Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 23 of 202
Found at i:6774759 original size:94 final size:95
Alignment explanation
Indices: 6774652--6774846 Score: 254
Period size: 94 Copynumber: 2.1 Consensus size: 95
6774642 GGAGAGATAA
* *
6774652 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTA-GAC-TC
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTCGCTAT--TATGACTTC
* *
6774715 AATCCGACCCACTGCAACTTCATGGGTATA-G
64 AATCCGACCCACTACAACTTCAGGGGTATATG
* * * * *
6774746 GATTTGTAGCTTCAATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGTTATTATGACTTCAA
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTCGCTATTATGACTTCAA
*
6774811 TCCGACCCACTATAACTTCAGGGGTATATG
66 TCCGACCCACTACAACTTCAGGGGTATATG
6774841 G-TTTGT
1 GATTTGT
6774847 GGTTTTACTT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
92 2 0.02
93 3 0.03
94 81 0.92
95 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (95 bp):
GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTCGCTATTATGACTTCAA
TCCGACCCACTACAACTTCAGGGGTATATG
Found at i:6774794 original size:44 final size:44
Alignment explanation
Indices: 6774543--6774796 Score: 189
Period size: 44 Copynumber: 5.6 Consensus size: 44
6774533 ATTTCAACTC
** * *
6774543 ACTGCAACTTCAGGGCTATAAGAATTGTAGCTGC-ATCTTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCTCT
* * *
6774587 ACTACAACTTCAGGGAGATAAGATTTGTTGCTTTAAAT-TGCT-T
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGC-TTCAATCTGCTCT
* * *
6774630 CACTGTAACTTC-GGAGAGATAAGATTTGTAGCTTCAATCTGTTCC
1 -ACTGCAACTTCAGG-GAGATAAGATTTGTAGCTTCAATCTGCTCT
* * *
6774675 ACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGAC-TCAATCCGAC-CC
1 ACTGCAACTTCAGGGAGATAAGA-T---T-T-GTAG-CTTCAATCTG-CTCT
* *
6774725 ACTGCAACTTCATGGG-TATAGGATTTGTAGCTTCAATCTGCTCT
1 ACTGCAACTTCA-GGGAGATAAGATTTGTAGCTTCAATCTGCTCT
* *
6774769 ATTGCAACTTCAGAGAGATAAGATTTGT
1 ACTGCAACTTCAGGGAGATAAGATTTGT
6774797 TATTATGACT
Statistics
Matches: 165, Mismatches: 26, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
43 12 0.07
44 109 0.66
45 5 0.03
46 3 0.02
48 1 0.01
49 2 0.01
50 29 0.18
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCT
Found at i:6785710 original size:20 final size:20
Alignment explanation
Indices: 6785670--6785713 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6785660 AAATGATAGG
*
6785670 TAAATAAATAAACGAACAAA
1 TAAATAAATAAAAGAACAAA
6785690 TAAATAAATAAAAGATA-AAA
1 TAAATAAATAAAAGA-ACAAA
6785710 TAAA
1 TAAA
6785714 ATTGCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
TAAATAAATAAAAGAACAAA
Found at i:6791130 original size:16 final size:16
Alignment explanation
Indices: 6791106--6791139 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6791096 TTTATCTAAT
6791106 TAATGTTGAATTTATA
1 TAATGTTGAATTTATA
* *
6791122 TAATTTTGAGTTTATA
1 TAATGTTGAATTTATA
6791138 TA
1 TA
6791140 TTATATTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TAATGTTGAATTTATA
Found at i:6793098 original size:29 final size:29
Alignment explanation
Indices: 6793068--6793949 Score: 1245
Period size: 29 Copynumber: 30.4 Consensus size: 29
6793058 TTAAAATGGG
**
6793068 TTTTAACTTAAATTAGTTTAGGGTTAGGGT
1 TTTTAA-TTAAATTAAATTAGGGTTAGGGT
* ***
6793098 TTTTAATTAAAATGGGTTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
**
6793127 TTTTAATTAAATTAGGTTAGGGTTTAGGG-
1 TTTTAATTAAATTAAATTAGGG-TTAGGGT
*
6793156 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* **
6793185 TTTTAATCAAATTAGGTTAGGGTTTAGGG-
1 TTTTAATTAAATTAAATTAGGG-TTAGGGT
*
6793214 TTTTAATTAAATTAAGTTAGGGTTTAGGG-
1 TTTTAATTAAATTAAATTAGGG-TTAGGGT
*
6793243 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793272 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* **
6793301 TTTTAATCAAATTAGGTTAGGGTTTAGGG-
1 TTTTAATTAAATTAAATTAGGG-TTAGGGT
* *
6793330 TTTTAATTAAATTAAGTTAGGGTTTAAGG-
1 TTTTAATTAAATTAAATTAGGG-TTAGGGT
*
6793359 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793388 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* ***
6793417 TTTTAATTAAAATGGGTTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793446 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793475 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793504 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* ***
6793533 TTTTAATTAAAATGGGTTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793562 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793591 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793620 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* *
6793649 TTTTAATTAAATTAAACTATGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* ***
6793678 TTTTAATTAAAATGGGTTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793707 TTTTAATTAAATCAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793736 TTTTGATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793765 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793794 TTTTAATTAAATTAAACTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
* ***
6793823 TTTTAATTAAAATGGGTTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793852 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793881 TTTTAATTAAATTAAATTAGGGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
6793910 TTTTAATTAAATTAAATTA-GGTTAGGGT
1 TTTTAATTAAATTAAATTAGGGTTAGGGT
*
6793938 TTTTAATCAAAT
1 TTTTAATTAAAT
6793950 AATATCAAAA
Statistics
Matches: 774, Mismatches: 72, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
28 37 0.05
29 713 0.92
30 24 0.03
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (29 bp):
TTTTAATTAAATTAAATTAGGGTTAGGGT
Found at i:6796282 original size:29 final size:29
Alignment explanation
Indices: 6796220--6796275 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
6796210 TGAAAATATT
*
6796220 AAAATTTTTAAAATTATTTTTAAAAAATA
1 AAAATATTTAAAATTATTTTTAAAAAATA
6796249 AAAATATTTAAAATT-TTCTTTAAAAAA
1 AAAATATTTAAAATTATT-TTTAAAAAA
6796276 ATGAAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AAAATATTTAAAATTATTTTTAAAAAATA
Found at i:6796339 original size:22 final size:21
Alignment explanation
Indices: 6796311--6796362 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
6796301 AAATATGGAT
*
6796311 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
6796333 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
6796355 TTGAGAGA
1 TTGAGAGA
6796363 ATATTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:6801185 original size:42 final size:43
Alignment explanation
Indices: 6801086--6801243 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
6801076 AGCTCGTACA
* * **
6801086 ATGCCAACGTCCCAGACGTGGTCTTACATTTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
* * *
6801129 ATGCCATTGTCCCAGACA-GAGTGTTACACGTAATCATAT-ACG
1 ATGCCAATGTCCCAGACATG-GTCTTACACGTAATCAAATAACG
* ** *
6801171 ATGTCAATGTCCCAGACATGGTCTTACACGTAAATC-CCTAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCAAATA-ACG
*
6801215 ATGCCAACGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
6801244 AAAATCACAT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 31 0.33
43 35 0.37
44 29 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
Found at i:6801230 original size:44 final size:42
Alignment explanation
Indices: 6801086--6801243 Score: 158
Period size: 44 Copynumber: 3.7 Consensus size: 42
6801076 AGCTCGTACA
* ** * *
6801086 ATGCCAACGTCCCAGACGTGGTCTTACATTTAATCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATC-CATATCG
** *
6801129 ATGCCATTGTCCCAGACA-GAGTGTTACACGTAAT-CATATACG
1 ATGCCAACGTCCCAGACATG-GTCTTACACGTAATCCATAT-CG
* * *
6801171 ATGTCAATGTCCCAGACATGGTCTTACACGTAAATCCCTAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCCATA-TCG
6801215 ATGCCAACGTCCCAGACATGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
6801244 AAAATCACAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 29 0.31
43 30 0.32
44 32 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCCATATCG
Found at i:6802500 original size:45 final size:45
Alignment explanation
Indices: 6802421--6802525 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
6802411 ATGTGCTGAC
* * *
6802421 TACTGTTACTGTTACTGATTCGATACTTCATGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAACACTTCATGTGTTGAATACTGT
** *
6802466 TA-TCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATATTGT
1 TACT-GTTACTGTTACAGATTCAACACTTCATGTGTTGAATACTGT
6802511 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
6802526 TGCTACCGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 1 0.02
45 50 0.96
46 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAACACTTCATGTGTTGAATACTGT
Found at i:6805283 original size:44 final size:44
Alignment explanation
Indices: 6805159--6805283 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
6805149 TGGTAGATTT
* * * *
6805159 AATCTGAC-CCACTGCAACTTCAGAGG-TATAGGATTTGTCGCTTT
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTC
* * *
6805203 AATCTGCTCCACTGTAACTACAGGGAGATGAGATTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* *
6805247 AATTTGCTCCACTGCAACTTCAGGGAGATAATATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
6805284 CTATAGTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.04
44 64 0.96
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
Found at i:6824062 original size:5 final size:5
Alignment explanation
Indices: 6824052--6824086 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
6824042 TTATTGTTTA
6824052 ATAAT ATAAT ATAAT ATAAT ATATAT ATATAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATA-AT ATA
