Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 18 of 253
Found at i:5026967 original size:51 final size:51
Alignment explanation
Indices: 5026861--5026967 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
5026851 TGTATCTTCC
* * *** *
5026861 ATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTCTGTTTGTATCTTCC
1 ATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTCTGTTGGAATAAGCA
* *
5026912 ATTGAGACGAACTTTATAGTTTTCAACAGCTATAGTCT-TTGGAAGTAAGGA
1 ATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTCTGTTGGAA-TAAGCA
5026963 ATTGA
1 ATTGA
5026968 TGTAAACAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 4 0.09
51 43 0.91
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (51 bp):
ATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTCTGTTGGAATAAGCA
Found at i:5029687 original size:19 final size:20
Alignment explanation
Indices: 5029665--5029712 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
5029655 ATTAATATTT
5029665 TAAATTTTTTTTA-ACTTTA
1 TAAATTTTTTTTAGACTTTA
* *
5029684 TAAA-TTTCTTTAGACTTTT
1 TAAATTTTTTTTAGACTTTA
5029703 TAAAATTTTT
1 T-AAATTTTT
5029713 ATAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 3 0.13
21 3 0.13
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
TAAATTTTTTTTAGACTTTA
Found at i:5029730 original size:28 final size:30
Alignment explanation
Indices: 5029680--5029736 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
5029670 TTTTTTTAAC
* * *
5029680 TTTATAAATTTCTTTAGACTTTTTAAAATT
1 TTTATAAATATCTTTAGAATTTTAAAAATT
5029710 TTTATAAATAT-TTT-GAATTTTAAAAAT
1 TTTATAAATATCTTTAGAATTTTAAAAAT
5029737 GATTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 3 0.12
30 10 0.42
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTATAAATATCTTTAGAATTTTAAAAATT
Found at i:5030415 original size:3 final size:3
Alignment explanation
Indices: 5030403--5030432 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5030393 AGAGTAATAG
5030403 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5030433 TAATGCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:5031075 original size:24 final size:24
Alignment explanation
Indices: 5031048--5031099 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
5031038 AGTCAATGTC
* *
5031048 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
5031072 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
5031096 AAAT
1 AAAT
5031100 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:5038769 original size:52 final size:52
Alignment explanation
Indices: 5038707--5038823 Score: 234
Period size: 52 Copynumber: 2.2 Consensus size: 52
5038697 TATTACGTGC
5038707 ATGTATATATATATAGTATTATCTTTTATTACTTTATTTTAATATCTTTATT
1 ATGTATATATATATAGTATTATCTTTTATTACTTTATTTTAATATCTTTATT
5038759 ATGTATATATATATAGTATTATCTTTTATTACTTTATTTTAATATCTTTATT
1 ATGTATATATATATAGTATTATCTTTTATTACTTTATTTTAATATCTTTATT
5038811 ATGTATATATATA
1 ATGTATATATATA
5038824 GTATGATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (52 bp):
ATGTATATATATATAGTATTATCTTTTATTACTTTATTTTAATATCTTTATT
Found at i:5039387 original size:18 final size:18
Alignment explanation
Indices: 5039363--5039408 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
5039353 TTATAAATAG
*
5039363 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
5039382 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
5039400 TATTATTTT
1 TATTATTTT
5039409 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:5044493 original size:23 final size:23
Alignment explanation
Indices: 5044454--5044498 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5044444 TTTTGACATT
** *
5044454 AAAATAAATTAGTTTTTTAAAAC
1 AAAATAAATTAAATTTTAAAAAC
5044477 AAAATAAATTAAATTTTAAAAA
1 AAAATAAATTAAATTTTAAAAA
5044499 TATATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAAATTAAATTTTAAAAAC
Found at i:5046466 original size:13 final size:13
Alignment explanation
Indices: 5046448--5046473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5046438 CAAATCGATA
5046448 TTATACAAATAAT
1 TTATACAAATAAT
5046461 TTATACAAATAAT
1 TTATACAAATAAT
5046474 GCTTGAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATACAAATAAT
Found at i:5048590 original size:17 final size:18
Alignment explanation
Indices: 5048564--5048602 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5048554 CCAACTGTGG
5048564 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
5048580 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
5048598 AAAAT
1 AAAAT
5048603 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:5048779 original size:15 final size:15
Alignment explanation
Indices: 5048759--5048789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5048749 AAAACAATAT
5048759 AACTCTAGACCTTTC
1 AACTCTAGACCTTTC
*
5048774 AACTCTTGACCTTTC
1 AACTCTAGACCTTTC
5048789 A
1 A
5048790 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTAGACCTTTC
Found at i:5052156 original size:15 final size:15
Alignment explanation
Indices: 5052146--5052175 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5052136 TCCCTTCTTG
5052146 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
5052161 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
5052176 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:5052943 original size:17 final size:18
Alignment explanation
Indices: 5052917--5052955 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5052907 CAAATTGTGG
5052917 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
5052933 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
5052951 AAAAT
1 AAAAT
5052956 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:5053555 original size:15 final size:16
Alignment explanation
Indices: 5053535--5053572 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5053525 TACATTATTA
5053535 TTATTTTCTTT-CTAT
1 TTATTTTCTTTCCTAT
* *
5053550 TTATTTTTTTTCCTTT
1 TTATTTTCTTTCCTAT
5053566 TTATTTT
1 TTATTTT
5053573 ATTTTCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTCTTTCCTAT
Found at i:5053570 original size:20 final size:20
Alignment explanation
Indices: 5053538--5053577 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
5053528 ATTATTATTA
5053538 TTTTCTTTCTA-TTTATTTT
1 TTTTCTTTCTATTTTATTTT
*
5053557 TTTTCCTTTTTATTTTATTTT
1 TTTT-CTTTCTATTTTATTTT
5053578 CGAATTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTCTATTTTATTTT
Found at i:5054627 original size:64 final size:64
Alignment explanation
Indices: 5054550--5054673 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
5054540 TCATTCGTGA
* **
5054550 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
5054614 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
5054674 ACATAGTTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:5054856 original size:44 final size:44
Alignment explanation
Indices: 5054800--5055040 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 44
5054790 AATCTTAACC
*
5054800 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAAA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAAAA
* * * * ** * **
5054844 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGATGA-TGGACCTTAAAA
** *
5054888 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTT-AAA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAAAA
* * * * ** * **
5054931 CCCTTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAAGATCTTAACC
1 CCC-TAAGCAGTAGGGAAACAGATC-GAAGATGA-TGGACCTTAAAA
* * ** *
5054976 CCCTAAGAAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAAAA
* *
5055020 CCCTAACCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
5055041 GCTGAAAATT
Statistics
Matches: 140, Mismatches: 47, Indels: 20
0.68 0.23 0.10
Matches are distributed among these distances:
43 9 0.06
44 123 0.88
45 8 0.06
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAAAA
Found at i:5054905 original size:88 final size:88
Alignment explanation
Indices: 5054749--5055046 Score: 492
Period size: 88 Copynumber: 3.4 Consensus size: 88
5054739 AATTCACAAG
