Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 6 of 34
Found at i:849599 original size:30 final size:30
Alignment explanation
Indices: 849512--849643 Score: 137
Period size: 30 Copynumber: 4.5 Consensus size: 30
849502 CTGACTTATA
* ** *
849512 GGCTTTG-AAAAGGGTGTCACTGACTTGTG
1 GGCTTTGAAAAAGGATACCACTAACTTGTG
*
849541 GGCTTT-AAAAAGGATACCACTGACTTGTG
1 GGCTTTGAAAAAGGATACCACTAACTTGTG
** * *
849570 GGCTTTGAAAGGGGATGCCAATAACTTGTG
1 GGCTTTGAAAAAGGATACCACTAACTTGTG
849600 GGCTTTGCAAAAA-GATACCACTAACTTGTG
1 GGCTTTG-AAAAAGGATACCACTAACTTGTG
849630 GGCTTT-AAAGAAGG
1 GGCTTTGAAA-AAGG
849644 GTGCCATAGA
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
28 3 0.03
29 33 0.38
30 47 0.55
31 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (30 bp):
GGCTTTGAAAAAGGATACCACTAACTTGTG
Found at i:849627 original size:60 final size:58
Alignment explanation
Indices: 849512--849649 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 58
849502 CTGACTTATA
* * * * *
849512 GGCTTTGAAAAGGGTGTCACTGACTTGTGGGCTTTAAAAAGGATACCACTGACTTGTG
1 GGCTTTGAAAGGGGTGCCAATAACTTGTGGGCTTTAAAAAGGATACCACTAACTTGTG
849570 GGCTTTGAAAGGGGATGCCAATAACTTGTGGGCTTTGCAAAAA-GATACCACTAACTTGTG
1 GGCTTTGAAAGGGG-TGCCAATAACTTGTGGGCTTT--AAAAAGGATACCACTAACTTGTG
849630 GGCTTT-AAAGAAGGGTGCCA
1 GGCTTTGAAAG--GGGTGCCA
849650 TAGAGTTGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
58 13 0.19
59 22 0.31
60 27 0.39
61 8 0.11
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (58 bp):
GGCTTTGAAAGGGGTGCCAATAACTTGTGGGCTTTAAAAAGGATACCACTAACTTGTG
Found at i:849711 original size:30 final size:29
Alignment explanation
Indices: 849625--850369 Score: 599
Period size: 29 Copynumber: 25.4 Consensus size: 29
849615 TACCACTAAC
* *
849625 TTGTGGGCTTTAAAGAAGGGTGCCATAGAG
1 TTGTGGACTTTAAA-AAGGGTGCCACAGAG
*
849655 TTGTAGACTTTAGAGAAAAAGGGTGCCACAGAG
1 TTGTGGACTTT----AAAAAGGGTGCCACAGAG
** *
849688 TTGTAAACTTTAAAAAGGGGTGCCACATAG
1 TTGTGGACTTTAAAAA-GGGTGCCACAGAG
* * * * *
849718 TTATGGACTTGAAAAAATGAGTGCTACAAAG
1 TTGTGGACTT-TAAAAA-GGGTGCCACAGAG
*
849749 TTGTGGACTTTAAAAGGGGTGCCACAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * *
849778 TTGTAGACTTTAAAAAGGGATGTCACAAAG
1 TTGTGGACTTTAAAAAGGG-TGCCACAGAG
* * **
849808 TTGTGAACTTTAAAATTGGGTGCCATGGAG
1 TTGTGGACTTTAAAA-AGGGTGCCACAGAG
* * *
849838 TTGTGGACTTTAAGAAGGGTGCTACGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * * **
849867 TCGTAGACTTTAAAAAGGCTGCCATGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* *
849896 TTGTGGACTTTGAGAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * *
849925 TTGTGGACTTT-AAAAGGATTACCACAAAG
1 TTGTGGACTTTAAAAAGG-GTGCCACAGAG
* * * **
849954 TTGTGGACTTTGAGAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * *
849983 TTGTGGACTTTGAGAAGGTTGCCACAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* *
850012 TTATGGACATTAAAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTTAAAAAGGGTGCCACAGAG
*
850042 TTGTGGA-TTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * *
850070 TTGTGGA-TTTTAAAAGGGTGTCACGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * **
850098 TTGTGGA-TTGT-AAAAGGATACCATGGAG
1 TTGTGGACTT-TAAAAAGGGTGCCACAGAG
**
850126 TTGTGGACTTT-AAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * * * *
850154 TTATGGACTTTGAGAATGGTTGCCACGGAG
1 TTGTGGACTTT-AAAAAGGGTGCCACAGAG
* * *
850184 TTGTGAACTTTAAGAAGGGAGCCACAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * * *
850213 TTGTGAACTTTGAGAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* * * *
850242 TTGTGGACTTTGAGAAA-GATACTACAGAG
1 TTGTGGACTTT-AAAAAGGGTGCCACAGAG
* *
850271 TTGTGGACTTTAAAAAGGGTACCA-TGAAG
1 TTGTGGACTTTAAAAAGGGTGCCACAG-AG
* * *
850300 TTATGGATTTTAAAAA-GGTGCCATAGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
* *
850328 TTATGGACTTTAAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAAGGGTGCCACAGAG
*
850357 TTTTGGACTTTAA
1 TTGTGGACTTTAA
850370 GAGGTTACTC
Statistics
Matches: 582, Mismatches: 113, Indels: 41
0.79 0.15 0.06
Matches are distributed among these distances:
28 133 0.23
29 271 0.47
30 124 0.21
31 27 0.05
33 24 0.04
34 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (29 bp):
TTGTGGACTTTAAAAAGGGTGCCACAGAG
Found at i:849769 original size:60 final size:59
Alignment explanation
Indices: 849632--849832 Score: 188
Period size: 60 Copynumber: 3.3 Consensus size: 59
849622 AACTTGTGGG
* * * * * * *
849632 CTTTAAAGAAGGGTGCCATAGAGTTGTAGACTTTAGAGAAAAAGGGTGCCACAGAGTTGTAAA
1 CTTTAAA-AGGGGTGCCACAGAGTTATAGAC-TT-GA-AAAAAGGATGTCACAAAGTTGTGAA
* * * *
849695 CTTTAAAAAGGGGTGCCACATAGTTATGGACTTGAAAAAATGA-GTGCTACAAAGTTGTGGA
1 CTTT-AAAAGGGGTGCCACAGAGTTATAGACTTGAAAAAAGGATGT-C-ACAAAGTTGTGAA
* * *
849756 CTTTAAAAGGGGTGCCACAGAGTTGTAGACTTTAAAAAGGGATGTCACAAAGTTGTGAA
1 CTTTAAAAGGGGTGCCACAGAGTTATAGACTTGAAAAAAGGATGTCACAAAGTTGTGAA
*
849815 CTTTAAAATTGGGTGCCA
1 CTTTAAAA-GGGGTGCCA
849833 TGGAGTTGTG
Statistics
Matches: 114, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
59 21 0.18
60 48 0.42
61 18 0.16
62 2 0.02
63 22 0.19
64 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (59 bp):
CTTTAAAAGGGGTGCCACAGAGTTATAGACTTGAAAAAAGGATGTCACAAAGTTGTGAA
Found at i:851827 original size:79 final size:75
Alignment explanation
Indices: 851744--852158 Score: 402
Period size: 79 Copynumber: 5.3 Consensus size: 75
851734 AAATGGGGTC
* * * * * *
851744 GGAGTACTCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAA
1 GGAGTA-TCCCTC-GAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTT-GAA
*
851809 ATAAAATCAGGATT
63 ATAAAACCAGG-TT
* * *
851823 GGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCC-CTGATTGTGAAAAATTGATGTTTTGAA
1 GGAGTATC-CCTC-GAAATAACGGGGTTGGAGTATCCTC-GATTGTGAAAAATTGGTGTTTTG-A
851887 AATAAAACCGAGGTT
62 AATAAAACC-AGGTT
* * * *
851902 GAAGTATCTCCTCGAAAATAACGAGGTTGGAATATCCTCGATTGTGAAAAATTGGTGTCTTGAAA
1 GGAGTATC-CCTCG-AAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTG-AA
**
851967 ATAAAATCGGGGTT
63 ATAAAA-CCAGGTT
* * *
851981 GGAGTATCCCCTCGGAAATAACTGGGTTGGAGAATCTTCGATTGTGAAAAATTGGTGTTTTGGAA
1 GGAGTAT-CCCTC-GAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTT-GAA
852046 ATAAAACCGAGGTT
63 ATAAAACC-AGGTT
* * *
852060 GGAGTATTTCCTCGAAAATAACGGGGTTGGAGTATGCTCAATTGTGAAAAATTGGTGTTTTGGAA
1 GGAGTA-TCCCTCG-AAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTT-GAA
*
852125 A-AAAACCGGGGTT
63 ATAAAACC-AGGTT
852138 GGAGTATCCCATCGGAAATAA
1 GGAGTATCCC-TC-GAAATAA
852159 AAACATGAAT
Statistics
Matches: 290, Mismatches: 31, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.01
78 32 0.11
79 246 0.85
80 9 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (75 bp):
GGAGTATCCCTCGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGAAATA
AAACCAGGTT
Found at i:852024 original size:158 final size:158
Alignment explanation
Indices: 851759--852158 Score: 502
Period size: 158 Copynumber: 2.5 Consensus size: 158
851749 ACTCCCTCAG
* * * * * * * * * *
851759 AAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCGATGT-TTTAGAAATAAAATCAGGATT
1 AAATAACGAGGTTGGAATATCCTCAATTGTGAAAAATTGGTGTCTTGA-AAATAAAATCGGGGTT
* * *
851823 GGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAA
65 GGAGTATCCCCTCGGAAATAACGAGGTTAGAGAATCCCTGATTGTGAAAAATTGATGTTTTGAAA
851888 ATAAAACCGAGGTTGAAGTATCTCCTCGA
130 ATAAAACCGAGGTTGAAGTATCTCCTCGA
*
851917 AAATAACGAGGTTGGAATATCCTCGATTGTGAAAAATTGGTGTCTTGAAAATAAAATCGGGGTTG
1 AAATAACGAGGTTGGAATATCCTCAATTGTGAAAAATTGGTGTCTTGAAAATAAAATCGGGGTTG
* * * *
851982 GAGTATCCCCTCGGAAATAACTG-GGTTGGAGAAT-CTTCGATTGTGAAAAATTGGTGTTTTGGA
66 GAGTATCCCCTCGGAAATAAC-GAGGTTAGAGAATCCCT-GATTGTGAAAAATTGATGTTTTGAA
* *
852045 AATAAAACCGAGGTTGGAGTATTTCCTCGA
129 AATAAAACCGAGGTTGAAGTATCTCCTCGA
* * * * * *
852075 AAATAACGGGGTTGGAGTATGCTCAATTGTGAAAAATTGGTGTTTTGGAAA-AAAACCGGGGTTG
1 AAATAACGAGGTTGGAATATCCTCAATTGTGAAAAATTGGTGTCTTGAAAATAAAATCGGGGTTG
*
852139 GAGTATCCCATCGGAAATAA
66 GAGTATCCCCTCGGAAATAA
852159 AAACATGAAT
Statistics
Matches: 211, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
157 33 0.16
158 174 0.82
159 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (158 bp):
AAATAACGAGGTTGGAATATCCTCAATTGTGAAAAATTGGTGTCTTGAAAATAAAATCGGGGTTG
GAGTATCCCCTCGGAAATAACGAGGTTAGAGAATCCCTGATTGTGAAAAATTGATGTTTTGAAAA
TAAAACCGAGGTTGAAGTATCTCCTCGA
Found at i:852110 original size:237 final size:235
Alignment explanation
Indices: 851733--852158 Score: 547
Period size: 237 Copynumber: 1.8 Consensus size: 235
851723 TTTGGAGATA
* *
851733 AAAATGGGGTCGGAGTACTCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCG
1 AAAATGGGGTCGGAGTACTCCCTCAGAAATAACGGGGTTGGAGAATCCCCAATGGTGAAAAATCG
* *
851798 ATGTTTTAGAAATAAAATCAGGATTGGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCCCTG
66 ATGTTTTAGAAATAAAACCAGGATTGGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCCCTA
851863 ATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTGAAGTATCTCC-TCGAAAATAACGAG
131 ATTGTGAAAAATTGATGTTTTGAAAA-AAAACCGAGGTTGAAGTATC-CCATCGAAAATAACGAG
