100
4958529 ATAATTTTTT
* *
4958539 TAATAATAATAAAATTTTCAATCATACCAAACCATTGGAAGATTTAAATCTTGAATTAAATCTTA
1 TAATAATAATAAAATTTTCAATCTTACCAAACTATTGGAAGATTTAAATCTTGAATTAAATCTTA
* * *
4958604 ACAAACTATT-GAAGACTTAATTAATTTTTTAAAA
66 CCAAAATATTAGAAGACTTAATGAATTTTTTAAAA
* * *
4958638 TAATAATAATAAAAATTTT-AATCTTACCAAATTATTGGAGGATTTAAATCTTGAACTAAATCTT
1 TAATAATAAT-AAAATTTTCAATCTTACCAAACTATTGGAAGATTTAAATCTTGAATTAAATCTT
*
4958702 ACCAAAATATTAGAGGACTTAATGAATATTTTGTAAAA
65 ACCAAAATATTAGAAGACTTAATGAAT-TTTT-TAAAA
* * * * *
4958740 TAATAATAATAAATTTGTTCAATCTTACTAAACTATT-GAAGAATTTAAATATTGAATTAGATTT
1 TAATAATAATAAAATT-TTCAATCTTACCAAACTATTGGAAG-ATTTAAATCTTGAATTAAATCT
* * **
4958804 TACCAAATTATTGGAAGGTTTAATGAATTTTCTTAAAA
64 TACCAAAATATTAGAAGACTTAATGAATTTT-TTAAAA
4958842 TAA
1 TAA
4958845 ATTTTGTACA
Statistics
Matches: 177, Mismatches: 22, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
99 59 0.33
100 21 0.12
101 9 0.05
102 31 0.18
103 57 0.32
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (100 bp):
TAATAATAATAAAATTTTCAATCTTACCAAACTATTGGAAGATTTAAATCTTGAATTAAATCTTA
CCAAAATATTAGAAGACTTAATGAATTTTTTAAAA
Found at i:4959527 original size:21 final size:20
Alignment explanation
Indices: 4959491--4959530 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4959481 TTTCTTCTTG
4959491 TTTGTGTTTTATTTATTTTA
1 TTTGTGTTTTATTTATTTTA
4959511 TTTGTTGTTATTA-TTATTTT
1 TTTG-TGTT-TTATTTATTTT
4959531 TCATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (20 bp):
TTTGTGTTTTATTTATTTTA
Found at i:4960036 original size:17 final size:18
Alignment explanation
Indices: 4959986--4960037 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
4959976 ATCTATTTTT
*
4959986 ATTCATTTCATGCATC-TC
1 ATTCA-TTCATACATCATC
*
4960004 ATTCATTCATAGATCATC
1 ATTCATTCATACATCATC
*
4960022 A-TCATTCATTCATCAT
1 ATTCATTCATACATCAT
4960038 GTCATTGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTCATTCATACATCATC
Found at i:4960632 original size:19 final size:19
Alignment explanation
Indices: 4960604--4960642 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4960594 GCTTTGGCAT
4960604 ATCAACCTATCCAGTACTC
1 ATCAACCTATCCAGTACTC
*
4960623 ATCAATCTATCCAGTACTC
1 ATCAACCTATCCAGTACTC
4960642 A
1 A
4960643 AAAACCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCAACCTATCCAGTACTC
Found at i:4963991 original size:18 final size:18
Alignment explanation
Indices: 4963961--4964005 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
4963951 GATGTATGAT
*
4963961 GAATATAAAAAAAAGAAAA
1 GAATATAAAAAACA-AAAA
4963980 GAATATAAAAAACAAAAA
1 GAATATAAAAAACAAAAA
*
4963998 GAAAATAA
1 GAATATAA
4964006 TGAAGCTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (18 bp):
GAATATAAAAAACAAAAA
Found at i:4966772 original size:17 final size:18
Alignment explanation
Indices: 4966744--4966785 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
4966734 CAGAGGTTCT
*
4966744 AGATTTACAAAGA-TTTC
1 AGATTCACAAAGACTTTC
*
4966761 AGGTTCACAAAGACTTTC
1 AGATTCACAAAGACTTTC
4966779 AGATTCA
1 AGATTCA
4966786 TAAGAAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
AGATTCACAAAGACTTTC
Found at i:4967215 original size:120 final size:121
Alignment explanation
Indices: 4967070--4967341 Score: 306
Period size: 121 Copynumber: 2.3 Consensus size: 121
4967060 TTTTGCAAAG
* * * *
4967070 GTCA-AAAAAATGAT-TTGAATCGAGCCAAGATT-AGATGATCGAGACAAAA-CTATGAGTCAAA
1 GTCATAAAAAATGATCTAGAAT-GAGCCAAGATTGAG-TGACCAAGACAAAATC-ATGAATCAAA
* *
4967131 AAATGAAGCGACC-AGACCAAG-TGAAGCTTAAAAATAAATAACCA-GAGCGAAACCACAA
63 AAATGAAGCGACCAAGACCAAGTTGAAG-TAAAAAATAAATAACCAGGA-CAAAACCACAA
* *
4967189 GTCATAAAAAATGATCTAGACTGAGCCAAGATTGAGTGACCAAGACGAAATCATGAATCAAAAAA
1 GTCATAAAAAATGATCTAGAATGAGCCAAGATTGAGTGACCAAGACAAAATCATGAATCAAAAAA
* * * * * *
4967254 TGAGGTGACCAAGATCGAGTTGAAGTAAAAAATAAATGACCAGGACAAAACCATAA
66 TGAAGCGACCAAGACCAAGTTGAAGTAAAAAATAAATAACCAGGACAAAACCACAA
* *
4967310 GTCATAAGAAATGATCTAGATTGAGCCAAGAT
1 GTCATAAAAAATGATCTAGAATGAGCCAAGAT
4967342 CGAATGGGTG
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
119 4 0.03
120 52 0.40
121 67 0.52
122 7 0.05
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (121 bp):
GTCATAAAAAATGATCTAGAATGAGCCAAGATTGAGTGACCAAGACAAAATCATGAATCAAAAAA
TGAAGCGACCAAGACCAAGTTGAAGTAAAAAATAAATAACCAGGACAAAACCACAA
Found at i:4968415 original size:10 final size:10
Alignment explanation
Indices: 4968400--4968432 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4968390 CATCAATTTC
4968400 TTTTTTCTTT
1 TTTTTTCTTT
4968410 TTTTTTCTTT
1 TTTTTTCTTT
4968420 TTGTTTT-TTT
1 TT-TTTTCTTT
4968430 TTT
1 TTT
4968433 AGGTGGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 17 0.77
11 4 0.18
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:4968426 original size:16 final size:17
Alignment explanation
Indices: 4968396--4968432 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4968386 TCCCCATCAA
4968396 TTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
4968413 TTTCTTTTTGT-TTTTTT
1 TTTCTTTTT-TCTTTTTT
4968430 TTT
1 TTT
4968433 AGGTGGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTCTTTTTTCTTTTTT
Found at i:4968483 original size:15 final size:15
Alignment explanation
Indices: 4968465--4968494 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4968455 GCTTTATCAA
