Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 136 of 216
Found at i:43168235 original size:51 final size:52
Alignment explanation
Indices: 43168167--43168363 Score: 206
Period size: 51 Copynumber: 3.9 Consensus size: 52
43168157 ATTAATTATA
* * * * *
43168167 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
43168218 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCAGCTAT
* * * * * * *
43168269 CCGGTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-T-ATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
43168319 CTGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
43168364 AACTTTCAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
50 42 0.35
51 75 0.63
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (52 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
Found at i:43168354 original size:101 final size:101
Alignment explanation
Indices: 43168175--43168359 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
43168165 TACCGGTTCA
* *
43168175 CATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTGCA
*
43168240 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGCACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
43168277 CATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTGCA
43168341 CATAGCACTACACACGTGA
65 CATAGCACTACACACGTGA
43168360 CCATAACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 42 0.57
102 31 0.42
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:43168382 original size:101 final size:101
Alignment explanation
Indices: 43168170--43168397 Score: 262
Period size: 101 Copynumber: 2.2 Consensus size: 101
43168160 AATTATACCG
* *
43168170 GTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
* * * **
43168235 CTGCACATAGTACTACACACGTGATCGAAGCTATCCG
65 CTGCACATAGCACTACACACGTGATCCAAACTATCAA
* * * * * * *
43168272 GTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGC
*
43168336 CTGCACATAGCACTACACACGTGA-CCATAACTTTCAA
65 CTGCACATAGCACTACACACGTGATCCA-AACTATCAA
* *
43168373 TTTCACATAGTGGCCTACACATAGT
1 GTTCACATAGTAGCCTACACATAGT
43168398 TCGTGCCACA
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
100 3 0.03
101 66 0.64
102 34 0.33
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGCACTACACACGTGATCCAAACTATCAA
Found at i:43172455 original size:39 final size:39
Alignment explanation
Indices: 43172401--43172483 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
43172391 AGGCATATAC
43172401 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
43172440 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
43172479 TAAAA
1 TAAAA
43172484 ATAGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.20
Consensus pattern (39 bp):
TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
Found at i:43181523 original size:28 final size:28
Alignment explanation
Indices: 43181491--43181544 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
43181481 CCTTTGTTAT
43181491 ATGTAAAGGACACAAATTCCTTAGCTAC
1 ATGTAAAGGACACAAATTCCTTAGCTAC
43181519 ATGTAAAGGACACAAATTCCTTAGCT
1 ATGTAAAGGACACAAATTCCTTAGCT
43181545 TAGATTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (28 bp):
ATGTAAAGGACACAAATTCCTTAGCTAC
Found at i:43188255 original size:29 final size:29
Alignment explanation
Indices: 43188213--43188272 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
43188203 AAACTCGATT
43188213 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
43188242 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
43188271 TA
1 TA
43188273 CACTTTCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (29 bp):
TAGCTACAATTAAATATCATACATATTCA
Found at i:43190300 original size:13 final size:14
Alignment explanation
Indices: 43190282--43190313 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
43190272 TCTAAATCCT
43190282 TTGATTGAA-AATC
1 TTGATTGAAGAATC
43190295 TTGATTGAAGAATC
1 TTGATTGAAGAATC
43190309 TTGAT
1 TTGAT
43190314 AAATTTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (14 bp):
TTGATTGAAGAATC
Found at i:43199280 original size:104 final size:105
Alignment explanation
Indices: 43199096--43199302 Score: 335
Period size: 104 Copynumber: 2.0 Consensus size: 105
43199086 TCACTCATCT
* * *
43199096 CCATAAACAATCTGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTATTGAATTGGCCCATTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
* * *
43199161 TGAAGCATCAGGAACATGACTGGGTTTAGCTTGAATTGGC
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
* *
43199201 CCATAAACAATCGGAGGTGAAGGTGA-GATCCTTAGTTGGTATTCTACTGAATTGGCCCACTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
43199265 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
43199303 TTGTGCCTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 69 0.73
105 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (105 bp):
CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
Found at i:43202743 original size:31 final size:32
Alignment explanation
Indices: 43202705--43202765 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
43202695 TTTTAAAGCA
43202705 TATTGG-AAAAAATATCAAGACTATTAGGGCC
1 TATTGGAAAAAAATATCAAGACTATTAGGGCC
*
43202736 TATTGGAAAAAAATATGAAGACTATTAGGG
1 TATTGGAAAAAAATATCAAGACTATTAGGG
43202766 ACTACTAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.26
Consensus pattern (32 bp):
TATTGGAAAAAAATATCAAGACTATTAGGGCC
Found at i:43212778 original size:21 final size:19
Alignment explanation
Indices: 43212754--43212801 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
43212744 TAAATCTCTC
43212754 ACATAATCAAGTATATATAGA
1 ACATAATCAAGTA-ATATA-A
*
43212775 ACATTATATCAAGTAGTATAA
1 ACA-TA-ATCAAGTAATATAA
43212796 ACATAA
1 ACATAA
43212802 GTCATTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 7 0.29
22 6 0.25
23 8 0.33
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.29
Consensus pattern (19 bp):
ACATAATCAAGTAATATAA
Found at i:43213136 original size:88 final size:88
Alignment explanation
Indices: 43213053--43213258 Score: 225
Period size: 88 Copynumber: 2.3 Consensus size: 88
43213043 AGCAAATCGG
* * *
43213053 TAGGCACCAAAGTTTAGAATAGTAGGCACTGTAATGCAAAAAAGTAGGCACCAAAGTGCAAATCA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACTATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
43213118 GTAGGCACTGCAGTGCAAAGCAA
66 GTAGGCACTGCAGTGCAAAGCAA
* * ** * * * *
43213141 TAGGCACCAAAGTGTAGAATAGTAGGCCCTATAGTGCAAAGTACTAGGCATCGATGTGCAAATTA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACTATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
* * * * *
43213206 GTAGGCACCGAAATGTAAAGCAG
66 GTAGGCACTGCAGTGCAAAGCAA
** *
43213229 TATACACCAAAGTGCA-AATCAGTAGGCACT
1 TAGGCACCAAAGTGTAGAAT-AGTAGGCACT
43213259 GAATTGCAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
87 3 0.03
88 94 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (88 bp):
TAGGCACCAAAGTGTAGAATAGTAGGCACTATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
GTAGGCACTGCAGTGCAAAGCAA
Found at i:43213266 original size:22 final size:22
Alignment explanation
Indices: 43212985--43213266 Score: 169
Period size: 22 Copynumber: 12.8 Consensus size: 22
43212975 ACACCACACT
* *
43212985 AGTAGGCGCTGAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
43213007 AGTGGGCACCGTAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* **
43213029 AATAGGCACCGAAAAGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * **
43213051 GGTAGGCACCAAAGTTTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
* **
43213073 AGTAGGCACTGTAA-TGCAAAAA
1 AGTAGGCACCG-AAGTGCAAATC
*
43213095 AGTAGGCACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
43213117 AGTAGGCACTGCAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* * *
43213139 AATAGGCACCAAAGTGTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
*
43213161 AGTAGGC-CCTATAGTGCAAAGT-
1 AGTAGGCACCGA-AGTGCAAA-TC
* * * *
43213183 ACTAGGCATCGATGTGCAAATT
1 AGTAGGCACCGAAGTGCAAATC
* * *
43213205 AGTAGGCACCGAAATGTAAAGC
1 AGTAGGCACCGAAGTGCAAATC
** *
43213227 AGTATACACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* *
43213249 AGTAGGCACTGAATTGCA
1 AGTAGGCACCGAAGTGCA
43213267 GAACAATATA
Statistics
Matches: 188, Mismatches: 63, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
21 10 0.05
22 169 0.90
23 9 0.05
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCAAATC
Found at i:43214625 original size:30 final size:30
Alignment explanation
Indices: 43214591--43214753 Score: 120
Period size: 30 Copynumber: 5.3 Consensus size: 30
43214581 TAAAGTTAAT
43214591 TACATAATATAAATAGTAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
*
43214621 TACATGATATAAACT-GTAATATACATAACA
1 TACATAATATAAA-TAGTAATATACATAACA
* * * *
43214651 TACATGATATAAACAATAAAATACAT-ACA
1 TACATAATATAAATAGTAATATACATAACA
* * *
43214680 TGACATCCATACATAATA-TAA-AGAACAATATACA
1 T-ACAT-AATATA-AATAGTAATA-TAC-ATA-ACA
* * *
43214714 TAACAT-ATATAAACAGTAATGTACCTAACA
1 T-ACATAATATAAATAGTAATATACATAACA
43214744 TACATAATAT
1 TACATAATAT
43214754 CCATACTATT
Statistics
Matches: 107, Mismatches: 14, Indels: 24
0.74 0.10 0.17
Matches are distributed among these distances:
29 8 0.07
30 62 0.58
31 15 0.14
32 14 0.13
34 8 0.07
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (30 bp):
TACATAATATAAATAGTAATATACATAACA
Found at i:43214769 original size:25 final size:25
Alignment explanation
Indices: 43214741--43214791 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
43214731 AATGTACCTA
** *
43214741 ACATACATAATATCCATACTATTAT
1 ACATACATAATAGACATACTAATAT
43214766 ACATACATAATAGACATACTAATAT
1 ACATACATAATAGACATACTAATAT
43214791 A
1 A
43214792 TCAATTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (25 bp):
ACATACATAATAGACATACTAATAT
Found at i:43214784 original size:13 final size:12
Alignment explanation
Indices: 43214741--43214791 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
43214731 AATGTACCTA
43214741 ACATACATAATAT
1 ACATAC-TAATAT
* *
43214754 CCATACTATTAT
1 ACATACTAATAT
*
43214766 ACATACATAATAG
1 ACATAC-TAATAT
43214779 ACATACTAATAT
1 ACATACTAATAT
43214791 A
1 A
43214792 TCAATTGATG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (12 bp):
ACATACTAATAT
Found at i:43221799 original size:18 final size:18
