Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 114 of 189
Found at i:31918102 original size:101 final size:101
Alignment explanation
Indices: 31917922--31918106 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
31917912 GTTTGGTTCA
* * **
31917922 CATAGTAGCTTGCACATAGTACTACACATGTGACCATTATCATTCGATACACGTAGTATTCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATTCGATACACGTAGTAGCCTGCA
31917987 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* * *
31918024 CATAGTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATT-CGATACACGTAGTAGCCTGCA
31918088 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31918107 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 7 0.09
101 36 0.48
102 32 0.43
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:31925294 original size:20 final size:20
Alignment explanation
Indices: 31925242--31925282 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31925232 TTAAATGATG
31925242 AATTTGAAGTATTAGTTGTT
1 AATTTGAAGTATTAGTTGTT
31925262 AATTTGAAGTATTAGTTGTT
1 AATTTGAAGTATTAGTTGTT
31925282 A
1 A
31925283 TTTATAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (20 bp):
AATTTGAAGTATTAGTTGTT
Found at i:31936753 original size:77 final size:77
Alignment explanation
Indices: 31936626--31936780 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
31936616 GGTAGGTTAA
31936626 TATTGAATTTGTATAAGCTTACTAAGTATTCTTAATACTTACGCCTAGGTTGCTTTTATCTTGTA
1 TATTGAATTTGTATAAGCTTACTAAGTATTCTTAATACTTACGCCTAGGTTGCTTTTATCTTGTA
31936691 GATTTTGAACGT
66 GATTTTGAACGT
*
31936703 TATTGAATTTGTATAAGCTTACTAAGTATTCTTAATACTTATGCCTAGGTTGCTTTTATCTTGTA
1 TATTGAATTTGTATAAGCTTACTAAGTATTCTTAATACTTACGCCTAGGTTGCTTTTATCTTGTA
31936768 GATTTTGAACGT
66 GATTTTGAACGT
31936780 T
1 T
31936781 CAGAACATGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (77 bp):
TATTGAATTTGTATAAGCTTACTAAGTATTCTTAATACTTACGCCTAGGTTGCTTTTATCTTGTA
GATTTTGAACGT
Found at i:31937288 original size:83 final size:83
Alignment explanation
Indices: 31937149--31937316 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
31937139 CCAATACGTA
*
31937149 GTTGGACTACCTTCAGGATCAGTCTGCCACATATTAGTCTACGACATGGTCCACCATGTATGTGT
1 GTTGGACTACCTTCAGAATCAGTCTGCCACATATTAGTCTACGACATGGTCCACCATGTATGTGT
31937214 CAAGTATGTGTAAGTTAT
66 CAAGTATGTGTAAGTTAT
31937232 GTTGGACTACCTTCAGAATCAGTCTGCCACATATTAGTCTACGACATGGTCCACCATGTATGTGT
1 GTTGGACTACCTTCAGAATCAGTCTGCCACATATTAGTCTACGACATGGTCCACCATGTATGTGT
31937297 CAAGTATGTGTAAGTTAT
66 CAAGTATGTGTAAGTTAT
31937315 GT
1 GT
31937317 GAGCCTCGTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (83 bp):
GTTGGACTACCTTCAGAATCAGTCTGCCACATATTAGTCTACGACATGGTCCACCATGTATGTGT
CAAGTATGTGTAAGTTAT
Found at i:31938338 original size:19 final size:19
Alignment explanation
Indices: 31938314--31938351 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31938304 ATAATAATAT
31938314 TAAAATAGAATTCTCAAAC
1 TAAAATAGAATTCTCAAAC
31938333 TAAAATAGAATTCTCAAAC
1 TAAAATAGAATTCTCAAAC
31938352 AACTCATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAATAGAATTCTCAAAC
Found at i:31940006 original size:21 final size:19
Alignment explanation
Indices: 31939968--31940006 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
31939958 ATTAAATTAC
*
31939968 TTTTTAATTATTTCTTAAA
1 TTTTTAAATATTTCTTAAA
31939987 TTTTTATAATATTTCGTTAA
1 TTTTTA-AATATTTC-TTAA
31940007 TAATATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTAAATATTTCTTAAA
Found at i:31940213 original size:17 final size:16
Alignment explanation
Indices: 31940179--31940225 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
31940169 GAAAATTATT
31940179 TTTAAAAA-ATTTAAA
1 TTTAAAAATATTTAAA
*
31940194 TTTAAAAATATTATATA
1 TTTAAAAATATT-TAAA
31940211 TTTACAAACATATTT
1 TTTA-AAA-ATATTT
31940226 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.30
16 3 0.11
17 7 0.26
18 4 0.15
19 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAAATATTTAAA
Found at i:31946773 original size:21 final size:21
Alignment explanation
Indices: 31946749--31946790 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31946739 AGTACATACT
31946749 TATTACTTAAAAGTCTAGCTA
1 TATTACTTAAAAGTCTAGCTA
31946770 TATTACTTAAAAGTCTAGCTA
1 TATTACTTAAAAGTCTAGCTA
31946791 CAGTAGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TATTACTTAAAAGTCTAGCTA
Found at i:31948419 original size:25 final size:25
Alignment explanation
Indices: 31948373--31948445 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
31948363 ATTTAATTTT
*
31948373 TCTAAAACATAGACACAA-TTAAAGTG
1 TCTAAACCA-AGAC-CAATTTAAAGTG
* * **
31948399 TCTGAACCAAGACTAATTTAATTTG
1 TCTAAACCAAGACCAATTTAAAGTG
*
31948424 TCTAAACTAAGACCAATTTAAA
1 TCTAAACCAAGACCAATTTAAA
31948446 TCACATAACA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 2 0.05
25 28 0.76
26 7 0.19
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (25 bp):
TCTAAACCAAGACCAATTTAAAGTG
Found at i:31952827 original size:24 final size:24
Alignment explanation
Indices: 31952793--31952844 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
31952783 TTTCTAGAAG
*
31952793 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATTTATTAGTATAATAT
31952817 ATTTAACATTTATTAGTATAATAT
1 ATTTAACATTTATTAGTATAATAT
31952841 ATTT
1 ATTT
31952845 GACACTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAGTATAATAT
Found at i:31952855 original size:24 final size:24
Alignment explanation
Indices: 31952804--31952856 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
31952794 TTTAATATTT
* *
31952804 ATTAGTATAATATATTTAACATTT
1 ATTAGTATAATATATTTAACACTG
*
31952828 ATTAGTATAATATATTTGACACTG
1 ATTAGTATAATATATTTAACACTG
31952852 ATTAG
1 ATTAG
31952857 AATTAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (24 bp):
ATTAGTATAATATATTTAACACTG
Found at i:31957233 original size:24 final size:24
Alignment explanation
Indices: 31957206--31957259 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
31957196 ATTTAGTATA
*
31957206 TATTAGTATAATATATTTAACATT
1 TATTAGCATAATATATTTAACATT
31957230 TATTAGCATAATATATTTAACATT
1 TATTAGCATAATATATTTAACATT
*
31957254 GATTAG
1 TATTAG
31957260 AATTAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (24 bp):
TATTAGCATAATATATTTAACATT
Found at i:31957497 original size:27 final size:29
Alignment explanation
Indices: 31957464--31957524 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
31957454 GCCACTTAAT
31957464 ATATAATATAGATTTTACAT-T-TATATA
1 ATATAATATAGATTTTACATATCTATATA
**
31957491 ATATAATATATTTTTTACATATCCTATATA
1 ATATAATATAGATTTTACATAT-CTATATA
31957521 ATAT
1 ATAT
31957525 CTATACAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 18 0.62
28 1 0.03
30 10 0.34
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (29 bp):
ATATAATATAGATTTTACATATCTATATA
Found at i:31962109 original size:21 final size:21
Alignment explanation
Indices: 31962083--31962122 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
31962073 CCAGCCTAGA
31962083 CCGAATCTTGAGGAGTTATGG
1 CCGAATCTTGAGGAGTTATGG
31962104 CCGAATCTTGAGGAGTTAT
1 CCGAATCTTGAGGAGTTAT
31962123 AAAATCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
CCGAATCTTGAGGAGTTATGG
Found at i:31962753 original size:202 final size:200
Alignment explanation
Indices: 31962365--31962761 Score: 668
Period size: 202 Copynumber: 2.0 Consensus size: 200
31962355 AAGTATATCA
*
31962365 AAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACTGTCTAAAAAGT
1 AAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAGT
* * *
31962430 CCATATTAAACAATAAGACTTAAAAACCATCTTATTATTGAGAATCCAACTCGAGCTTCCACACG
66 CCATATTAAACAATAAGACTTAAAAACCATCTTATTACTAAGAATCCAACTCGAGCTTCCACACA
* * ** * *
31962495 CTGTCCGATCCTAAGTTTGTTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAGCTCA
131 CCGTCCAATCCTAAGTTTACTAATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAACTCA
31962560 TTAAT
196 TTAAT
*
31962565 AAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACAGTTTAAAAAGT
1 AAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAGT
*
31962630 CCATATTAAACAATAAGACTATTAAAAACCATTTTATTACTAAGAATCCAACTCGAGCTTCCACA
66 CCATATTAAACAATAAGAC--TTAAAAACCATCTTATTACTAAGAATCCAACTCGAGCTTCCACA
31962695 CACCGTCCAATCCTAAGTTTACTAATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAACT
129 CACCGTCCAATCCTAAGTTTACTAATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAACT
31962760 CA
194 CA
31962762 GTGTGCAACT
Statistics
Matches: 183, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
200 82 0.45
202 101 0.55
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.24
Consensus pattern (200 bp):
AAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAGT
CCATATTAAACAATAAGACTTAAAAACCATCTTATTACTAAGAATCCAACTCGAGCTTCCACACA
CCGTCCAATCCTAAGTTTACTAATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAACTCA
TTAAT
Found at i:31965580 original size:217 final size:217
Alignment explanation
Indices: 31965205--31965635 Score: 817
Period size: 217 Copynumber: 2.0 Consensus size: 217
31965195 CCACACAAGG
*
31965205 GTCTCTCATATAAAGGTGCGCATTGAGTCTCCGTATCATTTAATTTCCTTTCCTAGCTTAGTCAA
1 GTCTCTCATATAAAGGTGAGCATTGAGTCTCCGTATCATTTAATTTCCTTTCCTAGCTTAGTCAA
* *
31965270 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATATGCAATCCCGTATATGGCCATTCGAACC
66 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATAAGCAATCCCGTATATGGCCATCCGAACC
31965335 TCTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
131 TCTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
31965400 ACACAACATATAATATGTCGAT
196 ACACAACATATAATATGTCGAT
*
31965422 GTCTCTCATATAAAGGTGAGCATTGAGTCTCCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