4968465 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
*
4968480 TTTTTTTTGTTTTTT
1 TTTTTTTTCTTTTTT
4968495 GGTAGAGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.93
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:4968506 original size:61 final size:62
Alignment explanation
Indices: 4968388--4968546 Score: 160
Period size: 61 Copynumber: 2.5 Consensus size: 62
4968378 GACATTTTTC
* **
4968388 CCCATCAATTTCTTTTTTCTTTTTTTTTCTTTTTGTTTTTTTTTTAGGTGGAACATATTGGCATT
1 CCCATCAA-TT-TTTTTTCTTTTTTTTT-TTTTTG----TTTTTTAGGTAGAACATATTGAAATT
4968453 TTG-
59 TTGT
** *
4968456 CTTTATCAATTTTTTTTCTTTTTTTTTTTTTTGTTTTTT-GGTAGAGCATATTGAAATTTTGT
1 C-CCATCAATTTTTTTTCTTTTTTTTTTTTTTGTTTTTTAGGTAGAACATATTGAAATTTTGT
* *
4968518 CCCATCAATTTTTTTCCTTTTTTCTTTTT
1 CCCATCAATTTTTTTTCTTTTTTTTTTTT
4968547 ACATTTTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
61 42 0.53
62 7 0.09
66 6 0.08
67 16 0.20
68 3 0.04
69 5 0.06
ACGTcount: A:0.14, C:0.13, G:0.09, T:0.64
Consensus pattern (62 bp):
CCCATCAATTTTTTTTCTTTTTTTTTTTTTTGTTTTTTAGGTAGAACATATTGAAATTTTGT
Found at i:4972205 original size:127 final size:130
Alignment explanation
Indices: 4972064--4972303 Score: 317
Period size: 127 Copynumber: 1.9 Consensus size: 130
4972054 ATTTATAAAC
* * * * **
4972064 AAAATTTTTGAGAATTTTATTAAGTCGCCCAATAGCTTGGTAGGACTTAA-TT-TGAATTAATCC
1 AAAATTTTTAAGAATTTCATTAAGCCGCCCAATAGCTTGGTAGAACTTAATTTATGAAGCAATCC
* *
4972127 TCTAATAGTTTAGAGAAT-AAAATT-TTTTTTTGTTTATTATTTTTTTATTGCCAAAAGATTTGT
66 TCCAATAGTTTAGAGAATAAAAATTATTTTTTTATTTATTATTTTTTTATTGCCAAAAGATTTGT
* *
4972190 AAAATTTTTTAAGAATTTCATTAAGCCTCCCAATAGTTTGGTAGAACTTAATTTATGAAGCAATC
1 AAAA-TTTTTAAGAATTTCATTAAGCCGCCCAATAGCTTGGTAGAACTTAATTTATGAAGCAATC
* * * *
4972255 TTCCAATAGTTTCGAGGATAAAAATTATTTTTTTATTTTTTATTTTTTT
65 CTCCAATAGTTTAGAGAATAAAAATTATTTTTTTATTTATTATTTTTTT
4972304 GAAAACTGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
126 4 0.04
127 40 0.42
128 2 0.02
129 23 0.24
130 6 0.06
131 20 0.21
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (130 bp):
AAAATTTTTAAGAATTTCATTAAGCCGCCCAATAGCTTGGTAGAACTTAATTTATGAAGCAATCC
TCCAATAGTTTAGAGAATAAAAATTATTTTTTTATTTATTATTTTTTTATTGCCAAAAGATTTGT
Found at i:4973023 original size:18 final size:19
Alignment explanation
Indices: 4972981--4973031 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
4972971 TTTCCTTTTT
*
4972981 TCATTTTATTTTTATTTGC
1 TCATTTTATTTTTATTAGC
*
4973000 TGATTTTATTTTT-TTAGC
1 TCATTTTATTTTTATTAGC
4973018 TCATTTTATTTTTA
1 TCATTTTATTTTTA
4973032 GTTTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.69
Consensus pattern (19 bp):
TCATTTTATTTTTATTAGC
Found at i:4973208 original size:14 final size:14
Alignment explanation
Indices: 4973188--4973227 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
4973178 AAAAACAATA
4973188 ACAAAAAAGATCTTT
1 ACAAAAAA-ATCTTT
*
4973203 TCAAAAAAATCTTT
1 ACAAAAAAATCTTT
4973217 ACAAAATAAAT
1 ACAAAA-AAAT
4973228 TCATGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (14 bp):
ACAAAAAAATCTTT
Found at i:4975567 original size:179 final size:179
Alignment explanation
Indices: 4975159--4975763 Score: 603
Period size: 179 Copynumber: 3.4 Consensus size: 179
4975149 CATGAAAATC
* * * * *** *
4975159 ATCACTTATG-TTTGTCTTTTAATTTCATCTTTA-AGAAATTTTTACTTATTACCATGTTAATTA
1 ATCACTTGTGATTT-TCTCTTAATTTCATCATCAGAG-AATTTTTACTTATTAATTTATTAATTA
* * ** * **
4975222 TTAAATTTTATGA-AAGAATGAATAAAAATTTATTTTATTGAAAAATTTCCAAAATCTTCC---C
64 TTAAATTTTATGAGAA-AATAAATAAAAACTCCTTTTATTGAAAAATTTTCAAAATCCACCTAAC
* * * * * * * * *
4975283 -C--C-AACAAAATTTTAGAAAAATCATTCATCTAGAAATTGTGAAGAAATTC
128 ACTTCTGACAAGACTTAAGAAAAA-CTTTTACCTAGAAATTGTCAAGAAATTT
* * **
4975332 ATCACTTGTGATTTTCACTTAA-TTCTATCATTAGAGAATTTTTACTTACAAATTTATTAATTAT
1 ATCACTTGTGATTTTCTCTTAATTTC-ATCATCAGAGAATTTTTACTTATTAATTTATTAATTAT
* **
4975396 TAAATTTTATGAGAAAATAAATAAAAATTCCTTTTATTGAAAAATTTTCAAAATTCTTCC-AACA
65 TAAATTTTATGAGAAAATAAATAAAAACTCCTTTTATTGAAAAATTTTCAAAA-TCCACCTAACA
* * * *
4975460 CTTTTGGCAAGATTTAAG-AAAA-TTTCCTCCCTA-AATATTGTCAAGAAATTT
129 CTTCTGACAAGACTTAAGAAAAACTTT--TACCTAGAA-ATTGTCAAGAAATTT
* * *
4975511 GTCACATGTGATTTTCTCTTAATTTCATCATCGGAGAATTTTTACTTATTAATTTATTAATTATT
1 ATCACTTGTGATTTTCTCTTAATTTCATCATCAGAGAATTTTTACTTATTAATTTATTAATTATT
* *
4975576 AAATTTTATGAGAAAATAAATGAAAACTCCTTTTGTTGAAAAATTTTCAAAATCCACCTAACACT
66 AAATTTTATGAGAAAATAAATAAAAACTCCTTTTATTGAAAAATTTTCAAAATCCACCTAACACT
* *
4975641 TCTGATAAGACTTAAGAAAAACTTTTACCTAGAAATTGTTAAGAAATTT
131 TCTGACAAGACTTAAGAAAAACTTTTACCTAGAAATTGTCAAGAAATTT
* * * *
4975690 ACCATTTATGATTTTCTCTTAATTTCATCATCAAAGAA-TTTTACTTATTAATTTATTAATTATT
1 ATCACTTGTGATTTTCTCTTAATTTCATCATCAGAGAATTTTTACTTATTAATTTATTAATTATT
4975754 AAATTTTATG
66 AAATTTTATG
4975764 TAACAGAAAA
Statistics
Matches: 363, Mismatches: 50, Indels: 33
0.81 0.11 0.07
Matches are distributed among these distances:
172 3 0.01
173 89 0.25
174 13 0.04
176 1 0.00
177 3 0.01
178 42 0.12
179 191 0.53
180 18 0.05
181 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (179 bp):
ATCACTTGTGATTTTCTCTTAATTTCATCATCAGAGAATTTTTACTTATTAATTTATTAATTATT
AAATTTTATGAGAAAATAAATAAAAACTCCTTTTATTGAAAAATTTTCAAAATCCACCTAACACT
TCTGACAAGACTTAAGAAAAACTTTTACCTAGAAATTGTCAAGAAATTT