Alignment explanation
Indices: 43221776--43221813 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43221766 TAATCGATTG
43221776 AACCAAACAACTTCAGTT
1 AACCAAACAACTTCAGTT
43221794 AACCAAACAACTTCAGTT
1 AACCAAACAACTTCAGTT
43221812 AA
1 AA
43221814 TCGGTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.21
Consensus pattern (18 bp):
AACCAAACAACTTCAGTT
Found at i:43222061 original size:14 final size:14
Alignment explanation
Indices: 43222042--43222076 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43222032 AAAAATCTGC
*
43222042 AACCCATTAACCCT
1 AACCCAATAACCCT
*
43222056 AACCCAATAACCTT
1 AACCCAATAACCCT
43222070 AACCCAA
1 AACCCAA
43222077 CTCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCAATAACCCT
Found at i:43223460 original size:13 final size:13
Alignment explanation
Indices: 43223442--43223466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43223432 TAAGATAAAT
43223442 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
43223455 TTGCTTGTGTTT
1 TTGCTTGTGTTT
43223467 TAGATCCTAT
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:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:43224220 original size:19 final size:20
Alignment explanation
Indices: 43224187--43224229 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
43224177 AAAGACTTAA
43224187 AATTTCAGTTAATTTTGGAT
1 AATTTCAGTTAATTTTGGAT
* *
43224207 AATTT-AGTTGATTTTGGTT
1 AATTTCAGTTAATTTTGGAT
43224226 AATT
1 AATT
43224230 CGGTTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (20 bp):
AATTTCAGTTAATTTTGGAT
Found at i:43224635 original size:4 final size:4
Alignment explanation
Indices: 43224626--43224651 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43224616 TAAAAATTGT
43224626 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
43224652 AACAGCGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:43231199 original size:40 final size:40
Alignment explanation
Indices: 43231094--43231239 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
43231084 GCTACTCGTT
*
43231094 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
43231134 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43231174 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43231215 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43231240 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43238755 original size:12 final size:13
Alignment explanation
Indices: 43238730--43238763 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
43238720 AAATCTAACT
43238730 TTTTTAAAATATA
1 TTTTTAAAATATA
43238743 TTTTTCAAAATAT-
1 TTTTT-AAAATATA
43238756 TTTTTAAA
1 TTTTTAAA
43238764 GGAAACGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 10 0.50
14 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:43241362 original size:41 final size:40
Alignment explanation
Indices: 43241301--43241470 Score: 162
Period size: 41 Copynumber: 4.2 Consensus size: 40
43241291 TTTTGTTACT
* * * *** *
43241301 ATTAGCGGCGCTTCGTCAAAAACGCCGCTAAAGCTAAATTC
1 ATTAGCGGCGCTTAGACAAAAACGCCACTAAAGCCCGA-GC
*
43241342 ATTAGCGGCGCTTAGACAAAAGCGCCACTAAAGCCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCACTAAAGCCCGAGC
* * * *
43241382 AATAGTGGCGCATAGACATAAACGCCACTAAAGGCCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCACTAAA-GCCCGAGC
* * *
43241423 ATTAGCGGCGCTTA-ACTAAAAACGCCGCTAAAGGTCCGACC
1 ATTAGCGGCGCTTAGAC-AAAAACGCCACTAAA-GCCCGAGC
43241464 ATTAGCG
1 ATTAGCG
43241471 TCGCATCCGT
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 30 0.28
41 77 0.72
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGACAAAAACGCCACTAAAGCCCGAGC
Found at i:43241484 original size:41 final size:41
Alignment explanation
Indices: 43241341--43241498 Score: 144
Period size: 41 Copynumber: 3.9 Consensus size: 41
43241331 AAGCTAAATT
* * * *
43241341 CATTAGCGGCGCTTAGAC-AAAAGCGCCACTAAA-GCCCGAG
1 CATTAGCGGCGCATA-ACTAAAAACGCCGCTAAAGGCCCGAC
* * * * *
43241381 CAATAGTGGCGCATAGAC-ATAAACGCCACTAAAGGCCCGAG
1 CATTAGCGGCGCATA-ACTAAAAACGCCGCTAAAGGCCCGAC
* *
43241422 CATTAGCGGCGCTTAACTAAAAACGCCGCTAAAGGTCCGAC
1 CATTAGCGGCGCATAACTAAAAACGCCGCTAAAGGCCCGAC
* *
43241463 CATTAGCGTCGCAT-CCGTAAAAACGCCGCTAAAGGC
1 CATTAGCGGCGCATAAC-TAAAAACGCCGCTAAAGGC
43241499 TCGGAAAATG
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 31 0.31
41 68 0.69
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.15
Consensus pattern (41 bp):
CATTAGCGGCGCATAACTAAAAACGCCGCTAAAGGCCCGAC
Found at i:43241635 original size:40 final size:40
Alignment explanation
Indices: 43241538--43241636 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
43241528 GCTGATTCCT
* * * * * *
43241538 ATTTTTAGCGGCGGTTTCGGAAATACGCCGCTGATGTTCG
1 ATTTTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCG
*
43241578 ATCTTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCG
1 ATTTTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCG
*
43241618 ATTTTTAGTGGCGCTTTTG
1 ATTTTTAGCGGCGCTTTTG
43241637 TTCCAAACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (40 bp):
ATTTTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCG
Found at i:43243720 original size:24 final size:24
Alignment explanation
Indices: 43243692--43243743 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43243682 TTAGTAAGTC
* *
43243692 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
43243716 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
43243740 AAAT
1 AAAT
43243744 CTTTTAGAAA
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:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:43247150 original size:18 final size:19
Alignment explanation
Indices: 43247107--43247156 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
43247097 TGATTTTAAA
43247107 AAAAATAAATTATTAAAAT
1 AAAAATAAATTATTAAAAT
**
43247126 -ATTATAAATTA-TAAAAT
1 AAAAATAAATTATTAAAAT
43247143 AAAAATAAA-TATTA
1 AAAAATAAATTATTA
43247157 TAAAAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATAAATTATTAAAAT
Found at i:43247174 original size:27 final size:27
Alignment explanation
Indices: 43247122--43247177 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
43247112 TAAATTATTA
*
43247122 AAATATTATAAATTATAAAATAAAAAT
1 AAATATTATAAAATATAAAATAAAAAT
**
43247149 AAATATTATAAAAATATTCAATAAAAAT
1 AAATATTAT-AAAATATAAAATAAAAAT
43247177 A
1 A
43247178 TCATTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
AAATATTATAAAATATAAAATAAAAAT
Found at i:43248246 original size:2 final size:2
Alignment explanation
Indices: 43248239--43248266 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43248229 TTATTTTAGA
43248239 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
43248267 TGTCAAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43248850 original size:18 final size:18
Alignment explanation
Indices: 43248804--43248850 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
43248794 TACATTTCTC
43248804 TATATATCTTTTTAATTTT
1 TATATA-CTTTTTAATTTT
43248823 TCATA-A-TTTTTAATTTT
1 T-ATATACTTTTTAATTTT
43248840 TATATACTTTT
1 TATATACTTTT
43248851 GACTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 4 0.16
19 2 0.08
20 3 0.12
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATACTTTTTAATTTT
Found at i:43251581 original size:45 final size:45
Alignment explanation
Indices: 43251494--43251594 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
43251484 ATCTGTATTA
* * * * * * *
43251494 TTTTGTTGTGTACCCACAGCCCTAGGTAGATTCTATCTGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
*
43251539 TTTTGTTGTGTACTCACAACCATAAGCAAATTCCATCCGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
43251584 TTTTGTTGTGT
1 TTTTGTTGTGT
43251595 GTCCACAGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (45 bp):
TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
Found at i:43254420 original size:23 final size:23
Alignment explanation
Indices: 43254375--43254426 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
43254365 ATTGACTACA
* *
43254375 TTTTTTTACTTTAATCATTGAAT
1 TTTTTTTACATTAATCATCGAAT
*
43254398 GTTTTTTTACATTAGTC-TCGAAT
1 -TTTTTTTACATTAATCATCGAAT
43254421 TTTTTT
1 TTTTTT
43254427 CAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 5 0.20
24 14 0.56
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTTTTACATTAATCATCGAAT
Found at i:43271275 original size:13 final size:15
Alignment explanation
Indices: 43271247--43271298 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
43271237 TGTCCTTATT
43271247 TTTTTTATTTCTTTA
1 TTTTTTATTTCTTTA
43271262 TTTTTTA-TTC-TTA
1 TTTTTTATTTCTTTA
*
43271275 TTTTTT-TATCATTTA
1 TTTTTTATTTC-TTTA
43271290 -TTTTTATTT
1 TTTTTTATTT
43271299 TAGTTCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 11 0.35
14 8 0.26
15 12 0.39
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTCTTTA
Found at i:43271299 original size:21 final size:21
Alignment explanation
Indices: 43271244--43271299 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
43271234 CTTTGTCCTT
* *
43271244 ATTT-TTTTTATTTCTTTATT
1 ATTTATTTTTATTTTTTTATC
* *
43271264 TTTTATTCTTATTTTTTTATC
1 ATTTATTTTTATTTTTTTATC
43271285 ATTTATTTTTATTTT
1 ATTTATTTTTATTTT
43271300 AGTTCATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTATTTTTATTTTTTTATC
Found at i:43288461 original size:49 final size:49
Alignment explanation
Indices: 43288399--43288524 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 49
43288389 GGCCCACCAG
* * *
43288399 CCTGGTTAACAACTAACATGTCTTACCAGTGGCCCATCATACACGCCTA
1 CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
* * * * * *
43288448 TCTGGTTAGCAACTAATATGCCCTACCAGTGGCCTATCATATACTCCCA
1 CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
*
43288497 CCTGGTTAGCAACTAGCATGCCTTACCA
1 CCTGGTTAGCAACTAACATGCCTTACCA
43288525 ATGGTCAAGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (49 bp):
CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
Found at i:43295465 original size:51 final size:51
Alignment explanation
Indices: 43295291--43295478 Score: 190
Period size: 51 Copynumber: 3.7 Consensus size: 51
43295281 TGAAAGTGAA
* *
43295291 AGTGAT-GGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACAAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTAC-AGAT