6824087 TTGAACTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:6829024 original size:263 final size:267
Alignment explanation
Indices: 6828649--6829160 Score: 698
Period size: 264 Copynumber: 1.9 Consensus size: 267
6828639 ATTCCTTATC
* *
6828649 ATTTGGTATCAAATTTGAGTGTTTTAGGTGCTCTTGTGTTCTTATAAATCGATTTCCAACAAACA
1 ATTTGGTATCAAATTTGAGCGTTTTAGGTGCTCTTGTGTTCTAATAAATCGATTTCCAACAAACA
* ** *
6828714 AACTGAAAACAACTTTTTTTTACCCAAAAATTTTTTTGAAGAAAATATTTTTCAGTCGGTAAAC-
66 AACTCAAAACAACTTTTTTTTACCCAAAAATTTTTCAGAAGAAAATATTTTTCAATCGGTAAACA
* * * * *
6828778 GTTTTCAAATGATTTGAAATTTTATATATT-ACTTCTTGGCACTCTCTTAGAATCTAGAAAAATA
131 GTTTTCAAATAATATGAAATTTTACATATTGA-TTCTTGACACTCTCTTAGAATATAGAAAAATA
* *
6828842 -TTTCTA-AAAAAA-AGTGATTGAAAAAGTGCAAAAACAGAAAAATACAAAACAACAACAAAAAA
195 CTTCCCACAAAAAAGAGTGATTGAAAAAGTGCAAAAACAGAAAAATACAAAACAACAACAAAAAA
6828904 AGAATTAG
260 AGAATTAG
* * * **
6828912 ATTTGGTAT-AAGATTTGGGCGTTTTAGGTGTTCTTTGTGTTCTAATAAATTGATTTCCAGTAAA
1 ATTTGGTATCAA-ATTTGAGCGTTTTAGGTGCTC-TTGTGTTCTAATAAATCGATTTCCAACAAA
* *
6828976 CAACCTCAAAACAAC-TTTTTTTACCCAAAAAGTTTTTCAGAA-AAAATATTTTTCAATGGGTAA
64 CAAACTCAAAACAACTTTTTTTTACCCAAAAA-TTTTTCAGAAGAAAATATTTTTCAATCGGTAA
* * *
6829039 ACATTTTTCAAATAATATGAAATTTTACATATTGATTCTTGACACTCTCTTGGGATATAGAAAAA
128 ACAGTTTTCAAATAATATGAAATTTTACATATTGATTCTTGACACTCTCTTAGAATATAGAAAAA
* * *
6829104 TACTTCCCACAAAAAAGAGTTATTGGAAAAGTGCAAAAACAGAAAAATACGAAACAA
193 TACTTCCCACAAAAAAGAGTGATTGAAAAAGTGCAAAAACAGAAAAATACAAAACAA
6829161 AAAAAGAAAA
Statistics
Matches: 215, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
262 2 0.01
263 64 0.30
264 101 0.47
265 5 0.02
266 6 0.03
267 37 0.17
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (267 bp):
ATTTGGTATCAAATTTGAGCGTTTTAGGTGCTCTTGTGTTCTAATAAATCGATTTCCAACAAACA
AACTCAAAACAACTTTTTTTTACCCAAAAATTTTTCAGAAGAAAATATTTTTCAATCGGTAAACA
GTTTTCAAATAATATGAAATTTTACATATTGATTCTTGACACTCTCTTAGAATATAGAAAAATAC
TTCCCACAAAAAAGAGTGATTGAAAAAGTGCAAAAACAGAAAAATACAAAACAACAACAAAAAAA
GAATTAG
Found at i:6829607 original size:5 final size:5
Alignment explanation
Indices: 6829597--6829627 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6829587 TGAGCATTCC
6829597 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
6829628 AATTTTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:6832979 original size:5 final size:5
Alignment explanation
Indices: 6832969--6832999 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6832959 TGAGCATTCC
6832969 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
6833000 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:6833782 original size:16 final size:16
Alignment explanation
Indices: 6833761--6833793 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6833751 GATGGGAAGA
6833761 GAATAAAAGTGTTAGG
1 GAATAAAAGTGTTAGG
*
6833777 GAATAAAAGTTTTAGG
1 GAATAAAAGTGTTAGG
6833793 G
1 G
6833794 GAAAAGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (16 bp):
GAATAAAAGTGTTAGG
Found at i:6833801 original size:30 final size:30
Alignment explanation
Indices: 6833765--6833828 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
6833755 GGAAGAGAAT
** *
6833765 AAAAGTGTTAGGGAATAAAAGTTTTAGGGG
1 AAAAGTGGGAGGGAATAAAAATTTTAGGGG
* *
6833795 AAAAGTGGGAGGGAGTAAAAATTTTGGGGG
1 AAAAGTGGGAGGGAATAAAAATTTTAGGGG
6833825 AAAA
1 AAAA
6833829 TAAAAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (30 bp):
AAAAGTGGGAGGGAATAAAAATTTTAGGGG
Found at i:6834132 original size:9 final size:9
Alignment explanation
Indices: 6834115--6834145 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6834105 TCGAGTTGAT
6834115 TCGAATAAC
1 TCGAATAAC
*
6834124 TCGATTAAC
1 TCGAATAAC
6834133 TCGAATAAC
1 TCGAATAAC
6834142 TCGA
1 TCGA
6834146 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6837638 original size:21 final size:19
Alignment explanation
Indices: 6837612--6837650 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
6837602 GATAAACAGA
6837612 TATAAAGAAAAGGAAAATTTT
1 TATAAA-AAAA-GAAAATTTT
*
6837633 TATAAAAAAATAAAATTT
1 TATAAAAAAAGAAAATTT
6837651 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
TATAAAAAAAGAAAATTTT
Found at i:6840486 original size:23 final size:24
Alignment explanation
Indices: 6840441--6840486 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
6840431 TAAAATAAAA
6840441 TTTATAAATATAAAAATTATATTT
1 TTTATAAATATAAAAATTATATTT
* *
6840465 TTTATAAAT-TAATAATTCTATT
1 TTTATAAATATAAAAATTATATT
6840487 AAAACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTATAAATATAAAAATTATATTT
Found at i:6841918 original size:25 final size:23
Alignment explanation
Indices: 6841876--6841984 Score: 98
Period size: 25 Copynumber: 4.6 Consensus size: 23
6841866 CCGAATATAA
**
6841876 TAAATATTTTTATTTTTTAATTT
1 TAAATATTTTTAAATTTTAATTT
**
6841899 TAAAATACTTTTTAAATTTTAAAAT
1 T-AAATA-TTTTTAAATTTTAATTT
6841924 T-AA-ATTTTT-AATTTTAATTTT
1 TAAATATTTTTAAATTTTAA-TTT
*
6841945 TAAAATACTTTTTAATTTTTTAATTT
1 T-AAATA-TTTTTAA-ATTTTAATTT
6841971 TAAATATTTTTAAA
1 TAAATATTTTTAAA
6841985 ATACTTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
20 8 0.12
21 7 0.10
22 1 0.01
23 5 0.07
24 13 0.19
25 24 0.35
26 5 0.07
27 6 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TAAATATTTTTAAATTTTAATTT
Found at i:6841936 original size:20 final size:18
Alignment explanation
Indices: 6841889--6841940 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
6841879 ATATTTTTAT
*
6841889 TTTTTAATTTTAAAATAC
1 TTTTTAATTTTAAAATAA
6841907 TTTTTAAATTTTAAAATTAAA
1 TTTTT-AATTTTAAAA-T-AA
6841928 TTTTTAATTTTAA
1 TTTTTAATTTTAA
6841941 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 9 0.30
21 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTAATTTTAAAATAA
Found at i:6841938 original size:27 final size:26
Alignment explanation
Indices: 6841907--6841983 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
6841897 TTTAAAATAC
6841907 TTTTTAAATTTTAAAATTAAATTTTTAA
1 TTTTTAAATTTTAAAA-T-AATTTTTAA
* *
6841935 -TTTTAATTTTTAAAATACTTTTTAA
1 TTTTTAAATTTTAAAATAATTTTTAA
*
6841960 TTTTTTAATTTT-AAAT-ATTTTTAA
1 TTTTTAAATTTTAAAATAATTTTTAA
6841984 AATACTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 7 0.16
25 12 0.28
26 10 0.23
27 14 0.33
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTTAAATTTTAAAATAATTTTTAA
Found at i:6841965 original size:33 final size:34
Alignment explanation
Indices: 6841923--6842011 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 34
6841913 AATTTTAAAA
*
6841923 TTAAATTTTTAATTTTAATTTTTAAAATAC-TTT
1 TTAATTTTTTAATTTTAATTTTTAAAATACTTTT
6841956 TTAATTTTTTAATTTTAAATATTTTTAAAATACTTTT
1 TTAATTTTTTAATTTT--A-ATTTTTAAAATACTTTT
*
6841993 TTATTTTGTTTAATTTTAA
1 TTAATTT-TTTAATTTTAA
6842012 ATAAATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
33 15 0.31
35 2 0.04
36 14 0.29
37 9 0.18
38 9 0.18
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (34 bp):
TTAATTTTTTAATTTTAATTTTTAAAATACTTTT
Found at i:6842877 original size:6 final size:6
Alignment explanation
Indices: 6842866--6842895 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6842856 TAGTTGGACA
6842866 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
6842896 GTATTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:6845615 original size:15 final size:16
Alignment explanation
Indices: 6845595--6845627 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6845585 GGATTTCGTG
*
6845595 ATTTTTTATA-TTTAT
1 ATTTTTTAAAGTTTAT
6845610 ATTTTTTAAAGTTTAT
1 ATTTTTTAAAGTTTAT
6845626 AT
1 AT
6845628 ATATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTTTTAAAGTTTAT
Found at i:6845648 original size:21 final size:20
Alignment explanation
Indices: 6845622--6845660 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6845612 TTTTTAAAGT
6845622 TTATATATATTTAATAAAAAA
1 TTATATAT-TTTAATAAAAAA
*
6845643 TTATATATTTTTATAAAA
1 TTATATATTTTAATAAAA
6845661 GAAATACTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATATATTTTAATAAAAAA
Found at i:6846573 original size:22 final size:22
Alignment explanation
Indices: 6846548--6846639 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
6846538 AAATTCAATA
* *
6846548 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
6846570 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
6846592 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
6846614 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
6846636 TCAA
1 TCAA
6846640 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:6846655 original size:52 final size:51
Alignment explanation
Indices: 6846589--6846691 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
6846579 TTCAAAATTT
* * *
6846589 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
6846641 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
6846692 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:6846680 original size:21 final size:22
Alignment explanation
Indices: 6846641--6846682 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6846631 TTCTCTCAAA
6846641 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
6846663 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
6846683 ATCTCCAAAT
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:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:6846782 original size:29 final size:30
Alignment explanation
Indices: 6846725--6846781 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
6846715 TTAAATTTCA
6846725 TTTTTTTAAGAAAATTTTAAAATTTTTTAT