Found at i:4976069 original size:16 final size:16
Alignment explanation
Indices: 4976048--4976101 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
4976038 AAATATAAAT
4976048 AAATAATAAAAATATA
1 AAATAATAAAAATATA
4976064 AAATAAAATAAAGCAATTATA
1 AAAT--AATAAA--AA-TATA
*
4976085 AAATAGTAAAAATATA
1 AAATAATAAAAATATA
4976101 A
1 A
4976102 GATTTTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 9 0.28
17 2 0.06
18 6 0.19
19 5 0.16
20 2 0.06
21 8 0.25
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
AAATAATAAAAATATA
Found at i:4976085 original size:29 final size:30
Alignment explanation
Indices: 4976034--4976095 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
4976024 CAGAATACTT
*
4976034 AAATAAATATAAATAAATAATAAAAATA-TA
1 AAATAAATATAAAGAAATAAT-AAAATAGTA
* *
4976064 AAATAAA-ATAAAGCAATTATAAAATAGTA
1 AAATAAATATAAAGAAATAATAAAATAGTA
4976093 AAA
1 AAA
4976096 ATATAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 15 0.54
30 7 0.25
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATAAATATAAAGAAATAATAAAATAGTA
Found at i:4977275 original size:6 final size:6
Alignment explanation
Indices: 4977264--4977348 Score: 98
Period size: 6 Copynumber: 14.2 Consensus size: 6
4977254 TTAAATATTT
* *
4977264 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATC ATAATC
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * * *
4977312 ATAATC ATAATC ATAATC ACAATC ATAATC ATAATA A
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA A
4977349 CAAATAAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAATA
Found at i:4977285 original size:18 final size:18
Alignment explanation
Indices: 4977264--4977367 Score: 111
Period size: 18 Copynumber: 5.7 Consensus size: 18
4977254 TTAAATATTT
*
4977264 ATAATAATAATAATAATA
1 ATAATCATAATAATAATA
*
4977282 ATAATAATAATAATAATA
1 ATAATCATAATAATAATA
* *
4977300 ATAATCATAATCATAATC
1 ATAATCATAATAATAATA
* * *
4977318 ATAATCATAATCACAATC
1 ATAATCATAATAATAATA
*
4977336 ATAATCATAATAACAAATAA
1 ATAATCATAATAA-TAAT-A
4977356 ATAATCA-AATAA
1 ATAATCATAATAA
4977368 ATAAAAATGA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
18 62 0.81
19 8 0.10
20 7 0.09
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATCATAATAATAATA
Found at i:4980130 original size:3 final size:3
Alignment explanation
Indices: 4980116--4980192 Score: 109
Period size: 3 Copynumber: 25.3 Consensus size: 3
4980106 TTATTGTTTT
4980116 ATA ATA AGTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
4980162 ATA ATA ATA TTG ATA ATA ACA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4980193 AAATTGATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4980580 original size:3 final size:3
Alignment explanation
Indices: 4980572--4980606 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
4980562 ATTTTTTAAA
* *
4980572 AAT AAT AAT AAT AAT AAA AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4980607 AAACTCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4980591 original size:18 final size:18
Alignment explanation
Indices: 4980568--4980609 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
4980558 ATTCATTTTT
4980568 TAAAAATAATAATAATAA
1 TAAAAATAATAATAATAA
*
4980586 TAAAAATAATAATAGTAA
1 TAAAAATAATAATAATAA
4980604 TAAAAA
1 TAAAAA
4980610 CTCTAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAATAATAATAATAA
Found at i:4980661 original size:15 final size:15
Alignment explanation
Indices: 4980643--4980672 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4980633 AACTAAACTC
*
4980643 TCTAAACTTTAAAAT
1 TCTAAACTCTAAAAT
4980658 TCTAAACTCTAAAAT
1 TCTAAACTCTAAAAT
4980673 CAAATGCCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (15 bp):
TCTAAACTCTAAAAT
Found at i:4980707 original size:8 final size:8
Alignment explanation
Indices: 4980682--4980730 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
4980672 TCAAATGCCT
4980682 AACCCTAA
1 AACCCTAA
*
4980690 AA-TC-AA
1 AACCCTAA
4980696 AACCCTAA
1 AACCCTAA
4980704 AACCCTAA
1 AACCCTAA
*
4980712 AA-CCTCCA
1 AACCCT-AA
4980720 AACCCTAA
1 AACCCTAA
4980728 AAC
1 AAC
4980731 TAAACTCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
6 4 0.12
7 5 0.15
8 21 0.64
9 3 0.09
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (8 bp):
AACCCTAA
Found at i:4980729 original size:24 final size:22
Alignment explanation
Indices: 4980661--4980771 Score: 77
Period size: 20 Copynumber: 5.1 Consensus size: 22
4980651 TTAAAATTCT
* **
4980661 AAACTCTAAAATCAAATGCCT-
1 AAACCCTAAAATCAAAACCCTA
4980682 -AACCCTAAAATCAAAACCCTA
1 AAACCCTAAAATCAAAACCCTA
*
4980703 AAACCCTAAAACCTCCAAACCCTA
1 AAACCCTAAAA--TCAAAACCCTA
* * * *
4980727 AAA--CTAAACTCTAAACCTTTC
1 AAACCCTAAAATCAAAACC-CTA
**
4980748 AAACCCTAAAATTGAAACCCTA
1 AAACCCTAAAATCAAAACCCTA
4980770 AA
1 AA
4980772 CCTTTCAAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
20 24 0.34
21 4 0.06
22 18 0.26
23 11 0.16
24 13 0.19
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (22 bp):
AAACCCTAAAATCAAAACCCTA
Found at i:4980734 original size:30 final size:30
Alignment explanation
Indices: 4980703--4980819 Score: 175
Period size: 30 Copynumber: 3.9 Consensus size: 30
4980693 CAAAACCCTA
*
4980703 AAACCCTAAAACC-TCCAAACCCTAAAACT-