*
5054749 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
** *
5054813 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
5054836 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
5054901 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
*
5054924 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
*
5054988 GGGAAATAGATCGAAGGCGATGGA
65 GGGAAACAGATCGAAGGCGATGGA
* *
5055012 CCTTAAACCCCTAACCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
5055047 AATTATAGAT
Statistics
Matches: 198, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
87 47 0.24
88 146 0.74
89 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGGCGATGGA
Found at i:5055768 original size:21 final size:22
Alignment explanation
Indices: 5055742--5055786 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5055732 TGATATTACA
5055742 TTATTATTATTTT-CTTTCTAT
1 TTATTATTATTTTCCTTTCTAT
* *
5055763 TTATTATTTTTTTCCTTTTTAT
1 TTATTATTATTTTCCTTTCTAT
5055785 TT
1 TT
5055787 TATTTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATTATTTTCCTTTCTAT
Found at i:5056514 original size:12 final size:12
Alignment explanation
Indices: 5056499--5056546 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
5056489 TATTTATCTC
5056499 TTTATATTTATG
1 TTTATATTTATG
5056511 TTTATATTTTATG
1 TTTATA-TTTATG
** *
5056524 TATTATACATATC
1 T-TTATATTTATG
5056537 TTTATATTTA
1 TTTATATTTA
5056547 CACATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:5056727 original size:22 final size:22
Alignment explanation
Indices: 5056699--5056740 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5056689 TAACGTGCTA
* *
5056699 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
5056721 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
5056741 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:5059967 original size:327 final size:327
Alignment explanation
Indices: 5059366--5060020 Score: 1247
Period size: 327 Copynumber: 2.0 Consensus size: 327
5059356 TGTTCTCTAG
*
5059366 GCCGATTGAAGCTACAGGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
*
5059431 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
5059496 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTTCGGAATCTATTCATTAGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
5059561 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
5059626 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
5059691 TT
326 TT
*
5059693 GCCGATTGAAGCTATAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
5059758 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
5059823 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
5059888 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
* *
5059953 ATGCTCCGACAAAAGTAGGTATAATGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
5060018 TT
326 TT
5060020 G
1 G
5060021 TTTGAATTGT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
327 321 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (327 bp):
GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
TT
Found at i:5061978 original size:5 final size:5
Alignment explanation
Indices: 5061938--5061976 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
5061928 GGAATATTTT
* * *
5061938 TGTTC TGTTC TGTTC TGTTC TGTTT TGTTG TGTTG TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
5061977 GTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.10, G:0.26, T:0.64
Consensus pattern (5 bp):
TGTTC
Found at i:5065153 original size:15 final size:15
Alignment explanation
Indices: 5065133--5065167 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5065123 AGTCTACTAA
5065133 TTTTGATAAAGGGCT
1 TTTTGATAAAGGGCT
* *
5065148 TTTTGATAGAGGGGT
1 TTTTGATAAAGGGCT
5065163 TTTTG
1 TTTTG
5065168 CATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTGATAAAGGGCT
Found at i:5073639 original size:21 final size:20
Alignment explanation
Indices: 5073614--5073652 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5073604 TGTTAAACGT
5073614 GATTAATTATGATTAATTAAA
1 GATTAATTA-GATTAATTAAA
*
5073635 GATTAATTAGTTTAATTA
1 GATTAATTAGATTAATTA
5073653 TGATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
GATTAATTAGATTAATTAAA
Found at i:5073659 original size:11 final size:10
Alignment explanation
Indices: 5073613--5073663 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
5073603 TTGTTAAACG
5073613 TGATTAATTA
1 TGATTAATTA
5073623 TGATTAATTAA
1 TGATTAATT-A
*
5073634 AGATTAATTA
1 TGATTAATTA
*
5073644 -GTTTAATTA
1 TGATTAATTA
*
5073653 TGATTTATTA
1 TGATTAATTA
5073663 T
1 T
5073664 ATAATAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 8 0.23
10 18 0.51
11 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (10 bp):
TGATTAATTA
Found at i:5075093 original size:20 final size:20
Alignment explanation
Indices: 5075068--5075108 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5075058 ATCAGAGCTG
5075068 CAAATTAGCCGATTCTAAGA
1 CAAATTAGCCGATTCTAAGA
5075088 CAAATTAGCCGATTCTAAGA
1 CAAATTAGCCGATTCTAAGA
5075108 C
1 C
5075109 TGGAACGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (20 bp):
CAAATTAGCCGATTCTAAGA
Found at i:5078903 original size:36 final size:36
Alignment explanation
Indices: 5078863--5078935 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
5078853 GAACAGTCTT
5078863 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
5078899 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
5078935 A
1 A
5078936 GTATATTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (36 bp):
ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
Found at i:5083643 original size:22 final size:22
Alignment explanation
Indices: 5083618--5083660 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5083608 TGTTTAATAG
*
5083618 TATAAAACAGTCTAATAATTAC
1 TATAAAAAAGTCTAATAATTAC
5083640 TATAAAAAAGTCTAATAATTA
1 TATAAAAAAGTCTAATAATTA
5083661 AAGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAAAAAAGTCTAATAATTAC
Found at i:5084214 original size:40 final size:40
Alignment explanation
Indices: 5084159--5084265 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
5084149 TTGGTTGATG
*
5084159 AGAAAATGTAAGAAAATCTGGTAAAAATTATTTGATGAGA
1 AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
* * * * *
5084199 ATAAAATATACGAAAATTTGGTAAAATTTGTTTGATGAGA
1 AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
*
5084239 AGAAAATATTAAAAAAATCTGGTAAAA
1 AGAAAATA-TAAGAAAATCTGGTAAAA
5084266 TCAACACTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 41 0.73
41 15 0.27
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (40 bp):
AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
Found at i:5084866 original size:33 final size:33
Alignment explanation
Indices: 5084824--5084890 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
5084814 AAGTGAAAAG
5084824 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
5084857 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
5084890 T
1 T
5084891 TTCATTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (33 bp):
TAGTTCTCTATCTACTTATCATTTTCCATACTT
Found at i:5088713 original size:43 final size:43
Alignment explanation
Indices: 5088665--5088747 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
5088655 GTAAAAAAAC
*
5088665 ATATGAAACAATATACTCAAAATACAAATAACCTTGTTTAGCA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAGCA
5088708 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTA
5088748 ATAATCATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.29
Consensus pattern (43 bp):
ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAGCA
Found at i:5089158 original size:21 final size:21
Alignment explanation
Indices: 5089124--5089163 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
5089114 TAAAAAAATC
*
5089124 AAAATTAATAATG-TATATAA
1 AAAATAAATAATGTTATATAA
5089144 AAAATAAAGTAATGTTATAT
1 AAAATAAA-TAATGTTATAT
5089164 GAGTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATAAATAATGTTATATAA
Found at i:5090515 original size:21 final size:23