851927 GTTGGAATATCCTCGATTGTGAAAAATTGGTGTCTTGAAAAT
194 GTTGGAATATCCTCGATTGTGAAAAATTGGTGTCTTGAAAAT
* * * ** * *
851969 AAAATCGGGGTTGGAGTA-TCCCCTCGGAAATAACTGGGTTGGAGAATCTTCGATTGTGAAAAAT
1 AAAAT-GGGGTCGGAGTACT-CCCTCAGAAATAACGGGGTTGGAGAATCCCCAATGGTGAAAAAT
* * * * * *
852033 TGGTGTTTTGGAAATAAAACCGAGG-TTGGAGTATTTCCTC-GAAAATAACGGGGTTGGAGTAT-
64 CGATGTTTTAGAAATAAAACC-AGGATTGGAGTATCTCCTCAG-AAATAACGAGGTTAGAGTATC
* * * * * *
852095 GCTCAATTGTGAAAAATTGGTGTTTTGGAAAAAAACCGGGGTTGGAGTATCCCATCGGAAATAA
127 CCT-AATTGTGAAAAATTGATGTTTTGAAAAAAAACCGAGGTTGAAGTATCCCATCGAAAATAA
852159 AAACATGAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
235 2 0.01
236 36 0.22
237 120 0.75
238 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (235 bp):
AAAATGGGGTCGGAGTACTCCCTCAGAAATAACGGGGTTGGAGAATCCCCAATGGTGAAAAATCG
ATGTTTTAGAAATAAAACCAGGATTGGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCCCTA
ATTGTGAAAAATTGATGTTTTGAAAAAAAACCGAGGTTGAAGTATCCCATCGAAAATAACGAGGT
TGGAATATCCTCGATTGTGAAAAATTGGTGTCTTGAAAAT
Found at i:854611 original size:24 final size:20
Alignment explanation
Indices: 854553--854603 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
854543 ACCCAGAATG
*
854553 TATCGATATAATGAACAATA
1 TATCGATACAATGAACAATA
*
854573 TATCGATACAATGAACAATG
1 TATCGATACAATGAACAATA
854593 TATCGATACAA
1 TATCGATACAA
854604 ATTGTGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (20 bp):
TATCGATACAATGAACAATA
Found at i:855332 original size:41 final size:41
Alignment explanation
Indices: 855281--856021 Score: 449
Period size: 45 Copynumber: 17.8 Consensus size: 41
855271 TGAGGTGCAC
* * *
855281 CCTGCTTTTTGAGTACAAAGGAAAAATGAAATAAAGTGCGT
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
* * * *
855322 CCTGCTTTTTGAGGATAAAAGAGAAAAGAAGGAAATGAAGTGCAT
1 CCTGCTCTTTGAGGA-CAAAG-G-AAA-AAGGAAATAAAGTGCGT
** * * * *
855367 TTTGTTCTTTGAAGACAAAAGGAAAAAAAAGAAATGAAA-TGTGT
1 CCTGCTCTTTGAGGAC-AAAGG--AAAAAGGAAAT-AAAGTGCGT
* * *
855411 CCTGCTCTTTGAGGACAAAAGAGAAAAGG-AA-AAGGCGCGT
1 CCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAGTGCGT
* * * *
855451 CCTGCTCTTTGAGGACAAAGGAAAAAAAAGAAGTTAAGTGTGT
1 CCTGCTCTTTGAGGACAAAGG--AAAAAGGAAATAAAGTGCGT
* * * *
855494 CCTGCTCTTTGAGGATAAAGGGAAAAGGAAATAGAGTGTGT
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
* * * *
855535 CCTACTCTTTGA-GACAAAGGGAAAAGGAAATAGAGTGCAT
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
* * *
855575 CCTGCTCTTTGAGGACAAAAGAGAAAGAAAAGAAATGAAGTGTGT
1 CCTGCTCTTTGAGGAC-AAAG-G-AA-AAAGGAAATAAAGTGCGT
* * * *
855620 CATGCTCTTTGAGGATAATGGAGAAAAGG--A-AAAGT-CAT
1 CCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAGTGCGT
* * * * *
855658 TCTGCTCTTCGAGGACAAGGGAAAAAAGGAAATGAAGTGTG-
1 CCTGCTCTTTGAGGACAAAGG-AAAAAGGAAATAAAGTGCGT
* * *
855699 CCTTACTCTTTGAGGACAAAGGAGAAAATGAAA-AAAGTGTGT
1 CC-TGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAGTGCGT
* * *
855741 CTTGCTCTTTGAGGACAAAAGACAAAAAAAGGAAATGAAA-TGTGT
1 CCTGCTCTTTGAGGAC-AAAG---GAAAAAGGAAAT-AAAGTGCGT
** *
855786 CCTATTCTTTGAGGACAAAGGAGAAAAGG--A-AAAGT-TGT
1 CCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAGTGCGT
* * ** * *
855824 CCCGCCCTTCAAGGACTAAGGGAAAAGG--A-AAAGT-CGT
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
* *
855861 CCTACTCTTTGAGGATAAAGGAAAAAGGAAATAAAGTGCGT
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
* * * *
855902 CATACTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGCAT
1 CCTGCTCTTTGAGGAC--AAAGG-AAA-AAGGAAATAAAGTGCGT
* * * * *
855947 CCTACTCTTTGAGGACTAAGGGAAAAAAAGGAAATGAGGTGCGC
1 CCTGCTCTTTGAGGAC-AAAGG--AAAAAGGAAATAAAGTGCGT
* *
855991 CCTGCTCTTTGAGGACAAAAGAAAAAAGAAA
1 CCTGCTCTTTGAGGACAAAGGAAAAAGGAAA
856022 ATGAGGAAAG
Statistics
Matches: 548, Mismatches: 108, Indels: 88
0.74 0.15 0.12
Matches are distributed among these distances:
37 34 0.06
38 43 0.08
39 9 0.02
40 67 0.12
41 104 0.19
42 55 0.10
43 41 0.07
44 78 0.14
45 114 0.21
46 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (41 bp):
CCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGT
Found at i:855500 original size:83 final size:83
Alignment explanation
Indices: 855288--856023 Score: 286
Period size: 83 Copynumber: 8.8 Consensus size: 83
855278 CACCCTGCTT
** * * * *
855288 TTTGAGTACAAAGGAAAAATGA-AATAAAGTGCGTCCTGCTTTTTGAGGATAAAAGAGAAAAGAA
1 TTTGAG-ACAAAGGAAAAAAAAGAATTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAG--AA-AA
* * ** **
855352 GGAAAT-GAAGTGCATTTTGTTC
62 GGAAATAG-AGCGCGTCCTACTC
* *
855374 TTTGAAGACAAAAGGAAAAAAAAGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAG
1 TTTG-AGAC-AAAGGAAAAAAAAG-AATTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAG
*
855439 GAAA-AG-GCGCGTCCTGCTC
63 GAAATAGAGCGCGTCCTACTC
* *
855458 TTTGAGGACAAAGGAAAAAAAAGAAGTTAAGTGTGTCCTGCTCTTTGAGGA-TAAAGGGAAAAGG
1 TTTGA-GACAAAGGAAAAAAAAGAA-TTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGG
* *
855522 AAATAGAGTGTGTCCTACTC
64 AAATAGAGCGCGTCCTACTC
* * * **
855542 TTTGAGACAAAGG--GAAAAGGAAATAGAGTGCATCCTGCTCTTTGAGGACAAAAGAGAAAGAAA
1 TTTGAGACAAAGGAAAAAAAAGAATTA-AGTGTGTCCTGCTCTTTGAGGACAAAAGAG--A-AAA
* * * * *
855605 AGAAAT-GAAGTGTGTCATGCTC
62 GGAAATAG-AGCGCGTCCTACTC
* * * * * * ** *
855627 TTTGAGGATAATGG-AGAAAAGGAA--AAGTCAT-T-CTGCTCTTCGAGGACAAGGGAAAAAAGG
1 TTTGA-GACAAAGGAAAAAAAAGAATTAAGT-GTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGG
* *
855687 AAAT-GA-AGTGTGCCTTACTC
64 AAATAGAGCGCGT-CC-TACTC
* * ** * *
855707 TTTGAGGACAAAGG-AGAAAATGAAAAAAGTGTGTCTTGCTCTTTGAGGACAAAAGACAAAAAAA
1 TTTGA-GACAAAGGAAAAAAAAGAATTAAGTGTGTCCTGCTCTTTGAGGACAAAAG---AGAAAA
** * *
855771 GGAAAT-GAAATGTGTCCTATTC
62 GGAAATAG-AGCGCGTCCTACTC
* * * * ** * *
855793 TTTGAGGACAAAGG-AGAAAAGGAA--AAGT-TGTCCCGCCCTTCAAGGAC-TAAGGGAAAAGG-
1 TTTGA-GACAAAGGAAAAAAAAGAATTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGGA
*
855852 AA-A-AG-TCGTCCTACTC
65 AATAGAGCGCGTCCTACTC
* ** * * * * *
855868 TTTGAGGATAAAGGAAAAAGGA-AATAAAGTGCGTCATACTCTTTGAGGACAAAAAGGAAAAGAA
1 TTTGA-GACAAAGGAAAAAAAAGAATTAAGTGTGTCCTGCTCTTTGAGGAC-AAAA-GAGAA-AA
* *
855932 GGAAAT-GAAGTGCATCCTACTC
62 GGAAATAG-AGCGCGTCCTACTC
* * * * * * *
855954 TTTGAGGACTAAGGGAAAAAAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGACAAAAGAAAAAAG
1 TTTGA-GAC-AAAGGAAAAAAAAG-AATTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAG
*
856019 AAAAT
63 GAAAT
856024 GAGGAAAGTG
Statistics
Matches: 512, Mismatches: 92, Indels: 92
0.74 0.13 0.13
Matches are distributed among these distances:
75 23 0.04
76 4 0.01
77 4 0.01
78 18 0.04
79 8 0.02
80 38 0.07
81 32 0.06
82 33 0.06
83 98 0.19
84 40 0.08
85 28 0.05
86 84 0.16
87 41 0.08
88 8 0.02
89 53 0.10
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (83 bp):
TTTGAGACAAAGGAAAAAAAAGAATTAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAA
ATAGAGCGCGTCCTACTC
Found at i:855778 original size:166 final size:163
Alignment explanation
Indices: 855372--855980 Score: 546
Period size: 166 Copynumber: 3.7 Consensus size: 163
855362 TGCATTTTGT
* * * * *
855372 TCTTTGAAGACAAAAGGAAAAAAAAGAAATGAAA-TGTGTCCTGCTCTTTGAGGACAAAAGAG--
1 TCTTTGAGGAC-AAAGG-AGAAAAGGAAAT-AAAGTGCGTCATGCTCTTTGAGGACAAAAGAGAA
* * * * * * * **
855434 -AAAAGGAAA--AGGCGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAAAGAAGTTAAGTGTGTCC
63 AAAAAGGAAATGAAGTGTGTCCTACTCTTTGAGGATAAAGG-AGAAAAGGAA---AAGT-CATCC
* *
855496 TGCTCTTTGAGGATAAAGGGAAAAGGAAATAGAGTGTGTCCTAC
123 TGCTCTTCGAGGA-CAAGGGAAAAGGAAATA-AGTGTG-CCTAC
* * *
855540 TCTTTGA-GACAAAGG-GAAAAGGAAATAGAGTGCATCCTGCTCTTTGAGGACAAAAGAGAAAGA
1 TCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAAGAGAAA-A
* * * *
855603 AAA-GAAATGAAGTGTGTCATGCTCTTTGAGGATAATGGAGAAAAGGAAAAGTCATTCTGCTCTT
65 AAAGGAAATGAAGTGTGTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAAGTCATCCTGCTCTT
855667 CGAGGACAAGGGAAAAAAGGAAATGAAGTGTGCCTTAC
130 CGAGGACAAGGG--AAAAGGAAAT-AAGTGTGCC-TAC
* * * *
855705 TCTTTGAGGACAAAGGAGAAAATGAAA-AAAGTGTGTCTTGCTCTTTGAGGACAAAAGACAAAAA
1 TCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAAGAGAAAAA
* * * ** * *
855769 AAGGAAATGAAATGTGTCCTATTCTTTGAGGACAAAGGAGAAAAGGAAAAGTTGTCCCGCCCTTC
66 AAGGAAATGAAGTGTGTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAAGTCATCCTGCTCTTC
*
855834 AAGGACTAAGGGAAAAGG-AA-AAGTCGT-CCTAC
131 GAGGAC-AAGGGAAAAGGAAATAAGT-GTGCCTAC
* *
855866 TCTTTGAGGATAAAGGA-AAAAGGAAATAAAGTGCGTCATACTCTTTGAGGACAAAA-AGGAAAA
1 TCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAAGA-GAAAA
* ** * *
855929 GAAGGAAATGAAGTGCATCCTACTCTTTGAGGACTAAGGGAAAAAAAGGAAA
65 AAAGGAAATGAAGTGTGTCCTACTCTTTGAGGA-TAAAGG-AGAAAAGGAAA
855981 TGAGGTGCGC
Statistics
Matches: 371, Mismatches: 50, Indels: 45
0.80 0.11 0.10
Matches are distributed among these distances:
160 9 0.02
161 77 0.21
162 10 0.03
163 19 0.05
164 53 0.14
165 40 0.11
166 100 0.27
167 21 0.06
168 19 0.05
169 23 0.06
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (163 bp):
TCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAAGAGAAAAA
AAGGAAATGAAGTGTGTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAAGTCATCCTGCTCTTC
GAGGACAAGGGAAAAGGAAATAAGTGTGCCTAC
Found at i:855887 original size:37 final size:39
Alignment explanation
Indices: 855409--856022 Score: 256
Period size: 41 Copynumber: 14.9 Consensus size: 39
855399 AATGAAATGT
* * * * *
855409 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAAAGGCGC
1 GTCCTACTCTTTGAGGATAAAGGA-AAAAGGAAAAAGTGC
* * * * *
855449 GTCCTGCTCTTTGAGGACAAAGGAAAAAAAAGAAGTTAAGTGT
1 GTCCTACTCTTTGAGGATAAAGG--AAAAAGGAA--AAAGTGC
* * *
855492 GTCCTGCTCTTTGAGGATAAAGGGAAAAGGAAATAGAGTGT
1 GTCCTACTCTTTGAGGATAAAGGAAAAAGGAAA-A-AGTGC
* *
855533 GTCCTACTCTTTGA-GACAAAGGGAAAAGGAAATAGAGTGC
1 GTCCTACTCTTTGAGGATAAAGGAAAAAGGAAA-A-AGTGC
* * * * *
855573 ATCCTGCTCTTTGAGGACAAAAGAGAAAGAAAAGAAATGAAGTGT
1 GTCCTACTCTTTGAGGA-TAAAG-G-AA-AAAGGAAA--AAGTGC
* * *
855618 GTCATGCTCTTTGAGGATAATGGAGAAAAGG-AAAAGT-C
1 GTCCTACTCTTTGAGGATAAAGGA-AAAAGGAAAAAGTGC
* * * * * * *
855656 ATTCTGCTCTTCGAGGACAAGGGAAAAAAGGAAATGAAGTGT
1 GTCCTACTCTTTGAGGATAAAGG-AAAAAGGAAA--AAGTGC
* * *
855698 G-CCTTACTCTTTGAGGACAAAGGAGAAAATGAAAAAAGTGT
1 GTCC-TACTCTTTGAGGATAAAGGA-AAAA-GGAAAAAGTGC
* * * * * *
855739 GTCTTGCTCTTTGAGGACAAAAGACAAAAAAAGGAAATGAAATGT
1 GTCCTACTCTTTGAGGA-TAAAG---GAAAAAGGAAA--AAGTGC
* * *
855784 GTCCTATTCTTTGAGGACAAAGGAGAAAAGG-AAAAGT-T
1 GTCCTACTCTTTGAGGATAAAGGA-AAAAGGAAAAAGTGC
** * ** *
855822 GTCCCGCCCTTCAAGGACT-AAGGGAAAAGG-AAAAGT-C
1 GTCCTACTCTTTGAGGA-TAAAGGAAAAAGGAAAAAGTGC
855859 GTCCTACTCTTTGAGGATAAAGGAAAAAGGAAATAAAGTGC
1 GTCCTACTCTTTGAGGATAAAGGAAAAAGG-AA-AAAGTGC
* *
855900 GTCATACTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGC
1 GTCCTACTCTTTGAGG--ATAAAGG-AAA-AAGGAAA--AAGTGC
* * *
855945 ATCCTACTCTTTGAGGACTAAGGGAAAAAAAGGAAATGAGGTGC
1 GTCCTACTCTTTGAGGA-TAAAGG--AAAAAGGAAA--AAGTGC
* * * * *
855989 GCCCTGCTCTTTGAGGACAAAAGAAAAAAGAAAA
1 GTCCTACTCTTTGAGGATAAAGGAAAAAGGAAAA
856023 TGAGGAAAGT
Statistics
Matches: 451, Mismatches: 80, Indels: 87
0.73 0.13 0.14
Matches are distributed among these distances:
36 1 0.00
37 34 0.08
38 39 0.09
39 12 0.03
40 64 0.14
41 89 0.20
42 41 0.09
43 47 0.10
44 49 0.11
45 74 0.16
46 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (39 bp):
GTCCTACTCTTTGAGGATAAAGGAAAAAGGAAAAAGTGC
Found at i:855989 original size:89 final size:83
Alignment explanation
Indices: 855860--856025 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 83
855850 GGAAAAGTCG
*
855860 TCCTACTCTTTGAGGATAAAGGAAAAAGGAAATAAAGTGCGTCATACTCTTTGAGGACAAAAAGG
1 TCCTACTCTTTGAGGATAAAGGAAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGAC-AAAA-G
*
855925 AAAAGAAGGAAATGAAGTGCA
64 AAAA-AAGAAAATGAAGTGCA
* * * * *
855946 TCCTACTCTTTGAGGACTAAGGGAAAAAAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGACAAAA
1 TCCTACTCTTTGAGGA-TAAAGG--AAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGACAAAA
856011 GAAAAAAGAAAATGA
63 GAAAAAAGAAAATGA
856026 GGAAAGTGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
86 25 0.36
87 10 0.14
88 4 0.06
89 31 0.44
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (83 bp):
TCCTACTCTTTGAGGATAAAGGAAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGACAAAAGAA
AAAAGAAAATGAAGTGCA
Found at i:856057 original size:89 final size:88
Alignment explanation
Indices: 855882--856053 Score: 190
Period size: 89 Copynumber: 1.9 Consensus size: 88
855872 AGGATAAAGG
* *
855882 AAAAAGGAAATAAAGTGCGTCATACTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGCAT
1 AAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGACAAAAAGGAAAAGAAGAAAATGAAGTG-AT
**
855947 CCTACTCTTTGAGGACTAAGGGAA
65 CCTACTCTTTGAAAACTAAGGGAA
* * * *
855971 AAAAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGAC-AAAA-GAAAA-AAGAAAATGAGGAAAGT
1 AAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGACAAAAAGGAAAAGAAGAAAAT---G-AAGT
*
856033 G-TCCTATTCTTTGAAAACTAA
62 GATCCTACTCTTTGAAAACTAA
856054 AGGGTGCCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
86 7 0.10
87 5 0.07
88 21 0.30
89 32 0.46
90 5 0.07
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.20
Consensus pattern (88 bp):
AAAAAGGAAATAAAGTGCGCCATACTCTTTGAGGACAAAAAGGAAAAGAAGAAAATGAAGTGATC
CTACTCTTTGAAAACTAAGGGAA
Found at i:856118 original size:62 final size:62
Alignment explanation
Indices: 856040--857171 Score: 1337
Period size: 62 Copynumber: 18.3 Consensus size: 62
856030 AGTGTCCTAT
** * *
856040 TCTTTGAAAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAATAAAAAGACGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * *
856102 TCTTTAAGGA-TAAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCCTAC
1 TCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * *
856164 TCTTTGAGAACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAATGAAAAAGACGTCCTAC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
** * ***
856226 TCTAGGAGGAC-AAAGAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAATGTCCTGC
1 TCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * *
856288 TCTTTGAGGACTAAAGGGTGCCCCCAACTCGTGTGGGCTTTGAAAATAAAAAGGCATTCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * *
856350 TCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGGGCTTTGAAAATAAAAAGGCATCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * *
856412 TCTTTGAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAATAAAAAGGTGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * *
856474 TCTTTGAGGA-TAAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGGTGTCCTGC
1 TCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * *
856536 TCTTTGAGGACTAAAGGGTACCACCAACTCTTGCGGGCTTTGAAAAGAAAAAGGTGTCCTAC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * *
856598 TCTTTAAGGACTAAAGGGTGCCATCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * * *
856660 TCTTTGAGGACTAAATGGTGCCACCAACTCGTTTGGGCTTTAAAAAG-GAAATGCATCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
** * * ** *
856721 TCTTTGAGGACTAAAAATGTGCCACCAGCTCGTGTGGGCTTTAAAAAGAGGAAGGTGTCCTGC
1 TCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * *
856784 TCTTTGAGGACTAAAGGGTGCCACCAGCTCATGTAGGCTTT-AAGAAGGAGAAGGCGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA-AAGAAAAAGGCGTCCTGC
* * * * * * * *
856846 TCTTTGACGACTAAAGGGTGCCACCAACTCATTTGGGTTTTAAAAAG-GAAAGGTGTCTTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * * * * *
856907 TTTTTGAGGACTAAAAAGGTGCCACCAGCTCGTGTGGGCTTTAAAAAGGAGAATGCGTCC-GA
1 TCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * ** *
856969 TCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGATGTTCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
* * * * ***
857031 TCTTTGAGGACTAAAGGGTACCATCAACTCATGTGGGCTTT-AAAAGGGAAAATAAGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGCGTCCTGC
*
857093 TCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGC
1 TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
857154 TCTTTGAGGACTAAAGGG
1 TCTTTGAGGACTAAAGGG
857172 GCTAAAAGAG
Statistics
Matches: 924, Mismatches: 130, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
61 142 0.15
62 746 0.81
63 36 0.04
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
TCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC
Found at i:864213 original size:16 final size:17
Alignment explanation
Indices: 864192--864223 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
864182 AGTTTTTTTT
864192 TTATTTCGGT-TAATCA
1 TTATTTCGGTATAATCA
864208 TTATTTCGGTATAATC
1 TTATTTCGGTATAATC
864224 CCCTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (17 bp):
TTATTTCGGTATAATCA
Found at i:864909 original size:97 final size:96
Alignment explanation
Indices: 864697--864940 Score: 226
Period size: 96 Copynumber: 2.5 Consensus size: 96
864687 TTTTAATTTG
* * * ** *
864697 AAAAACAGGGCTGGAGTATCCTCTCCAAGGAATAGGGTTGGAGTATCCCCGACGATGGTAATTCA
1 AAAAACAGGGTTGGAGTATCCCCTCCAAGGAATAGGGTTGGAGCATCCCCGACGATGACAATTAA
*
864762 GATAAAATAAGATATAAACCTTGGTAAGCAT
66 GATAAAATAAGATATAAACCTTGCTAAGCAT
** *** * *
864793 AAAAATGGGGTTGGAGTATCCCCTTGGAGGAATGGGGTTGGAGCATCCCCGATGATGACAATTTA
1 AAAAACAGGGTTGGAGTATCCCCTCCAAGGAATAGGGTTGGAGCATCCCCGACGATGACAA-TTA
* * **
864858 AGCA-AAAATAAGATTTAAATCTTGACT-AGTTT
65 AG-ATAAAATAAGATATAAACCTTG-CTAAGCAT
* * * *
864890 AAAAACAGGGTTGGAGTATCTCCT-C-AGAAGATAAGGTTGGAGTATCCCCGA
1 AAAAACAGGGTTGGAGTATCCCCTCCAAGGA-ATAGGGTTGGAGCATCCCCGA
864941 TATATAAAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
95 3 0.03
96 67 0.57
97 46 0.39
98 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (96 bp):
AAAAACAGGGTTGGAGTATCCCCTCCAAGGAATAGGGTTGGAGCATCCCCGACGATGACAATTAA
GATAAAATAAGATATAAACCTTGCTAAGCAT
Found at i:867420 original size:51 final size:52
Alignment explanation
Indices: 867286--867424 Score: 183
Period size: 52 Copynumber: 2.7 Consensus size: 52
867276 ATTTGCTTAT
* * * *
867286 ATGTATCAATACATTGAAGAATGTATCGATACATTTGGGTCAAAAATCGATA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAATCGAGA
* * * *