1 AAACCCT-AAACCTTTCAAACCCTAAAACTG
* *
4980732 AAACTCTAAACCTTTCAAACCCTAAAATTG
1 AAACCCTAAACCTTTCAAACCCTAAAACTG
*
4980762 AAACCCTAAACCTTTCAAACCCTAAAATTG
1 AAACCCTAAACCTTTCAAACCCTAAAACTG
4980792 AAACCCTAAACCTTTCAAACCCTAAAAC
1 AAACCCTAAACCTTTCAAACCCTAAAAC
4980820 CTCTAAGCCC
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
28 5 0.06
29 20 0.25
30 56 0.69
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (30 bp):
AAACCCTAAACCTTTCAAACCCTAAAACTG
Found at i:4980756 original size:16 final size:16
Alignment explanation
Indices: 4980703--4980817 Score: 102
Period size: 16 Copynumber: 7.6 Consensus size: 16
4980693 CAAAACCCTA
*
4980703 AAACCCTAAAACC-TCC
1 AAACCCT-AAACCTTTC
*
4980719 AAACCCTAAAAC--T-
1 AAACCCTAAACCTTTC
*
4980732 AAACTCTAAACCTTTC
1 AAACCCTAAACCTTTC
* *
4980748 AAACCCTAAA--ATTG
1 AAACCCTAAACCTTTC
4980762 AAACCCTAAACCTTTC
1 AAACCCTAAACCTTTC
* *
4980778 AAACCCTAAA--ATTG
1 AAACCCTAAACCTTTC
4980792 AAACCCTAAACCTTTC
1 AAACCCTAAACCTTTC
4980808 AAACCCTAAA
1 AAACCCTAAA
4980818 ACCTCTAAGC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
13 10 0.13
14 24 0.30
15 5 0.06
16 40 0.51
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACCCTAAACCTTTC
Found at i:4980767 original size:14 final size:14
Alignment explanation
Indices: 4980748--4980801 Score: 72
Period size: 14 Copynumber: 3.7 Consensus size: 14
4980738 TAAACCTTTC
4980748 AAACCCTAAAATTG
1 AAACCCTAAAATTG
* *
4980762 AAACCCTAAACCTTTC
1 AAACCCTAAA--ATTG
4980778 AAACCCTAAAATTG
1 AAACCCTAAAATTG
4980792 AAACCCTAAA
1 AAACCCTAAA
4980802 CCTTTCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 22 0.65
16 12 0.35
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATTG
Found at i:4980812 original size:46 final size:46
Alignment explanation
Indices: 4980762--4980849 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
4980752 CCTAAAATTG
*
4980762 AAACCCT-AAACCTTTCAAACCCTAAAATTGAAACCCTAAACCTTTC
1 AAACCCTAAAACCTCT-AAACCCTAAAATTGAAACCCTAAACCTTTC
* * *
4980808 AAACCCTAAAACCTCTAAGCCCTAAAATTGAAATCGTAAACC
1 AAACCCTAAAACCTCTAAACCCTAAAATTGAAACCCTAAACC
4980850 CTAAAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 30 0.81
47 7 0.19
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.22
Consensus pattern (46 bp):
AAACCCTAAAACCTCTAAACCCTAAAATTGAAACCCTAAACCTTTC
Found at i:4988997 original size:9 final size:10
Alignment explanation
Indices: 4988972--4989001 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4988962 TTCAAATTTG
4988972 AATTTTCAAA
1 AATTTTCAAA
*
4988982 AATTTTTAAA
1 AATTTTCAAA
4988992 AATTTTCAAA
1 AATTTTCAAA
4989002 TTTGAATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTTCAAA
Found at i:4988997 original size:34 final size:34
Alignment explanation
Indices: 4988946--4989031 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
4988936 TGTACTTTCG
* * *
4988946 AAAACTTCTAAACATTTTCAAATTTGAATTTTCA
1 AAAACTTTTAAAAATTTTCAAATTTGAATTGTCA
*
4988980 AAAATTTTTAAAAATTTTCAAATTTGAATTGTCA
1 AAAACTTTTAAAAATTTTCAAATTTGAATTGTCA
*
4989014 AAAACTTTTAAAAGTTTT
1 AAAACTTTTAAAAATTTT
4989032 TAGTATTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (34 bp):
AAAACTTTTAAAAATTTTCAAATTTGAATTGTCA
Found at i:4994198 original size:117 final size:116
Alignment explanation
Indices: 4993885--4994401 Score: 520
Period size: 117 Copynumber: 4.4 Consensus size: 116
4993875 TTTTGTAGGA
* * * *
4993885 AAAATTGATATTTTCAACTTTTCCCCAAA-ACTATTTTTTGGAAATTTTGATTT-TCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAATA-TATTTTTTTGAAATTTT-ATTTCT-GAGGAAAA
* ** * *
4993948 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGT
63 TTGATACTTTCAACTTTTCCCCAAAAATAC-TTTTTTGGAAATTTATTTCTAAGG
* * * **
4994003 AAAATTGATAC-TTCAACTTTTCGCCCAAAAATATTTTTTTGAAATTTGATTTC--AAAAAAATT
1 AAAATTGATACTTTCAACTTTTC-CCTAAATATATTTTTTTGAAATTTTATTTCTGAGGAAAATT
*
4994065 GATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTTTATTTTTCTTTAGG
65 GATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAA-TTTA--TTTC-TAAGG
*
4994121 -AAATTGATACTTTCAAC-TTTCCCTAAATAT-TTTTTTTGAAATTTTATTTCTGAGGAAACTTG
1 AAAATTGATACTTTCAACTTTTCCCTAAATATATTTTTTTGAAATTTTATTTCTGAGGAAAATTG
** *
4994183 ATACTTTCATTTTTTCCCCTAAAAATATTTTTTTTTGG-AATTTATTTTTCTTTAAGG
66 ATACTTTCAACTTTTCCCC-AAAAATA--CTTTTTTGGAAATTTA--TTTC--TAAGG
* *
4994240 AAAATTGATACTTTCAAAC-TTTCCCTAAAAATATTTTTTTTTTGAAA-ATTATTTCCTGAGGAA
1 AAAATTGATACTTTC-AACTTTTCCCT--AAATA-TATTTTTTTGAAATTTTATTT-CTGAGGAA
*
4994303 AATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTAGAAATTTATTTCTAAGG
61 AATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTTATTTCTAAGG
4994357 AAAATTGATACTTTCAAACTTTTCCCCTAAAAATATATTTTTTTG
1 AAAATTGATACTTTC-AACTTTT-CCCT--AAATATATTTTTTTG
4994402 GGAATTTTTT
Statistics
Matches: 348, Mismatches: 27, Indels: 48
0.82 0.06 0.11
Matches are distributed among these distances:
114 10 0.03
115 55 0.16
116 7 0.02
117 81 0.23
118 69 0.20
119 23 0.07
120 28 0.08
121 16 0.05
123 5 0.01
124 14 0.04
125 40 0.11
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCTAAATATATTTTTTTGAAATTTTATTTCTGAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTTATTTCTAAGG
Found at i:4994308 original size:181 final size:175
Alignment explanation
Indices: 4993884--4994408 Score: 570