Alignment explanation
Indices: 5090491--5090534 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
5090481 TTTACCCTTT
5090491 TTCCTT-CCCTAA-ATGCAGCCG
1 TTCCTTACCCTAATATGCAGCCG
5090512 TTCCTTCACCCTAATATGCAGCC
1 TTCCTT-ACCCTAATATGCAGCC
5090535 CCCAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.20, C:0.39, G:0.11, T:0.30
Consensus pattern (23 bp):
TTCCTTACCCTAATATGCAGCCG
Found at i:5091543 original size:24 final size:23
Alignment explanation
Indices: 5091502--5091569 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
5091492 ACTAATGGAC
*
5091502 TTTTATTGTTTTTATTTTGGTTTA
1 TTTTTTTGTTTTT-TTTTGGTTTA
*
5091526 TTTTTTTGTTTGTTTTTT-TTTTA
1 TTTTTTTGTTT-TTTTTTGGTTTA
* *
5091549 ATTTTTTG-GTTTTTTTGGTTT
1 TTTTTTTGTTTTTTTTTGGTTT
5091570 TCTAACAGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 6 0.16
22 4 0.11
23 11 0.30
24 14 0.38
25 2 0.05
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.79
Consensus pattern (23 bp):
TTTTTTTGTTTTTTTTTGGTTTA
Found at i:5091570 original size:23 final size:23
Alignment explanation
Indices: 5091516--5091570 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
5091506 ATTGTTTTTA
*
5091516 TTTTGG-TTTATTTTTTTGTTTG
1 TTTTGGTTTTATTTTTTGGTTTG
**
5091538 TTTTTTTTTTAATTTTTTGGTTT-
1 TTTTGGTTTT-ATTTTTTGGTTTG
5091561 TTTTGGTTTT
1 TTTTGGTTTT
5091571 CTAACAGGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.15
23 11 0.42
24 11 0.42
ACGTcount: A:0.05, C:0.00, G:0.15, T:0.80
Consensus pattern (23 bp):
TTTTGGTTTTATTTTTTGGTTTG
Found at i:5093425 original size:25 final size:23
Alignment explanation
Indices: 5093388--5093435 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
5093378 AAATGCATTT
5093388 TTGTTCTAAAAAGATTTTAAAATTA
1 TTGTTCTAAAAAG--TTTAAAATTA
* *
5093413 TTGTTGTATAAAGTTTAAAATTA
1 TTGTTCTAAAAAGTTTAAAATTA
5093436 CTCATATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
TTGTTCTAAAAAGTTTAAAATTA
Found at i:5097759 original size:18 final size:18
Alignment explanation
Indices: 5097736--5097771 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5097726 ACAAGAGAGG
5097736 GAAAAGAGAAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
*
5097754 GAAAAGAGGAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
5097772 AGGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAAGAGAAGAAAGAAA
Found at i:5100143 original size:18 final size:18
Alignment explanation
Indices: 5100120--5100184 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
5100110 AGAACGTGTC
5100120 ATTCATTTTCATAACGTT
1 ATTCATTTTCATAACGTT
* *
5100138 ATTCATTATT-ATAAAGCT
1 ATTCATT-TTCATAACGTT
* *
5100156 ATAC-TATTTCAAAACGTT
1 ATTCAT-TTTCATAACGTT
*
5100174 ATTAATTTTCA
1 ATTCATTTTCA
5100185 AAATATCACT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 3 0.09
18 29 0.83
19 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTCATTTTCATAACGTT
Found at i:5105229 original size:49 final size:49
Alignment explanation
Indices: 5105172--5105270 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
5105162 GTACAGTGAC
*
5105172 CTCACTCGTAGTGCTCTCAATCAATTTGCCCAAGTTTTTAGATACCATA
1 CTCACTCGTAGTGCTCTCAATCAATATGCCCAAGTTTTTAGATACCATA
5105221 CTCACTCGTAGTGCTCTCAATCAATATGCCCAAGTTTTTAGATACCATA
1 CTCACTCGTAGTGCTCTCAATCAATATGCCCAAGTTTTTAGATACCATA
5105270 C
1 C
5105271 AAGCTATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (49 bp):
CTCACTCGTAGTGCTCTCAATCAATATGCCCAAGTTTTTAGATACCATA
Found at i:5110431 original size:64 final size:64
Alignment explanation
Indices: 5110314--5110526 Score: 349
Period size: 64 Copynumber: 3.4 Consensus size: 64
5110304 CATGTGATTC
* * * *
5110314 ATATAAAAAAAATTATATTACAAAGTTTGTTCCAATT--TTTAATGTTGTAATGTATTTAATTT
1 ATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTAATTT
5110376 ATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTAATTT
1 ATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTAATTT
* *
5110440 ATATAACAAAATTTATATTACAATGTTTATTTCAATTAGATTAATGTTGTAATGTATTTAATTT
1 ATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTAATTT
*
5110504 ATATAACAAAATTTATATTACAA
1 ATATAAAAAAATTTATATTACAA
5110527 AACTAAGTTT
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
62 34 0.24
64 109 0.76
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (64 bp):
ATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTAATTT
Found at i:5110518 original size:14 final size:14
Alignment explanation
Indices: 5110499--5110528 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5110489 TAATGTATTT
5110499 AATTTATATAACAA
1 AATTTATATAACAA
*
5110513 AATTTATATTACAA
1 AATTTATATAACAA
5110527 AA
1 AA
5110529 CTAAGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:5111028 original size:30 final size:32
Alignment explanation
Indices: 5110892--5111113 Score: 171
Period size: 33 Copynumber: 6.8 Consensus size: 32
5110882 CTTGAGCTGG
* ***
5110892 GAGGAGTGCCATACTGGGGTGGATACGACCCAA
1 GAGGAGTGCCATACTGCGGTGGATACGGGTC-A
* * * *
5110925 GAGGAGTG-GAGTACTACGGTGGATACCGGCCA
1 GAGGAGTGCCA-TACTGCGGTGGATACGGGTCA
* * * **
5110957 GGAGGAGTGCCATGCTGTGGTGGATACGAGTTGG
1 -GAGGAGTGCCATACTGCGGTGGATACG-GGTCA
*
5110991 GAGGAGTGCCATACTGCGGTGGATATGGG-C-
1 GAGGAGTGCCATACTGCGGTGGATACGGGTCA
* *
5111021 TAGGAGTGCCATAATGCGGTGGATACGGGTCAA
1 GAGGAGTGCCATACTGCGGTGGATACGGGTC-A
** *
5111054 GAGGAGTGCTGTACTGCGGTGGATACTGGTCGA
1 GAGGAGTGCCATACTGCGGTGGATACGGGTC-A
* **
5111087 GAGGAATGCTGTACTGCGGTGGATACG
1 GAGGAGTGCCATACTGCGGTGGATACG
5111114 ACCCAAAGAT
Statistics
Matches: 151, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
30 26 0.17
31 1 0.01
32 3 0.02
33 119 0.79
34 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (32 bp):
GAGGAGTGCCATACTGCGGTGGATACGGGTCA
Found at i:5111058 original size:63 final size:63
Alignment explanation
Indices: 5110893--5111078 Score: 167
Period size: 63 Copynumber: 2.9 Consensus size: 63
5110883 TTGAGCTGGG
* * ** * * * *
5110893 AGGAGTGCCATACTGGGGTGGATACGACCCAAGAGGAGTG-GAGTACTACGGTGGATACCGGCCA
1 AGGAGTGCCATAATGCGGTGGATACGAGTCAAGAGGAGTGCCA-TACTGCGGTGGATA-TGGGC-
*
5110957 GG
63 -T
** * ***
5110959 AGGAGTGCCATGCTGTGGTGGATACGAGTTGGGAGGAGTGCCATACTGCGGTGGATATGGGCT
1 AGGAGTGCCATAATGCGGTGGATACGAGTCAAGAGGAGTGCCATACTGCGGTGGATATGGGCT
* **
5111022 AGGAGTGCCATAATGCGGTGGATACGGGTCAAGAGGAGTGCTGTACTGCGGTGGATA
1 AGGAGTGCCATAATGCGGTGGATACGAGTCAAGAGGAGTGCCATACTGCGGTGGATA
5111079 CTGGTCGAGA
Statistics
Matches: 98, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
63 48 0.49
65 3 0.03
66 46 0.47
67 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (63 bp):
AGGAGTGCCATAATGCGGTGGATACGAGTCAAGAGGAGTGCCATACTGCGGTGGATATGGGCT
Found at i:5111936 original size:14 final size:14
Alignment explanation
Indices: 5111917--5111943 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5111907 AAATTACATA
5111917 TTAGAATAGTATCG
1 TTAGAATAGTATCG
5111931 TTAGAATAGTATC
1 TTAGAATAGTATC
5111944 ATTAAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
TTAGAATAGTATCG
Found at i:5113270 original size:104 final size:109
Alignment explanation
Indices: 5113135--5113351 Score: 295
Period size: 104 Copynumber: 2.0 Consensus size: 109
5113125 AATAAAAAAA
* * * *
5113135 TTATATTAAAATACTAAAAATAATATGCCAATAA-AAAATATATAA-ATAAA-TA-AAATAA-AT
1 TTATATTAAAATACTAAAAATAACATACCAATAACAAAA-ACATAACATAAACGATAAATAATA-
*
5113195 GATACGAATA-TTATTATTATTTTAAAATGATAATAAGTAAA-ATT
64 AATACGAATATTTATTATTATTTTAAAATGATAATAAGTAAACATT
*
5113239 TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATACATAATAAA
1 TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATAAATAATAAA
5113304 TACGAATATTTTTATTATTATTTTAAAATGATAATAAGTAAACATT
66 TACGAATA--TTTATTATTATTTTAAAATGATAATAAGTAAACATT
5113350 TT
1 TT
5113352 TAGTTTAAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
104 37 0.38
105 9 0.09
106 1 0.01
107 14 0.14
108 1 0.01
110 31 0.32
111 5 0.05
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (109 bp):
TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATAAATAATAAA
TACGAATATTTATTATTATTTTAAAATGATAATAAGTAAACATT