867338 ATGTATCGATATAGTGAAAAATATATCGATACATTTGGGTCAAAACTC-AGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAATCGAGA
867389 ATGTATCGATACAATGAAAAATGTA-CTGATACATTT
1 ATGTATCGATACAATGAAAAATGTATC-GATACATTT
867425 TCTTTCCAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 33 0.43
52 42 0.55
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAATCGAGA
Found at i:867485 original size:20 final size:20
Alignment explanation
Indices: 867460--867500 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
867450 TGCATGGTCC
*
867460 TGTATCGATACATTTACTTA
1 TGTATCGATACATTCACTTA
867480 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
867500 T
1 T
867501 TATATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:869339 original size:21 final size:21
Alignment explanation
Indices: 869313--869355 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
869303 TATCGACATA
*
869313 AGTTTCAAACCATTGGAAATG
1 AGTTTCAAACCATTAGAAATG
869334 AGTTTCAAACCATTAGAAATG
1 AGTTTCAAACCATTAGAAATG
869355 A
1 A
869356 AAGTTATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
AGTTTCAAACCATTAGAAATG
Found at i:872951 original size:12 final size:12
Alignment explanation
Indices: 872934--872958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
872924 TACAAGAACT
872934 TATGATAGTACA
1 TATGATAGTACA
872946 TATGATAGTACA
1 TATGATAGTACA
872958 T
1 T
872959 GAGAAAAGGC
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TATGATAGTACA
Found at i:873887 original size:25 final size:25
Alignment explanation
Indices: 873854--873917 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 25
873844 TTTAATATCA
*
873854 ATAATAATAAAAGT-TTTTTTAAAAAT
1 ATAA-AATAAAA-TATTATTTAAAAAT
873880 ATAAAATAAAATATTATTTAAAAAT
1 ATAAAATAAAATATTATTTAAAAAT
873905 ATACAACATAAAA
1 ATA-AA-ATAAAA
873918 AAGACGTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 1 0.03
25 21 0.62
26 6 0.18
27 6 0.18
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAAAATAAAATATTATTTAAAAAT
Found at i:874518 original size:17 final size:17
Alignment explanation
Indices: 874492--874548 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
874482 TTGATTTATA
*
874492 ATTTTTATTATTATTTT
1 ATTTTAATTATTATTTT
874509 ATTTTAATTATTA-TTT
1 ATTTTAATTATTATTTT
874525 ATTTATTAATGTATTATATTT
1 A-TT-TTAAT-TATTAT-TTT
874546 ATT
1 ATT
874549 CATTTATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 4 0.12
17 14 0.41
18 5 0.15
19 5 0.15
20 2 0.06
21 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTTTAATTATTATTTT
Found at i:874527 original size:24 final size:24
Alignment explanation
Indices: 874479--874523 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
874469 AATATCTATA
*
874479 TATTTGATTTATAATTTTTATTAT
1 TATTTGATTTATAATTATTATTAT
*
874503 TATTTTATTT-TAATTATTATT
1 TATTTGATTTATAATTATTATT
874524 TATTTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TATTTGATTTATAATTATTATTAT
Found at i:874528 original size:4 final size:4
Alignment explanation
Indices: 874506--874561 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
874496 TTATTATTAT
* * * *
874506 TTTA TTTTA ATTA -TTA TTTA TTTA TTAA TGTA TTATA TTTA TTCA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
874555 TTTA TTT
1 TTTA TTT
874562 GTAATTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
3 3 0.07
4 31 0.74
5 8 0.19
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:874529 original size:20 final size:20
Alignment explanation
Indices: 874463--874531 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 20
874453 ATAATTAATG
* *
874463 ATTTTAAATATCTATATATTT
1 ATTTTAATTAT-TATTTATTT
*
874484 GATTTATAATTTTTATTATTATTTT
1 -ATTT-TAATTATTA-T-TTA-TTT
874509 ATTTTAATTATTATTTATTT
1 ATTTTAATTATTATTTATTT
874529 ATT
1 ATT
874532 AATGTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 6 0.15
21 3 0.08
22 7 0.18
23 14 0.36
24 6 0.15
25 3 0.08
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (20 bp):
ATTTTAATTATTATTTATTT
Found at i:880340 original size:50 final size:51
Alignment explanation
Indices: 880281--880395 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
880271 GAAACAGTAC
880281 ATGTATCGATACATTCTA-TTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCA
* * *
880331 ATGTATCGATATATTCTATTTTTTTACCTAGATGTATCGATATATTTTTCA
1 ATGTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCA
880382 ATGTATCGATACAT
1 ATGTATCGATACAT
880396 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 17 0.28
51 43 0.72
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (51 bp):
ATGTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:892364 original size:23 final size:23
Alignment explanation
Indices: 892334--892380 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
892324 ACTATCAGGA
892334 AAGCTAGCTAGATGGAAAGTCTT
1 AAGCTAGCTAGATGGAAAGTCTT
892357 AAGCTAGCTAGATGGAAAGTCTT
1 AAGCTAGCTAGATGGAAAGTCTT
892380 A
1 A
892381 CTTTTCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (23 bp):
AAGCTAGCTAGATGGAAAGTCTT
Found at i:895691 original size:28 final size:28
Alignment explanation
Indices: 895565--896284 Score: 843
Period size: 28 Copynumber: 25.5 Consensus size: 28
895555 TACAACCTCA
*
895565 TTTCAAAGCTCACAAGTCAGTGGCATC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
895592 TTTCAAAGCCTACAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACAAGTCAGTGGC-A-TCT
895622 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-A-TCT
* *
895652 TTTCAAAACCCACAAATCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
895680 TTTCAAAGCCCACAA-TCAGTAGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
895707 TTTCAAAGCTCACAAGTCAGTGGCA-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * * *
895735 TCTCAAAGCCTACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
895763 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
895791 TTTTAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
895819 TATCAAAGCCCACAAGTTAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
895847 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
895875 TTTTAAAGCCCACAAGTTAGGGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
895903 TCTCAAAGCCTACATGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
895931 TTTCTAAGCCCATAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
895959 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
895987 TATCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
896015 TTTCAAAGCCTATAAGTCAGTGGTATTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
896043 TTTCAAAGCCTACAAGTCAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
896071 TTTCAAAGCCTACAAGTTAGTGGTATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
896099 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
896127 TTTCAAAGCCCACAAGTCAATGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
896155 TTTCAAAGCCCATAAATCAGTGGTATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
896183 TTTCAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
896211 TTTCAAAGCCCACAAGTTAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
896239 TTTCAAAGCCCACACAAGTCGGTGGCAACTT
1 TTTCAAAG-CC-CACAAGTCAGTGGCATC-T
896270 TTTCTAAAGCCCACA
1 TTTC-AAAGCCCACA
896285 CAAGTCGATA
Statistics
Matches: 589, Mismatches: 94, Indels: 17
0.84 0.13 0.02
Matches are distributed among these distances:
27 48 0.08
28 458 0.78
29 5 0.01
30 68 0.12
31 6 0.01
32 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:896284 original size:32 final size:32
Alignment explanation
Indices: 895575--896363 Score: 267
Period size: 28 Copynumber: 27.5 Consensus size: 32
895565 TTTCAAAGCT
*
895575 CACAAGTCAGTGGC-A-TCTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
895602 TACAAGTCAGTGGCAACCCTTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAA-CTTTTTCTAAAGCCCA
*
895632 CACAAGTCAGTGGCAACTCTTTTC-AAAACCCA
1 CACAAGTCAGTGGCAACT-TTTTCTAAAGCCCA
*
895664 CA-AA-TCAGTGGCATC-TTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
895690 CACAA-TCAGTAGCATC-TTTTC-AAAG--CT
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
895717 CACAAGTCAGTGGC-ACATTCTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * * *
895745 TACATGTCAGTGGCATC-CTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
*
895773 CACAAGTCAGTGGC-ACCTTTT-TAAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
895801 CACAAGTCAGTGGC-ACCTTATC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
895829 CACAAGTTAATGGCATC-TTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
*
895857 CACAAGTCAGTGGCATC-TTTT-TAAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * * *
895885 CACAAGTTAGGGGC-ACCTTCTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
895913 TACATGTCAGTGGCATC-TTTTCT-AAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
895941 CATAAGTTAGTGGC-ACCTTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
895969 CACAAGTCAGTGGC-ACCTTATC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
895997 CACAAGTTAGTGGCATC-CTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * * *
896025 TATAAGTCAGTGG-TATTTTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * * *
896053 TACAAGTCAGTAGCATC-CTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * * *
896081 TACAAGTTAGTGGTATC-TTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* **
896109 CACAAGTTAGTGGC-ACCCTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
896137 CACAAGTCAATGGC-ACCTTTTC-AAAGCCCA
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
896167 TA-AA-TCAGTGGTATC-TTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
896193 TACAAGTCAGTGGCATC-TTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* * *
896221 CACAAGTTAGTGGCATC-ATTTC-AAAGCCCA
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
*
896251 CACAAGTCGGTGGCAACTTTTTCTAAAGCCCA
1 CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
* *
896283 CACAAGTC-GATAGCAACTTTCTCTAAAGCCCA
1 CACAAGTCAG-TGGCAACTTTTTCTAAAGCCCA
* *
896315 AACAAGTC-GATGGCAACTTTCTCTAAAGCCCA
1 CACAAGTCAG-TGGCAACTTTTTCTAAAGCCCA
*
896347 CACAAGTTAGTGGCAAC
1 CACAAGTCAGTGGCAAC
896364 CCTTCTAAAC
Statistics
Matches: 632, Mismatches: 92, Indels: 71
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.01
27 50 0.08
28 415 0.66
29 13 0.02
30 58 0.09
31 9 0.01
32 81 0.13
33 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (32 bp):
CACAAGTCAGTGGCAACTTTTTCTAAAGCCCA
Found at i:899623 original size:67 final size:69
Alignment explanation
Indices: 899483--899652 Score: 226
Period size: 67 Copynumber: 2.5 Consensus size: 69
899473 TTCTAAGAGG
* *
899483 ATACTCCAGCCCCATTTTTAAACTCATCAAAATTTAAATCTTATTCTGTACGAATTATCATTGTC
1 ATACTCCAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTCTGTACAAATTATCATTGTC
*
899548 AGGG
66 AGGC
* * *
899552 ATACTCCAACCTCGTTTTTAAACT-ATCAAAATTTAAGTCTTATT-TGT-CTAAATTATCATTGT
1 ATACTCCAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTCTGTAC-AAATTATCATTGT
899614 CAGGC
65 CAGGC
*
899619 ATACTCCAACCCCATTTTTCAA-TCA--AAAATTTAA
1 ATACTCCAACCCCATTTTTAAACTCATCAAAATTTAA
899653 TCATTTTCTC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
65 9 0.10
66 2 0.02
67 39 0.43
68 19 0.21
69 21 0.23
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (69 bp):
ATACTCCAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTCTGTACAAATTATCATTGTC
AGGC
Found at i:901167 original size:20 final size:20
Alignment explanation
Indices: 901142--901197 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
901132 TTTTTACCTA
* *
901142 AATGTATCAATACATTTTTG
1 AATGTATCAATACATTTATC
*
901162 AATGTATCAATACATGTATC
1 AATGTATCAATACATTTATC
*
901182 AATGTATCGATACATT
1 AATGTATCAATACATT
901198 ATTGTATCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTTATC
Found at i:906100 original size:83 final size:84
Alignment explanation
Indices: 905864--906129 Score: 270
Period size: 83 Copynumber: 3.2 Consensus size: 84
905854 CCTCGTTTGT
* * * * * *
905864 CTATCGGCTTAGTCCTTGGTAAACT-CCTTGACCCTTTATTGCCTTATTAGTTCAGCCCTAATCA
1 CTATCGACTTAGTCCCTAGTAAACTCCCTT-ACCCTTTGTTGACTTATTAGTTCAGCCCTAGTCA
905928 ACCTTTTATCCCTTGTTTAC
65 ACCTTTTATCCCTTGTTTAC
* * * * * * * * * * * *
905948 CAATCAACTCAGTTCCTAGTGAACTCCTTTATCTTTTGTTGACTAATCAGTTTAGCCCTGGTCAA
1 CTATCGACTTAGTCCCTAGTAAACTCCCTTACCCTTTGTTGACTTATTAGTTCAGCCCTAGTCAA
*
906013 -CTTTTCATCTC-TGTTTAC
66 CCTTTT-ATCCCTTGTTTAC
* * *
906031 TTCTCGACTTAGTCCCTAGTAAACTCCCTTACCCTTTGTTGACTTATTGGTTCAG-CCTAGTCAA
1 CTATCGACTTAGTCCCTAGTAAACTCCCTTACCCTTTGTTGACTTATTAGTTCAGCCCTAGTCAA
906095 CCTTTTATCCCTTGTTTAC
66 CCTTTTATCCCTTGTTTAC
* *
906114 CTGTCGGCTTAGTCCC
1 CTATCGACTTAGTCCC
906130 ACGTAAATTT
Statistics
Matches: 140, Mismatches: 38, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
82 12 0.09
83 78 0.56
84 47 0.34
85 3 0.02
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (84 bp):
CTATCGACTTAGTCCCTAGTAAACTCCCTTACCCTTTGTTGACTTATTAGTTCAGCCCTAGTCAA
CCTTTTATCCCTTGTTTAC
Found at i:910023 original size:156 final size:153
Alignment explanation
Indices: 909833--910134 Score: 380
Period size: 153 Copynumber: 2.0 Consensus size: 153
909823 TACTAGGATA
* * * *
909833 CTTTCATGTCGATGGTATACCTCTATGGGCATTTTTGTAA-TTTTT-TAGAATCAAATCCTAGGT
1 CTTTCATGTCGAAGGTATACCTCTAAGGGCATTTTTATAATTTTTTCTAGAACCAAATCCTAGGT
** * *
909896 TGTCACTGAGTTTACCTTTTTGCCGAATGT-GGTATTTAGGATAGG-TTCATCCCAACTATAACC
66 CATCAC-AAG--T---TTTATGCCGAATGTGGGTATTTAGGATAGGCTT-ATCCCAACTATAACC
909959 TTTTTAAGTTCTTTAAGGATACCGGGAAAC
124 TTTTTAAGTTCTTTAAGGATACCGGGAAAC
* *
909989 CTTTCATGTCGAAGGTATACC-CATAAGGGCATTTTTATAATTTTTTCTAGAACCGAGTCCTAGG
1 CTTTCATGTCGAAGGTATACCTC-TAAGGGCATTTTTATAATTTTTTCTAGAACCAAATCCTAGG
* * *
910053 TCATCACAAGTTTTATGCCGAATGTGGGTATTTAGGATAGGCTTATCCTATCTATAATCTTTTTA
65 TCATCACAAGTTTTATGCCGAATGTGGGTATTTAGGATAGGCTTATCCCAACTATAACCTTTTTA
910118 AGTTCTTTAAGGATACC
130 AGTTCTTTAAGGATACC
910135 TGGGTACTTC
Statistics
Matches: 128, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
152 13 0.10
153 50 0.39
154 2 0.02
155 2 0.02
156 35 0.27
157 7 0.05
158 19 0.15
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (153 bp):
CTTTCATGTCGAAGGTATACCTCTAAGGGCATTTTTATAATTTTTTCTAGAACCAAATCCTAGGT
CATCACAAGTTTTATGCCGAATGTGGGTATTTAGGATAGGCTTATCCCAACTATAACCTTTTTAA
GTTCTTTAAGGATACCGGGAAAC
Found at i:911989 original size:29 final size:29
Alignment explanation
Indices: 911954--912040 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
911944 AAAAGCTAAG
* *
911954 AAATTAAAAGTAAATTAAAACACTAAAAG
1 AAATTAAAAGTCAATTAAAACACTAAAAA
* * *
911983 GAATTAAAAGTCAATCAAAATACTAAAAA
1 AAATTAAAAGTCAATTAAAACACTAAAAA
* * *
912012 AAATTAAAAGTCAACTAAAATACCAAAAA
1 AAATTAAAAGTCAATTAAAACACTAAAAA
912041 TGAAACTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (29 bp):
AAATTAAAAGTCAATTAAAACACTAAAAA
Found at i:915870 original size:20 final size:20
Alignment explanation
Indices: 915842--915918 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
915832 GTAAAAAGAC
* *
915842 AGAACGTATCGATATATTGA
1 AGAATGTATCGATACATTGA
*
915862 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
915882 TA-CATGCATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
915902 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
915919 CTGGTTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:923842 original size:13 final size:13
Alignment explanation
Indices: 923824--923862 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
923814 ACATTTTTCT
*
923824 TTGTATCGATACA
1 TTGTATTGATACA
923837 TTGTATTGATACA
1 TTGTATTGATACA
*
923850 CTGTATTGATACA
1 TTGTATTGATACA
923863 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:924008 original size:21 final size:20
Alignment explanation
Indices: 923984--924030 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
923974 AAATCTTTTG
*
923984 CAAAATACCT-ATTTTTCACTT
1 CAAAATACATCATTTTTCA--T
*
924005 CAAATTACATCATTTTTCAT
1 CAAAATACATCATTTTTCAT
924025 CAAAAT
1 CAAAAT
924031 CAACTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAAATACATCATTTTTCAT
Found at i:924347 original size:21 final size:20
Alignment explanation
Indices: 924305--924347 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
924295 GTAGCACCCA
* * *
924305 CCAGGTCGCGACCGGCATTC
1 CCAGGTAGCAACCGGCAGTC
924325 CCAGGTAGCAACCGGGCAGTC
1 CCAGGTAGCAACC-GGCAGTC
924346 CC
1 CC
924348 CACACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.19, C:0.40, G:0.30, T:0.12
Consensus pattern (20 bp):
CCAGGTAGCAACCGGCAGTC
Found at i:927061 original size:51 final size:51
Alignment explanation
Indices: 926905--927074 Score: 214
Period size: 52 Copynumber: 3.3 Consensus size: 51
926895 GAAATAACGA
* *
926905 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
926957 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATCGG
*** *
927009 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
927060 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
927075 TCGGAAATGA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 38 0.38
52 51 0.52
53 10 0.10
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:927122 original size:27 final size:28
Alignment explanation
Indices: 927057--927132 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
927047 GAAATAAAGT
*** *
927057 CGGGGTTGGAGTATCCCCTCGGAAATGA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
927085 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
927112 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
927133 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:927197 original size:211 final size:211
Alignment explanation
Indices: 926846--927238 Score: 565
Period size: 211 Copynumber: 1.9 Consensus size: 211
926836 GAGATAATAA
* * *
926846 CGGGGTTGGAATGTTCCCTCGGAAGTAACAGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGG
1 CGGGGTTGGAATATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGG
* * * *
926911 AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATT
66 AGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATT
* * *
926976 AAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT
131 AAAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAAT
927041 ATTTTGGAAATAAAGT
196 ATTTTGGAAATAAAGT
* * * * * *
927057 CGGGGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGG
1 CGGGGTTGGAATATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGG
* * *
927121 AGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATTCCCAA
66 AGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAA
* *
927186 TTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
129 TTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATT
927239 GTGGAGAATT
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
210 28 0.18
211 95 0.60
212 36 0.23
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (211 bp):
CGGGGTTGGAATATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGG
AGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATT
AAAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAAT
ATTTTGGAAATAAAGT
Found at i:929622 original size:13 final size:13
Alignment explanation
Indices: 929604--929629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
929594 ACAAAGATCC
929604 ATGTATCGATACA
1 ATGTATCGATACA
929617 ATGTATCGATACA
1 ATGTATCGATACA
929630 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:929625 original size:33 final size:33
Alignment explanation
Indices: 929583--929649 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
929573 AAAATTTCCA
***
929583 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
929616 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
929649 A
1 A
929650 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:929693 original size:19 final size:18
Alignment explanation
Indices: 929669--929736 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
929659 CAGTAGCTAA
929669 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
929688 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
929703 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
929720 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
929737 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:929709 original size:13 final size:13
Alignment explanation
Indices: 929691--929715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
929681 ACAATACTTA
929691 TGTATCGATACAT
1 TGTATCGATACAT
929704 TGTATCGATACA
1 TGTATCGATACA
929716 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:929713 original size:32 final size:32
Alignment explanation
Indices: 929672--929734 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
929662 TAGCTAATTA
*
929672 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
929704 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
929735 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:929815 original size:21 final size:21
Alignment explanation
Indices: 929791--929848 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
929781 ACATTTGTAG
*
929791 AATGTATTGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
929812 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
929833 AATGTATCGATACATT
1 AATGTATCGATACATT
929849 TGGATAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:930646 original size:13 final size:13
Alignment explanation
Indices: 930628--930653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
930618 TACACCAAGT
930628 ATGTATCGATACA
1 ATGTATCGATACA
930641 ATGTATCGATACA
1 ATGTATCGATACA
930654 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:930672 original size:34 final size:32
Alignment explanation
Indices: 930610--930674 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
930600 TAGCCAAACT
**
930610 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
930642 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
930675 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:935336 original size:14 final size:14
Alignment explanation
Indices: 935308--935365 Score: 75
Period size: 13 Copynumber: 4.1 Consensus size: 14
935298 CACCCTAATT
935308 TTAAAATAA-ATTA
1 TTAAAATAATATTA
935321 TTAAAATAATATTA
1 TTAAAATAATATTA
*
935335 TTTTAAAATTAT-TTA
1 --TTAAAATAATATTA
935350 TTAAAATAATATTA
1 TTAAAATAATATTA
935364 TT
1 TT
935366 TTATTCGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 18 0.46
14 9 0.23
15 3 0.08
16 9 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAATAATATTA
Found at i:935350 original size:29 final size:29
Alignment explanation
Indices: 935305--935368 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
935295 TTGCACCCTA
935305 ATTTTAAAATAAATTATTAAAATAATATT
1 ATTTTAAAATAAATTATTAAAATAATATT
* *
935334 ATTTTAAAATTATTTATTAAAATAATATT
1 ATTTTAAAATAAATTATTAAAATAATATT
935363 ATTTTA
1 ATTTTA
935369 TTCGTATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTTAAAATAAATTATTAAAATAATATT
Found at i:936952 original size:20 final size:20
Alignment explanation
Indices: 936929--936982 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
936919 ATTCAATTAT
936929 TTATTAATTTATTTATATAA
1 TTATTAATTTATTTATATAA
* *
936949 TTATATATTTTATTT-TATAC
1 TTAT-TAATTTATTTATATAA
936969 TTA-T-ATTTATTTAT
1 TTATTAATTTATTTAT
936983 CTATAACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 7 0.24
18 2 0.07
20 11 0.38
21 9 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTAATTTATTTATATAA
Found at i:936979 original size:22 final size:21
Alignment explanation
Indices: 936936--937015 Score: 73
Period size: 19 Copynumber: 4.0 Consensus size: 21
936926 TATTTATTAA
936936 TTTATTTATATAATTATATAT
1 TTTATTTATATAATTATATAT
*
936957 TTTATTT-TAT-ACT-TATA-
1 TTTATTTATATAATTATATAT
*
936974 TTTATTTATCTATAACTATATAT
1 TTTATTTA--TATAATTATATAT
*
936997 TTTA--TATATAATTAAATAT
1 TTTATTTATATAATTATATAT
937016 ATATATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
17 7 0.14
18 4 0.08
19 13 0.26
20 6 0.12
21 12 0.24
22 4 0.08
23 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATTTATATAATTATATAT
Found at i:936987 original size:20 final size:19
Alignment explanation
Indices: 936935--936998 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
936925 TTATTTATTA
*
936935 ATTTATTTA-TATAATTAT
1 ATTTATTTATTATACTTAT
*
936953 ATATT-TTATTTTATACTTAT
1 AT-TTATT-TATTATACTTAT
936973 ATTTATTTATCTATAACTATAT
1 ATTTATTTAT-TAT-ACT-TAT
936995 ATTT
1 ATTT
936999 TATATATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 4 0.11
19 7 0.19
20 15 0.42
21 3 0.08
22 7 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTATTTATTATACTTAT
Found at i:941138 original size:20 final size:19
Alignment explanation
Indices: 941089--941138 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
941079 TATTTATATT
* *
941089 ATTTTTATATTATAATTAT
1 ATTTTAATATTATAATTAA
*
941108 ATTTTATATATTATTATTTAA
1 ATTTTA-ATATTA-TAATTAA
941129 ATTTTAATAT
1 ATTTTAATAT
941139 GTTAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAATATTATAATTAA
Found at i:943142 original size:15 final size:15
Alignment explanation
Indices: 943122--943151 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
943112 ATGGAATCAC
*
943122 TGATAATATTTTCTT
1 TGATAATATATTCTT
943137 TGATAATATATTCTT
1 TGATAATATATTCTT
943152 CATTGGAAAA
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:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (15 bp):
TGATAATATATTCTT
Found at i:944970 original size:23 final size:20
Alignment explanation
Indices: 944903--944981 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 20
944893 TTTTACAATT
*
944903 TGTATCGATATAAACAGTAAA
1 TGTATCGATACAAA-AGTAAA
944924 TGTATCGATACAAAAGTAAA
1 TGTATCGATACAAAAGTAAA
* *
944944 TGTATCAATACAAATGCCTGAAA
1 TGTATCGATACAAAAG--T-AAA
944967 TGTATCGATACAAAA
1 TGTATCGATACAAAA
944982 TCACCCTGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 20 0.40
21 13 0.26
22 1 0.02
23 16 0.32
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:949096 original size:21 final size:20
Alignment explanation
Indices: 949070--949124 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
949060 AAATATAAAG
949070 AAAATAAATAAAACTAATTTA
1 AAAATAAATAAAACTAA-TTA
** *
949091 AAAATATTTAAAATTAATTA
1 AAAATAAATAAAACTAATTA
**
949111 AATCTAAATAAAAC
1 AAAATAAATAAAAC
949125 CTTTAAGACA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAAATAAAACTAATTA
Found at i:952715 original size:13 final size:13
Alignment explanation
Indices: 952697--952723 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
952687 ATATTATGCT
952697 TTGTATCGATACA
1 TTGTATCGATACA
952710 TTGTATCGATACA
1 TTGTATCGATACA
952723 T
1 T
952724 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:952738 original size:32 final size:33
Alignment explanation
Indices: 952678--952742 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
952668 CACATCCAGA
* * *
952678 TGTATCGATATATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
952711 TGTATCGATACATGAT-CATTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
952743 GCTCAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGATGCATTGTATCGATACAT
Found at i:956753 original size:2 final size:2