Period size: 181 Copynumber: 3.0 Consensus size: 175
4993874 TTTTTGTAGG
* * * *
4993884 AAAAATTGATATTTTCAACTTTTCCCCAAAACTA-TTTTTTGGAAATTTTGATTTT-C-AAGGAA
1 AAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATATT-ATTTTCCTGAGGAA
* * *
4993946 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGTAAAATTGA
65 AATTGATACTTTCAACTTTCCCT-AAAAA--TTTTTTTTG-AAATTTATTTCTAAGGAAAATTGA
*
4994011 TAC-TTCAACTTTTCGCCC-AAAAATA--TTTTTTTGAAATTTGATTTCAA
126 TACTTTCAACTTTTC-CCCTAAAAATATTTTTTTTTGGAATTTGATTTCAA
* * *
4994058 AAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTTTATTTTTCTTTAGG-A
1 AAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATATTA-TTTTCCTGAGGAA
* * *
4994122 AATTGATACTTTCAACTTTCCCTAAATATTTTTTTTGAAATTTTATTTCTGAGGAAACTTGATAC
65 AATTGATACTTTCAACTTTCCCTAAAAATTTTTTTTGAAA-TTTATTTCTAAGGAAAATTGATAC
**
4994187 TTTCATTTTTTCCCCTAAAAATATTTTTTTTTGGAATTT-ATTTTTCTTTAA
129 TTTCAACTTTTCCCCTAAAAATATTTTTTTTTGGAATTTGA--TTTC---AA
* * * *
4994238 GGAAAATTGATACTTTCAAAC-TTTCCCTAAAAATATTTTTTTTTTGAAA-ATTA-TTTCCTGAG
1 -AAAAATTGATACTTTC-AACTTTTCCCCAAAAATA--CTTTTTTGGAAATATTATTTTCCTGAG
* * *
4994300 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTAGAAATTTATTTCTAAGGAAAATTGA
62 GAAAATTGATACTTTCAAC-TTTCCCTAAAAATTTTTTTTGAAATTTATTTCTAAGGAAAATTGA
*
4994365 TACTTTCAAACTTTTCCCCTAAAAATATATTTTTTTGGGAATTT
126 TACTTTC-AACTTTTCCCCTAAAAATAT-TTTTTTTTGGAATTT
4994409 TTTATTTTTT
Statistics
Matches: 300, Mismatches: 29, Indels: 35
0.82 0.08 0.10
Matches are distributed among these distances:
172 3 0.01
173 32 0.11
174 49 0.16
175 24 0.08
176 36 0.12
177 7 0.02
180 10 0.03
181 71 0.24
182 44 0.15
183 24 0.08
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (175 bp):
AAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATATTATTTTCCTGAGGAAA
ATTGATACTTTCAACTTTCCCTAAAAATTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTT
TCAACTTTTCCCCTAAAAATATTTTTTTTTGGAATTTGATTTCAA
Found at i:4994499 original size:12 final size:11
Alignment explanation
Indices: 4994479--4994535 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
4994469 AACCTAATCT
*
4994479 AATAAATAAAA
1 AATAAAAAAAA
4994490 AATAAAATAAACA
1 AATAAAA-AAA-A
*
4994503 AATAAACAAAGA
1 AATAAA-AAAAA
4994515 AATAAAAAAAA
1 AATAAAAAAAA
4994526 AA-AAAAAAAA
1 AATAAAAAAAA
4994536 CTGAGCGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 8 0.20
11 12 0.30
12 10 0.25
13 9 0.22
14 1 0.03
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.11
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:4994889 original size:19 final size:20
Alignment explanation
Indices: 4994852--4994897 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
4994842 GAACACCGGT
*
4994852 GCCGGATTCTGGAAAATGTC
1 GCCGGAATCTGGAAAATGTC
*
4994872 GTCGGAATCTGG-AAATGTC
1 GCCGGAATCTGGAAAATGTC
4994891 GCCGGAA
1 GCCGGAA
4994898 GATCGCCGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATGTC
Found at i:4995439 original size:42 final size:41
Alignment explanation
Indices: 4995373--4996007 Score: 916
Period size: 42 Copynumber: 15.5 Consensus size: 41
4995363 TTTTACCAAA
*
4995373 GCTCCTCTAAACAGAGGCATCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
* *
4995415 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAACTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
4995456 GCTCCTCTAAATAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
*
4995496 GCTTCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
4995537 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
4995579 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
4995619 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
4995660 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
*
4995700 GCTTCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
4995742 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
4995783 GCTCCTCTAAACAGAGGTACCATGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
4995825 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
4995865 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
*
4995907 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* * *
4995949 GCTCATCTAAATAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
4995989 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
4996008 ACGAACTTTG
Statistics
Matches: 542, Mismatches: 30, Indels: 44
0.88 0.05 0.07
Matches are distributed among these distances:
39 14 0.03
40 149 0.27
41 172 0.32
42 207 0.38
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:4995597 original size:123 final size:123
Alignment explanation
Indices: 4995373--4996007 Score: 1055
Period size: 123 Copynumber: 5.2 Consensus size: 123
4995363 TTTTACCAAA
*
4995373 GCTCCTCTAAACAGAGGCATCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
* * *
4995438 GACTTTGG-AAACTAAATTGCTCCTCTAAATAGAGGCAACGAACTTGGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
* *
4995496 GCTTCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
*
4995561 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
* *
4995619 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
*
4995682 AAC-TTGGAAAAGTAAATTGCTTCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
66 -ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