1 GTCTCTCATATAAAGGTGAGCATTGAGTCTCCGTATCATTTAATTTCCTTTCCTAGCTTAGTCAA
31965487 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATAAGCAATCCCGTATATGGCCATCCGAACC
66 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATAAGCAATCCCGTATATGGCCATCCGAACC
*
31965552 TCTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATT
131 TCTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
31965617 ACACAACATATAATATGTC
196 ACACAACATATAATATGTC
31965636 AATTATACCA
Statistics
Matches: 209, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 209 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (217 bp):
GTCTCTCATATAAAGGTGAGCATTGAGTCTCCGTATCATTTAATTTCCTTTCCTAGCTTAGTCAA
CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATAAGCAATCCCGTATATGGCCATCCGAACC
TCTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
ACACAACATATAATATGTCGAT
Found at i:31970570 original size:21 final size:23
Alignment explanation
Indices: 31970546--31970590 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31970536 AAACAAAAAC
*
31970546 AAAA-ATCAGAAAAGAAA-AAGA
1 AAAACATCAAAAAAGAAAGAAGA
31970567 AAAAGCATCAAAAAAGAAAGAAGA
1 AAAA-CATCAAAAAAGAAAGAAGA
31970591 TAAGGGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAACATCAAAAAAGAAAGAAGA
Found at i:31979620 original size:15 final size:14
Alignment explanation
Indices: 31979596--31979636 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
31979586 CTATTTTACA
31979596 AAGAGAAAAAGAAG
1 AAGAGAAAAAGAAG
31979610 AAGAGGAAAAAGAAG
1 AAGA-GAAAAAGAAG
*
31979625 AA-AAAAAAAGAA
1 AAGAGAAAAAGAA
31979637 CTTGCTACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAGAAG
Found at i:31980517 original size:22 final size:21
Alignment explanation
Indices: 31980492--31980534 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
31980482 TACAATCCAA
*
31980492 AACCGAATAATAGTAATAAAAT
1 AACCGAAAAATA-TAATAAAAT
* *
31980514 AACCTAAAAATATAATTAAAT
1 AACCGAAAAATATAATAAAAT
31980535 TAAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (21 bp):
AACCGAAAAATATAATAAAAT
Found at i:31981761 original size:14 final size:14
Alignment explanation
Indices: 31981744--31981773 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31981734 ATTCAACTAG
31981744 TTCGATTCCTTACT
1 TTCGATTCCTTACT
31981758 TTCGATTCCTTACT
1 TTCGATTCCTTACT
31981772 TT
1 TT
31981774 GTATCAATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.27, G:0.07, T:0.53
Consensus pattern (14 bp):
TTCGATTCCTTACT
Found at i:31990178 original size:3 final size:3
Alignment explanation
Indices: 31990170--31990197 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31990160 TTGATGCAAA
31990170 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
31990198 TGGTAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31990875 original size:22 final size:21
Alignment explanation
Indices: 31990850--31990890 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31990840 CTGTTAGTTC
*
31990850 TAAAATCATTTTTAGAGACTTG
1 TAAAATCATATTTAG-GACTTG
*
31990872 TAAACTCATATTTAGGACT
1 TAAAATCATATTTAGGACT
31990891 GTATGCATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
TAAAATCATATTTAGGACTTG
Found at i:31996492 original size:9 final size:9
Alignment explanation
Indices: 31996452--31996485 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
31996442 TTAAAATAAA
31996452 TTTATAATTT
1 TTTA-AATTT
31996462 TTTAGAATTT
1 TTTA-AATTT
31996472 TTTAAATTT
1 TTTAAATTT
31996481 TTTAA
1 TTTAA
31996486 TTCTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 10 0.43
10 13 0.57
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTAAATTT
Found at i:32005022 original size:29 final size:29
Alignment explanation
Indices: 32004989--32005052 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
32004979 AAATAATTTG
*
32004989 ATCTTTATCCAACCAATTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATCTTCA
**
32005018 ATCTTTATCCAGTCAACTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATCTTCA
32005047 ATCTTT
1 ATCTTT
32005053 CAATCTACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAACCAACTTCAAATCTTCA
Found at i:32005858 original size:14 final size:14
Alignment explanation
Indices: 32005823--32005849 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32005813 ATAACAAAAT
32005823 GAGTAAATGCTAGA
1 GAGTAAATGCTAGA
32005837 GAGTAAATGCTAG
1 GAGTAAATGCTAG
32005850 GGGCTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (14 bp):
GAGTAAATGCTAGA
Found at i:32009636 original size:3 final size:3
Alignment explanation
Indices: 32009623--32009682 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
32009613 AGTGTACAAG
* * *
32009623 AAT ACAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT GAT ATT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
32009669 GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
32009683 CAACATCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32017085 original size:30 final size:30
Alignment explanation
Indices: 32017049--32017113 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
32017039 CAATTGACCT
* *
32017049 ACTTGTGAAGGTTCGGGGCTAAGACACGAA
1 ACTTGTGAAGGTTCGGGGATAAGAAACGAA
32017079 ACTTGTGAAGGTTCGGGGATAAGAAACGAA
1 ACTTGTGAAGGTTCGGGGATAAGAAACGAA
*
32017109 TCTTG
1 ACTTG
32017114 GGCCAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (30 bp):
ACTTGTGAAGGTTCGGGGATAAGAAACGAA
Found at i:32018499 original size:3 final size:3
Alignment explanation
Indices: 32018486--32018550 Score: 53
Period size: 3 Copynumber: 21.0 Consensus size: 3
32018476 TTACTATTTA
*
32018486 ATT ATTT ATT ATT A-T ATT A-T ATT ATT ACTT GTT CATT ATT ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT A-TT
* *
32018533 GTT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT
32018551 GTAATTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 4 0.08
3 37 0.74
4 9 0.18
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:32018525 original size:17 final size:16
Alignment explanation
Indices: 32018505--32018545 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
32018495 TATTATATTA
32018505 TATTATTACTTGTTCAT
1 TATTATTACTTGTT-AT
*
32018522 TATTATTATTTGTTAT
1 TATTATTACTTGTTAT
32018538 TATTATTA
1 TATTATTA
32018546 ATATTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (16 bp):
TATTATTACTTGTTAT
Found at i:32018542 original size:19 final size:18
Alignment explanation
Indices: 32018486--32018550 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 18
32018476 TTACTATTTA
*
32018486 ATTATTTATTA-TTATATT
1 ATTA-TTATTATTTGTATT
* *
32018504 A-TATTATTACTTGT-TC
1 ATTATTATTATTTGTATT
32018520 ATTATTATTATTTGTTATT
1 ATTATTATTATTTG-TATT
*
32018539 ATTATTAATATT
1 ATTATTATTATT
32018551 GTAATTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.21
17 16 0.42
18 2 0.05
19 12 0.32
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTATTATTATTTGTATT
Found at i:32020900 original size:19 final size:20
Alignment explanation
Indices: 32020861--32020900 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
32020851 TCTTTAGGTA
* *
32020861 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
32020881 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
32020900 T
1 T
32020901 AGACACCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:32023655 original size:47 final size:46
Alignment explanation
Indices: 32023597--32023686 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 46
32023587 AAAAAGGTGG
* * *
32023597 GACCAAGGTGAAAGCTTACAAAGGGCA-CTTTGAGTCAAAAAAAAAGA
1 GACCAAGGTGAAACCCTACAAAGGG-AGCCTTGAGT-AAAAAAAAAGA
*
32023644 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAA
32023687 TGGAGAGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 9 0.24
47 29 0.76
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (46 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAGA
Found at i:32025124 original size:44 final size:44
Alignment explanation
Indices: 32025068--32025216 Score: 172
Period size: 44 Copynumber: 3.4 Consensus size: 44
32025058 CGAAGGAAAA
32025068 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGAT
1 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGAT
*** * * * *
32025112 AACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAA
1 AACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATTAAAGAT
* * * *
32025157 AATAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAATAT
1 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGAT
* *
32025201 AGCAGATCTTGCCTTC
1 AACAGATCTTGTCTTC
32025217 CTACATAGAC
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 47 0.57
45 36 0.43
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGAT
Found at i:32025164 original size:45 final size:45
Alignment explanation
Indices: 32024982--32025172 Score: 170
Period size: 44 Copynumber: 4.2 Consensus size: 45
32024972 AAGCAGCAGG
* * * * * *
32024982 TCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAA-TATACAGA
1 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGA
* * *
32025026 TCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAACAGA
1 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA-G--AAAACAGA
*** * * ** *
32025074 TCTTGTCTTCATGTACTGG-CGTGAAGTAGATTAAAGATAACAGA
1 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGA
* *
32025118 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAATAGA
1 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGA
32025163 TCTTGTCTTC
1 TCTTGTCTTC
32025173 ATGTACTGGC
Statistics
Matches: 114, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
44 52 0.46
45 30 0.26
46 1 0.01
47 11 0.10
48 20 0.18