1 TTTTTTTAAGAAAATTTTAAAATTTTTTAT
6846755 TTTTTTTAA-AATAATTTTAAAATTTTT
1 TTTTTTTAAGAA-AATTTTAAAATTTTT
6846782 AATATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTTTAAGAAAATTTTAAAATTTTTTAT
Found at i:6849211 original size:24 final size:23
Alignment explanation
Indices: 6849115--6849203 Score: 117
Period size: 23 Copynumber: 3.8 Consensus size: 23
6849105 ACATTATTTG
*
6849115 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTACTTA
** *
6849138 ATTAAAAACCCTAA-TTTAATTA
1 ATTAAAAACCCTAACCCTACTTA
6849160 TATTAAAAACCCTAAACCCTACTTA
1 -ATTAAAAACCCT-AACCCTACTTA
6849185 ATTAAAAACCCTAACCCTA
1 ATTAAAAACCCTAACCCTA
6849204 ACCTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 5 0.09
23 32 0.57
24 14 0.25
25 5 0.09
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTACTTA
Found at i:6849233 original size:28 final size:28
Alignment explanation
Indices: 6849147--6849485 Score: 311
Period size: 28 Copynumber: 12.5 Consensus size: 28
6849137 AATTAAAAAC
*
6849147 CCTAATTTAATTATATTAAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
6849176 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAATTTAATTAAATTAA---AAACCCTAA
*
6849205 CCTAATTTAATTAAATTAAAAACCTTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
6849233 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
6849261 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
6849289 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
6849317 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
6849345 CC-----TACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
6849368 CCTTATTTTAATTAAATTAAAAACCCTAA
1 CC-TAATTTAATTAAATTAAAAACCCTAA
* * *
6849397 CC----CTACTT-AATTAAAAACCATAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
6849420 --T--TTAATT-AAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
6849443 CCTTATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
6849471 CCCT-ATTTAATTAAA
1 -CCTAATTTAATTAAA
6849486 AACCCTAATT
Statistics
Matches: 262, Mismatches: 26, Indels: 44
0.79 0.08 0.13
Matches are distributed among these distances:
23 53 0.20
24 4 0.02
25 1 0.00
27 6 0.02
28 141 0.54
29 46 0.18
30 9 0.03
31 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (28 bp):
CCTAATTTAATTAAATTAAAAACCCTAA
Found at i:6849366 original size:18 final size:20
Alignment explanation
Indices: 6849321--6849363 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
6849311 CCCTAACCTA
6849321 ACCTACTTAAATTAAAAACCC
1 ACCTACTTAAATTAAAAA-CC
6849342 TAACCTACTTAAATTAAAAACC
1 --ACCTACTTAAATTAAAAACC
6849364 CTAACCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
ACCTACTTAAATTAAAAACC
Found at i:6854885 original size:13 final size:13
Alignment explanation
Indices: 6854867--6854892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6854857 AGCCCATTAG
6854867 TGTTTTTGTTTTT
1 TGTTTTTGTTTTT
6854880 TGTTTTTGTTTTT
1 TGTTTTTGTTTTT
6854893 CTATGTTATA
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:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TGTTTTTGTTTTT
Found at i:6855000 original size:30 final size:30
Alignment explanation
Indices: 6854931--6855043 Score: 167
Period size: 30 Copynumber: 3.8 Consensus size: 30
6854921 GGAAAAAATA
*
6854931 CAACTTTTTACTATTTACATTTTGACCGC-
1 CAACTTTTTACTATTTACATTTTGACCCCT
6854960 CAACTTTTTACTATTTAC-TTTTGACCCCT
1 CAACTTTTTACTATTTACATTTTGACCCCT
*
6854989 CAACTTTTTTACTATTTATATTTTGACCCCT
1 CAAC-TTTTTACTATTTACATTTTGACCCCT
* *
6855020 TAACTTTTCACTATTTACATTTTG
1 CAACTTTTTACTATTTACATTTTG
6855044 GCCTCAGAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.12
29 22 0.29
30 31 0.41
31 14 0.18
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (30 bp):
CAACTTTTTACTATTTACATTTTGACCCCT
Found at i:6855002 original size:59 final size:59
Alignment explanation
Indices: 6854931--6855043 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
6854921 GGAAAAAATA
*
6854931 CAACTTTTTACTATTTACATTTTGACCGCC-AACTTTTTACTATTTAC-TTTTGACCCCT
1 CAACTTTTTACTATTTACATTTTGACC-CCTAACTTTTCACTATTTACATTTTGACCCCT
*
6854989 CAACTTTTTTACTATTTATATTTTGACCCCTTAACTTTTCACTATTTACATTTTG
1 CAAC-TTTTTACTATTTACATTTTGACCCC-TAACTTTTCACTATTTACATTTTG
6855044 GCCTCAGAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
58 6 0.12
59 22 0.45
60 16 0.33
61 5 0.10
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (59 bp):
CAACTTTTTACTATTTACATTTTGACCCCTAACTTTTCACTATTTACATTTTGACCCCT
Found at i:6855408 original size:33 final size:33
Alignment explanation
Indices: 6855368--6855471 Score: 111
Period size: 33 Copynumber: 3.1 Consensus size: 33
6855358 CCTTGGCATC
* *
6855368 CCCACCATCAGACTCTCGACCCTCTCTCTCGCA
1 CCCACCATCAGACTCTTGGCCCTCTCTCTCGCA
* *
6855401 CCCACCATCCA-ACTCTTGGCCCTTTCCCTCGCA
1 CCCACCAT-CAGACTCTTGGCCCTCTCTCTCGCA
* * *
6855434 CCCCCACCATCTGACTCTTGGTCATCTCTCTCGCA
1 --CCCACCATCAGACTCTTGGCCCTCTCTCTCGCA
6855469 CCC
1 CCC
6855472 CTCGTCATCA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
33 29 0.50
34 3 0.05
35 26 0.45
ACGTcount: A:0.15, C:0.51, G:0.10, T:0.24
Consensus pattern (33 bp):
CCCACCATCAGACTCTTGGCCCTCTCTCTCGCA
Found at i:6855423 original size:68 final size:68
Alignment explanation
Indices: 6855338--6855471 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
6855328 GCACCCTCAT
* * * * *
6855338 CATCCGACTCTCGGCCCTTTCCTTGGCATCCCCACCATCAGACTCTCGACCCTCTCTCTCGCACC
1 CATCCAACTCTCGGCCCTTTCCCTCGCACCCCCACCATCAGACTCTCGACCATCTCTCTCGCACC
6855403 CAC
66 CAC
* * * **
6855406 CATCCAACTCTTGGCCCTTTCCCTCGCACCCCCACCATCTGACTCTTGGTCATCTCTCTCGCACC
1 CATCCAACTCTCGGCCCTTTCCCTCGCACCCCCACCATCAGACTCTCGACCATCTCTCTCGCACC
6855471 C
66 C
6855472 CTCGTCATCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.14, C:0.49, G:0.11, T:0.25
Consensus pattern (68 bp):
CATCCAACTCTCGGCCCTTTCCCTCGCACCCCCACCATCAGACTCTCGACCATCTCTCTCGCACC
CAC
Found at i:6855452 original size:35 final size:35
Alignment explanation
Indices: 6855316--6855472 Score: 129
Period size: 35 Copynumber: 4.5 Consensus size: 35
6855306 AATCGCCACA
* * * *
6855316 GCCCTCTCCTTGGCACCCTCATCATCCGACTCTCG
1 GCCCTCTCCCTCGCACCCCCACCATCCGACTCTCG
* * * * *
6855351 GCCCTTTCCTTGGCATCCCCACCATCAGACTCTCG
1 GCCCTCTCCCTCGCACCCCCACCATCCGACTCTCG
* * * *
6855386 ACCCTCTCTCTCGCA--CCCACCATCCAACTCTTG
1 GCCCTCTCCCTCGCACCCCCACCATCCGACTCTCG
* * *
6855419 GCCCTTTCCCTCGCACCCCCACCATCTGACTCTTG
1 GCCCTCTCCCTCGCACCCCCACCATCCGACTCTCG
* * *
6855454 GTCATCTCTCTCGCACCCC
1 GCCCTCTCCCTCGCACCCC
6855473 TCGTCATCAC
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
33 27 0.28
35 71 0.72
ACGTcount: A:0.13, C:0.50, G:0.11, T:0.25
Consensus pattern (35 bp):
GCCCTCTCCCTCGCACCCCCACCATCCGACTCTCG
Found at i:6855843 original size:22 final size:22
Alignment explanation
Indices: 6855810--6855855 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6855800 CGGCCCAACA
*
6855810 CAGCAGCCCAATGCCAGT-GCC
1 CAGCAGCCCAATACCAGTAGCC
6855831 CAGCAGACCCAATACCAGTAGCC
1 CAGCAG-CCCAATACCAGTAGCC
6855854 CA
1 CA
6855856 ACAGGCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.20, T:0.09
Consensus pattern (22 bp):
CAGCAGCCCAATACCAGTAGCC
Found at i:6855927 original size:11 final size:11
Alignment explanation
Indices: 6855907--6855947 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6855897 AAATAAAAAG
6855907 AAAA-AAAGAA
1 AAAAGAAAGAA
*
6855917 AAAAGAGAGAA
1 AAAAGAAAGAA
6855928 AAAA-AAAGGAA
1 AAAAGAAA-GAA
6855939 AAAAGAAAG
1 AAAAGAAAG
6855948 GGCCCGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.23
11 17 0.65
12 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:6863846 original size:18 final size:18
Alignment explanation
Indices: 6863823--6863858 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6863813 CGGCAAGCTG
6863823 TCCAAACCTTTTTTGGAA
1 TCCAAACCTTTTTTGGAA
6863841 TCCAAACCTTTTTTGGAA
1 TCCAAACCTTTTTTGGAA
6863859 ATTAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TCCAAACCTTTTTTGGAA
Found at i:6868201 original size:21 final size:20
Alignment explanation
Indices: 6868177--6868221 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6868167 TCCATGGACC
6868177 AAAATGG-AAATAAAATAAAAT
1 AAAATGGTAAA-AAAA-AAAAT
*
6868198 AAAATGGTAAAATAAAAAAT
1 AAAATGGTAAAAAAAAAAAT
6868218 AAAA
1 AAAA
6868222 ACTAAAGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAATGGTAAAAAAAAAAAT
Found at i:6871289 original size:47 final size:48
Alignment explanation
Indices: 6871238--6871335 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 48
6871228 AAATTTTAAA
* *
6871238 CCCTAAATCTTAGTT-AAAAACCTGTTCATCT-CCTTTTTTTTAGTTTT
1 CCCTAAATCTTAGTTAAAAAATC-GTTCATCTCCCCTTTTTTTAGTTTT
6871285 CCCTAAATCTTAGTTAAAAAATCGTTCATCTCCCCCCTTTTTTTAGTTTT
1 CCCTAAATCTTAGTTAAAAAATCGTTCATCT--CCCCTTTTTTTAGTTTT
6871335 C
1 C
6871336 TTTTTTAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
47 23 0.51
48 6 0.13
50 16 0.36
ACGTcount: A:0.23, C:0.24, G:0.06, T:0.46
Consensus pattern (48 bp):
CCCTAAATCTTAGTTAAAAAATCGTTCATCTCCCCTTTTTTTAGTTTT
Found at i:6872622 original size:31 final size:31
Alignment explanation
Indices: 6872587--6872652 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
6872577 AAAGTACCCT
6872587 CTATTCAATCCTCAAACTGATATGAGGAACC
1 CTATTCAATCCTCAAACTGATATGAGGAACC
6872618 CTATTCAATCCTCAAACTGATATGAGGAACC
1 CTATTCAATCCTCAAACTGATATGAGGAACC
6872649 CTAT
1 CTAT
6872653 ATTGATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (31 bp):
CTATTCAATCCTCAAACTGATATGAGGAACC
Found at i:6885389 original size:29 final size:29
Alignment explanation