* * * *
43295341 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTA-CAGAT
* * * ** *
43295392 AGCT--TCGATCACGTGTACAGTACTATATGCAGGCTACTAAGTGTATCAGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTA-CAGAT
43295443 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTA
43295479 TTATGTGAAC
Statistics
Matches: 110, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
49 4 0.04
50 39 0.35
51 65 0.59
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTACAGAT
Found at i:43296317 original size:37 final size:37
Alignment explanation
Indices: 43296267--43296345 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43296257 TTATTACGAA
* * *
43296267 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43296304 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43296341 GTCTT
1 GTCTT
43296346 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43296542 original size:47 final size:47
Alignment explanation
Indices: 43296464--43296878 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
43296454 CCCTTCGGGA
* * * * * *
43296464 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43296511 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43296558 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43296605 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43296652 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43296701 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43296748 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43296795 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43296844 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
43296879 AGAATCCTAA
Statistics
Matches: 350, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 257 0.73
49 93 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43296693 original size:96 final size:94
Alignment explanation
Indices: 43296464--43296878 Score: 704
Period size: 96 Copynumber: 4.4 Consensus size: 94
43296454 CCCTTCGGGA
* * * * * * * *
43296464 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43296529 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
43296558 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43296623 TTTCATATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
43296652 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43296717 ACTTTCATATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
43296748 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
43296813 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
43296844 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
43296879 AGAATCCTAA
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 140 0.46
96 167 0.54
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:43296720 original size:143 final size:143
Alignment explanation
Indices: 43296464--43296878 Score: 726
Period size: 143 Copynumber: 2.9 Consensus size: 143
43296454 CCCTTCGGGA
* * * * * * * *
43296464 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43296527 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43296592 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
43296605 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43296670 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCATATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43296735 TCGGCCATTAGGC
131 TCGGCCATTAGGC
43296748 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43296813 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43296878 T
131 T
43296879 AGAATCCTAA
Statistics
Matches: 260, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 46 0.18
143 214 0.82
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:43298631 original size:13 final size:13
Alignment explanation
Indices: 43298613--43298639 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43298603 TTACTAAATT
43298613 TTCATGGATTCAA
1 TTCATGGATTCAA
43298626 TTCATGGATTCAA
1 TTCATGGATTCAA
43298639 T
1 T
43298640 ATACCATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTCATGGATTCAA
Found at i:43299569 original size:16 final size:16
Alignment explanation
Indices: 43299548--43299579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43299538 TGATTGAAAG
*
43299548 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
43299564 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
43299580 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:43302904 original size:23 final size:23
Alignment explanation
Indices: 43302878--43302943 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
43302868 AAATTTTTAT
*
43302878 AGAATACACCATACAGGCTTGAA
1 AGAATACACCACACAGGCTTGAA
* * * *
43302901 AGAATATACCACACAGGTTTTAC
1 AGAATACACCACACAGGCTTGAA
43302924 AGAATATC-CCACACAGGCTT
1 AGAATA-CACCACACAGGCTT
43302944 CTCCCGTAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (23 bp):
AGAATACACCACACAGGCTTGAA
Found at i:43311130 original size:36 final size:36
Alignment explanation
Indices: 43311083--43311157 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
43311073 CATGATGCTA
43311083 AATTATGCATAAAAA-AGCTTATTTTGCTAATTATTG
1 AATTATGCATAAAAATA-CTTATTTTGCTAATTATTG
43311119 AATTATGCATAAAAATACTTATTTTGCTAATTATTG
1 AATTATGCATAAAAATACTTATTTTGCTAATTATTG
43311155 AAT
1 AAT
43311158 CTAAATTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (36 bp):
AATTATGCATAAAAATACTTATTTTGCTAATTATTG
Found at i:43324664 original size:29 final size:30
Alignment explanation
Indices: 43324607--43324681 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
43324597 TCCTTACAAA
*
43324607 TAGATAGCCACAAAGGCAGCCACATAACAT
1 TAGATAGCCACAAAGGCAGCCACACAACAT
*
43324637 TAGATAGCCAC-AAGGC-TCTCACACAACAT
1 TAGATAGCCACAAAGGCAGC-CACACAACAT
* *
43324666 TAGATATCCATAAAGG
1 TAGATAGCCACAAAGG
43324682 TGCCTACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.59
30 15 0.38
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.17
Consensus pattern (30 bp):
TAGATAGCCACAAAGGCAGCCACACAACAT
Found at i:43326029 original size:24 final size:23
Alignment explanation
Indices: 43325986--43326030 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
43325976 AAGCTGCATT
*
43325986 AATGCTATCGAATCGATCAAAGC
1 AATGCTATCGAAACGATCAAAGC
*
43326009 AATGCTACTCGAAACGGTCAAA
1 AATGCTA-TCGAAACGATCAAA
43326031 CTGCGCTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (23 bp):
AATGCTATCGAAACGATCAAAGC
Found at i:43326056 original size:324 final size:324
Alignment explanation
Indices: 43325453--43326424 Score: 1633
Period size: 324 Copynumber: 3.0 Consensus size: 324
43325443 TTTAACTCAT
43325453 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
43325518 AACGTAA-TTGCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTT
66 AACGTAACTT-CTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTT
* *
43325582 CAAAGTTGA-CCTCTCATTCCCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCT
130 CAAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCT
* *
43325646 GATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCACTGCTCAAAACGGTCAAACTGT
195 GATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGT
43325711 GCTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
260 GCTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
* *
43325776 TTCTTTTTAACTTTGAGCATCATAATCACATAGCAGAACATTGTCATAATTGCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
*
43325841 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTATCTTTCCAAGGGTATTTC
66 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
* *
43325906 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGCTGGAGAGATACGGAGATGCTGATGAATCTG
131 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
* ** * *
43325971 ATGCAAAGCTGCATTAATGCTATCGAATCGATCAAAGCAATGCTACTCGAAACGGTCAAACTGCG
196 ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
* *
43326036 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGTAGCGGTAAGATGACTCGGTAGTGGAAAATGAGG
261 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
* * *
43326100 TTCTTTTTAACTTTGAACATCATAATCATATAGCAAAACCTTGTCATAATTTCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
*
43326165 AACGTAACTGCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
66 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
* *
43326230 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGAAGAGATATAGAGATGCTGATGAATCTG
131 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
* * * * *
43326295 ATGCAAGGCTGCGTTAATGCTATCGAATCGATCAAAGGAGCGTTGCTCGAAATGATCAAACTGTG
196 ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
* * * * *
43326360 TTGTAAAGTTCTCGAGTGTAATAGTATGAACAGCGGTAAGGTGACTCGGTAGTGAAAAATGAGG
261 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
43326424 T
1 T
43326425 GGGTTTGCAT
Statistics
Matches: 603, Mismatches: 44, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
323 131 0.22
324 472 0.78
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (324 bp):
TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
Found at i:43327784 original size:5 final size:5
Alignment explanation
Indices: 43327757--43327856 Score: 50
Period size: 5 Copynumber: 19.6 Consensus size: 5
43327747 ATAGTAATAA
*
43327757 AAAAT AAATAT AAAA- ATAAAT AAAAT AAAAT AAAA- AGAGCAAT AAGA-
1 AAAAT AAA-AT AAAAT A-AAAT AAAAT AAAAT AAAAT A-A--AAT AAAAT
* * *
43327804 ACAAT ATAAAT -AAAT AAAAGG AAAAT --AAT AAATT AAAATT AAAAT
1 AAAAT A-AAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAA-T AAAAT
43327849 AAAAT AAA
1 AAAAT AAA
43327857 TGATAAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 28
0.67 0.07 0.26
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 40 0.55
6 18 0.25
7 3 0.04
8 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:43327786 original size:26 final size:27
Alignment explanation
Indices: 43327740--43327790 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
43327730 ATCTAATACT
*
43327740 TAAAAATATAGTAATAAAAAATAAATA
1 TAAAAATATAATAATAAAAAATAAATA
43327767 TAAAAATA-AATAA-AATAAAATAAA
1 TAAAAATATAATAATAA-AAAATAAA
43327791 AAGAGCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 12 0.55
27 8 0.36
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (27 bp):
TAAAAATATAATAATAAAAAATAAATA