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGA
Found at i:32025180 original size:45 final size:45
Alignment explanation
Indices: 32025039--32025181 Score: 162
Period size: 45 Copynumber: 3.1 Consensus size: 45
32025029 CGCCTTCCCA
* *
32025039 TACTGGTGGCGAAGCAGATCGAAGGAAAAAACAGATCTTGTCTTCATG
1 TACTGGTGGCGAAGTAGATTGAA-G--AAAACAGATCTTGTCTTCATG
* * * * ***
32025087 TACTGG-CGTGAAGTAGATTAAAGATAACAGATCTTGTCTTCCCA
1 TACTGGTGGCGAAGTAGATTGAAGAAAACAGATCTTGTCTTCATG
*
32025131 TACTGGTGGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTCATG
1 TACTGGTGGCGAAGTAGATTGAAGAAAACAGATCTTGTCTTCATG
32025176 TACTGG
1 TACTGG
32025182 CGTAAAGTAG
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
44 23 0.30
45 36 0.47
46 1 0.01
47 11 0.14
48 6 0.08
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (45 bp):
TACTGGTGGCGAAGTAGATTGAAGAAAACAGATCTTGTCTTCATG
Found at i:32025190 original size:89 final size:89
Alignment explanation
Indices: 32025021--32025822 Score: 724
Period size: 89 Copynumber: 9.0 Consensus size: 89
32025011 GATCGAATAT
* * *
32025021 ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAACAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA-G--AAAACAGATCTTGTCTTCAT
* *
32025086 GTACTGGCGTGAAGTAGATTAAAGATA
63 GTATTGGCGTGAAGTAGATCAAAGATA
* *
32025113 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* * *
32025178 CTGGCGTAAAGTAGATCAAATATA
66 TTGGCGTGAAGTAGATCAAAGATA
* * *** * *** * * *
32025202 GCAGATCTTGCCTT-CC-TACATAGACAGCGAAGCAGATCGAAGATGGCTGAT-TT-TACCTCCT
1 ACAGATCTTGTCTTCCCATAC-T-GGTGGCGAAGTAGATCGAAGAAAACAGATCTTGT-CTTCAT
* * * * * **
32025263 CGTGGTT-ACAATGGAGTACATTGAAG---
63 -GT-ATTGGC-GTGAAGTAGATCAAAGATA
* * * * * * * ***
32025289 CCAG-TATT-TCTATCTCCTTGGGCAGCAGT-G-GAA-TAGATTGTAGATTTCAGATCTTGTCTT
1 ACAGATCTTGTCT-TC-CCAT--ACTG--GTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTT
*
32025349 CATGTACTGGCGTGAAGTAGATCAAAGAT-
60 CATGTATTGGCGTGAAGTAGATCAAAGATA
32025378 ACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGT
1 AC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGT
*
32025443 ATTGGCGTGAAGTAGATCAAAAATA
65 ATTGGCGTGAAGTAGATCAAAGATA
* * * * * *
32025468 GCAGATCTTGTCTCCCCATACTGGTGGTGGAA-TAGATCAAAGAAAGCAGATCTTGTCTTCATAT
1 ACAGATCTTGTCTTCCCATACTGGTGG-CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGT
32025532 ATTGGCGTGAAGTAGATCAAAGATA
65 ATTGGCGTGAAGTAGATCAAAGATA
* * * *
32025557 ACAGATCTTGTC-TCCCAATACTGGTGGTGGAA-TAGATCAAAGAAAGCAGATCTTGTCTTCATA
1 ACAGATCTTGTCTTCCC-ATACTGGTGG-CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATG
32025620 TATTGGCGTGAAGTAGATCAAAG-TCA
64 TATTGGCGTGAAGTAGATCAAAGAT-A
* * * * *
32025646 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATTTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
*
32025711 TTGGCGTGAAGTAAATCAAA-AGTCA
66 TTGGCGTGAAGTAGATCAAAGA-T-A
* * **
32025736 ACAGATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAAATGGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
32025801 TTGGCGTGAAGTAGATCAAAGA
66 TTGGCGTGAAGTAGATCAAAGA
32025823 GGAAAGCTGA
Statistics
Matches: 587, Mismatches: 89, Indels: 69
0.79 0.12 0.09
Matches are distributed among these distances:
85 2 0.00
86 6 0.01
87 20 0.03
88 38 0.06
89 367 0.63
90 106 0.18
91 8 0.01
92 40 0.07
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAGATCAAAGATA
Found at i:32025430 original size:45 final size:44
Alignment explanation
Indices: 32025336--32025840 Score: 417
Period size: 45 Copynumber: 11.3 Consensus size: 44
32025326 TTGTAGATTT
** *
32025336 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG-ATA
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGAAAA
* * * *
32025379 CTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 C-AGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCAAAGAAAA
** * *
32025425 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAA-AATAG
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGAA-AA
* * * *
32025469 CAGATCTTGTCTCCCCATACTGGTGGTGGAA-TAGATCAAAGAAAG
1 CAGATCTTGTCTTCACATACTGG-CGT-GAAGTAGATCAAAGAAAA
* * *
32025514 CAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGAAAA
* * *
32025558 CAGATCTTGTC-TCCCAATACTGGTGGTGGAA-TAGATCAAAGAAAG
1 CAGATCTTGTCTTCAC-ATACTGG-CGT-GAAGTAGATCAAAGAAAA
* * **
32025603 CAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGTCAA
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGAAAA
* * * * * *
32025647 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCAAAGAAAA
* ** * * **
32025692 CAGATTTTGTCTTCATGTATTGGCGTGAAGTAAATCAAAAGTCAA
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATC-AAAGAAAA
* * * *
32025737 CAGATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCAAAGAAAA
** ** *
32025782 TGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAGGAAA
1 CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGA--AAA
*
32025828 GCTGATCTTGTCT
1 -CAGATCTTGTCT
32025841 CCCTATATTA
Statistics
Matches: 357, Mismatches: 86, Indels: 34
0.75 0.18 0.07
Matches are distributed among these distances:
43 11 0.03
44 139 0.39
45 171 0.48
46 26 0.07
47 10 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
CAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAAAGAAAA
Found at i:32027223 original size:3 final size:3
Alignment explanation
Indices: 32027210--32027274 Score: 53
Period size: 3 Copynumber: 21.0 Consensus size: 3
32027200 TTACTATTTA
*
32027210 ATT ATTT ATT ATT A-T ATT A-T ATT ATT ACTT GTT CATT ATT ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT A-TT
* *
32027257 GTT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT
32027275 GTAATTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 4 0.08
3 37 0.74
4 9 0.18
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:32027249 original size:17 final size:16
Alignment explanation
Indices: 32027229--32027269 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
32027219 TATTATATTA
32027229 TATTATTACTTGTTCAT
1 TATTATTACTTGTT-AT
*
32027246 TATTATTATTTGTTAT
1 TATTATTACTTGTTAT
32027262 TATTATTA
1 TATTATTA
32027270 ATATTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (16 bp):
TATTATTACTTGTTAT
Found at i:32027266 original size:19 final size:18
Alignment explanation
Indices: 32027210--32027274 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 18
32027200 TTACTATTTA
*
32027210 ATTATTTATTA-TTATATT
1 ATTA-TTATTATTTGTATT
* *
32027228 A-TATTATTACTTGT-TC
1 ATTATTATTATTTGTATT
32027244 ATTATTATTATTTGTTATT
1 ATTATTATTATTTG-TATT
*
32027263 ATTATTAATATT
1 ATTATTATTATT
32027275 GTAATTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.21
17 16 0.42
18 2 0.05
19 12 0.32
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTATTATTATTTGTATT
Found at i:32029522 original size:18 final size:19
Alignment explanation
Indices: 32029499--32029534 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32029489 TTTAAGTTCT
32029499 AAAT-AAAAATTTGACATA
1 AAATAAAAAATTTGACATA
32029517 AAATAAAAAATTTGACAT
1 AAATAAAAAATTTGACAT
32029535 TCATTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATAAAAAATTTGACATA
Found at i:32031867 original size:32 final size:32
Alignment explanation
Indices: 32031826--32031887 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
32031816 TTTGTGTACA
*
32031826 TAATTAAATAATTTTATTTTTAATTTTTTAGT
1 TAATTAAATAATTTTATTTTAAATTTTTTAGT
*
32031858 TAATTAAATATTTTTATTTTAAATTTTTTA
1 TAATTAAATAATTTTATTTTAAATTTTTTA
32031888 TTTACCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (32 bp):
TAATTAAATAATTTTATTTTAAATTTTTTAGT
Found at i:32031891 original size:13 final size:15
Alignment explanation
Indices: 32031829--32031890 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 15
32031819 GTGTACATAA
*
32031829 TTAAATAATTTTATT
1 TTAAATATTTTTATT
*
32031844 TTTAAT-TTTTTAGTT
1 TTAAATATTTTTA-TT
32031859 AATTAAATATTTTTATT
1 --TTAAATATTTTTATT
32031876 TTAAAT-TTTTTATT
1 TTAAATATTTTTATT
32031890 T
1 T
32031891 ACCTTGTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 14 0.35
15 13 0.32
17 7 0.17
18 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAAATATTTTTATT
Found at i:32033002 original size:17 final size:16
Alignment explanation
Indices: 32032965--32033002 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
32032955 CCAAAAAAAA
32032965 CTTTTTATTTAAAATT
1 CTTTTTATTTAAAATT
* *
32032981 CTTTTAATTTTAAATT
1 CTTTTTATTTAAAATT
32032997 CTTTTT
1 CTTTTT
32033003 TTCATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTTTATTTAAAATT
Found at i:32037011 original size:20 final size:19
Alignment explanation
Indices: 32036988--32037059 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
32036978 TATTCAACCT
32036988 AATATACAGTTATAA-AATTA
1 AATATA-AGTT-TAATAATTA
32037008 AATATAAGTTTAATAATTA
1 AATATAAGTTTAATAATTA
* *
32037027 TGCAATA-AATTTTAAAAAATTA
1 ---AATATAAGTTT-AATAATTA
32037049 AATATAAGTTT
1 AATATAAGTTT
32037060 GATTGAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 3 0.07
19 13 0.30
20 11 0.26
21 5 0.12
22 11 0.26
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (19 bp):
AATATAAGTTTAATAATTA
Found at i:32052133 original size:50 final size:50
Alignment explanation
Indices: 32052009--32052257 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
32051999 GATAATAACA
* * ** * *
32052009 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
32052060 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
32052110 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
32052160 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
32052215 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