Indices: 6885357--6885418 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
6885347 AAAATCCCTT
6885357 TTTTAAAAAAATTTACCGAAATGGGCCAC
1 TTTTAAAAAAATTTACCGAAATGGGCCAC
** ** * *
6885386 TTTTTTAATTATTTACCGGAATGGGCCAT
1 TTTTAAAAAAATTTACCGAAATGGGCCAC
6885415 TTTT
1 TTTT
6885419 CGCGAAATCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (29 bp):
TTTTAAAAAAATTTACCGAAATGGGCCAC
Found at i:6885936 original size:125 final size:126
Alignment explanation
Indices: 6885696--6885967 Score: 439
Period size: 125 Copynumber: 2.2 Consensus size: 126
6885686 TTATTTGGAG
6885696 TTGACGTTTT-TG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTG
1 TTGACGTTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTG
* *
6885759 TGCAATCGTGCCCTCGTGGATGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTT
65 TGAAATCGTGCCCTCGTGGATGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
6885820 TTGACGTTTTCTGAGCAAATAGTATAAAATCGC-TCATACCAGGATGCTAT-ATGAGAAGAAATT
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTC-TACCAGGATGCTATCA-GAGAAGAAATT
* *
6885883 GTGAAATCGTGCCTTCGTGGATGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 GTGAAATCGTGCCCTCGTGGATGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
6885946 TTGACG-TTTCTGAGCAAATAGT
1 TTGACGTTTTCTGAGCAAATAGT
6885968 GTCAAATTGC
Statistics
Matches: 139, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
124 13 0.09
125 115 0.83
126 11 0.08
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (126 bp):
TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
GAAATCGTGCCCTCGTGGATGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:6889217 original size:29 final size:29
Alignment explanation
Indices: 6889175--6889744 Score: 715
Period size: 29 Copynumber: 19.6 Consensus size: 29
6889165 TAATTAAAAT
**
6889175 GGGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
6889204 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
6889233 GGGTTTTTAATTAAAATGGGTTAGGGTTAGGGTTTA
1 GGGTTTTTAATT-AAA----TTA-AATTAGGG-TTA
6889269 GGG-TTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
6889297 GGGTTTTTAATCAAATTATATTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
**
6889327 GGG-TTTTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
* *
6889356 GAG-TTTTAATT-AATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
6889383 GGATTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
6889412 GGGTTTTTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
6889442 GGG-TTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
6889470 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* **
6889499 GGGTTTTTAATCAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
6889529 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
6889557 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
6889586 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
6889615 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
6889644 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
6889673 GTGTTTTTAATTAAATTAAATTA-GGTTT
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
6889701 GGGTTTTTAATTAAATTAAATTA-GGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
6889729 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
6889745 AATATCAGAA
Statistics
Matches: 477, Mismatches: 49, Indels: 31
0.86 0.09 0.06
Matches are distributed among these distances:
27 4 0.01
28 81 0.17
29 342 0.72
30 24 0.05
34 4 0.01
35 16 0.03
36 6 0.01
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:6889337 original size:24 final size:22
Alignment explanation
Indices: 6889310--6889354 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6889300 TTTTTAATCA
*
6889310 AATTATATTAGGGTTTAGGGTTTT
1 AATTAAATTA-GG-TTAGGGTTTT
6889334 AATTAAATTAGGTTAGGGTTT
1 AATTAAATTAGGTTAGGGTTT
6889355 AGAGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (22 bp):
AATTAAATTAGGTTAGGGTTTT
Found at i:6890918 original size:7 final size:7
Alignment explanation
Indices: 6890908--6890946 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
6890898 TTATATACAT
6890908 AATACTA
1 AATACTA
6890915 AATACTA
1 AATACTA
6890922 AATACTA
1 AATACTA
6890929 AATACTA
1 AATACTA
6890936 AATACTA
1 AATACTA
6890943 AATA
1 AATA
6890947 TCAATCCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6891921 original size:14 final size:15
Alignment explanation
Indices: 6891904--6891937 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6891894 AATAATTATC
6891904 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
6891918 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
6891933 TAAAA
1 TAAAA
6891938 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:6892069 original size:29 final size:30
Alignment explanation
Indices: 6892035--6892093 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6892025 TTGAAAATAT
*
6892035 TAAAATTA-TTAAAATTAT-TTTAAAAAAA
1 TAAAAATATTTAAAATTATCTTTAAAAAAA
*
6892063 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAATATTTAAAATTATCTTTAAAAAAA
6892093 T
1 T
6892094 GAAATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 7 0.26
29 9 0.33
30 11 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAAATATTTAAAATTATCTTTAAAAAAA
Found at i:6892177 original size:22 final size:23
Alignment explanation
Indices: 6892125--6892177 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
6892115 TTAAATATGG
*
6892125 ATTTGAGA-GATTTTTTGAAGGA
1 ATTTGAGAGGATTTTTGGAAGGA
* *
6892147 AATTAAGAGGA-TTTTGGAAGGA
1 ATTTGAGAGGATTTTTGGAAGGA
6892169 ATTTGAGAG
1 ATTTGAGAG
6892178 TTTAAGAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (23 bp):
ATTTGAGAGGATTTTTGGAAGGA
Found at i:6892185 original size:30 final size:30
Alignment explanation
Indices: 6892149--6892207 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6892139 TTGAAGGAAA
* * *
6892149 TTAAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTAAGAGAATTTCGGAAGGAAATTGAGAGT
6892179 TTAAGAGAATTTCGGAAGGAAATTGAGAG
1 TTAAGAGAATTTCGGAAGGAAATTGAGAG
6892208 AATTTTGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.29
Consensus pattern (30 bp):
TTAAGAGAATTTCGGAAGGAAATTGAGAGT
Found at i:6892209 original size:22 final size:22
Alignment explanation
Indices: 6892182--6892232 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
6892172 TGAGAGTTTA
*
6892182 AGAGAATTTCGGAAGGAAATTG
1 AGAGAATTTCGGAAAGAAATTG
*
6892204 AGAGAATTTTGGAAAGAAATTG
1 AGAGAATTTCGGAAAGAAATTG
6892226 AGAGAAT
1 AGAGAAT
6892233 ATTTGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (22 bp):
AGAGAATTTCGGAAAGAAATTG
Found at i:6895493 original size:44 final size:44
Alignment explanation
Indices: 6895349--6895691 Score: 370
Period size: 44 Copynumber: 7.8 Consensus size: 44
6895339 ATAAGACTTG
* * * * * *
6895349 TATCTTCGATCTACTTCACTACCGATACAGGAAGATAAGATCTGT
1 TATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGC
* ** * *
6895394 TATCTTCGATCTACTTCA--CCACCAGTATGGAAAGATAAGATCTGC
1 TATCTTTGATCTACTTCATGCCAATA-CAT-G-AAGACAAGATCTGC
* * *
6895439 TATCTCTGATCTACTTCATACCAATACATGAAGACAATATCTGC
1 TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
*
6895483 TATCTTTGATCTACTTCATGCCAATACATGAAGATAAGATCTGC
1 TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
* * *
6895527 CATCTTCGATCTACTTCATGCTAATACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
* * *
6895571 CATCTTTGATCTAC-TCTATGTCAATACATGAAGACAAGATATG-
1 TATCTTTGATCTACTTC-ATGCCAATACATGAAGACAAGATCTGC
* *
6895614 TCATCTTTGATCTTCTTTATGCCAATACATGAAGACAAGATCTGC
1 T-ATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
* * *
6895659 CATCTTTGATCTTCTTTATGCCAATACATGAAG
1 TATCTTTGATCTACTTCATGCCAATACATGAAG
6895692 NNNNNNNNNN
Statistics
Matches: 258, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 197 0.76
45 49 0.19
46 2 0.01
47 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (44 bp):
TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
Found at i:6895855 original size:44 final size:44
Alignment explanation
Indices: 6895792--6896084 Score: 424
Period size: 44 Copynumber: 6.7 Consensus size: 44
6895782 NNNNNNNNNN
*
6895792 ACTTCACGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* **
6895836 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* *
6895880 ACTTCATGCCAATACATGAAGACAAGATCTGTCATCTTTGATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* * *
6895924 ACTCCATGTCAATACATGAAGACAAGATCTGTCATCTTCGATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* *
6895968 TCTTCATGCCAATACATGAAGACAAGATATGCCATCTTCGATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* * * **
6896012 ACTTCACGCCAATACATGAAGACAAGATCTACTATCTTTAATCT
1 ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
* *
6896056 ACTTCATGCAAATACATGAAGACAGGATC
1 ACTTCATGCCAATACATGAAGACAAGATC
6896085 GGTTGCTTTT
Statistics
Matches: 224, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 224 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (44 bp):
ACTTCATGCCAATACATGAAGACAAGATCTGCCATCTTCGATCT
Found at i:6907999 original size:3 final size:3
Alignment explanation
Indices: 6907991--6908031 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
6907981 TGAATATAGA
*
6907991 AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6908032 GGTATAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:6908006 original size:9 final size:9
Alignment explanation
Indices: 6907992--6908053 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
6907982 GAATATAGAA
6907992 ATAATAATT
1 ATAATAATT
*
6908001 ATAATAATA
1 ATAATAATT
*
6908010 ATAATAATA