Found at i:5117737 original size:21 final size:20
Alignment explanation
Indices: 5117711--5117763 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
5117701 AAAAAAGGTG
*
5117711 ATTCTTTTGTTTTTTTCTTCT
1 ATTCTTTTGTTTTCTT-TTCT
5117732 ATTCTTTTGGTTTTCTTTTCT
1 ATTCTTTT-GTTTTCTTTTCT
5117753 A-TCTTTTGTTT
1 ATTCTTTTGTTT
5117764 CAAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 13 0.43
22 7 0.23
ACGTcount: A:0.06, C:0.13, G:0.08, T:0.74
Consensus pattern (20 bp):
ATTCTTTTGTTTTCTTTTCT
Found at i:5117822 original size:11 final size:12
Alignment explanation
Indices: 5117806--5117835 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5117796 GCTTTTTTGC
5117806 CTTTTTTTCTAT
1 CTTTTTTTCTAT
5117818 CTTTTTTTCTAT
1 CTTTTTTTCTAT
5117830 CTTTTT
1 CTTTTT
5117836 ATTGCCGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTTTTCTAT
Found at i:5118557 original size:4 final size:4
Alignment explanation
Indices: 5118548--5118589 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
5118538 GATTAAGTCC
* *
5118548 TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
5118590 AGTTCTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:5118689 original size:3 final size:3
Alignment explanation
Indices: 5118681--5118728 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
5118671 TTTTTGTGCC
* * *
5118681 ATT ATT ATT TTT ATC ATT ATT -TT ATT ATT ATG ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5118727 AT
1 AT
5118729 CTATATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5118705 original size:17 final size:17
Alignment explanation
Indices: 5118685--5118729 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
5118675 TGTGCCATTA
*
5118685 TTATTTTTATCATTATT
1 TTATTATTATCATTATT
*
5118702 TTATTATTATGATTATT
1 TTATTATTATCATTATT
5118719 TTATTATTATC
1 TTATTATTATC
5118730 TATATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTATTATTATCATTATT
Found at i:5119016 original size:12 final size:12
Alignment explanation
Indices: 5118999--5119025 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5118989 GAAAATAGGG
5118999 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5119011 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5119023 TTT
1 TTT
5119026 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:5119259 original size:41 final size:41
Alignment explanation
Indices: 5119056--5119261 Score: 256
Period size: 41 Copynumber: 5.0 Consensus size: 41
5119046 TTGTAAAACA
* * ** *
5119056 CAGATCAATAGCGGCGTTTTTGGTAAAACGCCATTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
5119096 CAGAGCAATAGCGGCGCTTTTTGTTAAAACGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAGT
* *
5119137 CAGAGCAATAGCGGCACTTTCGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
5119178 CGGAGCAATAGCGGCGCTTTCT-GTAAAATGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTT-TGGTAAAACGCCGCTAAAAGT
* *
5119219 CGGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
5119260 CA
1 CA
5119262 TATAACCCCT
Statistics
Matches: 146, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
40 36 0.25
41 110 0.75
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
Found at i:5119495 original size:7 final size:7
Alignment explanation
Indices: 5119483--5119546 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
5119473 TTTATTTTTT
*
5119483 GGTTTAC
1 GGTTTAA
5119490 GGTTTAA
1 GGTTTAA
**
5119497 TATTTAA
1 GGTTTAA
5119504 GGTTTAA
1 GGTTTAA
* *
5119511 GGTCTAT
1 GGTTTAA
*
5119518 GGTTTAG
1 GGTTTAA
*
5119525 GGTTTTAT
1 GG-TTTAA
5119533 GGTTTAA
1 GGTTTAA
5119540 GGTTTAA
1 GGTTTAA
5119547 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:5119535 original size:15 final size:15
Alignment explanation
Indices: 5119499--5119549 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
5119489 CGGTTTAATA
*
5119499 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
5119513 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
5119528 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
5119543 TTAATGG
1 TTTATGG
5119550 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:5120164 original size:8 final size:8
Alignment explanation
Indices: 5120153--5120229 Score: 88
Period size: 8 Copynumber: 10.0 Consensus size: 8
5120143 ACTCAAAAAA
5120153 TAAAAATT
1 TAAAAATT
5120161 TAAAAATT
1 TAAAAATT
5120169 TAAAAATT
1 TAAAAATT
5120177 T-AAAATT
1 TAAAAATT
5120184 T-AAAATT
1 TAAAAATT
5120191 TAAAAA-T
1 TAAAAATT
* *
5120198 AAAAAATA
1 TAAAAATT
* *
5120206 AAAAAACT
1 TAAAAATT
*
5120214 TAAAAACT
1 TAAAAATT
5120222 TAAAAATT
1 TAAAAATT
5120230 AATATTTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
7 20 0.33
8 41 0.67
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (8 bp):
TAAAAATT
Found at i:5120165 original size:15 final size:15
Alignment explanation
Indices: 5120147--5120227 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 15
5120137 AAATAAACTC
5120147 AAAAAATAAAAATTT
1 AAAAAATAAAAATTT
*
5120162 AAAAATTTAAAAATTT
1 AAAAA-ATAAAAATTT
* *
5120178 -AAAATTTAAAATTT
1 AAAAAATAAAAATTT
* *
5120192 -AAAAATAAAAAATA
1 AAAAAATAAAAATTT
*
5120206 AAAAAACTTAAAAACTT
1 AAAAAA--TAAAAATTT
5120223 AAAAA
1 AAAAA
5120228 TTAATATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 19 0.35
15 14 0.26
16 9 0.17
17 12 0.22
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:5120203 original size:22 final size:22
Alignment explanation
Indices: 5120148--5120229 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
5120138 AATAAACTCA
5120148 AAAAATAAAAATTTAAAAATTT
1 AAAAATAAAAATTTAAAAATTT
*
5120170 AAAAATTTAAAATTT-AAAATTT
1 AAAAA-TAAAAATTTAAAAATTT
** *
5120192 AAAAATAAAAAATAAAAAAACTT
1 AAAAAT-AAAAATTTAAAAATTT
5120215 AAAAACTTAAAAATT
1 AAAAA--TAAAAATT
5120230 AATATTTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 22 0.45
23 19 0.39
24 6 0.12
25 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATAAAAATTTAAAAATTT
Found at i:5120211 original size:45 final size:44
Alignment explanation
Indices: 5120148--5120236 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
5120138 AATAAACTCA
** * * *
5120148 AAAAATAAAAATTTAAAAATTTAAAAATTTAAAATTTAAAATTT
1 AAAAATAAAAATAAAAAAACTTAAAAACTTAAAAATTAAAATTT
*
5120192 AAAAATAAAAAATAAAAAAACTTAAAAACTTAAAAATTAATATTT
1 AAAAAT-AAAAATAAAAAAACTTAAAAACTTAAAAATTAAAATTT
5120237 TAGTCCATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (44 bp):
AAAAATAAAAATAAAAAAACTTAAAAACTTAAAAATTAAAATTT
Found at i:5120231 original size:15 final size:15
Alignment explanation
Indices: 5120141--5120231 Score: 69
Period size: 15 Copynumber: 6.0 Consensus size: 15
5120131 AATAAAAAAT
* *
5120141 AAACTCAAAAAATAA
1 AAACTTAAAAATTAA
*
5120156 AAATTTAAAAATTTAA
1 AAACTTAAAAA-TTAA
* *
5120172 AAA-TTTAAAATTTA
1 AAACTTAAAAATTAA
*
5120186 AAATTTAAAAA-TAA
1 AAACTTAAAAATTAA
* *
5120200 AAAATAAAAAAACTTAA
1 AAACT-TAAAAA-TTAA
5120217 AAACTTAAAAATTAA
1 AAACTTAAAAATTAA
5120232 TATTTTAGTC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
14 12 0.20
15 30 0.50
16 11 0.18
17 7 0.12
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACTTAAAAATTAA
Found at i:5122953 original size:17 final size:18
Alignment explanation
Indices: 5122933--5122970 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5122923 CATTGATATC
5122933 TTTA-TATTTAATTTAAT
1 TTTATTATTTAATTTAAT
* *
5122950 TTTATTATTTATTTTAGT
1 TTTATTATTTAATTTAAT
5122968 TTT
1 TTT
5122971 GATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATTATTTAATTTAAT
Found at i:5122989 original size:19 final size:21
Alignment explanation
Indices: 5122961--5123008 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
5122951 TTATTATTTA
5122961 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
5122981 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
5123001 TTTTAGTT
1 TTTTAGTT
5123009 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:5123107 original size:27 final size:28
Alignment explanation
Indices: 5123072--5123125 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5123062 TATTTTGATA