32052258 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:32052187 original size:100 final size:104
Alignment explanation
Indices: 32052008--32052257 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
32051998 TGATAATAAC
**
32052008 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
32052073 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
32052110 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
32052173 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
32052215 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32052258 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:32052373 original size:13 final size:13
Alignment explanation
Indices: 32052352--32052383 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32052342 GCTTGGATCA
*
32052352 TCATCAAATAAAT
1 TCATAAAATAAAT
32052365 TCATAAAATAAAT
1 TCATAAAATAAAT
32052378 TCATAA
1 TCATAA
32052384 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:32052630 original size:30 final size:30
Alignment explanation
Indices: 32052595--32052652 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32052585 CCTCGACTCT
*
32052595 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
32052625 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
32052653 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:32059726 original size:50 final size:50
Alignment explanation
Indices: 32059602--32059850 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
32059592 GATAATAACA
* * ** * *
32059602 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
32059653 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
32059703 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
32059753 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
32059808 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
32059851 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:32059780 original size:100 final size:104
Alignment explanation
Indices: 32059601--32059850 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
32059591 TGATAATAAC
**
32059601 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
32059666 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
32059703 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
32059766 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
32059808 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32059851 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:32059966 original size:13 final size:13
Alignment explanation
Indices: 32059945--32059976 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32059935 GCTTGGATCA
*
32059945 TCATCAAATAAAT
1 TCATAAAATAAAT
32059958 TCATAAAATAAAT
1 TCATAAAATAAAT
32059971 TCATAA
1 TCATAA
32059977 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:32060223 original size:30 final size:30
Alignment explanation
Indices: 32060188--32060245 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32060178 CCTCGACTCT
*
32060188 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
32060218 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
32060246 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:32074214 original size:27 final size:28
Alignment explanation
Indices: 32074159--32074248 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
32074149 TAAATTTATC
* *
32074159 TCTAGTTTTAGGGATTTCTTGATG-TTTT
1 TCTA-TTTTATGGATTTCTTGAAGCTTTT
*
32074187 TCTTATTTT-TGGATTTCTTGAAACTTTT
1 TC-TATTTTATGGATTTCTTGAAGCTTTT
** *
32074215 TCTATTTTATGTTTTTCTTGAAGCTTTC
1 TCTATTTTATGGATTTCTTGAAGCTTTT
32074243 TCTATT
1 TCTATT
32074249 GTTTAGGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 17 0.33
28 33 0.63
29 2 0.04
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (28 bp):
TCTATTTTATGGATTTCTTGAAGCTTTT
Found at i:32084765 original size:21 final size:19
Alignment explanation
Indices: 32084726--32084765 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
32084716 GGATTGAACC
*
32084726 ATTTTAGATTATAGTCTTT
1 ATTTTAGATTAAAGTCTTT
32084745 ATTTTAAGATTAAAGGTCTTT
1 ATTTT-AGATTAAA-GTCTTT
32084766 TTAACATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 7 0.39
21 6 0.33
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (19 bp):
ATTTTAGATTAAAGTCTTT
Found at i:32095637 original size:32 final size:33
Alignment explanation
Indices: 32095601--32095664 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
32095591 TTAATTTAAG
32095601 ATTTTATTAAAAAG-ATTAAA-TAGAATTTTTTT
1 ATTTT-TTAAAAAGAATTAAAGTAGAATTTTTTT
* * *
32095633 ATTTTTTTAAGAGAATTAAAGTATAATTTTTT
1 ATTTTTTAAAAAGAATTAAAGTAGAATTTTTT
32095665 AACATATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.22
32 11 0.41
33 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (33 bp):
ATTTTTTAAAAAGAATTAAAGTAGAATTTTTTT
Found at i:32095989 original size:19 final size:19
Alignment explanation
Indices: 32095948--32095990 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32095938 TATATATTAT
**
32095948 TTTTTATTTTAAAATACTT
1 TTTTTATTTTAAAATACAA
32095967 TTTTTATTTTTAAAATA-AA
1 TTTTTA-TTTTAAAATACAA
32095986 TTTTT
1 TTTTT
32095991 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTATTTTAAAATACAA
Found at i:32095989 original size:20 final size:19
Alignment explanation
Indices: 32095946--32095990 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
32095936 AATATATATT
*
32095946 ATTTTTTATTTTAAAATAC
1 ATTTTTTATTTTAAAATAA
*
32095965 TTTTTTTATTTTTAAAATAA
1 ATTTTTTA-TTTTAAAATAA
32095985 ATTTTT
1 ATTTTT
32095991 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTATTTTAAAATAA
Found at i:32100314 original size:14 final size:14
Alignment explanation
Indices: 32100295--32100322 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32100285 TAAAGTTATA
32100295 TTTAATAATTCATT
1 TTTAATAATTCATT
32100309 TTTAATAATTCATT
1 TTTAATAATTCATT
32100323 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:32104633 original size:13 final size:13
Alignment explanation
Indices: 32104615--32104657 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
32104605 CCAAAACAGG
32104615 TTTTTAGCGGCGC
1 TTTTTAGCGGCGC
32104628 TTTTTA--GGC-C
1 TTTTTAGCGGCGC
32104638 --TTTAGCGGCGC
1 TTTTTAGCGGCGC
32104649 TTTTTAGCG
1 TTTTTAGCG
32104658 CCACCAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
8 4 0.16
10 4 0.16
11 4 0.16
13 13 0.52
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (13 bp):
TTTTTAGCGGCGC
Found at i:32104757 original size:42 final size:42
Alignment explanation
Indices: 32104711--32104824 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
32104701 TAACATTTAT
32104711 AAACGCCGCTAAAGGTCATGTTCTTTAGCGCTACAACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGCTACAACCATAA
* * * * **
32104753 AAACGCCGCTAAAGGTCAAGTTCATTAGCGGTGCTTCCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGCTACAACCATAA
* * ** *
32104795 AAATGTCGCTAAAGAACATGATCTTTAGCG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCG
32104825 GCGCTTTCCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGCTACAACCATAA
Found at i:32104892 original size:43 final size:42
Alignment explanation
Indices: 32104761--32104941 Score: 159
Period size: 43 Copynumber: 4.3 Consensus size: 42
32104751 AAAAACGCCG
* * * * * * *
32104761 CTAAAGGTCAAGTTCATTAGCGGTGC-TTCCATAAAAATGTCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-CACAAATGCCC
** * *
32104803 CTAAAGAACATGATCTTTAGCGGCGCTTTCCCACAAATGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCACAAATGCCC
**
32104845 CTAAAGGTCATGTTCTTTAGCGGTTCTTTTCCCGA-AAATGCCC
1 CTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCC-ACAAATGCCC
* * *
32104888 CTAAAGGTCATGTTCTTTAGCGGCGATTTTCCCACAAACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCG-CTTTCCCACAAATGCCC
*
32104931 CTAAATGTCAT
1 CTAAAGGTCAT
32104942 AACTTTTAGC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
42 50 0.44
43 62 0.55
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCACAAATGCCC
Found at i:32104910 original size:85 final size:85
Alignment explanation
Indices: 32104753--32104941 Score: 229
Period size: 84 Copynumber: 2.2 Consensus size: 85
32104743 ACAACCATAA
* * * *
32104753 AAACGCCGCTAAAGGTCAAGTTCATTAGCGGTGCTTCCATAAAAATGTCGCTAAAGAACATGATC
1 AAACGCCGCTAAAGGTCATGTTCATTAGCGGTGCTTCCACAAAAATGCCCCTAAAGAACATGATC
32104818 TTTAGCGGCG-CTTTCCCAC
66 TTTAGCGGCGACTTTCCCAC
* * * * ** *
32104837 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGTTCTTTTCC-CGAAAATGCCCCTAAAGGTCATGT
1 AAACGCCGCTAAAGGTCATGTTCATTAGCGGTGC--TTCCACAAAAATGCCCCTAAAGAACATGA
*
32104901 TCTTTAGCGGCGATTTTCCCAC
64 TCTTTAGCGGCGACTTTCCCAC
*
32104923 AAACGCCGCTAAATGTCAT
1 AAACGCCGCTAAAGGTCAT
32104942 AACTTTTAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 30 0.34
85 29 0.33
86 29 0.33
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (85 bp):
AAACGCCGCTAAAGGTCATGTTCATTAGCGGTGCTTCCACAAAAATGCCCCTAAAGAACATGATC
TTTAGCGGCGACTTTCCCAC
Found at i:32104950 original size:86 final size:85
Alignment explanation
Indices: 32104793--32104972 Score: 209
Period size: 86 Copynumber: 2.1 Consensus size: 85
32104783 GTGCTTCCAT
* * ** * **
32104793 AAAAATGTCGCTAAAGAACATGATCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAGGTCATGT
1 AAAAATGCCCCTAAAGGTCATGATCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGGTCATAC
**
32104858 TCTTTAGCGGTTCTTTTCCC
66 TCTTTAGCGGCACTTTTCCC
* * * *
32104878 GAAAATGCCCCTAAAGGTCATGTTCTTTAGCGGCGATTTTCCCACAAACGCCGCTAAATGTCATA
1 AAAAATGCCCCTAAAGGTCATGATCTTTAGCGGCG-CTTTCCCACAAACGCCGCTAAAGGTCAT-
*
32104943 ACT-TTTAGCGGCACTTTTTCC
64 ACTCTTTAGCGGCACTTTTCCC
32104964 AAAAATGCC