Found at i:43327831 original size:19 final size:19
Alignment explanation
Indices: 43327809--43327857 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
43327799 TAAGAACAAT
43327809 ATAAATAAATAAAAGGAAA
1 ATAAATAAATAAAAGGAAA
**
43327828 AT-AATAAATTAAAATTAAA
1 ATAAATAAA-TAAAAGGAAA
43327847 ATAAAATAAAT
1 AT-AAATAAAT
43327858 GATAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.24
19 12 0.48
20 1 0.04
21 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
ATAAATAAATAAAAGGAAA
Found at i:43327877 original size:23 final size:21
Alignment explanation
Indices: 43327828--43327881 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
43327818 TAAAAGGAAA
* *
43327828 ATAATAAATTAAAATTAAAAT
1 ATAATAAATGAAAATAAAAAT
*
43327849 AAAATAAATGATAAATAATAAAT
1 ATAATAAATGA-AAATAA-AAAT
43327872 ATAATAAATG
1 ATAATAAATG
43327882 GACCAAACGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 13 0.48
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
ATAATAAATGAAAATAAAAAT
Found at i:43343528 original size:6 final size:6
Alignment explanation
Indices: 43343517--43343551 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
43343507 TGTAAAAATT
43343517 AAATAA AAATAA AAATAA AAATATTA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATA--A AAATAA AAA
43343552 ATGGCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:43347625 original size:36 final size:36
Alignment explanation
Indices: 43347504--43347945 Score: 478
Period size: 36 Copynumber: 12.0 Consensus size: 36
43347494 ATAATCAATG
* * * * *
43347504 GATAATGCTCGTTTGAGCAAGCATTCAGTATAATTAGTG
1 GATATTGCTCGTTTGAGC-A-C-TTTAGTAGAATCAGTA
*
43347543 GATATTGCTCGTTTGAGCAACTATTCGATAGAATCAGTA
1 GATATTGCTCGTTTGAGC-ACT-TTAG-TAGAATCAGTA
*
43347582 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAATA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * * * *
43347618 GACATTGCTCATTTTAGAAAATTTAGTAGGATCAGTA
1 GATATTGCTCGTTTGAG-CACTTTAGTAGAATCAGTA
* * *
43347655 GATATTGCTTG-TTGAGCACGTTCAGTAGAATCATTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
43347691 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * *
43347727 AACATTGCTCGTTTGAGCACATTTAGTAGGATTAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
43347764 GATAATGCTCG-TTGAGCACTTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
* *
43347800 GATATTTCTCGTTTGAGCACTTTCATTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
* * * *
43347837 GACATTGCTC-ATTGAGCACTTTTAGTAGTATCAATA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
43347873 GATATTGCTCGTTTGAGCACTTTCAGTAGAAT-AGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
43347909 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
43347946 TTCCATTTTT
Statistics
Matches: 340, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.00
36 179 0.53
37 109 0.32
38 6 0.02
39 45 0.13
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (36 bp):
GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
Found at i:43347661 original size:73 final size:73
Alignment explanation
Indices: 43347504--43347945 Score: 480
Period size: 73 Copynumber: 6.0 Consensus size: 73
43347494 ATAATCAATG
* * * * * * * *
43347504 GATAATGCTCGTTTGAGCAAGCATTCAGTATAATTAGTGGATATTGCTCGTTTGAGCAACTATTC
1 GATATTGCTCGTTTGAGC-A-C-TTTAGTAGAATCAGTAGATATTGCTCATTTGAGC-ACTTTTA
43347569 GATAGAATCAGTA
62 G-TAGAATCAGTA
* * * * **
43347582 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAATAGACATTGCTCATTTTAGAAAATTTAGTAG
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTAG
*
43347647 GATCAGTA
66 AATCAGTA
* * * * *
43347655 GATATTGCTTG-TTGAGCACGTTCAGTAGAATCATTAGATATTGCTCGTTTGAGCAC-TTCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTA
43347718 GAATCAGTA
65 GAATCAGTA
* * * * * *
43347727 AACATTGCTCGTTTGAGCACATTTAGTAGGATTAGTAGATAATGCTC-GTTGAGCACTTTTAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTA
43347791 GAATCAGTA
65 GAATCAGTA
* * *
43347800 GATATTTCTCGTTTGAGCACTTTCATTAGAATCAGTAGACATTGCTCA-TTGAGCACTTTTAGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTA
* *
43347864 GTATCAATA
65 GAATCAGTA
*
43347873 GATATTGCTCGTTTGAGCACTTTCAGTAGAAT-AGTAGATATTGCTCGTTTGAGCACTTTTAGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTA
43347937 GAATCAGTA
65 GAATCAGTA
43347946 TTCCATTTTT
Statistics
Matches: 306, Mismatches: 52, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
72 54 0.18
73 204 0.67
74 4 0.01
75 25 0.08
76 1 0.00
77 1 0.00
78 17 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (73 bp):
GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTAG
AATCAGTA
Found at i:43347695 original size:109 final size:109
Alignment explanation
Indices: 43347543--43347945 Score: 560
Period size: 109 Copynumber: 3.7 Consensus size: 109
43347533 ATAATTAGTG
43347543 GATATTGCTCGTTTGAGCAACTATTC-GATAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAG
1 GATATTGCTCG-TTGAGC-ACT-TTCAG-TAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAG
* * * *
43347607 TAGAATCAATAGACATTGCTCATTTTAGAAAATTTAGTAGGATCAGTA
62 TAGAATCAGTAGACATTGCTCATTTGAGCACATTTAGTAGGATCAGTA
* * * *
43347655 GATATTGCTTGTTGAGCACGTTCAGTAGAATCATTAGATATTGCTCGTTTGAGCACTTCAGTAGA
1 GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGTAGA
* * *
43347720 ATCAGTAAACATTGCTCGTTTGAGCACATTTAGTAGGATTAGTA
66 ATCAGTAGACATTGCTCATTTGAGCACATTTAGTAGGATCAGTA
* * * *
43347764 GATAATGCTCGTTGAGCACTTTTAGTAGAATCAGTAGATATTTCTCGTTTGAGCACTTTCATTAG
1 GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-AGTAG
* * *
43347829 AATCAGTAGACATTGCTCA-TTGAGCACTTTTAGTAGTATCAATA
65 AATCAGTAGACATTGCTCATTTGAGCACATTTAGTAGGATCAGTA
43347873 GATATTGCTCGTTTGAGCACTTTCAGTAGAAT-AGTAGATATTGCTCGTTTGAGCACTTTTAGTA
1 GATATTGCTCG-TTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTAGTA
43347937 GAATCAGTA
64 GAATCAGTA
43347946 TTCCATTTTT
Statistics
Matches: 258, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
109 196 0.76
110 46 0.18
111 6 0.02
112 10 0.04
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (109 bp):
GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGTAGA
ATCAGTAGACATTGCTCATTTGAGCACATTTAGTAGGATCAGTA
Found at i:43350063 original size:12 final size:13
Alignment explanation
Indices: 43350048--43350076 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43350038 TTAACTGAGA
43350048 AATTAATTAA-TT
1 AATTAATTAATTT
43350060 AATTAATTAATTT
1 AATTAATTAATTT
43350073 AATT
1 AATT
43350077 CAAACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:43356419 original size:25 final size:23
Alignment explanation
Indices: 43356385--43356431 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
43356375 GTTAGGTAAA
43356385 TTTAAATTGTTGTGAAATTGTTATG
1 TTTAAATTGTT-TG-AATTGTTATG
*
43356410 TTTAATTTGTTTGAATTGTTAT
1 TTTAAATTGTTTGAATTGTTAT
43356432 TTAACTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (23 bp):
TTTAAATTGTTTGAATTGTTATG
Found at i:43356614 original size:17 final size:17
Alignment explanation
Indices: 43356583--43356616 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43356573 GGAAAATATT
* *
43356583 AAATTTGAGTTTTCTAC
1 AAATTTGAATATTCTAC
43356600 AAATTTGAATATTCTAC
1 AAATTTGAATATTCTAC
43356617 TAATAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTGAATATTCTAC
Found at i:43367646 original size:43 final size:43
Alignment explanation
Indices: 43367564--43367764 Score: 224
Period size: 43 Copynumber: 4.7 Consensus size: 43
43367554 GCAAACGTTT
* * * *
43367564 GCGGCGCTTCTTCCACAAACGCCGCTATAGATCAGGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGATCAAGACCTTTA
* *
43367607 GCGGTGCTTTTTTTACAAACGCCGCTATAAG-TCAAGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTA-AAGATCAAGACCTTTA
* *
43367650 GCGGCGCTTTTTTCGCAAACGCCACTAAAGATCAAGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGATCAAGACCTTTA
* * ** * *
43367693 GCAGCTCTTTTCCCACAAACGCTGCTAAAGATCAGGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGATCAAGACCTTTA
* * * *
43367736 GCGACGCTTTTTACAAAAACGCCACTAAA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAA
43367765 AACAGAACAT
Statistics
Matches: 130, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.02
43 125 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
GCGGCGCTTTTTTCACAAACGCCGCTAAAGATCAAGACCTTTA
Found at i:43368197 original size:43 final size:43
Alignment explanation
Indices: 43368125--43368215 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
43368115 CACATTGCAA
* * * *
43368125 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATCTACTTAATCAAGGAAATCTT
* *
43368168 GGTAATAAAAGATATAATACATCTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATCTACTTAATCAAGGAAATCTT
43368211 -GTAAT
1 GGTAAT
43368216 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATCTACTTAATCAAGGAAATCTT
Found at i:43372881 original size:14 final size:14
Alignment explanation
Indices: 43372850--43372898 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
43372840 TCCCAACCCT
* *
43372850 TAAACAATAAACCA
1 TAAACCATAATCCA
* *
43372864 TAAACCGTAATCCC
1 TAAACCATAATCCA
43372878 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
43372893 TAAACC
1 TAAACC
43372899 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:43373020 original size:49 final size:49
Alignment explanation
Indices: 43372948--43373046 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
43372938 TACCATAAAC
43372948 CATAAACTATAATCATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CATAAACTATAATCATAATTAATTCAATATTTTAAAATTAATACTATCT
43372997 CATAAACTATAATCATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CATAAACTATAATCATAATTAATTCAATATTTTAAAATTAATACTATCT
43373046 C
1 C
43373047 TTTTACAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (49 bp):
CATAAACTATAATCATAATTAATTCAATATTTTAAAATTAATACTATCT
Found at i:43373498 original size:7 final size:7
Alignment explanation
Indices: 43373488--43373553 Score: 51
Period size: 7 Copynumber: 9.4 Consensus size: 7
43373478 CCTAAATCCA
*
43373488 TAACTCT
1 TAACCCT
*
43373495 TAACCCA
1 TAACCCT
*
43373502 TAACCCC
1 TAACCCT
*
43373509 TAACCCA
1 TAACCCT
*
43373516 TAACTCT
1 TAACCCT
43373523 TAACCCT
1 TAACCCT
*
43373530 TAAACCT
1 TAACCCT
**
43373537 TAAATCT
1 TAACCCT
*
43373544 CAACCCT
1 TAACCCT