*
5123072 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
5123099 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
5123126 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:5124280 original size:10 final size:10
Alignment explanation
Indices: 5124248--5124281 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
5124238 TAAAACATGT
5124248 AAAAAATTTA
1 AAAAAATTTA
5124258 AAATAATATTTA
1 AAA-AA-ATTTA
5124270 AAAAAATTTA
1 AAAAAATTTA
5124280 AA
1 AA
5124282 TCTTTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:5132711 original size:3 final size:3
Alignment explanation
Indices: 5132698--5132780 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
5132688 GAGGGCATAT
5132698 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
5132742 ATA ATA ATA AT- ATA ATTA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA A
5132781 AAAATAAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 44 0.68
4 10 0.15
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5132728 original size:30 final size:30
Alignment explanation
Indices: 5132694--5132787 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 30
5132684 TGGAGAGGGC
5132694 ATATATAATATAATAATAATATAAATAATA
1 ATATATAATATAATAATAATATAAATAATA
*
5132724 ATATATACATGAGAAATAATAATAATAATATAATTA
1 ATATATA-AT-A-TAATAATAAT-ATAA-ATAA-TA
*
5132760 ATAGTA-AAAATAATAA-AATA-AAA-AATA
1 ATA-TATAATATAATAATAATATAAATAATA
5132787 A
1 A
5132788 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
27 3 0.06
28 2 0.04
29 1 0.02
30 9 0.17
31 3 0.06
32 4 0.07
33 14 0.26
34 5 0.09
35 5 0.09
36 6 0.11
37 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (30 bp):
ATATATAATATAATAATAATATAAATAATA
Found at i:5132762 original size:21 final size:21
Alignment explanation
Indices: 5132698--5132787 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
5132688 GAGGGCATAT
5132698 ATAAT-ATAATAATAATATAA
1 ATAATAATAATAATAATATAA
*
5132718 ATAATAAT-AT-ATACATGAGAA
1 ATAATAATAATAATA-AT-ATAA
*
5132739 ATAATAATAATAAT-ATAATTA
1 ATAATAATAATAATAAT-ATAA
* * *
5132760 ATAGTAAAAATAATAAAATAA
1 ATAATAATAATAATAATATAA
*
5132781 AAAATAA
1 ATAATAA
5132788 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.06
20 9 0.17
21 37 0.69
22 3 0.06
23 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (21 bp):
ATAATAATAATAATAATATAA
Found at i:5133238 original size:38 final size:38
Alignment explanation
Indices: 5133196--5133278 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
5133186 TGGGGTGGTT
*
5133196 TAGGTGGCTAAGGTAGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTAGGTGGCCAACAAGGGTGGTGGAG
*
5133234 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTAGGTGGCCAACAAGGGTGGTGGAG
5133272 TAGGTGG
1 TAGGTGG
5133279 GATTAGGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.22, C:0.11, G:0.49, T:0.18
Consensus pattern (38 bp):
TAGGTGGCCAAGGTAGGTGGCCAACAAGGGTGGTGGAG
Found at i:5133808 original size:68 final size:68
Alignment explanation
Indices: 5133687--5133956 Score: 409
Period size: 68 Copynumber: 4.0 Consensus size: 68
5133677 GCTTCGATTA
* * * * *
5133687 ATCCACTAAAACTTCAAGGAAATCTGTTGTGGCTTTTAGCTGCTCCAATGCCATTTCAGGAAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
5133752 GAG
66 GAG
* * * *
5133755 ATTCACTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATATCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
5133820 GAG
66 GAG
*
5133823 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACACCATTTCAGGGAA-A
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGA
5133887 AGAG
65 AGAG
* *
5133891 ATCCACTG-AACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
5133955 GA
66 GA
5133957 TATTTGATTT
Statistics
Matches: 185, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
66 3 0.02
67 51 0.28
68 128 0.69
69 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (68 bp):
ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
GAG
Found at i:5142667 original size:19 final size:20
Alignment explanation
Indices: 5142643--5142691 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
5142633 AGTGAAAGTT
*
5142643 TAATGCAAATGT-TTCAATG
1 TAATGCAAATGTATGCAATG
*
5142662 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
5142682 -AATGCAAATG
1 TAATGCAAATG
5142692 AAAGGAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:5142698 original size:19 final size:20
Alignment explanation
Indices: 5142658--5142698 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
5142648 CAAATGTTTC
* *
5142658 AATGTAATGCAAATGTATGG
1 AATGTAATGCAAATGAAAGG
5142678 AATG-AATGCAAATGAAAGG
1 AATGTAATGCAAATGAAAGG
5142697 AA
1 AA
5142699 GATGTTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.24, T:0.22
Consensus pattern (20 bp):
AATGTAATGCAAATGAAAGG
Found at i:5143083 original size:29 final size:29
Alignment explanation
Indices: 5143041--5143100 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
5143031 GGCAATTACA
5143041 TCATGTATTCCTCTGTGAACTACCAGCTT
1 TCATGTATTCCTCTGTGAACTACCAGCTT
5143070 TCATGTATTCCTCTGTGAACTACCAGCTT
1 TCATGTATTCCTCTGTGAACTACCAGCTT
5143099 TC
1 TC
5143101 TCTCATCGTG
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:0.20, C:0.28, G:0.13, T:0.38
Consensus pattern (29 bp):
TCATGTATTCCTCTGTGAACTACCAGCTT
Found at i:5146435 original size:26 final size:26
Alignment explanation
Indices: 5146405--5146520 Score: 120
Period size: 26 Copynumber: 4.7 Consensus size: 26
5146395 GGACTCACCA
*
5146405 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTACCGATATAT
5146431 CAGCTCATAAGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTACCGATATAT
* *
5146457 TAGCTCGTAAGAGCTTACC-AT-T-T
1 CAGCTCATAAGAGCTTACCGATATAT
*
5146480 CAACTCGA-AAGAGCTTACCG-T-T-T
1 CAGCTC-ATAAGAGCTTACCGATATAT
* *
5146503 CAACTCAAAAGAGCTTAC
1 CAGCTCATAAGAGCTTAC
5146521 TATTTCAGCT
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.01
23 35 0.43
24 1 0.01
25 2 0.02
26 42 0.52
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (26 bp):
CAGCTCATAAGAGCTTACCGATATAT
Found at i:5146491 original size:23 final size:23
Alignment explanation
Indices: 5146460--5146546 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
5146450 GATATATTAG
*
5146460 CTCGTAAGAGCTTACCATTTCAA
1 CTCGAAAGAGCTTACCATTTCAA
*
5146483 CTCGAAAGAGCTTACCGTTTCAA
1 CTCGAAAGAGCTTACCATTTCAA
* * *
5146506 CTCAAAAGAGCTTACTATTTCAG
1 CTCGAAAGAGCTTACCATTTCAA
*
5146529 CTTGAAAAAGAGCTTACC
1 CTCG--AAAGAGCTTACC
5146547 GATCATGGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 42 0.79
25 11 0.21
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (23 bp):
CTCGAAAGAGCTTACCATTTCAA
Found at i:5153201 original size:60 final size:59
Alignment explanation
Indices: 5153135--5153261 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 59
5153125 ATTGAATAGT
* **
5153135 TTGAGTG-TCCATTTTGTAATTTTTCATAGTTAGATGAGTAAAAGAAAATTTTACTAATAC
1 TTGAGTGAT-CATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAA-TTTACTAATAC
* * * *
5153195 TTGAGTGATCATTTTGTAACTTTTCCTAGTTGGATGAAAAAAATAAAATTTACTAATAG
1 TTGAGTGATCATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAATTTACTAATAC
5153254 TTGAGTGA
1 TTGAGTGA
5153262 CTATTAGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 18 0.31
60 40 0.68
61 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (59 bp):
TTGAGTGATCATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAATTTACTAATAC
Found at i:5153788 original size:37 final size:35
Alignment explanation
Indices: 5153746--5153817 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 35
5153736 AAAAAATTAA
5153746 TGTTTTAGCCAATATTCCATTAAAAAACATTAATTTG
1 TGTTTTAGCCAATATTCCATTAAAAAA-A-TAATTTG
*
5153783 TGTTTTAGCCCATATTCCATTAAAAAAATAATTTG
1 TGTTTTAGCCAATATTCCATTAAAAAAATAATTTG
5153818 ACTCTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 7 0.21
36 1 0.03
37 26 0.76
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (35 bp):
TGTTTTAGCCAATATTCCATTAAAAAAATAATTTG
Found at i:5154295 original size:3 final size:3
Alignment explanation