1 AAAAATGCC
32104973 GCTATTGTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
85 29 0.37
86 48 0.62
87 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (85 bp):
AAAAATGCCCCTAAAGGTCATGATCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGGTCATAC
TCTTTAGCGGCACTTTTCCC
Found at i:32105348 original size:21 final size:21
Alignment explanation
Indices: 32105324--32105373 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
32105314 TTCTGCTTTG
*
32105324 CTCTGCTTCCCTTACTGCCGC
1 CTCTGCTTCCCTCACTGCCGC
*
32105345 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCACTGCCGC
*
32105366 TTCTGCTT
1 CTCTGCTT
32105374 TAAGTTGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.46, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCCGC
Found at i:32110854 original size:9 final size:9
Alignment explanation
Indices: 32110837--32111213 Score: 199
Period size: 9 Copynumber: 43.4 Consensus size: 9
32110827 TATGTATTAA
*
32110837 GTAAATTAT
1 GTAAGTTAT
32110846 GTAAGTTAT
1 GTAAGTTAT
32110855 GTACA-TGTA-
1 GTA-AGT-TAT
32110864 -TAAGTTAT
1 GTAAGTTAT
32110872 GTAAGTTAT
1 GTAAGTTAT
*
32110881 GT-A-TTAA
1 GTAAGTTAT
*
32110888 GTAAGCTAT
1 GTAAGTTAT
*
32110897 GTAAGTTGT
1 GTAAGTTAT
32110906 GT-A-TTAT
1 GTAAGTTAT
32110913 GTAAGTTAT
1 GTAAGTTAT
32110922 GTAAGTTAT
1 GTAAGTTAT
** *
32110931 CAAAGTAAT
1 GTAAGTTAT
*
32110940 GTATGTTAT
1 GTAAGTTAT
*
32110949 GTAAGTTGT
1 GTAAGTTAT
*
32110958 GT-AG-AAT
1 GTAAGTTAT
*
32110965 GTAAGCTAT
1 GTAAGTTAT
32110974 GTAAGTTAT
1 GTAAGTTAT
32110983 GTAAGTTAT
1 GTAAGTTAT
**
32110992 GTAAAG-GGT
1 GT-AAGTTAT
*
32111001 GCATAATGTAAT
1 G--TAA-GTTAT
32111013 -TAAGTTAT
1 GTAAGTTAT
32111021 GTAAGTTAT
1 GTAAGTTAT
32111030 G--AGTTAT
1 GTAAGTTAT
32111037 GTAAGTTAT
1 GTAAGTTAT
*
32111046 GT-A-TAAT
1 GTAAGTTAT
*
32111053 GTACGTTAT
1 GTAAGTTAT
* *
32111062 GTATAATATTAA
1 G--TAA-GTTAT
** *
32111074 AAAAATTAT
1 GTAAGTTAT
*
32111083 GTAAGTTGT
1 GTAAGTTAT
*
32111092 GT-A-TAAT
1 GTAAGTTAT
32111099 GTAAGTTAT
1 GTAAGTTAT
*
32111108 GTAAGTAAT
1 GTAAGTTAT
*
32111117 GT--CTTAT
1 GTAAGTTAT
*
32111124 GTAAGTTGT
1 GTAAGTTAT
*
32111133 GT-A-TAAT
1 GTAAGTTAT
*
32111140 GTTAGTTAT
1 GTAAGTTAT
*
32111149 -CAGAGTTAT
1 GTA-AGTTAT
*
32111158 G-CA-TTAT
1 GTAAGTTAT
32111165 GTAAGTTAT
1 GTAAGTTAT
*
32111174 GTAAGTTGT
1 GTAAGTTAT
32111183 GTAAGTTAT
1 GTAAGTTAT
*
32111192 TTAAGTTAT
1 GTAAGTTAT
*
32111201 GTAAGTAAT
1 GTAAGTTAT
32111210 GTAA
1 GTAA
32111214 TATATACTTA
Statistics
Matches: 276, Mismatches: 58, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
7 46 0.17
8 22 0.08
9 190 0.69
10 10 0.04
11 4 0.01
12 4 0.01
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:32110857 original size:25 final size:25
Alignment explanation
Indices: 32110826--32110930 Score: 122
Period size: 25 Copynumber: 4.2 Consensus size: 25
32110816 TGATATATAT
32110826 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* *
32110851 TTATGTA-CATGTATAAGTTATGTAAG
1 TTATGTATTAAGTA-AA-TTATGTAAG
**
32110877 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
32110902 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
32110927 TTAT
1 TTAT
32110931 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
24 4 0.06
25 42 0.63
26 17 0.25
27 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:32110954 original size:18 final size:18
Alignment explanation
Indices: 32110837--32111213 Score: 199
Period size: 16 Copynumber: 21.7 Consensus size: 18
32110827 TATGTATTAA
*
32110837 GTAAATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
32110855 GTACA-TGTA--TAAGTTAT
1 GTA-AGT-TATGTAAGTTAT
*
32110872 GTAAGTTATGT-A-TTAA
1 GTAAGTTATGTAAGTTAT
* *
32110888 GTAAGCTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
32110906 GT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
** *
32110922 GTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTAT
* *
32110940 GTATGTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
32110958 GT-AG-AATGTAAGCTAT
1 GTAAGTTATGTAAGTTAT
32110974 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
** *
32110992 GTAAAG-GGTGCATAATGTAAT
1 GT-AAGTTATG--TAA-GTTAT
32111013 -TAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
32111030 G--AGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
32111046 GT-A-TAATGTACGTTAT
1 GTAAGTTATGTAAGTTAT
* *** *
32111062 GTATAATATTAAAAAAATTAT
1 G--TAA-GTTATGTAAGTTAT
* *
32111083 GTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTAT
*
32111099 GTAAGTTATGTAAGTAAT
1 GTAAGTTATGTAAGTTAT
* *
32111117 GT--CTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
32111133 GT-A-TAATGTTAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
32111149 -CAGAGTTATG-CA-TTAT
1 GTA-AGTTATGTAAGTTAT
*
32111165 GTAAGTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
*
32111183 GTAAGTTATTTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32111201 GTAAGTAATGTAA
1 GTAAGTTATGTAA
32111214 TATATACTTA
Statistics
Matches: 270, Mismatches: 57, Indels: 64
0.69 0.15 0.16
Matches are distributed among these distances:
16 115 0.43
17 30 0.11
18 94 0.35
19 13 0.05
20 6 0.02
21 12 0.04
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:32110974 original size:25 final size:25
Alignment explanation
Indices: 32110837--32110985 Score: 131
Period size: 25 Copynumber: 5.8 Consensus size: 25
32110827 TATGTATTAA
* *
32110837 GTAAATTATGTAAGTTATGTA-CAT
1 GTAAGTTATGTAAGTTATGTAGAAT
*
32110861 GTATAAGTTATGTAAGTTATGTATTAA-
1 G--TAAGTTATGTAAGTTATGTA-GAAT
* * **
32110888 GTAAGCTATGTAAGTTGTGTATTAT
1 GTAAGTTATGTAAGTTATGTAGAAT
**
32110913 GTAAGTTATGTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTAT-GTAG-AAT
* *
32110940 GTATGTTATGTAAGTTGTGTAGAAT
1 GTAAGTTATGTAAGTTATGTAGAAT
*
32110965 GTAAGCTATGTAAGTTATGTA
1 GTAAGTTATGTAAGTTATGTA
32110986 AGTTATGTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
24 3 0.03
25 55 0.55
26 22 0.22
27 19 0.19
28 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTAGAAT
Found at i:32110994 original size:52 final size:51
Alignment explanation
Indices: 32110837--32111048 Score: 172
Period size: 52 Copynumber: 4.2 Consensus size: 51
32110827 TATGTATTAA
* * * *
32110837 GTAAATTATGTAAGTTATGTACATGTATAAGTTATGTAAGTTATGT-A-TTAA
1 GTAAGTTATGTAAGTTGTGTAAATG--TAAGTTATGTAAGTTATGTAAGTTAT
* * ** *
32110888 GTAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTGTGTA-AATGTAAGTTATGTAAGTTATGTAAGTTAT
* *
32110940 GTATGTTATGTAAGTTGTGTAGAATGTAAGCTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTGTGTA-AATGTAAGTTATGTAAGTTATGTAAGTTAT
** * **
32110992 GTAAAG-GGTG-CA-TAATGT-AAT-TAAGTTATGTAAGTTATG--AGTTAT
1 GT-AAGTTATGTAAGTTGTGTAAATGTAAGTTATGTAAGTTATGTAAGTTAT
32111037 GTAAGTTATGTA
1 GTAAGTTATGTA
32111049 TAATGTACGT
Statistics
Matches: 129, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 3 0.02
45 10 0.08
47 17 0.13
48 3 0.02
50 21 0.16
51 20 0.16
52 53 0.41
53 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (51 bp):
GTAAGTTATGTAAGTTGTGTAAATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:32111165 original size:41 final size:42
Alignment explanation
Indices: 32110920--32111176 Score: 134
Period size: 41 Copynumber: 6.0 Consensus size: 42
32110910 TATGTAAGTT
*
32110920 ATGTAAGTTAT-CAAAGTAATGT-ATGTTATGTAAGTTGTGTAGA
1 ATGTAAGTTATGC-AAGTAATGTCA--TTATGTAAGTTGTGTATA
* * * * * *
32110963 ATGTAAGCTATGTAAGTTATGTAAGTTATGTAAAG-GGTGCATA
1 ATGTAAGTTATGCAAGTAATGTCA-TTATGT-AAGTTGTGTATA
* * *
32111006 ATGTAATTAAGTTATGTAAGTTATG--AGTTATGTAAGTTATGTATA
1 ATG----TAAGTTATGCAAGTAATGTCA-TTATGTAAGTTGTGTATA
* * * ****
32111051 ATGTACGTTATGTATAATATTAAAAAAATTATGTAAGTTGTGTATA
1 ATGTAAGTTATG---CA-AGTAATGTCATTATGTAAGTTGTGTATA
*
32111097 ATGTAAGTTATGTAAGTAATGTC-TTATGTAAGTTGTGTATA
1 ATGTAAGTTATGCAAGTAATGTCATTATGTAAGTTGTGTATA
* * *
32111138 ATGTTAGTTAT-CAGAGTTATG-CATTATGTAAGTTATGTA
1 ATGTAAGTTATGCA-AGTAATGTCATTATGTAAGTTGTGTA
32111177 AGTTGTGTAA
Statistics
Matches: 170, Mismatches: 28, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.01
41 57 0.34
42 4 0.02
43 34 0.20
44 8 0.05
45 19 0.11
46 28 0.16
47 18 0.11
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (42 bp):
ATGTAAGTTATGCAAGTAATGTCATTATGTAAGTTGTGTATA
Found at i:32111212 original size:27 final size:27
Alignment explanation
Indices: 32110911--32111213 Score: 121
Period size: 25 Copynumber: 11.2 Consensus size: 27
32110901 GTTGTGTATT
**
32110911 ATGTAAGTTATGTAAGTTATCAAAGTA
1 ATGTAAGTTATGTAAGTTATGTAAGTA
* *
32110938 ATGTATGTTATGTAAGTTGTGT-AG-A
1 ATGTAAGTTATGTAAGTTATGTAAGTA
* *
32110963 ATGTAAGCTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTA
** * *
32110990 ATGTAAAG-GGTGCATAATGTAAT-TAAGTT
1 ATGT-AAGTTATG--TAA-GTTATGTAAGTA
*
32111019 ATGTAAGTTATG--AGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTA
* * *
32111044 ATGT-A-TAATGTACGTTATGTATAATA
1 ATGTAAGTTATGTAAGTTATGTA-AGTA
*** * *
32111070 TTAAAAAAATTATGTAAGTTGTGT-A-TA
1 --ATGTAAGTTATGTAAGTTATGTAAGTA
* * *
32111097 ATGTAAGTTATGTAAGTAATGT--CTT
1 ATGTAAGTTATGTAAGTTATGTAAGTA
* * *
32111122 ATGTAAGTTGTGTATAATGTTAGTTATCAGAGTT
1 ATGTAAGTTATG--TAA-GTTA--TGT-A-AGTA
* *
32111156 ATG-CA-TTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTA
* *
32111181 GTGTAAGTTATTTAAGTTATGTAAGTA
1 ATGTAAGTTATGTAAGTTATGTAAGTA
32111208 ATGTAA
1 ATGTAA
32111214 TATATACTTA
Statistics
Matches: 206, Mismatches: 43, Indels: 54
0.68 0.14 0.18
Matches are distributed among these distances:
23 4 0.02
24 5 0.02
25 73 0.35
26 8 0.04
27 54 0.26
28 11 0.05
29 20 0.10
30 21 0.10
32 4 0.02
33 1 0.00
34 5 0.02
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATGTAAGTA
Found at i:32111291 original size:13 final size:13
Alignment explanation
Indices: 32111273--32111331 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
32111263 CAAATTTTAG
*
32111273 TAAGTAATGTATT
1 TAAGTAATATATT
*
32111286 TAAGTAATTTATT
1 TAAGTAATATATT
32111299 TAAGTAATATATT
1 TAAGTAATATATT
*
32111312 CAAGTAATATATT
1 TAAGTAATATATT
*
32111325 AAAGTAA
1 TAAGTAA
32111332 ATTTTAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:32111358 original size:66 final size:67
Alignment explanation
Indices: 32111232--32111358 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 67
32111222 TAAATTTTAG
* * * ** *
32111232 TAAGTAATGTATTTTAAGTAATAAATTTAACCAAATTTTAGTAAGTAATGTATTTAAGTAATTTA
1 TAAGTAATATATTTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATATTTAAGTAATTTA
32111297 TT
66 TT
* ** * *
32111299 TAAGTAATATA-TTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATATGTTTTAGTAA
1 TAAGTAATATATTTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATATTTAAGTAA
32111359 GTAATGAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
66 39 0.80
67 10 0.20
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (67 bp):
TAAGTAATATATTTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATATTTAAGTAATTTA
TT
Found at i:32111470 original size:53 final size:53
Alignment explanation
Indices: 32111369--32111471 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 53
32111359 GTAATGAAAA
*
32111369 ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTTTAAAAAATT
1 ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTGTAAAAAATT
*
32111422 ATATA-TTAACAATATATATATT-AGTAATAAGTTAA-AT-TAAATTGTAAAAA
1 ATATACTTAAAAATATATAT-TTAAGTAAT--G-TAAGATATAAATTGTAAAAA
32111472 TATATTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
52 19 0.43
53 19 0.43
54 3 0.07
55 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (53 bp):
ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTGTAAAAAATT
Found at i:32112756 original size:13 final size:13
Alignment explanation
Indices: 32112740--32112780 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32112730 CATTTACTAT
32112740 ATTCATTAAGAAA
1 ATTCATTAAGAAA
32112753 ATTCATTCAA-AAA
1 ATTCATT-AAGAAA
*
32112766 ATTCATTTAGAAA
1 ATTCATTAAGAAA
32112779 AT
1 AT
32112781 CTCGCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (13 bp):
ATTCATTAAGAAA
Found at i:32112911 original size:60 final size:60
Alignment explanation
Indices: 32112821--32112944 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
32112811 CACAAAATTC
* *
32112821 ATTC-GGGCAACTGCTAAATAAACAATTTATACCTAAATCCCTCATACACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
*
32112880 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCGAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
32112940 ATTCA
1 ATTCA
32112945 CAAAATTCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (60 bp):
ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
Found at i:32116553 original size:18 final size:17
Alignment explanation
Indices: 32116532--32116566 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32116522 TTATTATTAA
*
32116532 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32116550 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32116567 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32116674 original size:75 final size:75
Alignment explanation
Indices: 32116446--32116675 Score: 241
Period size: 75 Copynumber: 3.1 Consensus size: 75
32116436 TTAAAATATG
*
32116446 ATTATTGTTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATA
1 ATTATTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATA
32116511 TTTTAACATA
66 TTTTAACATA
* * * * **
32116521 ATTATTATTA-----AATATATTTTAATTAA-AATATATAAT-TTAAT-A-AAATTCTTAATAAT
1 ATTATTATTATTGTTATTAAATTTTAA-TAAGATTAT-TAATATAAATAATAAATAATT--TAAT
*
32116577 CAATATTGTT-ATATGA
62 C-ATATT-TTAACAT-A
32116593 A-T-TTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATA
1 ATTATTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATA
32116656 TTTTAACATA
66 TTTTAACATA
32116666 ATTATTATTA
1 ATTATTATTA
32116676 ATATAATAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 38
0.70 0.09 0.22
Matches are distributed among these distances:
68 6 0.05
69 1 0.01
70 29 0.24
71 16 0.13
72 4 0.03
73 4 0.03
74 16 0.13
75 38 0.31
76 1 0.01
77 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (75 bp):
ATTATTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATA
TTTTAACATA
Found at i:32116741 original size:145 final size:145
Alignment explanation
Indices: 32116436--32116742 Score: 435
Period size: 145 Copynumber: 2.1 Consensus size: 145
32116426 GTAGAGTAAG
* *
32116436 TTAAAATATGATTATTGTTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAA
1 TTAAAATATGAAT-TTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAA
* * *
32116501 TTTAATCATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAA
65 TTTAATCATATTTTAACATAATTATTATTAAATATATATAAATAAAAATATATAATTTAATAAAA
*
32116566 TTCTTAATAATCAATA
130 TTCATAATAATCAATA
***
32116582 TTGTTATATGAATTTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAAT
1 TTAAAATATGAATTTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAAT
*
32116647 TTAATCATATTTTAACATAATTATTATT-AATATA-ATAAATAATAAATATATAAATTTACTAAA
66 TTAATCATATTTTAACATAATTATTATTAAATATATATAAATAA-AAATATAT-AATTTAATAAA
32116710 A-TCATAATATAT-AATA
129 ATTCATAATA-ATCAATA
32116726 CTATAAAATAT-AATTTA
1 -T-TAAAATATGAATTTA
32116743 AAATAATTAT
Statistics
Matches: 143, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
143 5 0.03
144 25 0.17
145 99 0.69
146 14 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (145 bp):
TTAAAATATGAATTTATTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAAT
TTAATCATATTTTAACATAATTATTATTAAATATATATAAATAAAAATATATAATTTAATAAAAT
TCATAATAATCAATA
Found at i:32116781 original size:17 final size:17
Alignment explanation
Indices: 32116759--32116792 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32116749 TTATTATTAA
32116759 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
32116776 ATATAATTTGATAAAAT
1 ATATAATTTAATAAAAT
32116793 TCTTAGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32118566 original size:21 final size:20
Alignment explanation
Indices: 32118542--32118580 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
32118532 GTTAAAAACA
32118542 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
32118563 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
32118581 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:32120259 original size:21 final size:21
Alignment explanation
Indices: 32120220--32120259 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32120210 CTTAAATTTT
* *
32120220 AAAATCTTAAAAAGCAAAAAA
1 AAAATCCTAAAAAGAAAAAAA
*
32120241 AAAATCCTAAAAATAAAAA
1 AAAATCCTAAAAAGAAAAA
32120260 CACATGAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATCCTAAAAAGAAAAAAA
Found at i:32121905 original size:22 final size:22
Alignment explanation
Indices: 32121879--32121948 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
32121869 ACCGATCTAA
*
32121879 TTTTAAAGATTTAATAGAACAT
1 TTTTAAAGATTTAACAGAACAT
* *
32121901 TTTTAGAAG--TTAACA-ATCTAA
1 TTTTA-AAGATTTAACAGAAC-AT
32121922 TTTTAAAGATTTAACAGAACAT
1 TTTTAAAGATTTAACAGAACAT
32121944 TTTTA
1 TTTTA
32121949 GAAGTTAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.13
21 11 0.29
22 17 0.45
23 5 0.13
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
TTTTAAAGATTTAACAGAACAT
Found at i:32121913 original size:21 final size:21
Alignment explanation
Indices: 32121889--32121958 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
32121879 TTTTAAAGAT
*
32121889 TTAATAGAACATTTTTAGAAG
1 TTAACAGAACATTTTTAGAAG
* *
32121910 TTAACA-ATCTAATTTTA-AAG
1 TTAACAGAAC-ATTTTTAGAAG
32121930 ATTTAACAGAACATTTTTAGAAG
1 --TTAACAGAACATTTTTAGAAG
32121953 TTAACA
1 TTAACA
32121959 TTTTGTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.13
21 17 0.44
22 12 0.31
23 5 0.13
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (21 bp):
TTAACAGAACATTTTTAGAAG
Found at i:32121921 original size:43 final size:43
Alignment explanation
Indices: 32121873--32121958 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
32121863 TTTATCACCG
*
32121873 ATCTAATTTTAAAGATTTAATAGAACATTTTTAGAAGTTAACA
1 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
32121916 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
1 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
32121959 TTTTGTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (43 bp):
ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
Found at i:32123011 original size:21 final size:17
Alignment explanation
Indices: 32122958--32123021 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 17
32122948 AAATTAATAA
32122958 ATAATAATATTTTAAATT
1 ATAAT-ATATTTTAAATT
*
32122976 ATAATATGTTTTTAAATT
1 ATAATAT-ATTTTAAATT
32122994 AATGCAATATATTCTTAAAATT
1 -AT--AATATATT-TT-AAATT
32123016 ATAATA
1 ATAATA
32123022 ACTAGATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 2 0.05
18 14 0.37
19 6 0.16
20 2 0.05
21 9 0.24
22 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATATATTTTAAATT
Found at i:32128561 original size:22 final size:22
Alignment explanation
Indices: 32128517--32128558 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32128507 CATTTCATTT
*
32128517 TTCTATTATTCTCTCTTGTTTA
1 TTCTATAATTCTCTCTTGTTTA
32128539 TTCTATAATTCTCT-TTGTTT
1 TTCTATAATTCTCTCTTGTTT
32128559 TATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (22 bp):
TTCTATAATTCTCTCTTGTTTA