43373551 TAA
1 TAA
43373554 ACCATAATCC
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (7 bp):
TAACCCT
Found at i:43373502 original size:14 final size:14
Alignment explanation
Indices: 43373485--43373528 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
43373475 AACCCTAAAT
43373485 CCATAACTCTTAAC
1 CCATAACTCTTAAC
* *
43373499 CCATAACCCCTAAC
1 CCATAACTCTTAAC
43373513 CCATAACTCTTAAC
1 CCATAACTCTTAAC
43373527 CC
1 CC
43373529 TTAAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (14 bp):
CCATAACTCTTAAC
Found at i:43373832 original size:7 final size:7
Alignment explanation
Indices: 43373820--43373997 Score: 54
Period size: 7 Copynumber: 24.9 Consensus size: 7
43373810 ACTAGTTAAT
43373820 CTAAACC
1 CTAAACC
43373827 CTAAACC
1 CTAAACC
*
43373834 ATAAACC
1 CTAAACC
43373841 CTAAAACC
1 CT-AAACC
*
43373849 ATAAACC
1 CTAAACC
* *
43373856 CTTAACA
1 CTAAACC
* *
43373863 CTTAACAT
1 CTAAAC-C
43373871 CTAAACC
1 CTAAACC
*
43373878 TTAAACC
1 CTAAACC
* *
43373885 C-CAGCC
1 CTAAACC
*
43373891 TTTAAACC
1 -CTAAACC
*
43373899 ATAAACC
1 CTAAACC
* *
43373906 ATAACCC
1 CTAAACC
43373913 CTAAACC
1 CTAAACC
*
43373920 CATAATCC
1 C-TAAACC
*
43373928 ATAAACC
1 CTAAACC
* **
43373935 TTAAAATG
1 CT-AAACC
*
43373943 GT-AACAC
1 CTAAAC-C
*
43373950 CTAAACT
1 CTAAACC
* *
43373957 TTAAACT
1 CTAAACC
43373964 CTAAACC
1 CTAAACC
* *
43373971 ATATACC
1 CTAAACC
43373978 CTAAACC
1 CTAAACC
**
43373985 AAAAACC
1 CTAAACC
43373992 CTAAAC
1 CTAAAC
43373998 TATAGTGATA
Statistics
Matches: 121, Mismatches: 42, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
6 5 0.04
7 90 0.74
8 26 0.21
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:43373849 original size:15 final size:14
Alignment explanation
Indices: 43373821--43373997 Score: 72
Period size: 14 Copynumber: 11.9 Consensus size: 14
43373811 CTAGTTAATC
43373821 TAAACCCTAAACCA
1 TAAACCCTAAACCA
43373835 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
43373850 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* * *
43373863 CTTAACATCTAAACCT
1 -TAAAC-CCTAAACCA
43373879 TAAACCCCAGCCTTTAAACCA
1 TAAA---C--CC--TAAACCA
* * *
43373900 TAAACCATAACCCC
1 TAAACCCTAAACCA
*
43373914 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
43373929 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* **
43373941 TGGTAACACCTAAACTT
1 T--AAAC-CCTAAACCA
*
43373958 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
43373972 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
43373986 AAAACCCTAAAC
1 TAAACCCTAAAC
43373998 TATAGTGATA
Statistics
Matches: 119, Mismatches: 28, Indels: 32
0.66 0.16 0.18
Matches are distributed among these distances:
12 2 0.02
13 2 0.02
14 59 0.50
15 40 0.34
16 2 0.02
17 1 0.01
18 2 0.02
19 1 0.01
21 10 0.08
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:43373939 original size:22 final size:21
Alignment explanation
Indices: 43373892--43373997 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
43373882 ACCCCAGCCT
*
43373892 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
43373913 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
*** *
43373935 TTAAAATGGTAACACC-TAAACT
1 TT-AAACCATAA-ACCATAAACC
*
43373957 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
* * *
43373978 CTAAACCAAAAACCCTAAAC
1 TTAAACCATAAACCATAAAC
43373998 TATAGTGATA
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
20 4 0.06
21 28 0.45
22 25 0.40
23 5 0.08
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:43374287 original size:41 final size:42
Alignment explanation
Indices: 43374229--43374342 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 42
43374219 TAGAGAATTC
43374229 GCGGCGCTTT-CTCAAAAACGCCACTAAAGCCCTAAGCATTA
1 GCGGCGCTTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
* *
43374270 GCGGCGCTTTCCT-AAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
* * **
43374311 GCAGCGCTTT-CTCAGAAACGCTGCTAAAGCCC
1 GCGGCGCTTTCCTCAAAAACGCCACTAAAGCCC
43374343 ACGAAAGATC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.03
41 62 0.94
42 2 0.03
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.19
Consensus pattern (42 bp):
GCGGCGCTTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
Found at i:43385131 original size:119 final size:116
Alignment explanation
Indices: 43384859--43385125 Score: 406
Period size: 115 Copynumber: 2.3 Consensus size: 116
43384849 AAAAAAAAAA
*
43384859 TTTTT-GTGTCAGAGTCAGATATAAAAATACG--AAAAAAA--TTAAAAAAGATTTTTTGGGTGC
1 TTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAATTTTAAAAAAGATTTTTTGGGTGC
*
43384919 TGGCCTGTCAATGGCCGGCACCCAGTGAATAGTAAAAAAATAATTTTTTTCTTT
66 TGGCCTGTCAATGGCCGGCACCCAGTGAACAGT---AAAATAATTTTTTTCTTT
*
43384973 TTTTTCGTGTTAGAATCAGATATAAAAATACGAAAAAAAAATTTTAAAAAA-ATTTTTTGGGGTG
1 TTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAATTTTAAAAAAGATTTTTT-GGGTG
43385037 CTGGCCTGTCAATGGCCGGCACCCAGTGAACAGT-AAA-AATTTTTTTCATTT
65 CTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAATAATTTTTTTC-TTT
43385088 TTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAA
1 TTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAA
43385126 TAAAAATTTT
Statistics
Matches: 142, Mismatches: 4, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
114 15 0.11
115 67 0.47
117 7 0.05
118 7 0.05
119 46 0.32
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (116 bp):
TTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAATTTTAAAAAAGATTTTTTGGGTGC
TGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAATAATTTTTTTCTTT
Found at i:43385382 original size:111 final size:106
Alignment explanation
Indices: 43385241--43385662 Score: 488
Period size: 111 Copynumber: 4.0 Consensus size: 106
43385231 CAAGTCCTAT
*
43385241 AAAATTTTTTT--AGTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAGAAATTTT
1 AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACACG----AAAA-AAATTTT
*
43385304 TTTTACTGTAT-ACTGGGTGTCGGCCATTGACAGGCCAGCACCAAAA
61 TTTTACTGT-TCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
*
43385350 AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACACG--AAAATTTTTTTTTA
1 AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTTTTTTTA
*
43385413 CTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACC---C
66 CTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* ** * ***
43385451 AAATTTTTTTTTTA-TTTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAAGAAAAAAA
1 AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC-----GAAA-AAAATTT
* * *
43385515 ATTTTACTGTTCACTGGGTACCTGCCATTGACAGGCCAGCACCCAAAA
60 TTTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAA
* * *
43385563 AAAA--TTTTTAAATTTTTTTTTGTATTTTTATATCTGACTCTGACACGAAAAAATTTTTTTTTA
1 AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTTTTTTTA
*
43385626 CTGTTTACTGGGTGCCGGCCATTGACAGGCCAGCACC
66 CTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACC
43385663 CAAATTTTTT
Statistics
Matches: 267, Mismatches: 30, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
100 33 0.12
101 11 0.04
103 1 0.00
104 47 0.18
105 42 0.16
106 3 0.01
107 1 0.00
108 41 0.15
109 13 0.05
110 6 0.02
111 66 0.25
112 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (106 bp):
AAAATTTTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTTTTTTTA
CTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
Found at i:43385471 original size:211 final size:212
Alignment explanation
Indices: 43385245--43385682 Score: 695
Period size: 211 Copynumber: 2.1 Consensus size: 212
43385235 TCCTATAAAA
* ****
43385245 TTTTTTTAGTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAG-AAATTTTTTTTA
1 TTTTTTTA-TTTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAAGAAAAAAAATTTTA
**
43385309 CTGTAT-ACTGGGTGTCGGCCATTGACAGGCCAGCA-CCAAAAAAAATTTTTTTAAATTTTTTTT
65 CTGT-TCACTGGGTACCGGCCATTGACAGGCCAGCACCCAAAAAAAA--TTTTTAAATTTTTTTT
*
43385372 CGTATTTTTATATCTGATTCTGACACG-AAAATTTTTTTTTACTGTTCACTGGGTGCCGGCCATT
127 CGTATTTTTATATCTGACTCTGACACGAAAAATTTTTTTTTACTGTTCACTGGGTGCCGGCCATT
43385436 GACAGGCCAGCACCCAAATTT
192 GACAGGCCAGCACCCAAATTT
43385457 TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAAGAAAAAAAATTTTAC
1 TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAAGAAAAAAAATTTTAC
* *
43385522 TGTTCACTGGGTACCTGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTAAATTTTTTTTTGTA
66 TGTTCACTGGGTACCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTAAATTTTTTTTCGTA
*
43385587 TTTTTATATCTGACTCTGACACGAAAAAATTTTTTTTTACTGTTTACTGGGTGCCGGCCATTGAC
131 TTTTTATATCTGACTCTGACACG-AAAAATTTTTTTTTACTGTTCACTGGGTGCCGGCCATTGAC
43385652 AGGCCAGCACCCAAATTT
195 AGGCCAGCACCCAAATTT
*
43385670 TTTTTTTCTTTTT
1 TTTTTTTATTTTT
43385683 CCTATATCAG
Statistics
Matches: 209, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
211 84 0.40
212 46 0.22
213 79 0.38
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (212 bp):
TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAAGAAAAAAAATTTTAC
TGTTCACTGGGTACCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTAAATTTTTTTTCGTA
TTTTTATATCTGACTCTGACACGAAAAATTTTTTTTTACTGTTCACTGGGTGCCGGCCATTGACA
GGCCAGCACCCAAATTT
Found at i:43387788 original size:43 final size:42
Alignment explanation
Indices: 43387723--43388030 Score: 222
Period size: 40 Copynumber: 7.3 Consensus size: 42
43387713 AATTGTTATA
* *
43387723 TATCTCCTTAAGCAGTAGTGGAGCAGACGAAAAAAACAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACAATCT
** * * ** **
43387765 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGACGAAAAAAACA-ATCT
* *
43387809 TATCTCCCTAAGCAGTAGTGGAGCAGATCG----CATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACAA-TCT
* *
43387849 TATCTCCCTAAGCAGTTGTGGAGCAGACTGAAAAAAACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAAAAAA-CAATCT
* ** **
43387893 TATCTCCCTAA--AGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTAAGCAG-T--AGTGGAGCAGACGAAAAAAACA-ATCT
* ** *
43387937 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CATTA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACAATCT
43387977 TATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAAGAAACCAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAA-AAA-CAATCT
43388020 TATCTCCCTAA