1 ATAATAATT
6908019 ATAATAA-T
1 ATAATAATT
**
6908027 ATAAT-GGT
1 ATAATAATT
6908035 ATAACATAATT
1 AT-A-ATAATT
6908046 ATAATAAT
1 ATAATAAT
6908054 AACATTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 8 0.18
9 30 0.68
10 3 0.07
11 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATAATT
Found at i:6909691 original size:41 final size:41
Alignment explanation
Indices: 6909634--6909786 Score: 143
Period size: 41 Copynumber: 3.8 Consensus size: 41
6909624 GAGTTTTCGA
* * *
6909634 GGCTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGAAT-GG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG-ATCAG
* * * *
6909675 GGCTTTAGCGTCGTTTTTGGAAAAGCGCAGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATCAG
* * *
6909716 GGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA-
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATC-AG
**
6909757 -TTTTTAGCGGCGTTTTT-AAAAATGCGCCGC
1 GGCTTTAGCGGCGTTTTTGAAAAA-GCGCCGC
6909787 AAAAAAATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 24 0.25
41 66 0.69
42 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATCAG
Found at i:6911682 original size:19 final size:19
Alignment explanation
Indices: 6911655--6911699 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6911645 TCTCATTCTC
6911655 CCCCAAATCCCTAA-AATTT
1 CCCCAAATCCCTAACAA-TT
*
6911674 CCCCTAATCCCTAACAATT
1 CCCCAAATCCCTAACAATT
6911693 CCCCAAA
1 CCCCAAA
6911700 CATGGCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (19 bp):
CCCCAAATCCCTAACAATT
Found at i:6912155 original size:43 final size:42
Alignment explanation
Indices: 6912029--6912165 Score: 177
Period size: 41 Copynumber: 3.2 Consensus size: 42
6912019 ACGTCGCAAA
* * *
6912029 CTTTTGCGGCGCTTACAGAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGC-TA-AAAAAAAAACGCCACTAAAGATCATGTT
* * *
6912073 CTTTAGCGGCGCT-TAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAAAAAAAAACGCCACTAAAGATCATGTT
*
6912114 CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
1 CTTTAGCGGCGCTAAAAAAA-AAACGCCACTAAAGATCATGTT
6912157 CTTTAGCGG
1 CTTTAGCGG
6912166 TGCTTGTTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
41 37 0.45
42 4 0.05
43 30 0.37
44 11 0.13
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTAAAAAAAAAACGCCACTAAAGATCATGTT
Found at i:6918365 original size:19 final size:19
Alignment explanation
Indices: 6918341--6918391 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
6918331 ACGTTATGTC
6918341 TTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
6918360 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATGTATTA
6918379 TTATGTAAGTTAT
1 TTATGTAAGTTAT
6918392 TATGTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAAGTTATGTATTA
Found at i:6918393 original size:12 final size:12
Alignment explanation
Indices: 6918376--6918537 Score: 79
Period size: 12 Copynumber: 13.8 Consensus size: 12
6918366 AGAGTATGTA
6918376 TTATTATGTAAG
1 TTATTATGTAAG
6918388 TTATTATGTAAG
1 TTATTATGTAAG
** *
6918400 -TAGGGATGTAGG
1 TTA-TTATGTAAG
*
6918412 ATATTATGTAAG
1 TTATTATGTAAG
6918424 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
6918433 TTTTTGTTTTTG
1 TTATTATGTAAG
*
6918445 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
6918458 TTATTTAATTTATGG
1 TTA-TT-ATGTA-AG
* *
6918473 GTGTTATGT-A-
1 TTATTATGTAAG
6918483 TTATTATGT-A-
1 TTATTATGTAAG
6918493 TTATTATGTAAG
1 TTATTATGTAAG
*
6918505 TTATTATGTAGG
1 TTATTATGTAAG
6918517 TTATTATGTAAG
1 TTATTATGTAAG
*
6918529 TCATTATGT
1 TTATTATGT
6918538 TGGTTATGTA
Statistics
Matches: 111, Mismatches: 28, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
9 9 0.08
10 17 0.15
11 3 0.03
12 62 0.56
13 13 0.12
14 6 0.05
15 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.20, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:6918522 original size:24 final size:24
Alignment explanation
Indices: 6918476--6918544 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
6918466 TTTATGGGTG
6918476 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
6918496 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
6918520 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
6918544 T
1 T
6918545 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:6918546 original size:21 final size:22
Alignment explanation
Indices: 6918496--6918550 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
6918486 TTATGTATTA
*
6918496 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
6918519 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
6918541 TTATGTAAGT
1 TTATGTAAGT
6918551 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:6918721 original size:19 final size:18
Alignment explanation
Indices: 6918676--6918730 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
6918666 TATCGATTTT
* *
6918676 TAAATATATATATAAATTT
1 TAAATATATATATATA-TA
6918695 TAAATATATATATATATA
1 TAAATATATATATATATA
*
6918713 TAAACTATATATAAATAT
1 TAAA-TATATATATATAT
6918731 TAATAAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATATATATATATA
Found at i:6918736 original size:21 final size:19
Alignment explanation
Indices: 6918681--6918732 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
6918671 ATTTTTAAAT
6918681 ATATATATAAAT-TT-TAA
1 ATATATATAAATATTATAA
*
6918698 ATATATATATATA-TATAA
1 ATATATATAAATATTATAA
6918716 ACTATATATAAATATTA
1 A-TATATATAAATATTA
6918733 ATAAGTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 11 0.38
20 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATATAAATATTATAA
Found at i:6918748 original size:9 final size:9
Alignment explanation
Indices: 6918734--6918814 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
6918724 TAAATATTAA
6918734 TAAGTTATG
1 TAAGTTATG
6918743 TAAGTTATG
1 TAAGTTATG
* *
6918752 TATTA-TAAATT
1 TA--AGT-TATG
*
6918763 TAAGTTGTG
1 TAAGTTATG
6918772 TAAGTTATG
1 TAAGTTATG
6918781 -AA-TTATG
1 TAAGTTATG
*
6918788 TAAGATATG
1 TAAGTTATG
* *
6918797 TAAATTACG
1 TAAGTTATG
*
6918806 TAAGATATG
1 TAAGTTATG
6918815 AAATTTGAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.08
9 37 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:6918808 original size:18 final size:17
Alignment explanation
Indices: 6918771--6918819 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
6918761 TTTAAGTTGT
* *
6918771 GTAAGTTATG-AATTAT
1 GTAAGATATGAAATTAC
6918787 GTAAGATATGTAAATTAC
1 GTAAGATATG-AAATTAC
6918805 GTAAGATATGAAATT
1 GTAAGATATGAAATT
6918820 TGAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (17 bp):
GTAAGATATGAAATTAC
Found at i:6918914 original size:15 final size:15
Alignment explanation
Indices: 6918894--6918928 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
6918884 AAAATAAAAC
6918894 TTTAAATACAATTTA
1 TTTAAATACAATTTA
6918909 TTTAAATACAATTTA
1 TTTAAATACAATTTA
6918924 TTTAA
1 TTTAA
6918929 TTAGGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAAATACAATTTA
Found at i:6920016 original size:23 final size:23
Alignment explanation
Indices: 6919990--6920048 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
6919980 CCAGGCTCTG
6919990 TTGCATACTTTAAGTACATGTTT
1 TTGCATACTTTAAGTACATGTTT
6920013 TTGCATACTTTAAGTACATGTTT
1 TTGCATACTTTAAGTACATGTTT
6920036 TTGCATACTTTAA
1 TTGCATACTTTAA
6920049 TGTATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (23 bp):
TTGCATACTTTAAGTACATGTTT
Found at i:6920170 original size:37 final size:37
Alignment explanation
Indices: 6920120--6920204 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
6920110 AGATTTCTAC
*
6920120 AAAACAGTAACAGACCAGTATGCCTAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
6920157 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
6920194 AAAACAGTAAC
1 AAAACAGTAAC
6920205 CCATCGACAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.52, C:0.19, G:0.18, T:0.12
Consensus pattern (37 bp):
AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
Found at i:6920747 original size:45 final size:45
Alignment explanation
Indices: 6920683--6920773 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
6920673 TGGAAGGAGG
* *
6920683 AAGGAGGCGATTTAGGGATTTCGGATTTCAAGAAATTAGGCAAGA
1 AAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGA
* *
6920728 AAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAAGA
1 AAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGA
6920773 A
1 A
6920774 GGACGCAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.09, G:0.32, T:0.23
Consensus pattern (45 bp):
AAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGA
Found at i:6922014 original size:21 final size:20
Alignment explanation
Indices: 6921963--6922016 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
6921953 TTTAAGCAAT
6921963 CTAAACCCCAAACCCTAAAAC
1 CTAAA-CCCAAACCCTAAAAC
* * *
6921984 TTACACCCCAAACTCCTAAACC
1 CTA-AACCCAAAC-CCTAAAAC
6922006 CTAAACCCAAA
1 CTAAACCCAAA
6922017 ACACCATAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.44, C:0.43, G:0.00, T:0.13
Consensus pattern (20 bp):
CTAAACCCAAACCCTAAAAC
Found at i:6922759 original size:115 final size:115
Alignment explanation
Indices: 6922385--6922743 Score: 592
Period size: 115 Copynumber: 3.1 Consensus size: 115
6922375 GCTAACAAAT
6922385 AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
1 AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
*
6922450 AAGATTTAAATGCAGCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGA
66 AAGATTTAAACGCAGCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGA
* * *