*
4995742 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
4995807 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
4995865 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
* *
4995930 GACTTTGGAAAAGTAAATTGCTCATCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
4995989 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
4996008 ACGAACTTTG
Statistics
Matches: 483, Mismatches: 19, Indels: 19
0.93 0.04 0.04
Matches are distributed among these distances:
121 36 0.07
122 52 0.11
123 244 0.51
124 115 0.24
125 36 0.07
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:4997315 original size:11 final size:11
Alignment explanation
Indices: 4997275--4997332 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
4997265 TTTGGATCTC
*
4997275 TTTTTTTATTT
1 TTTTTTTCTTT
*
4997286 TTTCATTTTCTCAT
1 TTT--TTTTCT-TT
*
4997300 TTTTTCTCTTT
1 TTTTTTTCTTT
4997311 TTTTTTTCTTT
1 TTTTTTTCTTT
4997322 TTTTTTTCTTT
1 TTTTTTTCTTT
4997333 CTCATTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 25 0.64
12 5 0.13
13 5 0.13
14 4 0.10
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:4997661 original size:12 final size:11
Alignment explanation
Indices: 4997640--4997667 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4997630 ATGTGTGGTA
4997640 TTTTTATTTTT
1 TTTTTATTTTT
4997651 TTTTTATTTTT
1 TTTTTATTTTT
4997662 TTTTTA
1 TTTTTA
4997668 GACCTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:5001237 original size:60 final size:61
Alignment explanation
Indices: 5001109--5001468 Score: 453
Period size: 60 Copynumber: 5.9 Consensus size: 61
5001099 TTTTTTGTAG
* *
5001109 GGAAAATTGATATTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
5001168 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
* * * ** *
5001228 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TT-TTGAT-TTTCAA
* ** *
5001292 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT-GAAA-TT-TTGAT-TTTCAA
*
5001357 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAA-TTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTTGAAATTTTGATTTTC-AA
* * *
5001417 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTT
5001469 TTATTTTTTA
Statistics
Matches: 277, Mismatches: 15, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
59 48 0.17
60 97 0.35
61 11 0.04
62 4 0.01
63 4 0.01
64 45 0.16
65 59 0.21
66 9 0.03
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (61 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
Found at i:5001424 original size:189 final size:184
Alignment explanation
Indices: 5001097--5001490 Score: 528
Period size: 189 Copynumber: 2.1 Consensus size: 184
5001087 AAAGAATGAT
* *
5001097 TTTTTTTTGTAGGGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGAT
1 TTTTTTTT-TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGAT
5001162 TTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCA
65 TTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCA
*
5001227 AAGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-CTTTTTTTGGAA-ATTTA
130 AAGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAATATTTA
*
5001280 TTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTA
1 TTTTT-TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAA-TT-
** * *
5001345 TTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAA-TTT
60 TTGAT-TTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAATTTT
* * *
5001409 -A-TTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAATTTTTTA
122 GATTTTC-AAAGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAA-TATTTA
*
5001472 TTTTTTATTTAAAGAAAAT
1 TTTTTT-TTTAAGGAAAAT
5001491 AAAATAATAA
Statistics
Matches: 185, Mismatches: 12, Indels: 19
0.86 0.06 0.09
Matches are distributed among these distances:
183 40 0.22
184 3 0.02
186 11 0.06
187 2 0.01
188 7 0.04
189 75 0.41
190 14 0.08
191 13 0.07
192 20 0.11
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (184 bp):
TTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATT
TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAATATTTA
Found at i:5001513 original size:125 final size:124
Alignment explanation
Indices: 5001289--5001514 Score: 269
Period size: 125 Copynumber: 1.8 Consensus size: 124
5001279 ATTTTTCTTT
*
5001289 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAAATTTATTTTTCTTT
* ** * **** ***
5001354 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTC
66 TAAAGAAAATAAATAC-ATCAAAAAATAAATAAAAATATTTTTTTTTTGAAATTTATTTC
*
5001414 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAATTTTTTATTTTT-T
1 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA--ATTTATTTTTCT
5001478 ATTTAAAGAAAATAAAATA-AT-AAAAAATAAATAAAAA
64 -TTTAAAGAAAAT-AAATACATCAAAAAATAAATAAAAA
5001515 GAATATTACA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
125 59 0.70
126 2 0.02
127 20 0.24
128 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (124 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAAATTTATTTTTCTTT
TAAAGAAAATAAATACATCAAAAAATAAATAAAAATATTTTTTTTTTGAAATTTATTTC
Found at i:5002588 original size:63 final size:64
Alignment explanation
Indices: 5002479--5002656 Score: 156
Period size: 65 Copynumber: 2.7 Consensus size: 64
5002469 TTCATTGGAT