1 TATCTCCCTAA
43388031 AGTTGCAGTG
Statistics
Matches: 204, Mismatches: 40, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
39 3 0.01
40 64 0.31
41 2 0.01
42 12 0.06
43 63 0.31
44 45 0.22
45 13 0.06
46 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACAATCT
Found at i:43387824 original size:40 final size:40
Alignment explanation
Indices: 43387780--43387952 Score: 111
Period size: 44 Copynumber: 4.1 Consensus size: 40
43387770 CCCTGAAGTT
43387780 GCAGTGGAGCGGATTAAAACCA-CAGATCTTATCTCCCTAA
1 GCAGTGGAGCGGATTAAAACCACCA-ATCTTATCTCCCTAA
* ** * * *
43387820 GCAGT--AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAA
1 GCAGTGGAGCGGATTAAAAC-CACCAA-TCTTATCTCCCTAA
* * ** *
43387860 GCAGTTGTGGAGCAGACTGAAAAAAACCAATCCTATCTCCCTAAA
1 GCA---GTGGAGCGGA-TTAAAACCACCAATCTTATCTCCCT-AA
43387905 GTTACAGTGGAGCGGATTAAAACCA-CAGATCTTATCTCCCTAA
1 G---CAGTGGAGCGGATTAAAACCACCA-ATCTTATCTCCCTAA
43387948 GCAGT
1 GCAGT
43387953 AGTGGAGCAG
Statistics
Matches: 99, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
38 8 0.08
39 3 0.03
40 28 0.28
43 7 0.07
44 29 0.29
45 20 0.20
46 2 0.02
48 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (40 bp):
GCAGTGGAGCGGATTAAAACCACCAATCTTATCTCCCTAA
Found at i:43387949 original size:128 final size:127
Alignment explanation
Indices: 43387723--43388055 Score: 562
Period size: 128 Copynumber: 2.6 Consensus size: 127
43387713 AATTGTTATA
* *
43387723 TATCTCCTTAAGCAGTAGTGGAGCAGACGAAAAAAA-CAATCCTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGG
43387787 AGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
66 AGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* *
43387849 TATCTCCCTAAGCAGTTGTGGAGCAGACTGAAAAAAACCAATCCTATCTCCCTAAAGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTG
*
43387914 GAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATTAAGTCT
65 GAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
*
43387977 TATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAAGAAACCAATCTTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAA-AAACCAATCCTATCTCCCTAAAGTTGCAGTG
* *
43388041 GAGTGAATTAAAACC
65 GAGCGGATTAAAACC
43388056 TAATCTCATC
Statistics
Matches: 194, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
126 30 0.15
127 50 0.26
128 114 0.59
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (127 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGG
AGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
Found at i:43389157 original size:39 final size:39
Alignment explanation
Indices: 43389114--43389192 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
43389104 CTGGAAATGT
43389114 TTGTTTTTTTTTCTTTTTTTTTGCTATTTATATCAGATA
1 TTGTTTTTTTTTCTTTTTTTTTGCTATTTATATCAGATA
43389153 TTGTTTTTTTTTCTTTTTTTTTGCTATTTATATCAGATA
1 TTGTTTTTTTTTCTTTTTTTTTGCTATTTATATCAGATA
43389192 T
1 T
43389193 AAAACGGCGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.70
Consensus pattern (39 bp):
TTGTTTTTTTTTCTTTTTTTTTGCTATTTATATCAGATA
Found at i:43389696 original size:18 final size:20
Alignment explanation
Indices: 43389673--43389715 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
43389663 CATATACTTG
43389673 CATACATTTT-A-TAATACA
1 CATACATTTTAATTAATACA
43389691 CATACATTTTAATTAATACA
1 CATACATTTTAATTAATACA
*
43389711 TATAC
1 CATAC
43389716 TTATACATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (20 bp):
CATACATTTTAATTAATACA
Found at i:43390423 original size:110 final size:106
Alignment explanation
Indices: 43390196--43390424 Score: 257
Period size: 110 Copynumber: 2.1 Consensus size: 106
43390186 GAATTTTTTT
* *
43390196 TTAAAAT-AAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
1 TTAAAATAAAGGCAATATTCCGCATTTGGAAAATCGAGAAAACGTGCCCTAATGTACTGGGTTTC
* *
43390260 GATTTCTCGTTCGACCAAATGACCAAATATCCTTTTAAACT
66 GATTTCTCGTTCGACCAAATAACCAAATATCCTTTTAAACA
* * **
43390301 TTCAAAATAATAAAGGCAATATTCCGTATTTGGAAATTCGAGAAGCCGTGCCCTAACT-TACTGG
1 TT---AA-AATAAAGGCAATATTCCGCATTTGGAAAATCGAGAAAACGTGCCCTAA-TGTACTGG
* *
43390365 GTTTCGATTTTTCTCGTGTTGAACCTAAATAACCGAATATCCTTTTAAA-A
61 GTTTCGA--TTTCTCGT-TCG-ACC-AAATAACCAAATATCCTTTTAAACA
43390415 TTAAAATAAA
1 TTAAAATAAA
43390425 TGAGGTTTAA
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
105 2 0.02
108 2 0.02
109 3 0.03
110 57 0.55
111 3 0.03
112 8 0.08
113 2 0.02
114 5 0.05
115 21 0.20
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (106 bp):
TTAAAATAAAGGCAATATTCCGCATTTGGAAAATCGAGAAAACGTGCCCTAATGTACTGGGTTTC
GATTTCTCGTTCGACCAAATAACCAAATATCCTTTTAAACA
Found at i:43397737 original size:14 final size:15
Alignment explanation
Indices: 43397718--43397755 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43397708 TAGTTCTATT
*
43397718 AAATAAATTATT-AA
1 AAATAAAATATTAAA
43397732 AAATAAAAATATTAAA
1 AAAT-AAAATATTAAA
43397748 AAATAAAA
1 AAATAAAA
43397756 AAAATTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 11 0.52
16 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATATTAAA
Found at i:43397757 original size:17 final size:16
Alignment explanation
Indices: 43397726--43397756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43397716 TTAAATAAAT
43397726 TATT-AAAAATAAAAA
1 TATTAAAAAATAAAAA
43397741 TATTAAAAAATAAAAA
1 TATTAAAAAATAAAAA
43397757 AAATTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TATTAAAAAATAAAAA
Found at i:43398598 original size:3 final size:3
Alignment explanation
Indices: 43398590--43398641 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
43398580 TGTTCATGAC
43398590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43398638 ATA A
1 ATA A
43398642 CCAAATCAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43399291 original size:52 final size:52
Alignment explanation
Indices: 43399213--43399369 Score: 154
Period size: 61 Copynumber: 2.8 Consensus size: 52
43399203 TCGGGTCCCG
* *
43399213 AATTTTTTTTAGTTTTGGGACACTGATGACCGGCACCAACTTTATC-AAATT
1 AATTTTTTTTGGTTTTGGGACACTGATGGCCGGCACCAACTTTATCTAAATT
* * * *
43399264 AATTTTTTTTGGGTTCTGGGACACTGATGGCTGGCAACAACACCAACTTTATCTGATTT
1 AATTTTTTTT-GGTTTTGGGACACTGATGGCCGG------CACCAACTTTATCTAAATT
*
43399323 AATTTTTTTTTTTGGTTTTGGAACACTGATGGCCGGCACCAACTTTA
1 AA---TTTTTTTTGGTTTTGGGACACTGATGGCCGGCACCAACTTTA
43399370 ACATATATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
51 10 0.12
52 19 0.22
55 11 0.13
58 13 0.15
59 5 0.06
61 20 0.23
62 8 0.09
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (52 bp):
AATTTTTTTTGGTTTTGGGACACTGATGGCCGGCACCAACTTTATCTAAATT
Found at i:43402370 original size:6 final size:6
Alignment explanation
Indices: 43402359--43402420 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
43402349 ATATATAAAT
* * * * * *
43402359 AATTGA AATTGA AAGTGG TATTG- AATTGA AATTCA ATTTGA AATTAA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA
*
43402406 AATTGG AATTGA AAT
1 AATTGA AATTGA AAT
43402421 GAATTTATAT
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (6 bp):
AATTGA
Found at i:43402417 original size:18 final size:18
Alignment explanation
Indices: 43402359--43402420 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
43402349 ATATATAAAT
*
43402359 AATTGAAATTGAAAGTGG
1 AATTGAAATTGAAATTGG
* *
43402377 TATTG-AATTGAAATT-C
1 AATTGAAATTGAAATTGG
*
43402393 AATTTGAAATTAAAATTGG
1 AA-TTGAAATTGAAATTGG
43402412 AATTGAAAT
1 AATTGAAAT
43402421 GAATTTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 12 0.34
18 20 0.57
19 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (18 bp):
AATTGAAATTGAAATTGG
Found at i:43402634 original size:11 final size:11
Alignment explanation
Indices: 43402601--43402642 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
43402591 TATATTGAAT
43402601 TGAAATTAAAA
1 TGAAATTAAAA
* *
43402612 TTGGACTTAAAA
1 -TGAAATTAAAA
43402624 TGAAATTAAAA
1 TGAAATTAAAA
43402635 TGAAATTA
1 TGAAATTA
43402643 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (11 bp):
TGAAATTAAAA
Found at i:43402675 original size:18 final size:17
Alignment explanation
Indices: 43402629--43402668 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
43402619 TAAAATGAAA
*
43402629 TTAAAATGAAATTATAT
1 TTAAAATGAAAATATAT
43402646 TTAAAATGAAAATATAT
1 TTAAAATGAAAATATAT
43402663 TTAAAA
1 TTAAAA
43402669 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTAAAATGAAAATATAT
Found at i:43402676 original size:19 final size:17
Alignment explanation
Indices: 43402629--43402675 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
43402619 TAAAATGAAA
* *
43402629 TTAAAATGAAATTATAT
1 TTAAAAAGAAAATATAT
*
43402646 TTAAAATGAAAATATAT
1 TTAAAAAGAAAATATAT
43402663 TTAAAAAAGAAAA
1 TT-AAAAAGAAAA
43402676 AAAAATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAAAAAGAAAATATAT
Found at i:43402857 original size:38 final size:38
Alignment explanation
Indices: 43402811--43402936 Score: 131
Period size: 38 Copynumber: 3.5 Consensus size: 38
43402801 TTAAAATTGA
*
43402811 AATT-AAAAATTAAAAAATGAAATTCAAATGAAGTTTT
1 AATTAAAAAATAAAAAAATGAAATTCAAATGAAGTTTT
* * *
43402848 AATTAAAAAATAAAAAAA-G-CA---AAATGAA-ATTC
1 AATTAAAAAATAAAAAAATGAAATTCAAATGAAGTTTT
* * *
43402880 AAATAAAATGAGAAAAAAATGAAATTCAAATGAAGTTTT
1 AATTAAAA-AATAAAAAAATGAAATTCAAATGAAGTTTT
43402919 AATTAAAAAATAAAAAAA
1 AATTAAAAAATAAAAAAA
43402937 AGTGAAATGA
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
32 9 0.13
33 15 0.22
34 1 0.01
35 1 0.01
36 1 0.01
37 5 0.07
38 27 0.40
39 9 0.13
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (38 bp):
AATTAAAAAATAAAAAAATGAAATTCAAATGAAGTTTT
Found at i:43402903 original size:71 final size:71
Alignment explanation
Indices: 43402822--43402984 Score: 283
Period size: 71 Copynumber: 2.3 Consensus size: 71
43402812 ATTAAAAATT
43402822 AAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAAT-AAAAAAAGCAAAATGAAATTCAAATAA
1 AAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAATAAAAAAAAGCAAAATGAAATTCAAATAA
43402886 AATGAGA
66 AATGA-A
**
43402893 AAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAATAAAAAAAAGTGAAATGAAATTCAAATAA
1 AAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAATAAAAAAAAGCAAAATGAAATTCAAATAA
43402958 AATGAA
66 AATGAA
*
43402964 AAAAAACGAAATTCAAATGAA
1 AAAAAATGAAATTCAAATGAA