Indices: 5154287--5154320 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5154277 GAAGTGAGAC
5154287 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5154321 AAGATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5154385 original size:25 final size:27
Alignment explanation
Indices: 5154328--5154377 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
5154318 TAAAAGATAA
* *
5154328 AATTATACTTTGATCTTTCTAAAAAAT
1 AATTATACTTTAATCTCTCTAAAAAAT
5154355 AATTATA-TTTAATCTCTC-AAAAA
1 AATTATACTTTAATCTCTCTAAAAA
5154378 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTATACTTTAATCTCTCTAAAAAAT
Found at i:5157950 original size:26 final size:26
Alignment explanation
Indices: 5157914--5157997 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5157904 CATAAAATTC
5157914 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5157940 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5157966 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5157992 TTATCA
1 TTATCA
5157998 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5163388 original size:26 final size:26
Alignment explanation
Indices: 5163352--5163435 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5163342 CATGAAATTC
5163352 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5163378 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5163404 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5163430 TTATCA
1 TTATCA
5163436 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5169667 original size:14 final size:14
Alignment explanation
Indices: 5169637--5169678 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5169627 TGAAATTAAA
5169637 TTAA-TTTATTATTT
1 TTAAGTTTATT-TTT
**
5169651 TTATTTTTATTTTT
1 TTAAGTTTATTTTT
5169665 TTAAGTTTATTTTT
1 TTAAGTTTATTTTT
5169679 GTTTTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
TTAAGTTTATTTTT
Found at i:5171071 original size:381 final size:382
Alignment explanation
Indices: 5170317--5171080 Score: 1404
Period size: 381 Copynumber: 2.0 Consensus size: 382
5170307 CTTGCACAAT
5170317 ACACCTCAATTTTAATATCCTGAGAGACTCCATTAGTTGTCATAGTCTAGCTATGGTCTTTCACT
1 ACACCTCAATTTTAATATCCTGAGAGACTCCATTAGTTGTCATAGTCTAGCTATGGTCTTTCACT
** *
5170382 TCAGTATCCTTATTTTTATCATCCTGACAAACCATCCATGATGTCATGGTGTCTTTCAAATATGT
66 TCAGTATCCTTATTTTTATCATCCCAACAAACCATCCATGATGTCATGATGTCTTTCAAATATGT
5170447 TCTTACACGATATACCCTGTGTTTATTGTCCCGGCGGACTATCCCGTATTTAATTTCCTATCAGA
131 TCTTACACGATATACCCTGTGTTTATTGTCCCGGCGGACTATCCCGTATTTAATTTCCTATCAGA
* *
5170512 CTATCTTGTGTTTAATGTCCCATTGGTCTCTTCCATTTTTAATGTCATGTCGAACTAACTACGAT
196 CTATCTTGTGTTTAATATCCCATTGGTCTCTCCCATTTTTAATGTCATGTCGAACTAACTACGAT
5170577 GTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACTCCATGTTTACCATCCCGACAGATTA
261 GTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACTCCATGTTTACCATCCCGACAGATTA
* *
5170642 TCAAAGGATACTATAACGTTTTTCAACTATGGTCTTAGTCCTATTTACCATGATACC
326 TCAAAGGATACTATAACGTCTTTCAACTATGATCTTAGTCCTATTTACCATGATACC
5170699 ACACCTCAATTTTAATATCCTGAGAGACTCCATTAGTTGTCATAGTCTAGCTATGGTCTTTCACT
1 ACACCTCAATTTTAATATCCTGAGAGACTCCATTAGTTGTCATAGTCTAGCTATGGTCTTTCACT
* * * *
5170764 TTAGTATTCTTATTTTTATCATCCCAACAAACCATTCATGATGTCATGATGTGTTTCAAATATGT
66 TCAGTATCCTTATTTTTATCATCCCAACAAACCATCCATGATGTCATGATGTCTTTCAAATATGT
*
5170829 TCTTACACGATATACCCTGTGTTTATTGTCCTGGCGGACTATCCCGTATTTAATTTCCTATC-GA
131 TCTTACACGATATACCCTGTGTTTATTGTCCCGGCGGACTATCCCGTATTTAATTTCCTATCAGA
5170893 CTATCTTGTGTTTAATATCCCATTGGTCTCTCCCATTTTTAATGTCATGTCGAACTAACTACGAT
196 CTATCTTGTGTTTAATATCCCATTGGTCTCTCCCATTTTTAATGTCATGTCGAACTAACTACGAT
*
5170958 GTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACTCTATGTTTACCATCCCGACAGATTA
261 GTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACTCCATGTTTACCATCCCGACAGATTA
5171023 TCAAAGGATACTATAACGTCTTTCAACTATGATCTTAGTCCTATTTACCATGATACC
326 TCAAAGGATACTATAACGTCTTTCAACTATGATCTTAGTCCTATTTACCATGATACC
5171080 A
1 A
5171081 TAGCATCTTT
Statistics
Matches: 369, Mismatches: 13, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
381 185 0.50
382 184 0.50
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (382 bp):
ACACCTCAATTTTAATATCCTGAGAGACTCCATTAGTTGTCATAGTCTAGCTATGGTCTTTCACT
TCAGTATCCTTATTTTTATCATCCCAACAAACCATCCATGATGTCATGATGTCTTTCAAATATGT
TCTTACACGATATACCCTGTGTTTATTGTCCCGGCGGACTATCCCGTATTTAATTTCCTATCAGA
CTATCTTGTGTTTAATATCCCATTGGTCTCTCCCATTTTTAATGTCATGTCGAACTAACTACGAT
GTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACTCCATGTTTACCATCCCGACAGATTA
TCAAAGGATACTATAACGTCTTTCAACTATGATCTTAGTCCTATTTACCATGATACC
Found at i:5171148 original size:45 final size:45
Alignment explanation
Indices: 5171041--5171194 Score: 157
Period size: 45 Copynumber: 3.4 Consensus size: 45
5171031 TACTATAACG
* * * ** * **
5171041 TCTTTCAACTATGATCTTAGTCCTATTTACCATGATACCATAGCA
1 TCTTTCAACTATGGTCTTAATCATCCTTATCATGATGTCATAGCA
*
5171086 TCTTTCAACTATGGTCTTAATCAT-TTATATCATGATGTCATAGCA
1 TCTTTCAACTATGGTCTTAATCATCCT-TATCATGATGTCATAGCA
* * *
5171131 TCTTTCAACTATTGTCTTACTCATCCTTATCATGATGTCATAACA
1 TCTTTCAACTATGGTCTTAATCATCCTTATCATGATGTCATAGCA
* **
5171176 TCTTTTAGTTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
5171195 TTTATTTTAG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
44 2 0.02
45 90 0.97
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTAATCATCCTTATCATGATGTCATAGCA
Found at i:5172142 original size:26 final size:26
Alignment explanation
Indices: 5172103--5172154 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
5172093 TTTAACCATG
5172103 TCTAAATCAACCATTATATTTCTCTA
1 TCTAAATCAACCATTATATTTCTCTA
* *
5172129 TCTAAATTAGCCATTATATTTCTCTA
1 TCTAAATCAACCATTATATTTCTCTA
5172155 ACTCTTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (26 bp):
TCTAAATCAACCATTATATTTCTCTA
Found at i:5172325 original size:17 final size:18
Alignment explanation
Indices: 5172303--5172337 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5172293 GTAAGATCCC
5172303 AAAAA-TAGGGTTAGAAA
1 AAAAATTAGGGTTAGAAA
*
5172320 AAAAATTAGGGTTTGAAA
1 AAAAATTAGGGTTAGAAA
5172338 CTAAGAGTGG
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:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
AAAAATTAGGGTTAGAAA
Found at i:5173271 original size:104 final size:106
Alignment explanation
Indices: 5173160--5173361 Score: 246
Period size: 106 Copynumber: 1.9 Consensus size: 106
5173150 TGTCTAGGTT
* * * * * *
5173160 GTGTAACTCACTGTTTATGATTTAGGACCACACGGCCAGGGACAT-CG-GCGTGTGCCCAGGCCG
1 GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATGCGTGCGTGTGCCCAGGCCG
* * *
5173223 TGTGAGCTACACGGGTAAGGACATGGGCATGTATCCAAGTC
66 TGTAAGCCACACGGGCAAGGACATGGGCATGTATCCAAGTC
* * * * * *
5173264 GTGTAACTCACTATTTATAATTTAAGATCACACAGATAGGGAAATGGGTGTGTGTGCCTAGGTCG
1 GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATGCGTGCGTGTGCCCAGGCCG
*
5173329 TGTAAGCCACACGGGCAAGGATATGGGCATGTA
66 TGTAAGCCACACGGGCAAGGACATGGGCATGTA
5173362 CCTAGGCCGT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 37 0.46
105 1 0.01
106 42 0.52
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (106 bp):
GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATGCGTGCGTGTGCCCAGGCCG
TGTAAGCCACACGGGCAAGGACATGGGCATGTATCCAAGTC
Found at i:5173373 original size:42 final size:42
Alignment explanation
Indices: 5173320--5173457 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
5173310 GGTGTGTGTG
* *
5173320 CCTAGGTCGTGTAAGCCACACGGGCAAGGATATGGGCATGTA
1 CCTAGGCCGTGTAAGCCACACAGGCAAGGATATGGGCATGTA
* * * * *
5173362 CCTAGGCCGTGTGAGCTAAACAGGCAAGGATATGAGCGTGTA
1 CCTAGGCCGTGTAAGCCACACAGGCAAGGATATGGGCATGTA
* * * * * *
5173404 CCTAGGTCTTGTAAGCCACACAGGCAAGAACATGGACATGTGT
1 CCTAGGCCGTGTAAGCCACACAGGCAAGGATATGGGCATGT-A
5173447 CC-AGGCCGTGT
1 CCTAGGCCGTGT
5173458 GACTCACTGT
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 73 0.97
43 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (42 bp):
CCTAGGCCGTGTAAGCCACACAGGCAAGGATATGGGCATGTA
Found at i:5174923 original size:21 final size:20
Alignment explanation