Alignment explanation
Indices: 956746--956773 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
956736 ATGATTACTG
956746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956774 GGCCGACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:958154 original size:54 final size:54
Alignment explanation
Indices: 958083--958190 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
958073 TAAATATGAT
*
958083 TGAATACTTATTAAACTAATTTCTTTAAAATTTTCAAATCAATTTAAAAACTTG
1 TGAATACTTATTAAACTAATTTCCTTAAAATTTTCAAATCAATTTAAAAACTTG
958137 TGAATACTTATTAAACTAATTTCCTTAAAATTTTCAAATCAATTTAAAAACTTG
1 TGAATACTTATTAAACTAATTTCCTTAAAATTTTCAAATCAATTTAAAAACTTG
958191 GATTTTAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.42
Consensus pattern (54 bp):
TGAATACTTATTAAACTAATTTCCTTAAAATTTTCAAATCAATTTAAAAACTTG
Found at i:960576 original size:11 final size:11
Alignment explanation
Indices: 960560--960585 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
960550 GCTATTGTGA
960560 GCTTTATAAAT
1 GCTTTATAAAT
960571 GCTTTATAAAT
1 GCTTTATAAAT
960582 GCTT
1 GCTT
960586 ATTTTACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (11 bp):
GCTTTATAAAT
Found at i:964165 original size:96 final size:96
Alignment explanation
Indices: 964034--964254 Score: 207
Period size: 96 Copynumber: 2.3 Consensus size: 96
964024 TGGTGTACCT
* * * ** ** ** * *
964034 CCTCGAAGGTATAGGG-TTGAGTGTCCTTGACGATGACAATTTGGGTGAAAATAATATTTAAATT
1 CCTCGAAAGAATAGGGTTTGAGTATCCCCGACGATGACAATTTAAGAAAAAATAAGA-TTAAATC
*
964098 TTGGA-AAGTTTAAAAACGGGGTTAGAGTA-TC
65 TT-GACAAGTTTAAAAACAGGGTTAGAGTATTC
* *
964129 CCTCGAAAGAATAGGGTTTGAGTATCCCCGATGATGATAATTTAAGAAAAAATAAGATTAAATCT
1 CCTCGAAAGAATAGGGTTTGAGTATCCCCGACGATGACAATTTAAGAAAAAATAAGATTAAATCT
* * *
964194 TGACGAGTTTAAAAATAGGGTTTGAGTATTC
66 TGACAAGTTTAAAAACAGGGTTAGAGTATTC
* **
964225 CCTCGGAAGAAT-GGAGTTAAAGTATCCCCG
1 CCTCGAAAGAATAGG-GTTTGAGTATCCCCG
964255 TAGATAAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
94 2 0.02
95 44 0.43
96 56 0.55
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (96 bp):
CCTCGAAAGAATAGGGTTTGAGTATCCCCGACGATGACAATTTAAGAAAAAATAAGATTAAATCT
TGACAAGTTTAAAAACAGGGTTAGAGTATTC
Found at i:975824 original size:13 final size:13
Alignment explanation
Indices: 975806--975862 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
975796 CATAAAGTGT
975806 TGTATCGATACAA
1 TGTATCGATACAA
975819 TGTATCGATACATAA
1 TGTATCGATAC--AA
975834 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
975851 TGTATCGATACA
1 TGTATCGATACA
975863 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:975841 original size:32 final size:32
Alignment explanation
Indices: 975786--975883 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
975776 TTCAACGATT
975786 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
975819 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
975851 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
975883 T
1 T
975884 ATAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:975843 original size:19 final size:18
Alignment explanation
Indices: 975784--975881 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
975774 ATTTCAACGA
975784 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
975803 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
975819 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
975835 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
975851 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
975867 TTTTGTATCGATACA
1 -TTTGTATCGATACA
975882 ATATAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:975942 original size:13 final size:13
Alignment explanation
Indices: 975924--975948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975914 ATTACTCAAA
975924 TGTATCGATACAT
1 TGTATCGATACAT
975937 TGTATCGATACA
1 TGTATCGATACA
975949 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:976013 original size:52 final size:52
Alignment explanation
Indices: 975957--976085 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
975947 CACTGATCTT
975957 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
* *
976009 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
*
976061 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
976086 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
Found at i:983019 original size:16 final size:16
Alignment explanation
Indices: 982998--983045 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
982988 TGTTCTTTTC
*
982998 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
983014 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
*
983030 TAAAAAA-AATAAAAAA
1 CAAAAAAGAA-AAAAAA
983046 GGGGGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.04
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:983027 original size:9 final size:9
Alignment explanation
Indices: 983015--983045 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
983005 GAAACAAAAC
*
983015 AAAAAAGAA
1 AAAAAATAA
983024 AAAAAATAA
1 AAAAAATAA
983033 AAAAAATAA
1 AAAAAATAA
983042 AAAA
1 AAAA
983046 GGGGGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.06
Consensus pattern (9 bp):
AAAAAATAA
Found at i:983038 original size:25 final size:25
Alignment explanation
Indices: 982999--983046 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
982989 GTTCTTTTCC
*
982999 AAAAAAGAAACAAAACAAAAAAGAA
1 AAAAAAGAAAAAAAACAAAAAAGAA
* *
983024 AAAAAATAAAAAAAATAAAAAAG
1 AAAAAAGAAAAAAAACAAAAAAG
983047 GGGGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.85, C:0.04, G:0.06, T:0.04
Consensus pattern (25 bp):
AAAAAAGAAAAAAAACAAAAAAGAA
Found at i:984046 original size:33 final size:33
Alignment explanation
Indices: 984009--984177 Score: 179
Period size: 33 Copynumber: 5.3 Consensus size: 33
983999 CCCACGACTC
984009 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * ** *
984042 AGTGGCATC--TCTTTC-CAAAGCCCACAGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
984072 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
984105 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
984135 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
984168 AGTGGCATCT
1 AGTGGCATCT
984178 CTTTCCAAAG
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
30 37 0.36
31 10 0.10
32 10 0.10
33 47 0.45
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (33 bp):
AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
Found at i:984084 original size:63 final size:62
Alignment explanation
Indices: 983985--984209 Score: 371
Period size: 63 Copynumber: 3.6 Consensus size: 62
983975 AATTCTTCAA
983985 ATCTC-TTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACG-CTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
984048 ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCAC-GCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
984111 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCAC-GCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
* * *
984174 ATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTT
1 ATCTCTTTCCAAAGCCCACG-CTCAGTGGCATCTTT
984210 TTCTTTTCAA
Statistics
Matches: 155, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
62 1 0.01
63 150 0.97
64 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (62 bp):
ATCTCTTTCCAAAGCCCACGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
Found at i:984203 original size:30 final size:30
Alignment explanation
Indices: 983985--984273 Score: 170
Period size: 33 Copynumber: 9.3 Consensus size: 30
983975 AATTCTTCAA
* *
983985 ATCTC-TTCTCAAAGCCCACGACTCAGTGGC
1 ATCTCTTTC-CAAAGTCCACAACTCAGTGGC
* * * *
984015 ATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATC--TCTTTC-CAAAGTCCACAACTCAGTGGC
* *
984048 ATCTCTTTCCAAAGCCCACAGCTCAGTGGC
1 ATCTCTTTCCAAAGTCCACAACTCAGTGGC
* * * *
984078 ATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATC--TCTTTC-CAAAGTCCACAACTCAGTGGC
* **
984111 ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
1 ATCTCTTTCCAAAGTCCACAACTCAGTGGC
* * * *
984141 ATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATC--TCTTTC-CAAAGTCCACAACTCAGTGGC
* *
984174 ATCTCTTTCCAAAGTCCACGACTCCGTGGC
1 ATCTCTTTCCAAAGTCCACAACTCAGTGGC
* * * *
984204 ACCTTTTTCTTTTCAAAATCCACAACTCCGTGGC
1 A----TCTCTTTCCAAAGTCCACAACTCAGTGGC
** * *
984238 A-CTCTTTTTAAAGCCCACAACTCCGTGGC
1 ATCTCTTTCCAAAGTCCACAACTCAGTGGC
984267 A-CTCTTT
1 ATCTCTTT
984274 TTCCTTCTAA
Statistics
Matches: 201, Mismatches: 45, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
29 31 0.15
30 57 0.28
31 15 0.07
32 12 0.06
33 60 0.30
34 26 0.13
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (30 bp):
ATCTCTTTCCAAAGTCCACAACTCAGTGGC
Found at i:984226 original size:34 final size:35
Alignment explanation
Indices: 984185--984828 Score: 494
Period size: 34 Copynumber: 19.7 Consensus size: 35
984175 TCTCTTTCCA
* *
984185 AAGTCCACGACTCCGTGGCAC-CTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984219 AAATCCACAACTCCGTGGCACTC----T-TTTT-A