43402985 ATTTAAAAAG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
71 58 0.66
72 30 0.34
ACGTcount: A:0.64, C:0.04, G:0.10, T:0.22
Consensus pattern (71 bp):
AAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAATAAAAAAAAGCAAAATGAAATTCAAATAA
AATGAA
Found at i:43402992 original size:26 final size:23
Alignment explanation
Indices: 43402945--43403008 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
43402935 AAAGTGAAAT
*
43402945 GAAATTCAAATAAAATGAAAAAAAA
1 GAAATTCAAATGAAATG--AAAAAA
**
43402970 CGAAATTCAAATGAAATTTAAAAA
1 -GAAATTCAAATGAAATGAAAAAA
*
43402994 GAAATTGAAATGAAA
1 GAAATTCAAATGAAA
43403009 AAAAATTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.41
24 5 0.15
26 15 0.44
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (23 bp):
GAAATTCAAATGAAATGAAAAAA
Found at i:43403078 original size:17 final size:17
Alignment explanation
Indices: 43403058--43403091 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43403048 AAAAATAAGT
43403058 GAAATGAAATTCAAATA
1 GAAATGAAATTCAAATA
*
43403075 GAAATGAAGTTCAAATA
1 GAAATGAAATTCAAATA
43403092 ACATGAAAAA
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:0.06, G:0.15, T:0.24
Consensus pattern (17 bp):
GAAATGAAATTCAAATA
Found at i:43403150 original size:124 final size:118
Alignment explanation
Indices: 43402906--43403209 Score: 350
Period size: 124 Copynumber: 2.5 Consensus size: 118
43402896 AAATGAAATT
43402906 CAAATGAAGTTTTAATTAAAAAATAAAAAAAAGTGAAATGAAATTCAAATA-AAATGAA---AAA
1 CAAATGAAGTTTTAATT--AAAA-AAAAAAAAGTGAAATGAAATTCAAATAGAAATGAATTCAAA
** * *
43402967 AAACGAAATTCAAATGAAATTTAAAAAGAAATTGAAATGAAAAAAAATTGACATCA
63 AAACGAAATAAAAATAAAATTTAAAAAGAAATTGAAACGAAAAAAAATTGACATCA
*
43403023 CAAAATGATA-TTTTAATTGAAAAGGAAAAATAAGTGAAATGAAATTCAAATAGAAATGAAGTTC
1 C-AAATGA-AGTTTTAATT-AAAA--AAAAAAAAGTGAAATGAAATTCAAATAGAAATGAA-TTC
* * *
43403087 AAATAACATGAAA-AAAAATAAAATTTAAAAAGAAATTGAAACGAAAAAAGATTGACATGA
60 AAA-AA-ACGAAATAAAAATAAAATTTAAAAAGAAATTGAAACGAAAAAAAATTGACATCA
* *
43403147 CAAATGAAGTTTTTAATTAAAAAATAAAAAAGTGAAATGAAATTTAAATTGAAATGAAATTCA
1 CAAATGAAG-TTTTAATTAAAAAA-AAAAAAGTGAAATGAAATTCAAATAGAAATG-AATTCA
43403210 TGAGAAAAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 23
0.82 0.07 0.12
Matches are distributed among these distances:
117 5 0.03
118 40 0.25
119 8 0.05
121 2 0.01
122 33 0.21
123 15 0.09
124 52 0.32
125 5 0.03
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.24
Consensus pattern (118 bp):
CAAATGAAGTTTTAATTAAAAAAAAAAAAGTGAAATGAAATTCAAATAGAAATGAATTCAAAAAA
CGAAATAAAAATAAAATTTAAAAAGAAATTGAAACGAAAAAAAATTGACATCA
Found at i:43403401 original size:20 final size:20
Alignment explanation
Indices: 43403360--43403402 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
43403350 GGTTGAAATG
*
43403360 AAATTAAAATGACAAGAGAA
1 AAATTAAAATGACAAGAAAA
*
43403380 AAATTAAATTGA-AATGAAAA
1 AAATTAAAATGACAA-GAAAA
43403400 AAA
1 AAA
43403403 AAGGTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (20 bp):
AAATTAAAATGACAAGAAAA
Found at i:43404850 original size:88 final size:88
Alignment explanation
Indices: 43404658--43404901 Score: 294
Period size: 88 Copynumber: 2.7 Consensus size: 88
43404648 TAAAAAAAAT
* * ** *
43404658 AAATATATAATTCGAAAAATTAATAATAC-GCAAC-AAATTAAATTTACAGATACAAGAAAATAT
1 AAATATAAAATTCGAACAACAAATAATACAG--ACTAAATTAAATTTACAGATACAA-AAAATAC
* * * *
43404721 AAATATTCTAGAATATTAATACAAGG
63 AAACATTCTAAAAAATTAATACAAGA
43404747 AAATATAAAATTCGAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAATACAAA
1 AAATATAAAATTCGAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAATACAAA
*
43404812 CATTCTAAAAAATTAATACACGA
66 CATTCTAAAAAATTAATACAAGA
* * * **
43404835 AAATATAAAATTCGAACAACAAATAATAAATAATAAATTTGATTTACAGATACAAAAATAATACA
1 AAATATAAAATTCGAACAACAAATAATACAGACTAAATTAAATTTACAGATAC-AAAA-AATACA
43404900 AA
64 AA
43404902 AATTTTGAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
88 77 0.57
89 50 0.37
90 9 0.07
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (88 bp):
AAATATAAAATTCGAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAATACAAA
CATTCTAAAAAATTAATACAAGA
Found at i:43405453 original size:51 final size:51
Alignment explanation
Indices: 43405398--43405555 Score: 137
Period size: 50 Copynumber: 3.1 Consensus size: 51
43405388 TTTTCTAAAA
*
43405398 CCAAAAAAAATATTTTAAAATCTGATAAAGTTGGTGCGGGCCATTAGTGTC
1 CCAAAAAAAATATTTTAAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTC
** * * * * * *
43405449 CCAAAACCAAAA-A--AAAAAATTTGAAAAAGTTGGTACTGGTCATCAGTGTC
1 CCAAAA--AAAATATTTTAAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTC
* * *
43405499 CCAGAACCAAAAT-TTTT-TAATCTGATAAAGTTGGTGCCGGCCATTAGTATC
1 CCA-AA-AAAAATATTTTAAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTC
43405550 CCAAAA
1 CCAAAA
43405556 CTAAAAAAAA
Statistics
Matches: 80, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
50 38 0.47
51 37 0.46
52 1 0.01
53 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (51 bp):
CCAAAAAAAATATTTTAAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTC
Found at i:43405478 original size:50 final size:50
Alignment explanation
Indices: 43405414--43405567 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 50
43405404 AAAATATTTT
*
43405414 AAAATCTGATAAAGTTGGTGCGGGCCATTAGTGTCCCAAAACCAAAAAAA
1 AAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTCCCAAAACCAAAAAAA
* * * * * * * ***
43405464 AAAATTTGAAAAAGTTGGTACTGGTCATCAGTGTCCCAGAACCAAAATTTT
1 AAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTCCCAAAACCAAAA-AAA
** * *
43405515 TTAATCTGATAAAGTTGGTGCCGGCCATTAGTATCCCAAAACTAAAAAAA
1 AAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTCCCAAAACCAAAAAAA
43405565 AAA
1 AAA
43405568 TTTGGGACTC
Statistics
Matches: 77, Mismatches: 26, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
50 41 0.53
51 36 0.47
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (50 bp):
AAAATCTGATAAAGTTGGTGCCGGCCATTAGTGTCCCAAAACCAAAAAAA
Found at i:43410260 original size:157 final size:157
Alignment explanation
Indices: 43409974--43410283 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
43409964 ATAAGAATAT
*
43409974 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
43410039 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
43410104 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
43410131 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
43410196 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
43410261 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
43410284 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:43410434 original size:16 final size:16
Alignment explanation
Indices: 43410413--43410480 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
43410403 GATTTGCTAT
43410413 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43410429 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
43410445 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
43410461 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
43410477 TACA
1 TACA
43410481 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43418360 original size:20 final size:20
Alignment explanation
Indices: 43418313--43418372 Score: 104
Period size: 19 Copynumber: 3.0 Consensus size: 20
43418303 TTGAAATGCT
43418313 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
43418333 AA-AGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
43418352 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCGAAGTGCA
43418372 A
1 A
43418373 TCCCATACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.43, C:0.23, G:0.28, T:0.05
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:43418493 original size:25 final size:25
Alignment explanation
Indices: 43418459--43418508 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43418449 TTTAATTGAA
43418459 TTCATCACATTAAGAAAACAAAGGC
1 TTCATCACATTAAGAAAACAAAGGC
43418484 TTCATCACATTAAGAAAACAAAGGC
1 TTCATCACATTAAGAAAACAAAGGC
43418509 ACTTCCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (25 bp):
TTCATCACATTAAGAAAACAAAGGC
Found at i:43425156 original size:19 final size:18
Alignment explanation
Indices: 43425132--43425172 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
43425122 CTTTTCTTCC
43425132 TTTTTCTATTCCATTGTAA
1 TTTTTCT-TTCCATTGTAA
**
43425151 TTTTTCTTTCTTTTGTAA
1 TTTTTCTTTCCATTGTAA
43425169 TTTT
1 TTTT
43425173 AGTAGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTCTTTCCATTGTAA
Found at i:43433635 original size:25 final size:25
Alignment explanation
Indices: 43433565--43433621 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
43433555 ATTTTTAGAT
* *
43433565 TGACAGTTCATTAT-AGAATCAAAA
1 TGACATTTCATTTTCAGAATCAAAA
*
43433589 TGACATATCATTTTCAGAATCAAAA
1 TGACATTTCATTTTCAGAATCAAAA
43433614 TGACATTT
1 TGACATTT
43433622 GATTATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (25 bp):
TGACATTTCATTTTCAGAATCAAAA
Found at i:43436494 original size:20 final size:20
Alignment explanation
Indices: 43436469--43436514 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
43436459 TATATTCAAT
43436469 AATATTCAATTAAAAATAAA
1 AATATTCAATTAAAAATAAA
* ***
43436489 AATATTTAATTAGTTATAAA
1 AATATTCAATTAAAAATAAA
43436509 AATATT
1 AATATT
43436515 TTAATTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AATATTCAATTAAAAATAAA
Found at i:43436529 original size:21 final size:20
Alignment explanation
Indices: 43436484--43436525 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43436474 TCAATTAAAA
*
43436484 ATAAAAATATTTAATTAGTT
1 ATAAAAATATTTAATTAGTC
43436504 ATAAAAATATTTTAATTA-TC
1 ATAAAAATA-TTTAATTAGTC
43436524 AT
1 AT
43436526 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAAAAATATTTAATTAGTC
Found at i:43438044 original size:3 final size:3
Alignment explanation
Indices: 43438036--43438063 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43438026 ATATTTTCCG
43438036 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
43438064 CTAAAAAATC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43439731 original size:18 final size:17
Alignment explanation
Indices: 43439708--43439742 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43439698 TTGTTTATTG
43439708 ATTAAAAAATTTGTAAAA