6922500 AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTAAATGCCACTAATTCCAGTATACGTC
1 AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
* * * * *
6922565 AAGATCTAAACGCAACGTTTAGGTTAATATATCTTGCGGCGCTTCTTAGC
66 AAGATTTAAACGCAGCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGA
* *
6922615 AAGTGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAAATCCAGTATACATC
1 AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
* *
6922680 AAGATTTAAACGCAGCGTTTCCGTTAATATATATTGCGGCGCTTCTAAGA
66 AAGATTTAAACGCAGCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGA
*
6922730 AAGCGCCACTAATA
1 AAGCGCCGCTAATA
6922744 GTATACTTTT
Statistics
Matches: 221, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 221 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (115 bp):
AAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
AAGATTTAAACGCAGCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGA
Found at i:6922949 original size:228 final size:225
Alignment explanation
Indices: 6922709--6923153 Score: 490
Period size: 229 Copynumber: 2.0 Consensus size: 225
6922699 TCCGTTAATA
* *
6922709 TATATTGCGGCGCTTCTAAGAAAGCGCCACTAATAGTA-TACTTTTGCGGC-GTTTCCAGAAAGC
1 TATATAGCGGCGCTTCTAAGAAAGCGCCACTAATAGTACT-CTTTAGCGGCAGTTTCCAGAAAGC
* * *
6922772 GCCACTACAT-CTAATATACCTCAATACCAAGCTCTGCGTTTTGG-TGTGCATATCTTGCGGCGC
65 GCCACTA-ATCCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTGT-CATATCTTGCGGCGC
* *
6922835 TTAACTAG-AAGCGCCGCTAATAC-TGATATTTAGC-GGCGTTGTATTATAAGCGCCAGTAATTA
128 TT--CTAGTAACCGCCGCTAATACTTG-T-TTTA-CTGGCGTT-T-TTATAAGCGCCACTAATTA
* *
6922897 TATTATACATCAAGACCAAAACGCTGAGTTTTGATTAAGG
186 TAATATACATCAAGACCAAAACGATGAGTTTTGATTAAGG
** *** * * * * * *
6922937 TATATAGCGGCGCTTCTGCGTGCGCGCCGCTGATAGTACTCTTTAGCGGCATTTTTCTGTAAGCG
1 TATATAGCGGCGCTTCTAAGAAAGCGCCACTAATAGTACTCTTTAGCGGCAGTTTCCAGAAAGCG
* * *
6923002 CCACTAATCCTAATATACATCTAGACCAAACTCTGCGTTTTGGTTGTCATATTTTGCGGCGCTTT
66 CCACTAATCCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTGTCATATCTTGCGGCGCTTC
* * *
6923067 TAGTAACCGCCGCTAATACTTGTTTTACTGGCGTTTTTTTTAGCGCCACTAATTCTAATATACAT
131 TAGTAACCGCCGCTAATACTTGTTTTACTGGCGTTTTTATAAGCGCCACTAATTATAATATACAT
* * *
6923132 CGATACCAAAACGATGCGTTTT
196 CAAGACCAAAACGATGAGTTTT
6923154 CGTTAAGATT
Statistics
Matches: 181, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
225 42 0.23
226 2 0.01
227 13 0.07
228 56 0.31
229 65 0.36
230 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (225 bp):
TATATAGCGGCGCTTCTAAGAAAGCGCCACTAATAGTACTCTTTAGCGGCAGTTTCCAGAAAGCG
CCACTAATCCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTGTCATATCTTGCGGCGCTTC
TAGTAACCGCCGCTAATACTTGTTTTACTGGCGTTTTTATAAGCGCCACTAATTATAATATACAT
CAAGACCAAAACGATGAGTTTTGATTAAGG
Found at i:6924076 original size:22 final size:22
Alignment explanation
Indices: 6924032--6924077 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6924022 ATCGGGTAAT
* *
6924032 TATATTTTTGAGTTTTTTTTTA
1 TATATTTTTGAGTTTCTTATTA
6924054 TATATTTATTGA-TTTCTTATTA
1 TATATTT-TTGAGTTTCTTATTA
6924076 TA
1 TA
6924078 ACATTCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TATATTTTTGAGTTTCTTATTA
Found at i:6925160 original size:18 final size:17
Alignment explanation
Indices: 6925121--6925162 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6925111 ATTAAAGTTC
6925121 AAATTTCATAACTTACA
1 AAATTTCATAACTTACA
* *
6925138 TAATTTACATAACTTATA
1 AAATTT-CATAACTTACA
6925156 AAATTTC
1 AAATTTC
6925163 TTATTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTCATAACTTACA
Found at i:6925313 original size:54 final size:54
Alignment explanation
Indices: 6925236--6925351 Score: 223
Period size: 54 Copynumber: 2.1 Consensus size: 54
6925226 TTGTTTTGTT
6925236 TTTAATTTACCTAATTAAATAAATTGTATTCAAAGTTATATTTTAAATATTTTA
1 TTTAATTTACCTAATTAAATAAATTGTATTCAAAGTTATATTTTAAATATTTTA
*
6925290 TTTAATTTACTTAATTAAATAAATTGTATTCAAAGTTATATTTTAAATATTTTA
1 TTTAATTTACCTAATTAAATAAATTGTATTCAAAGTTATATTTTAAATATTTTA
6925344 TTTAATTT
1 TTTAATTT
6925352 GAATGACAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (54 bp):
TTTAATTTACCTAATTAAATAAATTGTATTCAAAGTTATATTTTAAATATTTTA
Found at i:6925335 original size:28 final size:28
Alignment explanation
Indices: 6925250--6925338 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
6925240 ATTTACCTAA
6925250 TTAAATAAATTGTATTCAAAGTTATATT
1 TTAAATAAATTGTATTCAAAGTTATATT
* *
6925278 TTAAAT--ATTTTATT-TAA-TT-TACTT
1 TTAAATAAATTGTATTCAAAGTTATA-TT
6925302 AATTAAATAAATTGTATTCAAAGTTATATT
1 --TTAAATAAATTGTATTCAAAGTTATATT
6925332 TTAAATA
1 TTAAATA
6925339 TTTTATTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
23 2 0.04
24 4 0.08
25 2 0.04
26 13 0.27
28 20 0.41
29 2 0.04
30 4 0.08
31 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (28 bp):
TTAAATAAATTGTATTCAAAGTTATATT
Found at i:6925432 original size:22 final size:21
Alignment explanation
Indices: 6925394--6925435 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6925384 TAATTAAATA
6925394 TTTTATTTAATTCAAAGTTAT
1 TTTTATTTAATTCAAAGTTAT
* *
6925415 TTTTAATTTATTTTAAAGTTA
1 TTTT-ATTTAATTCAAAGTTA
6925436 AAATTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTATTTAATTCAAAGTTAT
Found at i:6925479 original size:30 final size:31
Alignment explanation
Indices: 6925427--6925490 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
6925417 TTAATTTATT
*
6925427 TTAAAGTTAAAATTTACATAACTTATATAAA
1 TTAAAGTTAAAATTTACATAACTTACATAAA
* *
6925458 TTAAAGTTCAAATTT-CATAACTTGCATAAA
1 TTAAAGTTAAAATTTACATAACTTACATAAA
6925488 TTA
1 TTA
6925491 CATAACTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (31 bp):
TTAAAGTTAAAATTTACATAACTTACATAAA
Found at i:6925574 original size:30 final size:30
Alignment explanation
Indices: 6925517--6925583 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
6925507 CAAAAATTGT
* *
6925517 ATAATATTAAGATCAAATTTCAAAACTTGC
1 ATAATTTTAAGATCAAATTTCAAAACTTAC
* * **
6925547 ATAATTTTAAGATTAGATTTCTTAACTTAC
1 ATAATTTTAAGATCAAATTTCAAAACTTAC
*
6925577 GTAATTT
1 ATAATTT
6925584 ATATCATATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (30 bp):
ATAATTTTAAGATCAAATTTCAAAACTTAC
Found at i:6925622 original size:9 final size:9
Alignment explanation
Indices: 6925596--6925786 Score: 138
Period size: 9 Copynumber: 22.2 Consensus size: 9
6925586 ATCATATCAC
6925596 AACTTACAT
1 AACTTACAT
**
6925605 AACCAACAT
1 AACTTACAT
6925614 AACTTACATAAT
1 AACTTAC---AT
6925626 AACTTACAT
1 AACTTACAT
6925635 AACTTACAT
1 AACTTACAT
*
6925644 AA--TGCAT
1 AACTTACAT
*
6925651 AACCTACAT
1 AACTTACAT
* *
6925660 AAATTATAT
1 AACTTACAT
*
6925669 AAGTTACAT
1 AACTTACAT
*
6925678 AA--TACAC
1 AACTTACAT
*
6925685 AA---ACAAA
1 AACTTAC-AT
6925692 AACTTACAT
1 AACTTACAT
6925701 AACTTACAT
1 AACTTACAT
*
6925710 AA--TACTT
1 AACTTACAT
6925717 AACTTACAT
1 AACTTACAT
*
6925726 AACCTACAT
1 AACTTACAT
*
6925735 AA--GACAT
1 AACTTACAT
6925742 AACTTACAT
1 AACTTACAT
6925751 AACTTACAT
1 AACTTACAT
*
6925760 AA--TACAC
1 AACTTACAT
6925767 AACTTACAT
1 AACTTACAT
6925776 AACTTACAT
1 AACTTACAT
6925785 AA
1 AA
6925787 TACAACTACA
Statistics
Matches: 146, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.01
7 33 0.23
9 100 0.68
10 2 0.01
12 9 0.06
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (9 bp):
AACTTACAT
Found at i:6925629 original size:12 final size:12
Alignment explanation
Indices: 6925612--6925636 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6925602 CATAACCAAC
6925612 ATAACTTACATA
1 ATAACTTACATA
6925624 ATAACTTACATA
1 ATAACTTACATA
6925636 A
1 A
6925637 CTTACATAAT
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:6925746 original size:50 final size:50
Alignment explanation
Indices: 6925692--6925786 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
6925682 CACAAACAAA
**
6925692 AACTTACATAACTTACATAATACTTAACTTACATAACCTACATAAGACAT
1 AACTTACATAACTTACATAATACACAACTTACATAACCTACATAAGACAT
*
6925742 AACTTACATAACTTACATAATACACAACTTACATAACTTACATAA
1 AACTTACATAACTTACATAATACACAACTTACATAACCTACATAA
6925787 TACAACTACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.29
Consensus pattern (50 bp):
AACTTACATAACTTACATAATACACAACTTACATAACCTACATAAGACAT
Found at i:6925754 original size:34 final size:33
Alignment explanation
Indices: 6925716--6925786 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
6925706 ACATAATACT
*
6925716 TAACTTACATAACCTACATAA-GACATAACTTACA
1 TAACTTACATAA--TACACAACGACATAACTTACA
*
6925750 TAACTTACATAATACACAACTTACATAACTTACA
1 TAACTTACATAATACACAAC-GACATAACTTACA
6925784 TAA
1 TAA
6925787 TACAACTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 6 0.18
34 27 0.82
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (33 bp):
TAACTTACATAATACACAACGACATAACTTACA
Found at i:6925790 original size:16 final size:17
Alignment explanation
Indices: 6925596--6925786 Score: 121
Period size: 16 Copynumber: 11.1 Consensus size: 17
6925586 ATCATATCAC
*
6925596 AACTTACATAACCAACAT
1 AACTTACATAA-CTACAT
6925614 AACTTACATAATAACTTACAT
1 AACTTAC---ATAAC-TACAT
*
6925635 AACTTACATAA-TGCAT
1 AACTTACATAACTACAT
* * *
6925651 AACCTACATAAATTATAT
1 AACTTACAT-AACTACAT
* *
6925669 AAGTTACATAA-TACAC
1 AACTTACATAACTACAT
*
6925685 AA---ACAAAAACTTACAT
1 AACTTAC-ATAAC-TACAT
*
6925701 AACTTACATAA-TACTT
1 AACTTACATAACTACAT
6925717 AACTTACATAACCTACAT
1 AACTTACATAA-CTACAT
*
6925735 AA--GACATAACTTACAT
1 AACTTACATAAC-TACAT
*
6925751 AACTTACATAA-TACAC
1 AACTTACATAACTACAT
6925767 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAT
6925785 AA
1 AA
6925787 TACAACTACA
Statistics