* *
5002479 AAAAT-AAT-AAAAAAATATATCAGATATATA-ATTAGATAAGTAAAAATACA-A-AAATGAATA
1 AAAATAAATAAAAAAAATATAT-ATATATATACA-TAAATAA-T-AAAATACACATAAAT-AATA
5002539 A-AA
61 ACAA
*
5002542 TAAAA-AAGATAAAAAAAATATATATATATATACATAAATAATAAAATACACATAAATATTAACA
1 -AAAATAA-ATAAAAAAAATATATATATATATACATAAATAATAAAATACACATAAATAATAACA
5002606 A
64 A
* *
5002607 AAAATAAATAAATAAATATATACATATATTAATACAT-AATAATAATAATA
1 AAAATAAATAAA-AAAAATATATATATA-T-ATACATAAATAATAA-AATA
5002657 AATAATACAA
Statistics
Matches: 97, Mismatches: 5, Indels: 21
0.79 0.04 0.17
Matches are distributed among these distances:
63 8 0.08
64 20 0.21
65 37 0.38
66 22 0.23
67 10 0.10
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (64 bp):
AAAATAAATAAAAAAAATATATATATATATACATAAATAATAAAATACACATAAATAATAACAA
Found at i:5006734 original size:37 final size:38
Alignment explanation
Indices: 5006657--5006734 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
5006647 ATTAAATATT
* * *
5006657 TAAATTATTAATATATAATTTTATTTTGCTTCTATAGC
1 TAAATTATTAATATATAATCTTATTTTACTTCTACAGC
*
5006695 TAAATTA-TAAGTATATAA-CTTATTTTACTTCTACGGC
1 TAAATTATTAA-TATATAATCTTATTTTACTTCTACAGC
5006732 TAA
1 TAA
5006735 GTGTGGGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (38 bp):
TAAATTATTAATATATAATCTTATTTTACTTCTACAGC
Found at i:5015080 original size:14 final size:14
Alignment explanation
Indices: 5015058--5015098 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
5015048 AAATCCCTAA
*
5015058 TCCCTCTCTCCCTC
1 TCCCTCTCTCCCCC
*
5015072 TCCCACTCTCCCCC
1 TCCCTCTCTCCCCC
5015086 TCCCTCTCTCCCC
1 TCCCTCTCTCCCC
5015099 ACCGTGTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.02, C:0.68, G:0.00, T:0.29
Consensus pattern (14 bp):
TCCCTCTCTCCCCC
Found at i:5018868 original size:20 final size:21
Alignment explanation
Indices: 5018837--5018893 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
5018827 TTTTATTGAC
5018837 TTATTT-TTATTTATTTTT-G
1 TTATTTATTATTTATTTTTGG
5018856 TTATTTATTATTTATTTTTGG
1 TTATTTATTATTTATTTTTGG
5018877 TTGA-TTATTCATTTATT
1 TT-ATTTATT-ATTTATT
5018894 GTTTATCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.18
20 12 0.35
21 8 0.24
22 8 0.24
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (21 bp):
TTATTTATTATTTATTTTTGG
Found at i:5018925 original size:19 final size:18
Alignment explanation
Indices: 5018887--5018927 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
5018877 TTGATTATTC
*
5018887 ATTTATTGTTTATCTTTG
1 ATTTATTGTTTATATTTG
*
5018905 ATTTATTGTTTTTTATTTG
1 ATTTATTG-TTTATATTTG
5018924 ATTT
1 ATTT
5018928 TATCTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (18 bp):
ATTTATTGTTTATATTTG
Found at i:5019298 original size:18 final size:19
Alignment explanation
Indices: 5019275--5019311 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5019265 TTTGGAAAAT
5019275 TTCTAG-AAAATTTTCAGA
1 TTCTAGAAAAATTTTCAGA
5019293 TTCTAGCAAAAATTTTCAG
1 TTCTAG-AAAAATTTTCAG
5019312 TGAAACTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TTCTAGAAAAATTTTCAGA
Found at i:5020041 original size:26 final size:28
Alignment explanation
Indices: 5020012--5020080 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 28
5020002 CTAATTACCC
5020012 AATGATGAAATTCT-TAAAAAAT-TTCA
1 AATGATGAAATTCTCTAAAAAATCTTCA
* * *
5020038 AATGAT-AAATTTTCTAAGAAATCTTTA
1 AATGATGAAATTCTCTAAAAAATCTTCA
5020065 AATGA-GAAATTTCTCT
1 AATGATGAAA-TTCTCT
5020081 GAATTTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.17
26 13 0.37
27 11 0.31
28 5 0.14
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (28 bp):
AATGATGAAATTCTCTAAAAAATCTTCA
Found at i:5020052 original size:27 final size:27
Alignment explanation
Indices: 5020012--5020076 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
5020002 CTAATTACCC
*
5020012 AATGATGAAATTCT-TAAAAAAT-TTCA
1 AATGA-GAAATTTTCTAAAAAATCTTCA
* * *
5020038 AATGATAAATTTTCTAAGAAATCTTTA
1 AATGAGAAATTTTCTAAAAAATCTTCA
5020065 AATGAGAAATTT
1 AATGAGAAATTT
5020077 CTCTGAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 6 0.19
26 12 0.38
27 14 0.44
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (27 bp):
AATGAGAAATTTTCTAAAAAATCTTCA
Found at i:5024005 original size:3 final size:3
Alignment explanation
Indices: 5023997--5024035 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
5023987 TAAAATGATA
5023997 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5024036 TTCATCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5024023 original size:17 final size:17
Alignment explanation
Indices: 5024001--5024036 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5023991 ATGATAAATA
5024001 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
5024018 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
5024035 AT
1 AT
5024037 TCATCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:5024023 original size:20 final size:19
Alignment explanation
Indices: 5023994--5024035 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
5023984 ATTTAAAATG
5023994 ATAAATAATAATAATAATA
1 ATAAATAATAATAATAATA
5024013 ATAATATAATAATAATAATA
1 ATAA-ATAATAATAATAATA
5024033 ATA
1 ATA
5024036 TTCATCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAATAATAATA
Found at i:5024043 original size:3 final size:3