1 ATTAAAAAATTT-TAAAA
*
43439726 ATTAAAAAGTTTTAAAA
1 ATTAAAAAATTTTAAAA
43439743 TGGTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
ATTAAAAAATTTTAAAA
Found at i:43439804 original size:29 final size:29
Alignment explanation
Indices: 43439772--43439829 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
43439762 GTTGTTAAAT
43439772 TTCTTAAAAATTGTAAAAAAATATAAAAA
1 TTCTTAAAAATTGTAAAAAAATATAAAAA
* * * *
43439801 TTCTTAGAGATTTTAAAAATATATAAAAA
1 TTCTTAAAAATTGTAAAAAAATATAAAAA
43439830 AATTTGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (29 bp):
TTCTTAAAAATTGTAAAAAAATATAAAAA
Found at i:43439817 original size:38 final size:37
Alignment explanation
Indices: 43439735--43439832 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 37
43439725 AATTAAAAAG
* * *
43439735 TTTT-AAAATGGTAAAAAAATTATAAAAGTTGTTAAAT
1 TTTTAAAAATTGTAAAAAAA-TATAAAAATTCTTAAAT
43439772 TTCTTAAAAATTGTAAAAAAATATAAAAATTCTTAGAGA-
1 TT-TTAAAAATTGTAAAAAAATATAAAAATTCTTA-A-AT
*
43439811 TTTTAAAAATATATAAAAAAAT
1 TTTTAAAAAT-TGTAAAAAAAT
43439833 TTGGAGTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
37 2 0.04
38 22 0.42
39 27 0.52
40 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (37 bp):
TTTTAAAAATTGTAAAAAAATATAAAAATTCTTAAAT
Found at i:43440475 original size:13 final size:13
Alignment explanation
Indices: 43440457--43440489 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
43440447 AGTCCGCCCG
43440457 TATTAATTTTTTA
1 TATTAATTTTTTA
43440470 TATTAA-TTTTTA
1 TATTAATTTTTTA
43440482 TA-TAATTT
1 TATTAATTT
43440490 CTTGTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 10 0.53
13 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:43440986 original size:19 final size:19
Alignment explanation
Indices: 43440962--43441018 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
43440952 ACTGAACTGC
43440962 TTAAATATTTTTATAATTT
1 TTAAATATTTTTATAATTT
43440981 TTAAATA-TTTTAT-ATTT
1 TTAAATATTTTTATAATTT
* *
43440998 TAAAATAATTTTTACAATTT
1 TTAAAT-ATTTTTATAATTT
43441018 T
1 T
43441019 AAGAATTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 9 0.27
18 7 0.21
19 12 0.36
20 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAAATATTTTTATAATTT
Found at i:43440990 original size:10 final size:10
Alignment explanation
Indices: 43440962--43441158 Score: 53
Period size: 10 Copynumber: 20.3 Consensus size: 10
43440952 ACTGAACTGC
43440962 TTAAATATTT
1 TTAAATATTT
*
43440972 TTATA-ATTT
1 TTAAATATTT
43440981 TTAAATA-TT
1 TTAAATATTT
43440990 TT--ATATTT
1 TTAAATATTT
*
43440998 TAAAATAATTT
1 TTAAAT-ATTT
*
43441009 TTACA-A-TT
1 TTAAATATTT
*
43441017 TTAAGA-ATTC
1 TTAA-ATATTT
* *
43441027 GTAACAAATTT
1 TTAA-ATATTT
43441038 TT-AATAATTT
1 TTAAAT-ATTT
*
43441048 TTACAA-CTTT
1 TTA-AATATTT
*
43441058 TTACA-ATTT
1 TTAAATATTT
**
43441067 TTAAGA-ATGC
1 TTAA-ATATTT
43441077 TTATAAT-TTT
1 TTA-AATATTT
* *
43441087 TTTACTATTT
1 TTAAATATTT
43441097 TTAAA-ATTT
1 TTAAATATTT
43441106 TT-AATATTT
1 TTAAATATTT
* * *
43441115 TAAAACATAT
1 TTAAATATTT
* *
43441125 TTATATATTG
1 TTAAATATTT
* *
43441135 TAAAATAATT
1 TTAAATATTT
43441145 TTAAATGATTT
1 TTAAAT-ATTT
43441156 TTA
1 TTA
43441159 CTAATTTTAT
Statistics
Matches: 131, Mismatches: 38, Indels: 35
0.64 0.19 0.17
Matches are distributed among these distances:
7 3 0.02
8 10 0.08
9 36 0.27
10 62 0.47
11 18 0.14
12 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (10 bp):
TTAAATATTT
Found at i:43440993 original size:18 final size:17
Alignment explanation
Indices: 43440962--43441009 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
43440952 ACTGAACTGC
43440962 TTAAATATTTTTATAATTT
1 TTAAATA-TTTTAT-ATTT
43440981 TTAAATATTTTATATTT
1 TTAAATATTTTATATTT
*
43440998 TAAAATAATTTT
1 TTAAAT-ATTTT
43441010 TACAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.33
18 11 0.41
19 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAATATTTTATATTT
Found at i:43441065 original size:29 final size:29
Alignment explanation
Indices: 43441033--43441108 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
43441023 ATTCGTAACA
43441033 AATTTTTAATAATTTTTACAA-CTTTTTAC
1 AATTTTTAA-AATTTTTACAATCTTTTTAC
** * *
43441062 AATTTTTAAGAATGCTTATAATTTTTTTAC
1 AATTTTTAA-AATTTTTACAATCTTTTTAC
*
43441092 TATTTTTAAAATTTTTA
1 AATTTTTAAAATTTTTA
43441109 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.57
Consensus pattern (29 bp):
AATTTTTAAAATTTTTACAATCTTTTTAC
Found at i:43441108 original size:18 final size:17
Alignment explanation
Indices: 43441085--43441119 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43441075 GCTTATAATT
*
43441085 TTTTTACTATTTTTAAAA
1 TTTTTAATA-TTTTAAAA
43441103 TTTTTAATATTTTAAAA
1 TTTTTAATATTTTAAAA
43441120 CATATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATATTTTAAAA
Found at i:43441109 original size:9 final size:9
Alignment explanation
Indices: 43440962--43441119 Score: 54
Period size: 9 Copynumber: 16.7 Consensus size: 9
43440952 ACTGAACTGC
43440962 TTAAATATTT
1 TTAAA-ATTT
*
43440972 TTATAATTT
1 TTAAAATTT
43440981 TT-AAATATT
1 TTAAAAT-TT
*
43440990 TT-ATATTT
1 TTAAAATTT
*
43440998 TAAAATAATTT
1 T-TAA-AATTT
*
43441009 TTACAA-TT
1 TTAAAATTT
*
43441017 TTAAGAATTCG
1 TTAA-AATT-T
*
43441028 TAACAAATTT
1 TTA-AAATTT
43441038 TTAATAATTT
1 TTAA-AATTT
*
43441048 TTACAACTTT
1 TTA-AAATTT
*
43441058 TTACAATTT
1 TTAAAATTT
43441067 TTAAGAATGCTT
1 TTAA-AAT--TT
* **
43441079 ATAATTTTT
1 TTAAAATTT
**
43441088 TTACTATTT
1 TTAAAATTT
43441097 TTAAAATTT
1 TTAAAATTT
*
43441106 TTAATA-TT
1 TTAAAATTT
43441114 TTAAAA
1 TTAAAA
43441120 CATATTTATA
Statistics
Matches: 109, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
8 18 0.17
9 45 0.41
10 27 0.25
11 13 0.12
12 6 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.54
Consensus pattern (9 bp):
TTAAAATTT
Found at i:43447723 original size:43 final size:43
Alignment explanation
Indices: 43447676--43448228 Score: 646
Period size: 43 Copynumber: 12.9 Consensus size: 43
43447666 ACGCAATTAA
* *
43447676 ACTGGCACACACAGTGCATCATCGAATAATACCAAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * * * *
43447719 ACTGGCACACATAGTGCATTATTGGATAAAACCGAATCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * *
43447762 ACTGGCACATACAGTACATCATTGGATAATACCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * *
43447805 ATTGGCACACACAATGCATCATCGGGTAATACCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * * *
43447848 ACAGGCGCACACAGTGCATCATTAGG-TAATACCGAAGCAAGAT
1 ACTGGCACACACAGTGCATCA-TCGGATAATACCGAAGCAACAT
*
43447891 ACCGGCACACACAGTGCATCATCAGG-TAATACCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATC-GGATAATACCGAAGCAACAT
* * * * *
43447934 ACTAGCTCACATAGTGCATCATCAGG-TAATACGGAAGAAACAT
1 ACTGGCACACACAGTGCATCATC-GGATAATACCGAAGCAACAT
* * * *
43447977 ACTAGCACACATAGTGCATTATCGGTTAATACCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * * *
43448020 ACTGGCACACACAGTGTATCATTGGGTAATACCGAAGCAATAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* *
43448063 ACTGGCACACACAGTGCATCATTGGATAATATCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * * *
43448106 ACTGGCACAAATAGTGCATCATTGGATAATATCGAAGCAACAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * * *
43448149 ACTGGCACACATAGTGCATCATTGGATAATATCGAAGCAAGAT
1 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
* * *
43448192 ACTGACACATACAGTG-AGTCATCAGATAATACCGAAG
1 ACTGGCACACACAGTGCA-TCATCGGATAATACCGAAG
43448229 TATAACCTGC
Statistics
Matches: 446, Mismatches: 60, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
42 4 0.01
43 439 0.98
44 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (43 bp):
ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCAACAT
Found at i:43454397 original size:25 final size:24
Alignment explanation
Indices: 43454368--43454424 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
43454358 TTACTGATAC
*
43454368 ACAGCTCGCATGAGCTTACCATTAT
1 ACAGCTCGCAGGAGCTTACCATT-T
* * *
43454393 TCAGCTTGGAGGAGCTTACCATTT
1 ACAGCTCGCAGGAGCTTACCATTT
43454417 ACAGCTCG
1 ACAGCTCG
43454425 TAAGAGTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (24 bp):
ACAGCTCGCAGGAGCTTACCATTT
Found at i:43462178 original size:25 final size:25
Alignment explanation
Indices: 43462124--43462238 Score: 94
Period size: 25 Copynumber: 4.6 Consensus size: 25
43462114 GGTTACCAAT
* * *
43462124 TTCAGCTCGTATGAGTTTACCGATG
1 TTCAGCTCGTATGAGCTTACCGTTA
*
43462149 CTCAGCTCGTATGAGCTTACCGTTA
1 TTCAGCTCGTATGAGCTTACCGTTA
* *
43462174 TTCAGCTCGGAGGAGCTTACC-TT-
1 TTCAGCTCGTATGAGCTTACCGTTA
* * *
43462197 TTACAGCTTGTAAGAGCATACCG--A
1 TT-CAGCTCGTATGAGCTTACCGTTA
43462221 TTCGGAGCTCGTATGAGC
1 TTC--AGCTCGTATGAGC
43462239 ATACATGTAC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
23 3 0.04
24 19 0.26
25 50 0.69
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCGTTA
Found at i:43472602 original size:45 final size:45
Alignment explanation
Indices: 43472521--43472612 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
43472511 AGTGTTCGTG
** *
43472521 ATTATGTACTTGCTTATTTGATTATACGTCTATATGATTGCACGA
1 ATTATGTACTTGCTTATACGAATATACGTCTATATGATTGCACGA
* * * *
43472566 ATTATGTACTTGTTTATACGAATGTACTTCTGTATGATTGCACGA
1 ATTATGTACTTGCTTATACGAATATACGTCTATATGATTGCACGA
43472611 AT
1 AT
43472613 AGAAGTGCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.43
Consensus pattern (45 bp):
ATTATGTACTTGCTTATACGAATATACGTCTATATGATTGCACGA
Found at i:43473486 original size:25 final size:25
Alignment explanation
Indices: 43473442--43473495 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43473432 CAAAATTTAG
43473442 AAATAAAATTATTTTGTAAT-TAATT
1 AAATAAAATTATTTTGTAATCT-ATT
*
43473467 AAATAGAATTATTTAT-TAATCTATT
1 AAATAAAATTATTT-TGTAATCTATT
43473492 AAAT
1 AAAT
43473496 TGGTTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
AAATAAAATTATTTTGTAATCTATT
Found at i:43495611 original size:20 final size:20
Alignment explanation
Indices: 43495583--43495621 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43495573 ATAGTATTTT
43495583 ATTAATTTAATATTAAATTG
1 ATTAATTTAATATTAAATTG
*
43495603 ATTATTTTAATATTAAATT
1 ATTAATTTAATATTAAATT
43495622 AAATTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTAATTTAATATTAAATTG
Done.