Matches: 136, Mismatches: 18, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
13 2 0.01
14 3 0.02
15 1 0.01
16 66 0.49
17 4 0.03
18 42 0.31
19 2 0.01
20 1 0.01
21 15 0.11
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (17 bp):
AACTTACATAACTACAT
Found at i:6925790 original size:25 final size:25
Alignment explanation
Indices: 6925600--6925786 Score: 62
Period size: 25 Copynumber: 7.6 Consensus size: 25
6925590 TATCACAACT
**
6925600 TACATAACCAACATAACTTAC---A
1 TACATAACTTACATAACTTACATAA
6925622 TA-ATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * *
6925646 TGCATAACCTACATAAATTATATAA
1 TACATAACTTACATAACTTACATAA
* *
6925671 GTTACATAA--TACACAA---ACAAAAA
1 --TACATAACTTACATAACTTAC-ATAA
*
6925694 CTTACATAACTTACATAA--TACTTAA
1 --TACATAACTTACATAACTTACATAA
* *
6925719 CTTACATAACCTACATAA--GACATAA
1 --TACATAACTTACATAACTTACATAA
*
6925744 CTTACATAACTTACATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
6925769 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
6925787 TACAACTACA
Statistics
Matches: 135, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
21 16 0.12
22 3 0.02
23 11 0.08
24 2 0.01
25 95 0.70
26 2 0.01
27 6 0.04
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:6925836 original size:21 final size:21
Alignment explanation
Indices: 6925802--6925872 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
6925792 CTACAACTTA
*
6925802 AAGCAGATGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* *
6925823 AAGTAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGGG
***
6925844 AAGCAGAGGCTTTAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
6925865 AAGCAGAG
1 AAGCAGAG
6925873 CAAAGCAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.42, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:6926267 original size:43 final size:43
Alignment explanation
Indices: 6926219--6926515 Score: 459
Period size: 43 Copynumber: 6.8 Consensus size: 43
6926209 GTTTAAAAAA
*
6926219 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCATTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
* * *
6926262 AAGCGCCGCTAAAAGTCATGATCTATACCGACGTCTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
* * *
6926305 AAGCGCCGTTAAAAGTCATGATCTATAGTGGCGTTTGTGGGAT
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
* *
6926348 AAGCGCCACTAAAAGTCATAATCTATAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
*
6926391 AAGCGCCGCTAAAAGTCATGATCTATTATAGCGGCATTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGATC---TATAGCGGCGTTTGTGGGAG
*
6926437 AAGCGCCGCTAAAAGTTATGATCTATAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
*
6926480 AAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
6926516 ATTTCCAAAA
Statistics
Matches: 229, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 188 0.82
46 41 0.18
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
Found at i:6928984 original size:3 final size:3
Alignment explanation
Indices: 6928969--6929021 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
6928959 TTTTAGATTT
* * *
6928969 TTA TTA TTG TTA TTA TTA TTA TTA TT- TATA CTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
6929014 ATA TTA TT
1 TTA TTA TT
6929022 CTTAAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6939317 original size:11 final size:11
Alignment explanation
Indices: 6939301--6939329 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6939291 CCTTTATGTT
6939301 TATCAAACGTC
1 TATCAAACGTC
6939312 TATCAAACGTC
1 TATCAAACGTC
6939323 TATCAAA
1 TATCAAA
6939330 ACTTGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (11 bp):
TATCAAACGTC
Found at i:6939683 original size:44 final size:44
Alignment explanation
Indices: 6939616--6939711 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
6939606 AATTTACTAT
* * * *
6939616 AACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCT-TATTGAAGC
1 AACAAATCTCATCTCCCTAAAGTTACAATGGAG-TAGATTGAAGC
* * *
6939660 TACAAATCTCATCTCCTTGAAGTTACAATGGAGTAGATTGAAGC
1 AACAAATCTCATCTCCCTAAAGTTACAATGGAGTAGATTGAAGC
6939704 AACAAATC
1 AACAAATC
6939712 CTATACCTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (44 bp):
AACAAATCTCATCTCCCTAAAGTTACAATGGAGTAGATTGAAGC
Found at i:6940113 original size:3 final size:3
Alignment explanation
Indices: 6940105--6940142 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6940095 AAACAAAACA
6940105 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6940143 CAACAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6944972 original size:7 final size:6
Alignment explanation
Indices: 6944939--6944971 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
6944929 TTTTGGGTTT
6944939 TTAGGG TTAGGG TTAGGG TTAGGG TTTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
6944972 TTAGGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:6945456 original size:125 final size:125
Alignment explanation
Indices: 6945157--6945570 Score: 659
Period size: 125 Copynumber: 3.3 Consensus size: 125
6945147 ATTTATTAAG
* ** *
6945157 GAAATCGCTCCCACGTGGACACGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
6945222 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATACTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAAAGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
6945282 GAAATCGCTTCCACGTGGACGTACTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
6945347 GTTTCTGAGCAAATAGTATAAAAAAATGTTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAAA-GCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
6945408 GAAATCGCTCCCACGTGGATGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
6945473 ATTTCTAAGCAAATAGTATAAAAAACA-CTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAA-AGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
6945533 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
6945571 CATGTTTGGG
Statistics
Matches: 265, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 151 0.57
126 113 0.43
127 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAAAGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:6946052 original size:49 final size:49
Alignment explanation
Indices: 6945934--6946054 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
6945924 TAAGAATATT
* * *
6945934 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTTAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
6945983 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
6946032 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
6946055 TAATATAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:6946501 original size:18 final size:18
Alignment explanation
Indices: 6946475--6946518 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6946465 GACTAGGAAA
* *
6946475 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
*
6946493 AGGATACATAAAATGGTT
1 AGGATACATAAAAGGGTT
6946511 AGGATACA
1 AGGATACA
6946519 CACCTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.23
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:6948328 original size:28 final size:27
Alignment explanation
Indices: 6948290--6948347 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
6948280 AAAAGAATTC
6948290 AAAAAAAT-AAAATTTAAAACTATTTT
1 AAAAAAATAAAAATTTAAAACTATTTT
* * *
6948316 AAAAATAATTAAAAATTTGAAGCTCTTTT
1 AAAAA-AA-TAAAAATTTAAAACTATTTT
6948345 AAA
1 AAA
6948348 TGGGAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 2 0.08
28 1 0.04
29 18 0.69
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAAAATAAAAATTTAAAACTATTTT
Found at i:6948393 original size:10 final size:10
Alignment explanation
Indices: 6948355--6948397 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
6948345 AAATGGGAAT
*
6948355 TTGAGAGGAAT
1 TTGAGA-GAAA
6948366 TTGAGAGAATA
1 TTGAGAGAA-A
6948377 TTAGAGAGAAA
1 TT-GAGAGAAA
6948388 TTGAGAGAAA
1 TTGAGAGAAA
6948398 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:6949521 original size:259 final size:257
Alignment explanation
Indices: 6949024--6949516 Score: 652
Period size: 259 Copynumber: 1.9 Consensus size: 257
6949014 TATCAAATTG
* * *
6949024 GAGCGTTTTAGGTGCTCTTTGTGTTCTTATAAATTGATTTCCAACAAACAAACTGAAAACAACTT
1 GAGCGTTTTAGGGGCTCTTTGTGTTCTAATAAATTGATTTCCAACAAACAAACTCAAAACAACTT
** * * *
6949089 TTTTTTTACCCAAAAAGTTTTTTGAAGAAAATATTTTTTAGTCGGTAAACGTTTTTCAAATGATT
66 TTTTTTTACCCAAAAAGTTTTTAAAAAAAAATATTTTTTAGTCGGT-AAC-TTTTTCAAATAATC
* * * ** *
6949154 TAAAATTTTATATATTGCTTCTTGGCACTCTCTTAGACTCTAGAAAAATATTTCTAAAAAAAAGT
129 TAAAATTTTACATATTGATTCTTGACACTCTCTTAGAAACTAGAAAAATATTTCCAAAAAAAAGT
* **
6949219 GATCGAAAAAGTGCAAAAACAGAAAAATTCAAAAAAAAAAAGAATTAGATTTAATGTAAGATTT
194 GATCGAAAAAGTGCAAAAACAAAAAAATAAAAAAAAAAAAAGAATTAGATTTAATGTAAGATTT
* ** * *
6949283 GAGCGTTTTAGGGGTTCTTTGTGTTCTAATCTATTGATTTCCAGCAAACAACCTCAAAACAAC-T
1 GAGCGTTTTAGGGGCTCTTTGTGTTCTAATAAATTGATTTCCAACAAACAAACTCAAAACAACTT
* *
6949347 TTTTTTTA-CCAAAAAGTTTTTAAAAAAAAATATTTTTTAGTGGGT-A-TTTTTCAAATAATCTG
66 TTTTTTTACCCAAAAAGTTTTTAAAAAAAAATATTTTTTAGTCGGTAACTTTTTCAAATAATCTA
* *
6949409 AAATTTTACATATTGATTCTTGACACTCTCTTGGAAAGTAGAAAAATATTTTCCACAAAAAAAAG
131 AAATTTTACATATTGATTCTTGACACTCTCTTAGAAACTAGAAAAATA-TTT-C-CAAAAAAAAG
* *
6949474 TGATTGGAAAAGTGCAAAAACAAAAAAATAAAAAACAAAAAAA
193 TGATCGAAAAAGTGCAAAAACAAAAAAATAAAAAA-AAAAAAA
6949517 AAGAAAAAAA
Statistics
Matches: 202, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
253 54 0.27
254 3 0.01
255 2 0.01
256 39 0.19
257 40 0.20
258 9 0.04
259 55 0.27
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (257 bp):