Indices: 5174889--5174942 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
5174879 GTTATAACTT
*
5174889 TATTCATTTATATAAATATTTTA
1 TATT-ATTT-TATAAA-ATTATA
*
5174912 TATTTTTTTAT-AAATTATA
1 TATTATTTTATAAAATTATA
5174931 TATTATTTTATA
1 TATTATTTTATA
5174943 CATGATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 15 0.56
20 2 0.07
21 3 0.11
22 3 0.11
23 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTTTATAAAATTATA
Found at i:5178453 original size:6 final size:6
Alignment explanation
Indices: 5178442--5178475 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
5178432 GTAAAACATA
5178442 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
5178476 AAAGTCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:5181306 original size:18 final size:18
Alignment explanation
Indices: 5181280--5181344 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
5181270 TAAAAAATTT
*
5181280 AAATGAAATGCAAGTAAA
1 AAATTAAATGCAAGTAAA
5181298 AAATTAAATGAGCAA-T-AA
1 AAATTAAAT--GCAAGTAAA
*
5181316 AAATATAGCAT-CAAGTAAA
1 AAAT-TA-AATGCAAGTAAA
5181335 AAATTAAATG
1 AAATTAAATG
5181345 AAACATAGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
17 5 0.14
18 17 0.46
19 9 0.24
20 6 0.16
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.22
Consensus pattern (18 bp):
AAATTAAATGCAAGTAAA
Found at i:5189673 original size:19 final size:19
Alignment explanation
Indices: 5189645--5189681 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5189635 AGTTTTTTTT
5189645 TTTTAAGAAAATCTTAAAA
1 TTTTAAGAAAATCTTAAAA
* *
5189664 TTTTATGAAAATTTTAAA
1 TTTTAAGAAAATCTTAAA
5189682 TAATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (19 bp):
TTTTAAGAAAATCTTAAAA
Found at i:5190345 original size:16 final size:16
Alignment explanation
Indices: 5190326--5190357 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5190316 AATTAATTTT
5190326 TTAAAATTAAAAAAAA
1 TTAAAATTAAAAAAAA
5190342 TTAAAATTAAAAAAAA
1 TTAAAATTAAAAAAAA
5190358 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAAATTAAAAAAAA
Found at i:5194001 original size:31 final size:25
Alignment explanation
Indices: 5193942--5193989 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
5193932 TATTTTACGA
5193942 TTGAGAATGCTTATTATTGTACTAT
1 TTGAGAATGCTTATTATTGTACTAT
5193967 TTGAGAATGCTTATTATTGTACT
1 TTGAGAATGCTTATTATTGTACT
5193990 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (25 bp):
TTGAGAATGCTTATTATTGTACTAT
Found at i:5195061 original size:101 final size:101
Alignment explanation
Indices: 5194886--5195084 Score: 371
Period size: 101 Copynumber: 2.0 Consensus size: 101
5194876 TCAAGCATCT
* *
5194886 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGTCAAGATGATGAAATGGAGGCAAA
1 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
5194951 AGATGAAAATATTCACTATGATACTAAAACTGATCC
66 AGATGAAAATATTCACTATGATACTAAAACTGATCC
*
5194987 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATTGACGCAAA
1 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
5195052 AGATGAAAATATTCACTATGATACTAAAACTGA
66 AGATGAAAATATTCACTATGATACTAAAACTGA
5195085 CCATGCCTAC
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (101 bp):
TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
AGATGAAAATATTCACTATGATACTAAAACTGATCC
Found at i:5196079 original size:12 final size:12
Alignment explanation
Indices: 5196062--5196086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5196052 TTTTGGGTTA
5196062 TGGTCTTGTGAG
1 TGGTCTTGTGAG
5196074 TGGTCTTGTGAG
1 TGGTCTTGTGAG
5196086 T
1 T
5196087 TGCTTATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.40, T:0.44
Consensus pattern (12 bp):
TGGTCTTGTGAG
Found at i:5210427 original size:36 final size:36
Alignment explanation
Indices: 5210386--5210502 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
5210376 ATTTATTTTT
5210386 TTATTTATTGAAAATTTTTATATAGTCACCTTATCA
1 TTATTTATTGAAAATTTTTATATAGTCACCTTATCA
* *** * * ** * **
5210422 TTATTTTAATGTTTA-TTTTAGAGTAGTATTATATTTTTT
1 TTA-TTTATTGAAAATTTTTATA-TAG--TCACCTTATCA
5210461 TTATTTATTGAAAATTTTTATATAGTCACCTTATCA
1 TTATTTATTGAAAATTTTTATATAGTCACCTTATCA
5210497 TTATTT
1 TTATTT
5210503 TAATGTTTAT
Statistics
Matches: 54, Mismatches: 22, Indels: 10
0.63 0.26 0.12
Matches are distributed among these distances:
36 20 0.37
37 10 0.19
38 10 0.19
39 14 0.26
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (36 bp):
TTATTTATTGAAAATTTTTATATAGTCACCTTATCA
Found at i:5210469 original size:75 final size:75
Alignment explanation
Indices: 5210381--5210530 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
5210371 AAAATATTTA
5210381 TTTTTTTATTTATTGAAAATTTTTATATAGTCACCTTATCATTATTTTAATGTTTATTTTAGAGT
1 TTTTTTTATTTATTGAAAATTTTTATATAGTCACCTTATCATTATTTTAATGTTTATTTTAGAGT
5210446 AGTATTATAT
66 AGTATTATAT
5210456 TTTTTTTATTTATTGAAAATTTTTATATAGTCACCTTATCATTATTTTAATGTTTATTTTAGAGT
1 TTTTTTTATTTATTGAAAATTTTTATATAGTCACCTTATCATTATTTTAATGTTTATTTTAGAGT
5210521 AGTATTATAT
66 AGTATTATAT
5210531 ATTTAGTATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.57
Consensus pattern (75 bp):
TTTTTTTATTTATTGAAAATTTTTATATAGTCACCTTATCATTATTTTAATGTTTATTTTAGAGT
AGTATTATAT
Found at i:5213944 original size:6 final size:6
Alignment explanation
Indices: 5213928--5213957 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
5213918 TAAACTAAAA
5213928 TATAGTT TATATT TATATT TATATT TATAT
1 TATA-TT TATATT TATATT TATATT TATAT
5213958 AATCAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:5215178 original size:20 final size:20
Alignment explanation
Indices: 5215135--5215188 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
5215125 GGTGTGGGTT
* *
5215135 AAAAATATGATTTAATAATA
1 AAAAATATAATGTAATAATA
*
5215155 ATAATATATATAATGTAATCATA
1 A-AA-A-ATATAATGTAATAATA
5215178 AAAAATATAAT
1 AAAAATATAAT
5215189 TGGCGATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 3 0.11
23 14 0.50
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATATAATGTAATAATA
Found at i:5215312 original size:12 final size:12
Alignment explanation
Indices: 5215226--5215332 Score: 52
Period size: 12 Copynumber: 9.1 Consensus size: 12
5215216 AAAAATAAAA
5215226 AAATAT-TATAT
1 AAATATATATAT
*
5215237 AAA-ATGTAATAT
1 AAATATAT-ATAT
*
5215249 AAATATATA-AG
1 AAATATATATAT
*
5215260 AAATATAATAGAT
1 AAATAT-ATATAT
*
5215273 ATAATATA-AAAT
1 A-AATATATATAT
5215285 AACATATA-A-A-
1 AA-ATATATATAT
5215295 ACAATATATATAT
1 A-AATATATATAT
5215308 AAATA-AT-TAAT
1 AAATATATAT-AT
5215319 AAATATATAATAT
1 AAATATAT-ATAT
5215332 A
1 A
5215333 TGTGAAAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 28
0.71 0.04 0.26
Matches are distributed among these distances:
10 9 0.12
11 24 0.31
12 28 0.36
13 10 0.13
14 6 0.08
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (12 bp):
AAATATATATAT
Found at i:5215329 original size:11 final size:11
Alignment explanation
Indices: 5215247--5215330 Score: 66
Period size: 11 Copynumber: 7.3 Consensus size: 11
5215237 AAAATGTAAT
5215247 ATAAATATATA
1 ATAAATATATA
*
5215258 AGAAATATAATA
1 ATAAATAT-ATA
*
5215270 GATATAATATAAA
1 -ATA-AATATATA
5215283 ATAACATATA-A
1 ATAA-ATATATA
5215294 A-ACAATATATA
1 ATA-AATATATA
5215305 TATAAATA-ATTA
1 -ATAAATATA-TA
5215317 ATAAATATATA
1 ATAAATATATA
5215328 ATA
1 ATA
5215331 TATGTGAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
10 6 0.10
11 25 0.42
12 19 0.32
13 5 0.08
14 5 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
ATAAATATATA
Found at i:5217040 original size:26 final size:26
Alignment explanation
Indices: 5217004--5217059 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
5216994 AAATAGTACT
5217004 ACTTAGTTCCTAGACAATTGTATTTG
1 ACTTAGTTCCTAGACAATTGTATTTG
5217030 ACTTAGTTCCTAGACAATTGTATTTG
1 ACTTAGTTCCTAGACAATTGTATTTG
5217056 ACTT
1 ACTT
5217060 TGGATCACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (26 bp):
ACTTAGTTCCTAGACAATTGTATTTG
Found at i:5218658 original size:15 final size:15
Alignment explanation
Indices: 5218631--5218678 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
5218621 ATTTGAAAGG