Found at i:32128593 original size:18 final size:17
Alignment explanation
Indices: 32128558--32128623 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
32128548 TCTCTTTGTT
32128558 TTATAATAATTTTAAAA
1 TTATAATAATTTTAAAA
* *
32128575 TTATAATATGTTTTTAAA
1 TTATAATA-ATTTTAAAA
*
32128593 TTAATACAATATAATCTTAAAA
1 TT-AT---A-ATAATTTTAAAA
32128615 TTATAATAA
1 TTATAATAA
32128624 CTAGATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 2 0.05
21 2 0.05
22 9 0.24
23 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
TTATAATAATTTTAAAA
Found at i:32128781 original size:15 final size:17
Alignment explanation
Indices: 32128749--32128781 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32128739 ATATATTCAA
32128749 ATGAAATACAATAAACT
1 ATGAAATACAATAAACT
32128766 ATGAAAT-CAA-AAACT
1 ATGAAATACAATAAACT
32128781 A
1 A
32128782 AAATAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
ATGAAATACAATAAACT
Found at i:32131735 original size:17 final size:16
Alignment explanation
Indices: 32131715--32131776 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
32131705 CCGTATAATT
32131715 ATATAAATTATATAAAA
1 ATATAAATTATA-AAAA
*
32131732 ATATTTAATTATAAAAA
1 ATA-TAAATTATAAAAA
*
32131749 TATAAAAATTATAAAATA
1 -ATATAAATTATAAAA-A
*
32131767 ATTTAAATTA
1 ATATAAATTA
32131777 AAACATGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATTATAAAAA
Found at i:32132013 original size:24 final size:25
Alignment explanation
Indices: 32131981--32132031 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32131971 GTGAAATTAC
* *
32131981 AAAATTAAATTATTTCCATGTTCAA
1 AAAATAAAATTATTTCCATATTCAA
* *
32132006 AAAATAAAATTCTTTCCTTATTCAA
1 AAAATAAAATTATTTCCATATTCAA
32132031 A
1 A
32132032 TGCTTAACGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAATAAAATTATTTCCATATTCAA
Found at i:32137646 original size:30 final size:30
Alignment explanation
Indices: 32137597--32137673 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 30
32137587 TATACTAAAT
*
32137597 ATAATAATAAAATAATAATAATATCTCATTAAA
1 ATAATAATAAAATAAT-AT-ATATCTAATT-AA
* *
32137630 ATACTAATAAAATAATATTTATCTAATTAA
1 ATAATAATAAAATAATATATATCTAATTAA
*
32137660 ATAATCATAAAATA
1 ATAATAATAAAATA
32137674 TTAAAATATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.36
31 8 0.21
32 2 0.05
33 15 0.38
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAATAATAAAATAATATATATCTAATTAA
Found at i:32145604 original size:45 final size:45
Alignment explanation
Indices: 32145540--32145632 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
32145530 ACAGATACTT
* *
32145540 GGTGGATTTAGCACATAGCAACCACCTCATTAATCAATGATGTCC
1 GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
* * *
32145585 GGTGGAATTAGCACATAGCAACCACTTTACTAATCAATGATGTTC
1 GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
32145630 GGT
1 GGT
32145633 TCACATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (45 bp):
GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
Found at i:32145696 original size:51 final size:51
Alignment explanation
Indices: 32145638--32145820 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
32145628 TCGGTTCACA
* *
32145638 TAGTAGCCTGCACATAGTACTACACATGTGATC-ATTACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGATAACTATCCG-TACACG
* * ** *
32145689 TAGTAGCCTGCACATAGTACTACACCCGTGATCGA-AACTATTCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGATAACTA-TCCGTACACG
* * * * * *
32145740 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCTGCACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGATAACTATCC-GTACACG
32145790 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
32145821 CCATCACTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 32 0.30
51 69 0.64
52 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGATAACTATCCGTACACG
Found at i:32145844 original size:101 final size:102
Alignment explanation
Indices: 32145635--32145820 Score: 261
Period size: 101 Copynumber: 1.8 Consensus size: 102
32145625 TGTTCGGTTC
* * * *
32145635 ACATAGTAGCCTGCACATAGTACTACACATGTGATCATTACTATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGC
* * *
32145700 ACATAGTACTACACCCGTGATCGAAACTATTCGGTAT
66 ACATAGTACTACACACGTGATCCAAACTATTCCGTAT
*
32145737 GCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCTG-CACACGTAGTAGCCT
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCC-GACACACGTAGTAGCCT
32145799 GCACATAGTACTACACACGTGA
64 GCACATAGTACTACACACGTGA
32145821 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 38 0.50
102 35 0.46
103 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCCAAACTATTCCGTAT
Found at i:32150699 original size:39 final size:39
Alignment explanation
Indices: 32150656--32150733 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
32150646 AAGATTTTTC
** *
32150656 GAGTATTGTGACATATTCTTAAATGTTATGTGATTATAT
1 GAGTATTGTGACATATGATTAAATGTTAGGTGATTATAT
* **
32150695 GAGTATTGTGATATATGATTGTATGTTAGGTGATTATAT
1 GAGTATTGTGACATATGATTAAATGTTAGGTGATTATAT
32150734 ATGTAATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (39 bp):
GAGTATTGTGACATATGATTAAATGTTAGGTGATTATAT
Found at i:32151320 original size:223 final size:223
Alignment explanation
Indices: 32150925--32151370 Score: 738
Period size: 223 Copynumber: 2.0 Consensus size: 223
32150915 TTAAAGCTCA
* * *
32150925 CCTACTTCCTTCTTAAACTTTGCAGATTAGTTGTGTGCAGTATGATCTGTGTGGCTTTCTGAAGG
1 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCAGTATGATCTATGTGGCTTTCTGAAGG
32150990 GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
66 GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
* * *
32151055 AGGCAATGTGGTAGTCTTTGTGCTAATATTCGATATGATATTTCGAGTTGTTTCCATGATTTAAT
131 AGGAAATGTGGTAGTCTTTGTGCTAATATTCGATATGATATTTCGAGTTGTCTCCATGAGTTAAT
32151120 TGTTATTAGGATTTTGAGATTTGTTTCG
196 TGTTATTAGGATTTTGAGATTTGTTTCG
32151148 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCTAGTGA-GAGT-TATGTGGCTTTCT-A
1 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGC-AGT-ATGA-TCTATGTGGCTTTCTGA
*
32151210 AGGGGTGATCCAAGGAAGTACATTTTCGTTATTCGTAGGTGTTTATTATTTGGTTATGTTT-GGG
63 A-GGGTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGG
* * *
32151274 AATAAGGAAATGTGGTAGTCTTTGTGCTAATATTGGATATGATATTTTGTGTTGTCTCCATGAGT
127 AATAAGGAAATGTGGTAGTCTTTGTGCTAATATTCGATATGATATTTCGAGTTGTCTCCATGAGT
32151339 TAATTGTTATTAGGATTTTGAGATTTGTTTCG
192 TAATTGTTATTAGGATTTTGAGATTTGTTTCG
32151371 TAACATGATG
Statistics
Matches: 209, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
223 132 0.63
224 75 0.36
225 2 0.01
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (223 bp):
CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCAGTATGATCTATGTGGCTTTCTGAAGG
GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
AGGAAATGTGGTAGTCTTTGTGCTAATATTCGATATGATATTTCGAGTTGTCTCCATGAGTTAAT
TGTTATTAGGATTTTGAGATTTGTTTCG
Found at i:32161354 original size:19 final size:20
Alignment explanation
Indices: 32161318--32161366 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
32161308 CGGCCTATTT
32161318 TTTTAATAAATACCAAAAAATA
1 TTTTAA-AAATA-CAAAAAATA
*
32161340 TTTTAAAAATA-AAAAAGTA
1 TTTTAAAAATACAAAAAATA
32161359 TTTTAAAA
1 TTTTAAAA
32161367 TATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.58
21 5 0.19
22 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTTAAAAATACAAAAAATA
Found at i:32169094 original size:19 final size:19
Alignment explanation
Indices: 32169066--32169118 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
32169056 AATTCGATTT
*
32169066 AAATAATAAAAATAATTTTA
1 AAAT-ATAAAAATAATTATA
* **
32169086 AAATTTAAATTTAATTATA
1 AAATATAAAAATAATTATA
32169105 AAATATATAAAATA
1 AAATATA-AAAATA
32169119 TCAATTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATAAAAATAATTATA
Found at i:32187986 original size:11 final size:11
Alignment explanation
Indices: 32187970--32188012 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
32187960 TCCACTATTG
32187970 TTTAGAATTTT
1 TTTAGAATTTT
32187981 TTTAGAATTTT
1 TTTAGAATTTT
32187992 TTT-GAATATTT
1 TTTAGAAT-TTT
*
32188003 TGTAG-ATTTT
1 TTTAGAATTTT
32188013 AAATTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.24
11 21 0.72
12 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (11 bp):
TTTAGAATTTT
Found at i:32188392 original size:19 final size:18
Alignment explanation
Indices: 32188348--32188389 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32188338 TCAAAAAATA
* *
32188348 ATTTTTAAAAATTATATT
1 ATTTTTAAAAATGATAAT
*
32188366 ATTTTTAAAAATGCTAAT
1 ATTTTTAAAAATGATAAT
32188384 ATTTTT
1 ATTTTT
32188390 TAATATTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAAATGATAAT
Found at i:32188869 original size:19 final size:20
Alignment explanation
Indices: 32188828--32188893 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 20
32188818 TATTTTTCAA
* *
32188828 TAAAATATTAAAAATATCATT
1 TAAAATATTAAAATTAT-TTT
32188849 TAAAAT-TTAAAATTATTTT
1 TAAAATATTAAAATTATTTT
* *
32188868 T--AATGTTAAAATTTATTAT
1 TAAAATATTAAAA-TTATTTT
32188887 TAAAATA
1 TAAAATA
32188894 AAATTGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 10 0.27
20 9 0.24
21 9 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATATTAAAATTATTTT
Found at i:32188895 original size:18 final size:19
Alignment explanation
Indices: 32188874--32188909 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32188864 TTTTTAATGT
*
32188874 TAAAATT-TATTATTAAAA
1 TAAAATTGTAATATTAAAA
32188892 TAAAATTGTAATATTAAA
1 TAAAATTGTAATATTAAA
32188910 TAATTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATTGTAATATTAAAA
Found at i:32202083 original size:38 final size:40