GAGCGTTTTAGGGGCTCTTTGTGTTCTAATAAATTGATTTCCAACAAACAAACTCAAAACAACTT
TTTTTTTACCCAAAAAGTTTTTAAAAAAAAATATTTTTTAGTCGGTAACTTTTTCAAATAATCTA
AAATTTTACATATTGATTCTTGACACTCTCTTAGAAACTAGAAAAATATTTCCAAAAAAAAGTGA
TCGAAAAAGTGCAAAAACAAAAAAATAAAAAAAAAAAAAGAATTAGATTTAATGTAAGATTT
Found at i:6949885 original size:15 final size:15
Alignment explanation
Indices: 6949865--6949894 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6949855 TCAAGGGAGA
6949865 AAATCTTAACATCTT
1 AAATCTTAACATCTT
6949880 AAATCTTAACATCTT
1 AAATCTTAACATCTT
6949895 TTCTTTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATCTTAACATCTT
Found at i:6956852 original size:101 final size:100
Alignment explanation
Indices: 6956639--6956859 Score: 277
Period size: 101 Copynumber: 2.1 Consensus size: 100
6956629 ATATACAAAA
* *
6956639 AAGAAAAAAAGGAAAAAAAAATTTGGGTGCTGGGCTGTCAATGGCCGGCACCCAACAGTAAAAAA
1 AAGAAAAAAA-TAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCC-ACAGTAAAAAA
*
6956704 AAATTTGCTTTTTTTTTCGTGTCAGAGTCAGATATAAATAT
64 AAA--T--TTTTTTTTTCGTGTCAGAGTCAAATATAAATAT
*
6956745 ACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA-CC-CAGTACAAATT
1 AAGAAAAAAATAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCACAGTA-AAA--
*
6956808 TAAAA-TTTTTTTTTCGTGTCAGAGTCAAATATAAATAT
62 AAAAATTTTTTTTTTCGTGTCAGAGTCAAATATAAATAT
*
6956846 AAGAAAAAATTAAA
1 AAGAAAAAAATAAA
6956860 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
101 44 0.42
103 5 0.05
104 3 0.03
105 11 0.11
106 41 0.39
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (100 bp):
AAGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCACAGTAAAAAAAA
ATTTTTTTTTTCGTGTCAGAGTCAAATATAAATAT
Found at i:6963962 original size:18 final size:18
Alignment explanation
Indices: 6963941--6963983 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6963931 ATAATTTAAA
6963941 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
6963959 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
6963977 ATGTAAA
1 ATATAAA
6963984 AACAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:6964083 original size:19 final size:19
Alignment explanation
Indices: 6964059--6964096 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6964049 CATCCAAACA
6964059 CTAGAAAAGTAAATCATTT
1 CTAGAAAAGTAAATCATTT
6964078 CTAGAAAAGTAAATCATTT
1 CTAGAAAAGTAAATCATTT
6964097 TCCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
CTAGAAAAGTAAATCATTT
Found at i:6964926 original size:15 final size:16
Alignment explanation
Indices: 6964906--6964938 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6964896 GATTTTTGTA
*
6964906 ATTTTTTATA-TTTAT
1 ATTTTTTAAAGTTTAT
6964921 ATTTTTTAAAGTTTAT
1 ATTTTTTAAAGTTTAT
6964937 AT
1 AT
6964939 ATATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTTTTAAAGTTTAT
Found at i:6964972 original size:20 final size:22
Alignment explanation
Indices: 6964933--6964977 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6964923 TTTTTAAAGT
6964933 TTATATATATTTAATAAAAAAA
1 TTATATATATTTAATAAAAAAA
*
6964955 TTATATAT-TTTTATAAAAGAAA
1 TTATATATATTTAATAAAA-AAA
6964977 T
1 T
6964978 ACATGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATATATATTTAATAAAAAAA
Found at i:6965811 original size:20 final size:19
Alignment explanation
Indices: 6965754--6965809 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 19
6965744 TAAATTATGT
6965754 TTTAT-AATTTTTATAAAA
1 TTTATCAATTTTTATAAAA
6965772 TTTATC-ATTTTTATAAAA
1 TTTATCAATTTTTATAAAA
6965790 TTCTATCAATTTTTAATAAA
1 TT-TATCAATTTTT-ATAAA
6965810 TTAAAGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 19 0.56
19 4 0.12
20 6 0.18
21 5 0.15
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATCAATTTTTATAAAA
Found at i:6965896 original size:17 final size:17
Alignment explanation
Indices: 6965861--6965901 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6965851 CGTGACACAT
*
6965861 AATAAAAAATAACTCAA
1 AATAAAAAATAAATCAA
6965878 AATAAAAAATAAAAT-AA
1 AATAAAAAAT-AAATCAA
6965895 AATAAAA
1 AATAAAA
6965902 TAAACATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAAAATAAATCAA
Found at i:6966831 original size:29 final size:28
Alignment explanation
Indices: 6966751--6966834 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 28
6966741 TAGGTGGATG
6966751 TATTTTTTACAAATTTAAAATTTTAGTCATT
1 TATTTTTT--AAATTTAAAA-TTTAGTCATT
* * ** *
6966782 AAATTTTTATTTTTAAGAATTTAGTCTTTT
1 TATTTTTTAAATTTAA-AATTTAGTC-ATT
6966812 TATTTTTTAAATTTAAAATTTAG
1 TATTTTTTAAATTTAAAATTTAG
6966835 GTCTAATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
29 20 0.48
30 16 0.38
31 6 0.14
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (28 bp):
TATTTTTTAAATTTAAAATTTAGTCATT
Found at i:6966845 original size:30 final size:28
Alignment explanation
Indices: 6966751--6966845 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 28
6966741 TAGGTGGATG
6966751 TATTTTTTACAAATTTAAAATTTTAGTC-AT
1 TATTTTTT--AAATTTAAAA-TTTAGTCTAT
* ** *
6966781 TAAATTTTTATTTTTAAGAATTTAGTCTTTT
1 T-ATTTTTTAAATTTAA-AATTTAGTC-TAT
6966812 TATTTTTTAAATTTAAAATTTAGGTCTAAT
1 TATTTTTTAAATTTAAAATTTA-GTCT-AT
6966842 TATT
1 TATT
6966846 AACGTTGTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
29 20 0.39
30 23 0.45
31 8 0.16
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (28 bp):
TATTTTTTAAATTTAAAATTTAGTCTAT
Found at i:6967513 original size:30 final size:29
Alignment explanation
Indices: 6967418--6967527 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 29
6967408 GAAAAAATGC
6967418 AACTTTTTACTATTTACATTTTGACCC--
1 AACTTTTTACTATTTACATTTTGACCCTT
* * * *
6967445 AACTTTTTATTACTTATATTTTGACCTTT
1 AACTTTTTACTATTTACATTTTGACCCTT
* *
6967474 CAAAC-TTTTACTATTTATATTTTAACCCCTT
1 --AACTTTTTACTATTTACATTTTGA-CCCTT
6967505 AACTTTTTACTATTTACATTTTG
1 AACTTTTTACTATTTACATTTTG
6967528 GCCTTAGAGG
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
27 23 0.34
29 3 0.04
30 34 0.51
31 7 0.10
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (29 bp):
AACTTTTTACTATTTACATTTTGACCCTT
Found at i:6968022 original size:68 final size:67
Alignment explanation
Indices: 6967824--6968026 Score: 225
Period size: 68 Copynumber: 3.0 Consensus size: 67
6967814 CCCTGGCACC
* * * *
6967824 CCCACCATCTAA-TCTCGGCCCTCTCTCTCGCA-CCCACCATCCGACTCTTGGCCCTCTCTCTCA
1 CCCACCATCCAACTCTCGGCCCTCTCCCTCGCACCCCACCATCCGACTCTCGGCCCTCTCTCTCG
6967887 CA
66 CA
* * * * *
6967889 CCCACCATCCGACACTCGG--CGCTCCTTCGCACCTCCCCACCATCCGACTCTCGGCCCTATCTC
1 CCCACCATCCAACTCTCGGCCCTCTCCCTCGCA---CCCCACCATCCGACTCTCGGCCCTCTCTC
6967952 TCGCA
63 TCGCA
* * * *
6967957 CCCACCATCCAACTCTCGGCCCTCTCCCTCGCACCCCTACCATCCAACTCTCGGTCATCTTTCTC
1 CCCACCATCCAACTCTCGGCCCTCTCCCTCGCACCCC-ACCATCCGACTCTCGGCCCTCTCTCTC
6968022 GCA
65 GCA
6968025 CC
1 CC
6968027 TCTCGCCATC
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
64 9 0.08
65 10 0.09
66 5 0.04
67 4 0.04
68 74 0.66
70 10 0.09
ACGTcount: A:0.15, C:0.52, G:0.10, T:0.22
Consensus pattern (67 bp):
CCCACCATCCAACTCTCGGCCCTCTCCCTCGCACCCCACCATCCGACTCTCGGCCCTCTCTCTCG
CA
Found at i:6968023 original size:35 final size:34
Alignment explanation
Indices: 6967807--6968026 Score: 218
Period size: 33 Copynumber: 6.5 Consensus size: 34
6967797 AATCGCCACA
* * *
6967807 GCCCTCTCCCTGGCACCCCCACCATCTAA-TCTCG
1 GCCCTCTCTCTCGCA-CCCCACCATCCAACTCTCG
* *
6967841 GCCCTCTCTCTCGCA-CCCACCATCCGACTCTTG
1 GCCCTCTCTCTCGCACCCCACCATCCAACTCTCG
* * *
6967874 GCCCTCTCTCTCACA-CCCACCATCCGACACTCG
1 GCCCTCTCTCTCGCACCCCACCATCCAACTCTCG
* *
6967907 GCGCTC-CT-TCGCACCTCCCCACCATCCGACTCTCG
1 GCCCTCTCTCTCGCA---CCCCACCATCCAACTCTCG
*
6967942 GCCCTATCTCTCGCA-CCCACCATCCAACTCTCG
1 GCCCTCTCTCTCGCACCCCACCATCCAACTCTCG
*
6967975 GCCCTCTCCCTCGCACCCCTACCATCCAACTCTCG
1 GCCCTCTCTCTCGCACCCC-ACCATCCAACTCTCG
* * *
6968010 GTCATCTTTCTCGCACC
1 GCCCTCTCTCTCGCACC
6968027 TCTCGCCATC
Statistics
Matches: 157, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
31 4 0.03
32 12 0.08
33 69 0.44
34 16 0.10
35 49 0.31
36 2 0.01
37 5 0.03
ACGTcount: A:0.15, C:0.53, G:0.11, T:0.22
Consensus pattern (34 bp):
GCCCTCTCTCTCGCACCCCACCATCCAACTCTCG
Found at i:6968175 original size:20 final size:18
Alignment explanation
Indices: 6968150--6968209 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 18
6968140 GTATGAGTTG
6968150 AGAAAAAAAGAAGGAAAAAA
1 AGAAAAAAA-AA-GAAAAAA
6968170 AGAAAAACAAAAGAAAAAA
1 AGAAAAA-AAAAGAAAAAA
*
6968189 CGAAAGAAAAAAAGAAAAAA
1 AG-AA-AAAAAAAGAAAAAA
6968209 A
1 A
6968210 ATATAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 8 0.23
20 22 0.63
21 5 0.14
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAGAAAAAA
Found at i:6968205 original size:12 final size:11
Alignment explanation
Indices: 6968152--6968210 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
6968142 ATGAGTTGAG
*
6968152 AAAAAAAGAAGG
1 AAAAAAAGAA-A
6968164 AAAAAAAGAAA
1 AAAAAAAGAAA
*
6968175 AACAAAAGAAA
1 AAAAAAAGAAA
*
6968186 AAACGAAAGAAA
1 AAA-AAAAGAAA
6968198 AAAAGAAA-AAA
1 AAAA-AAAGAAA
6968209 AA
1 AA
6968211 TATAAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 17 0.43
12 23 0.57
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:6969000 original size:29 final size:29
Alignment explanation
Indices: 6968941--6969001 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
6968931 TAAATTTATA
**
6968941 TTTTTTATTTTTTATTTTTAAAATACTTT
1 TTTTTTATTTTTTATTTTTAAAATAAATT
6968970 TTTTTTATTTTTTATTTTTAAAATAAATT
1 TTTTTTATTTTTTATTTTTAAAATAAATT
6968999 TTT
1 TTT
6969002 GGTGTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTTTATTTTTTATTTTTAAAATAAATT
Done.