*
5218631 TAAATTAATTTTTTA
1 TAAATTAAATTTTTA
*
5218646 TACATTAAATTTTTGAA
1 TAAATTAAATTTTT--A
5218663 TAAATTAAATTATTTA
1 TAAATTAAATT-TTTA
5218679 GTTGAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 11 0.41
18 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TAAATTAAATTTTTA
Found at i:5218659 original size:17 final size:17
Alignment explanation
Indices: 5218631--5218673 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5218621 ATTTGAAAGG
*
5218631 TAAATT-AATTTTT-TA
1 TAAATTAAATTTTTGAA
*
5218646 TACATTAAATTTTTGAA
1 TAAATTAAATTTTTGAA
5218663 TAAATTAAATT
1 TAAATTAAATT
5218674 ATTTAGTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATTAAATTTTTGAA
Found at i:5218819 original size:19 final size:20
Alignment explanation
Indices: 5218785--5218825 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
5218775 TTTAACAATA
5218785 AAAATAAATAAATTTTTATT
1 AAAATAAATAAATTTTTATT
* *
5218805 AAAATGAAT-AATTTTTTTT
1 AAAATAAATAAATTTTTATT
5218824 AA
1 AA
5218826 TTTAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAAATAAATAAATTTTTATT
Found at i:5230410 original size:12 final size:12
Alignment explanation
Indices: 5230393--5230432 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
5230383 ATAAACATAT
5230393 TTAATTTTATTA
1 TTAATTTTATTA
5230405 TTAATTATTA-TA
1 TTAATT-TTATTA
5230417 TTTAATTTTATTA
1 -TTAATTTTATTA
5230430 TTA
1 TTA
5230433 GTTGTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:5230421 original size:25 final size:25
Alignment explanation
Indices: 5230389--5230451 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
5230379 TCTTATAAAC
5230389 ATATTTAATTTTATTATTAATTATT
1 ATATTTAATTTTATTATTAATTATT
* *
5230414 ATATTTAATTTTATTATTAGTTGTT
1 ATATTTAATTTTATTATTAATTATT
* *
5230439 TTATTTTATTTTA
1 ATATTTAATTTTA
5230452 GAAATCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATATTTAATTTTATTATTAATTATT
Found at i:5231611 original size:9 final size:9
Alignment explanation
Indices: 5231597--5231621 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5231587 ATAGACTAAT
5231597 AAAAATTTA
1 AAAAATTTA
5231606 AAAAATTTA
1 AAAAATTTA
5231615 AAAAATT
1 AAAAATT
5231622 AGAAACACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTTA
Found at i:5232496 original size:33 final size:33
Alignment explanation
Indices: 5232433--5232498 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
5232423 GCCCATGTCG
**
5232433 ATTCAAGTTCGAGAAAGCTCGAGCTTGAGAAAA
1 ATTCAAGTTCGAGAAAGCTCGAGCCCGAGAAAA
5232466 ATTCAAGTT-GAGAAAAGC-CTGAGCCCGAGAAAA
1 ATTCAAGTTCGAG-AAAGCTC-GAGCCCGAGAAAA
5232499 TCTAAGCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (33 bp):
ATTCAAGTTCGAGAAAGCTCGAGCCCGAGAAAA
Found at i:5239662 original size:26 final size:26
Alignment explanation
Indices: 5239632--5239687 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
5239622 TGAAATTCCC
*
5239632 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCAATT
5239658 ATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCAATT
5239684 ATCA
1 ATCA
5239688 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCAATT
Found at i:5241629 original size:20 final size:20
Alignment explanation
Indices: 5241606--5241645 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5241596 TTAAATTCTA
5241606 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
5241626 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
5241646 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:5241862 original size:17 final size:18
Alignment explanation
Indices: 5241831--5241864 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5241821 ATTTCACGCT
5241831 TTTTGCCCTTAAATTTAC
1 TTTTGCCCTTAAATTTAC
*
5241849 TTTTG-CCTTCAATTTA
1 TTTTGCCCTTAAATTTA
5241865 GTCCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTGCCCTTAAATTTAC
Found at i:5242464 original size:96 final size:96
Alignment explanation
Indices: 5242303--5242479 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
5242293 TTTACTTTCA
* * * *
5242303 CTTAGGAAAATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCACCCCCATTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
5242368 TCAGCCCAACACATTCCTAATTTTTATTTTT
66 TCAGCCCAACACATTCCTAATTTTTATTTTT
* * * ***
5242399 CTTAAGAACATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGAACCTCACCCTGGTTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
* *
5242464 TCAGTCCAACTCATTC
66 TCAGCCCAACACATTC
5242480 TTAAAAATTA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (96 bp):
CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
TCAGCCCAACACATTCCTAATTTTTATTTTT
Found at i:5246282 original size:17 final size:18
Alignment explanation
Indices: 5246260--5246293 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
5246250 AATCGAATTG
5246260 AAATTGTG-AAATTAAAT
1 AAATTGTGAAAATTAAAT
5246277 AAATTGTGAAAATTAAA
1 AAATTGTGAAAATTAAA
5246294 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAATTGTGAAAATTAAAT
Found at i:5252692 original size:42 final size:41
Alignment explanation
Indices: 5252642--5252756 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 41
5252632 CTTCATTTTC
* *
5252642 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCAAATAA
1 TCGATGCCATAG-ACAACTATGGTCTTACACATATTCAAAT-A
** *
5252685 T-GATGCCATAGCACAGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAG-ACAACTATGGTCTTACACATATTCAAATA
* *
5252726 TCGATGCCATAGCCGACCTATGGTCTTACAC
1 TCGATGCCATAGAC-AACTATGGTCTTACAC
5252757 GAATCACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.05
42 57 0.93
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGACAACTATGGTCTTACACATATTCAAATA
Found at i:5252919 original size:31 final size:31
Alignment explanation
Indices: 5252883--5253023 Score: 221
Period size: 31 Copynumber: 4.5 Consensus size: 31
5252873 TTGTAACTGA
5252883 AGCTACCA-TTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTT-TTCACTGATCAGGTAGCCGG
* *
5252914 TGCTACCACTTTTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
5252945 AGCTACCACTTTTCACTGATCAGGTAGCCGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
5252976 AGCTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
5253007 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
5253024 TGTCATTTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 101 0.98
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:5253107 original size:50 final size:51
Alignment explanation
Indices: 5252999--5253127 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
5252989 CACTGATCAG
* * *
5252999 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTATCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAGT
* *
5253050 GTGGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTATCATTGATCAGATAAGT
5253100 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
5253128 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAGT
Found at i:5264371 original size:10 final size:10
Alignment explanation
Indices: 5264358--5264387 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
5264348 AAAAAATTAT
5264358 AAATTTAAAA
1 AAATTTAAAA
5264368 AAATTTTAAAA
1 AAA-TTTAAAA
5264379 AAATTTAAA
1 AAATTTAAA
5264388 TTTTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:5267633 original size:18 final size:18
Alignment explanation
Indices: 5267610--5267653 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5267600 TTCTTTCTTT
5267610 AATTT-AATATTAATATAA
1 AATTTAAAT-TTAATATAA
* *
5267628 AATTTAAATTTATTATTA
1 AATTTAAATTTAATATAA
5267646 AATTTAAA
1 AATTTAAA
5267654 AAATCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTAAATTTAATATAA
Found at i:5270339 original size:35 final size:35
Alignment explanation
Indices: 5270300--5270370 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
5270290 TCTAGGATTA
*
5270300 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* * *
5270335 CATATCTTTGAAGATTACTTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
5270370 C
1 C
5270371 TCTAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Done.