Alignment explanation
Indices: 32202040--32202119 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 40
32202030 CAAAAATTAA
32202040 AAAATT-AAAATAATTT-TAAAAAGTT-CAAAA-TATTTTTT
1 AAAATTAAAAAT-ATTTATAAAAA-TTCCAAAATTATTTTTT
32202078 AAAATTAAAAATATTTATAAAAATTCCAAAATTTATTTTTT
1 AAAATTAAAAATATTTATAAAAATTCCAAAA-TTATTTTTT
32202119 A
1 A
32202120 GAAAATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
38 12 0.32
39 16 0.43
41 9 0.24
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (40 bp):
AAAATTAAAAATATTTATAAAAATTCCAAAATTATTTTTT
Found at i:32202101 original size:19 final size:17
Alignment explanation
Indices: 32202039--32202102 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 17
32202029 ACAAAAATTA
32202039 AAAAATTAAAATAATTTT
1 AAAAATTAAAAT-ATTTT
32202057 AAAAAGTTCAAAATATTTTT
1 AAAAA-TT-AAAATA-TTTT
*
32202077 TAAAATTAAAAATATTTAT
1 AAAAATT-AAAATATTT-T
32202096 AAAAATT
1 AAAAATT
32202103 CCAAAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.21
19 18 0.46
20 13 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAATATTTT
Found at i:32204552 original size:17 final size:17
Alignment explanation
Indices: 32204532--32204571 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
32204522 AGAAGAGAAA
*
32204532 GAAAAGAGAGAGCGAAG
1 GAAAAGAGAAAGCGAAG
*
32204549 GAAAAGAGAAAGGGAAG
1 GAAAAGAGAAAGCGAAG
*
32204566 AAAAAG
1 GAAAAG
32204572 GGATTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.03, G:0.38, T:0.00
Consensus pattern (17 bp):
GAAAAGAGAAAGCGAAG
Found at i:32204796 original size:24 final size:25
Alignment explanation
Indices: 32204743--32204798 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
32204733 ATGTTATTTT
* *
32204743 TTATGTTTTTTTATTTGTTTTAGATT
1 TTAT-TTTTTTTATTTGTTTAAGATA
*
32204769 TTATTTTTTTTATTT-TTTAAGGTA
1 TTATTTTTTTTATTTGTTTAAGATA
32204793 TTATTT
1 TTATTT
32204799 CGTTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 12 0.44
25 11 0.41
26 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (25 bp):
TTATTTTTTTTATTTGTTTAAGATA
Found at i:32207343 original size:38 final size:38
Alignment explanation
Indices: 32207256--32207336 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
32207246 ACCATCTTAT
*
32207256 TACTCCACTCCTCCCAGCCCAGCCTGTATCCACCGCAG
1 TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
** *
32207294 TACTCCACTCCTCCTGGCCCGGCCTATATCCACCGCAG
1 TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
32207332 TACTC
1 TACTC
32207337 TTCTCCTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.17, C:0.48, G:0.14, T:0.21
Consensus pattern (38 bp):
TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
Found at i:32207715 original size:48 final size:48
Alignment explanation
Indices: 32207581--32207748 Score: 177
Period size: 48 Copynumber: 3.5 Consensus size: 48
32207571 ATGCAAAAAT
* *
32207581 ACAAACTTTGTAATTTTAATTAGATTAATTGCAAC----AAACTCTAG-
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACT-TGGA
* *
32207625 ACAAACTTTGT-ATTTAATTAATTGAGATTCATCGCAACATTAAAACTTGGA
1 ACAAACTTTGTAATTT-A--AATT-AGATTAATTGCAACATTAAAACTTGGA
* **
32207676 ATAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACGAGGA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
*
32207724 ACAAACTTTGTAATATAAATTAGAT
1 ACAAACTTTGTAATTTAAATTAGAT
32207749 ACATTGGAGT
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
44 11 0.11
46 4 0.04
47 12 0.12
48 46 0.45
49 4 0.04
50 2 0.02
51 16 0.16
52 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (48 bp):
ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
Found at i:32211628 original size:109 final size:106
Alignment explanation
Indices: 32211386--32211615 Score: 306
Period size: 109 Copynumber: 2.1 Consensus size: 106
32211376 AGTTACTAAC
* *
32211386 AAAATAAATTTAAAAAATAATAAAATATTACATTCATAACCTAACAAATCACAATGAACATTAAA
1 AAAAT-AA-TTAAAAAATAA-AAAA-AGTACATTCATAACCTAACAAATCACAATAAACATTAAA
*
32211451 CTAAACAAACAATTAGCCTAATCACAAAATTAGTAACAAAATAACTTT
62 CTAAACAAACAATT---CTAATCACAAAATTACTAACAAAATAACTTT
*
32211499 AAAATAATTTAAAAATAAAAAAAGTACATTCATAACCTAACAAATCACAATAAACATTAAACTAA
1 AAAATAATTAAAAAATAAAAAAAGTACATTCATAACCTAACAAATCACAATAAACATTAAACTAA
* *
32211564 ACAAACAATT-T-AT-A-ATAGTTACTAACAAAATAACTTT
66 ACAAACAATTCTAATCACAAAATTACTAACAAAATAACTTT
32211601 AAAATAAATTAAAAA
1 AAAAT-AATTAAAAA
32211616 CAACATAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
102 25 0.23
103 9 0.08
104 2 0.02
105 1 0.01
109 51 0.47
110 4 0.04
111 10 0.09
112 2 0.02
113 5 0.05
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (106 bp):
AAAATAATTAAAAAATAAAAAAAGTACATTCATAACCTAACAAATCACAATAAACATTAAACTAA
ACAAACAATTCTAATCACAAAATTACTAACAAAATAACTTT
Found at i:32218605 original size:16 final size:16
Alignment explanation
Indices: 32218574--32218615 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
32218564 TTTAAAAGTT
*
32218574 ATTATTTGTGAATTTG
1 ATTATTTTTGAATTTG
32218590 -TTATTTTTGCAATTTG
1 ATTATTTTTG-AATTTG
32218606 ATTTATTTTT
1 A-TTATTTTT
32218616 TGTTCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
18 8 0.36
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.64
Consensus pattern (16 bp):
ATTATTTTTGAATTTG
Found at i:32221172 original size:107 final size:107
Alignment explanation
Indices: 32220986--32221205 Score: 395
Period size: 107 Copynumber: 2.1 Consensus size: 107
32220976 TCGATTTAGA
* * * *
32220986 TGAATTAATCATGGAAAAGGAACTCAACTATGTTGAGGACCTATTGGGACAAATTTTGACATCAG
1 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
*
32221051 ACCCTCCAAGTGATGAAAAGGATTTAATCTGCAATCCTGCTT
66 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
32221093 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
1 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
32221158 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
66 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
32221200 TGAATC
1 TGAATC
32221206 TTTGGAGTTA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (107 bp):
TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
Found at i:32237542 original size:9 final size:9
Alignment explanation
Indices: 32237514--32237588 Score: 114
Period size: 9 Copynumber: 8.3 Consensus size: 9
32237504 TCAGTTGAAC
*
32237514 TAAATTGGT
1 TAAATCGGT
* *
32237523 TAAGTCAGT
1 TAAATCGGT
32237532 TAAATCGGT
1 TAAATCGGT
32237541 TAAATCGGT
1 TAAATCGGT
32237550 TAAATCGGT
1 TAAATCGGT
32237559 TAAATCGGT
1 TAAATCGGT
*
32237568 TAAGTCGGT
1 TAAATCGGT
32237577 TAAATCGGT
1 TAAATCGGT
32237586 TAA
1 TAA
32237589 TTTTTAACCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (9 bp):
TAAATCGGT
Found at i:32237887 original size:17 final size:16
Alignment explanation
Indices: 32237860--32237918 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 16
32237850 AAAAGTTACA
32237860 AAATAAAAAATATAAT
1 AAATAAAAAATATAAT
* *
32237876 AATTATAAAAATATTAT
1 AAATA-AAAAATATAAT
*
32237893 AAATAAAAAATA-AAA
1 AAATAAAAAATATAAT
*
32237908 AAATAGAAAAT
1 AAATAAAAAAT
32237919 TGCAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.31
16 11 0.31
17 14 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAATAAAAAATATAAT
Found at i:32237993 original size:21 final size:21
Alignment explanation
Indices: 32237932--32237993 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
32237922 AAAAATATAT
*
32237932 AATTATTATAATTTTTAAAAATAA
1 AATTATTA-AATTATT--AAATAA
* **
32237956 AATTA-CAAAAAATTAAATAA
1 AATTATTAAATTATTAAATAA
32237976 AATTATTAAATTATTAAA
1 AATTATTAAATTATTAAA
32237994 AATTAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 11 0.37
21 9 0.30
22 4 0.13
23 1 0.03
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTATTAAATTATTAAATAA
Found at i:32238019 original size:43 final size:42
Alignment explanation
Indices: 32237914--32238020 Score: 105
Period size: 43 Copynumber: 2.5 Consensus size: 42
32237904 AAAAAAATAG
* * *
32237914 AAAATTGC-AAAAA-TATATAATTATTATAATTTTTAAAAAT
1 AAAATTACAAAAAAGTATAAAATTATTATAATTATTAAAAAT
*
32237954 AAAATTACAAAAAATTAAATAAAATTATTA-AATTATTAAAAATT
1 AAAATTACAAAAAAGT--ATAAAATTATTATAATTATTAAAAA-T
32237998 AAAAATTA-AAAAAGAGTATAAAA
1 -AAAATTACAAAAA-AGTATAAAA
32238021 ATGATAAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
40 7 0.12
41 5 0.09
42 1 0.02
43 17 0.30
44 17 0.30
45 9 0.16
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (42 bp):
AAAATTACAAAAAAGTATAAAATTATTATAATTATTAAAAAT
Found at i:32238470 original size:29 final size:27
Alignment explanation
Indices: 32238417--32238477 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
32238407 TTATATTATA
* *
32238417 TTTTTATTTTTTATTACTTTAAATAAT
1 TTTTTATTTTTTAATAATTTAAATAAT
* *
32238444 TTTTTATAGTTTTTAATAATTTTAATATT
1 TTTTTAT--TTTTTAATAATTTAAATAAT
32238473 TTTTT
1 TTTTT
32238478 CCTAGGAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
29 21 0.75
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTATTTTTTAATAATTTAAATAAT
Found at i:32240297 original size:3 final size:3
Alignment explanation
Indices: 32240283--32240315 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
32240273 GTTAACAATG
*
32240283 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32240316 GATGATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32242788 original size:24 final size:24
Alignment explanation
Indices: 32242725--32242776 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32242715 TTTCTTGAAG
* * *
32242725 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32242749 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32242773 ATTT
1 ATTT
32242777 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Done.