Alignment explanation
Indices: 5024037--5024089 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5024027 ATAATAATAT
5024037 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
5024085 TCA TC
1 TCA TC
5024090 TTACGTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:5030600 original size:22 final size:23
Alignment explanation
Indices: 5030564--5030606 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5030554 TTGAACTTGT
*
5030564 TATAATAAATAATAATTTAAAAA
1 TATAATAAATAATAATATAAAAA
*
5030587 TATAA-AAATTATAATATAAA
1 TATAATAAATAATAATATAAA
5030607 GTTATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TATAATAAATAATAATATAAAAA
Found at i:5032339 original size:2 final size:2
Alignment explanation
Indices: 5032332--5032365 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5032322 TTGCTCCAAC
5032332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5032366 GGGTTAGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5037672 original size:32 final size:32
Alignment explanation
Indices: 5037631--5037695 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
5037621 CATTACTAGA
5037631 CATATAAATTCATTGGTTCAATGATTTAAGAT
1 CATATAAATTCATTGGTTCAATGATTTAAGAT
5037663 CATATAAATTCATTGGTTCAATGATTTAAGAT
1 CATATAAATTCATTGGTTCAATGATTTAAGAT
5037695 C
1 C
5037696 TATCATTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (32 bp):
CATATAAATTCATTGGTTCAATGATTTAAGAT
Found at i:5037910 original size:42 final size:42
Alignment explanation
Indices: 5037848--5037943 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
5037838 TTTCAAAATA
* * * *
5037848 TGATTAAG-TAACTTAATCAAAGAGAAGTCATGTTAAGTCAT
1 TGATTAAGTTAAGTTAATCAAACAGAAATCATATTAAGTCAT
*
5037889 TGATTAAGTTAAGTTAATCAAACAGAAATCATATTAAGTTAT
1 TGATTAAGTTAAGTTAATCAAACAGAAATCATATTAAGTCAT
* *
5037931 TGAATAACTTAAG
1 TGATTAAGTTAAG
5037944 GTTTGTTCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 8 0.17
42 39 0.83
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (42 bp):
TGATTAAGTTAAGTTAATCAAACAGAAATCATATTAAGTCAT
Found at i:5039896 original size:36 final size:35
Alignment explanation
Indices: 5039823--5039896 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
5039813 GAAAAAGTTT
*
5039823 AAATTAGAAAAACAATTTTCACCCAAAAATTTCTA
1 AAATTAGAAAAACAATTTTCACCAAAAAATTTCTA
* ** *
5039858 AAATTAGAAAAATAATTTATCATGAAAAAATTTTTA
1 AAATTAGAAAAACAATTT-TCACCAAAAAATTTCTA
5039894 AAA
1 AAA
5039897 ACCACCTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (35 bp):
AAATTAGAAAAACAATTTTCACCAAAAAATTTCTA
Found at i:5057309 original size:9 final size:9
Alignment explanation
Indices: 5057295--5057349 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
5057285 TACTTTGCTT
5057295 AAAAAAATA
1 AAAAAAATA
5057304 AAAAAAATA
1 AAAAAAATA
5057313 AAAACAAA-A
1 AAAA-AAATA
5057322 AAATAGAAA-A
1 AAA-A-AAATA
5057332 AAAGGAAAATA
1 AAA--AAAATA
5057343 AAAAAAA
1 AAAAAAA
5057350 AGACTCAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 21 0.52
10 14 0.35
11 5 0.12
ACGTcount: A:0.85, C:0.02, G:0.05, T:0.07
Consensus pattern (9 bp):
AAAAAAATA
Found at i:5057322 original size:24 final size:24
Alignment explanation
Indices: 5057295--5057348 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
5057285 TACTTTGCTT
*
5057295 AAAAAAATA-AAAAAAATAAAAAC
1 AAAAAAATAGAAAAAAAGAAAAAC
* *
5057318 AAAAAAATAGAAAAAAAGGAAAAT
1 AAAAAAATAGAAAAAAAGAAAAAC
5057342 AAAAAAA
1 AAAAAAA
5057349 AAGACTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.07
Consensus pattern (24 bp):
AAAAAAATAGAAAAAAAGAAAAAC
Found at i:5057348 original size:16 final size:15
Alignment explanation
Indices: 5057296--5057352 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
5057286 ACTTTGCTTA
*
5057296 AAAAAATAAAAAAAAT
1 AAAAAA-AAAGAAAAT
*
5057312 AAAAACAAA-AAAAT
1 AAAAAAAAAGAAAAT
*
5057326 AGAAAAAAAGGAAAAT
1 A-AAAAAAAAGAAAAT
5057342 AAAAAAAAAGA
1 AAAAAAAAAGA
5057353 CTCAAGTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.17
15 18 0.51
16 11 0.31
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAGAAAAT
Found at i:5058527 original size:41 final size:41
Alignment explanation
Indices: 5058461--5058720 Score: 286
Period size: 41 Copynumber: 6.2 Consensus size: 41
5058451 GAGGAGCAAA
* * **
5058461 TAGATGAGCCTTTTACTTTTCAAAGTTGTTGAGCCTCTATT
1 TAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTATT
*
5058502 TAGAGGAGACTTTTATTTTTCAAAGTCATTGAGCCTCTATT
1 TAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTATT
* * * *
5058543 TAGAAGAGCCTTTTATTTCTCAAAGTCATTGAGCCTTTGTT
1 TAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTATT
* * *
5058584 CAGAGGAGCCTTTTGTTTTTCAAAGTCATTGAACCTCTATT
1 TAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTATT
*
5058625 TAAAGGAGCCTTAGTTTATTTTTCAAAAGTCATTGAGCCTCTATT
1 TAGAGGAGCC-T--TTTATTTTTC-AAAGTCATTGAGCCTCTATT
** ** * *
5058670 TAGAATAGCCTAATTTTATTTTTCAAAGTTGTTAAGCCTTTATT
1 TAGAGGAGCC---TTTTATTTTTCAAAGTCATTGAGCCTCTATT
5058714 TAGAGGA
1 TAGAGGA
5058721 AGTCTGAGTA
Statistics
Matches: 182, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
41 114 0.63
42 1 0.01
44 30 0.16
45 36 0.20
47 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (41 bp):
TAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTATT
Done.