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984248 AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984282 AAG-CCTACAACTCCGTGTCACTCTTTTTC-CTTCT
1 AAGTCC-ACAACTCCGTGGCACTCTTTTTCTTTTCT
*
984316 AAGTCCACAACTCCGTGGCAC-C-----C-GTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984343 AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
*
984377 AAGTCCATAACTCCGTGGCAC-C-----C-TTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* * *
984404 AAGCCCACAACTCCATGGCACTCTTTTTC-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
984438 AAGTCCACAACTCCGTGGCAC-C-----C-TTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984465 AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984499 AAGTCTACAACTCCGTGGCAC-CTTTTTCTTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984533 AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
984567 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* *
984600 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT
1 -AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* * *
984635 AAGTCCATAACTCCGTGGCACTCTTTTCCCCTTTT-A
1 AAGTCCACAACTCCGTGGCACTCTTTT--TCTTTTCT
* * * *
984671 AAGTCCACAACCCCATGGCAC-CTTGTTCCTTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* * *
984704 AAGTCCACGACTCCGTAGCAC-C---TTCTTTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
* * *
984735 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT-A
1 AAGTCCACAACTCCGTGGCACTCTTTTT--CTTTTCT
* * * *
984771 AAGCCCAAAACTTCGTGGCAC-CTTGTTCTTTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
*
984804 AAGTCCACAACTTCGTGGCA-TCTTT
1 AAGTCCACAACTCCGTGGCACTCTTT
984829 CACCCTTCTC
Statistics
Matches: 498, Mismatches: 65, Indels: 95
0.76 0.10 0.14
Matches are distributed among these distances:
27 61 0.12
28 12 0.02
29 22 0.04
30 10 0.02
31 18 0.04
32 1 0.00
33 80 0.16
34 220 0.44
35 29 0.06
36 38 0.08
37 7 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (35 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCTTTTCT
Found at i:984243 original size:63 final size:64
Alignment explanation
Indices: 984185--984828 Score: 578
Period size: 61 Copynumber: 9.9 Consensus size: 64
984175 TCTCTTTCCA
* **
984185 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAATCCACAACTCCGTGGCACTCTTTT--T-
1 AAGTCCACAACTCCGTGGCACC-TTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTCCTC
*
984247 A
64 T
* * * *
984248 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGCCTACAACTCCGTGTCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCAC-C-TTTT-CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC
984312 TTCT
62 -TCT
*
984316 AAGTCCACAACTCCGTGGCACC----CGTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC-TC
984376 T
64 T
* *
984377 AAGTCCATAACTCCGTGGCACC----CTTTT-AAGCCCACAACTCCATGGCACTCTTTTTCCTTC
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC-TC
984437 T
64 T
984438 AAGTCCACAACTCCGTGGCACC----CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC-TC
984498 T
64 T
* *
984499 AAGTCTACAACTCCGTGGCACCTTTTTCTTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACC-TTTTC-TTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC-
984564 TCT
62 TCT
984567 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACC-TTTTC-TTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCC-
984632 TCT
62 TCT
* * * *
984635 AAGTCCATAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCATGGCAC-CTTGTTC
1 AAGTCCACAACTCCGTGGCAC-CTTTT---CTTTTAAAGCCCACAACTCCGTGGCACTCTT-TTC
*
984699 CTTTT
61 C-TCT
* * *
984704 AAGTCCACGACTCCGTAGCACC--TTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTC-TTTT-CC-
*
984767 TTT
62 TCT
* * * * * *
984770 AAAGCCCAAAACTTCGTGGCACCTTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 -AAGTCCACAACTCCGTGGCACCTT-TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
984829 CACCCTTCTC
Statistics
Matches: 512, Mismatches: 42, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
61 173 0.34
63 43 0.08
64 28 0.05
65 7 0.01
66 11 0.02
67 26 0.05
68 149 0.29
69 44 0.09
70 30 0.06
71 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (64 bp):
AAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTCT
Found at i:984243 original size:126 final size:126
Alignment explanation
Indices: 983985--984273 Score: 388
Period size: 126 Copynumber: 2.3 Consensus size: 126
983975 AATTCTTCAA
983985 ATCTC-TTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCA
1 ATCTCTTTC-CAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCA
* * * *
984049 TCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
65 TCTCTTTCCAAAGCCCACAGCTCAGTGGCACCTTTCCTTCTTAAAATCCACAACTCAGTGGC
*
984111 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
* * * *
984176 CTCTTTCCAAAGTCCAC-GACTCCGTGGCACCTTTTTCTT-TTCAAAATCCACAACTCCGTGGC
66 CTCTTTCCAAAGCCCACAG-CTCAGTGGCACC-TTTCCTTCTT-AAAATCCACAACTCAGTGGC
** * *
984238 A-CTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCA-TCTTT
984274 TTCCTTCTAA
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
125 1 0.01
126 112 0.78
127 31 0.22
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (126 bp):
ATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
CTCTTTCCAAAGCCCACAGCTCAGTGGCACCTTTCCTTCTTAAAATCCACAACTCAGTGGC
Found at i:984345 original size:27 final size:27
Alignment explanation
Indices: 984310--984485 Score: 145
Period size: 27 Copynumber: 6.0 Consensus size: 27
984300 CACTCTTTTT
*
984310 CCTTCTAAGTCCACAACTCCGTGGCACC
1 CCTT-TAAGCCCACAACTCCGTGGCACC
*
984338 CGTTTAAGCCCACAACTCCGTGGCACTC
1 CCTTTAAGCCCACAACTCCGTGGCAC-C
* *
984366 TTTTTCCTTCTAAGTCCATAACTCCGTGGCACC
1 -----CCTT-TAAGCCCACAACTCCGTGGCACC
* *
984399 CTTTTAAGCCCACAACTCCATGGCACTC
1 CCTTTAAGCCCACAACTCCGTGGCAC-C
*
984427 TTTTTCCTTCTAAGTCCACAACTCCGTGGCACC
1 -----CCTT-TAAGCCCACAACTCCGTGGCACC
*
984460 CTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTAAGCCCACAACTCCGTGGCAC
984486 TCTTTTTCCT
Statistics
Matches: 120, Mismatches: 14, Indels: 29
0.74 0.09 0.18
Matches are distributed among these distances:
27 61 0.51
28 11 0.09
33 8 0.07
34 40 0.33
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (27 bp):
CCTTTAAGCCCACAACTCCGTGGCACC
Found at i:984365 original size:61 final size:61
Alignment explanation
Indices: 984276--984792 Score: 586
Period size: 61 Copynumber: 8.0 Consensus size: 61
984266 CACTCTTTTT
* * *
984276 CCTTCTAAGCCTACAACTCCGTGTCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
* *
984337 CCGTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
*
984398 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
*
984459 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCTACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
984520 CTTTTTCTTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGG
1 C-----C--TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGG
984585 CAC
59 CAC
*
984588 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCCGTGG
1 C-----C-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGG
984653 CACTCTTTTCC
59 CA--------C
* * * * * * *
984664 CCTTTTAAAGTCCACAACCCCATGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTAGCAC
1 CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
* * * * *
984725 CTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGCCCAAAACTTCGTGGC
1 C--CTTTT--AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGC
984790 AC
60 AC
984792 C
1 C
984793 TTGTTCTTTT
Statistics
Matches: 404, Mismatches: 30, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
61 176 0.44
63 5 0.01
64 18 0.04
65 5 0.01
66 7 0.02
67 22 0.05
68 118 0.29
69 27 0.07
70 23 0.06
71 1 0.00
76 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
Found at i:984570 original size:68 final size:68
Alignment explanation
Indices: 984343--984828 Score: 589
Period size: 68 Copynumber: 7.4 Consensus size: 68
984333 GCACCCGTTT
*
984343 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCCGTGGCACC-----C-TT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
984402 TT-
66 TTA
*
984404 AAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-----C-TT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
984463 TT-
66 TTA
*
984465 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCTACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
*
984530 TTT
66 TTA
984533 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
984598 TTA
66 TTA
* * *
984601 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCCGTGGCACTCTTTTCCCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC-CTTTT-TCT
984666 TTTTA
64 TTTTA
* * * * * * *
984671 AAGTCCACAACCCCATGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTAGCACC---TTCTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
*
984732 TCA
66 TTA
* * * * * *
984735 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGCCCAAAACTTCGTGGCACCTTGTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACCTTTTTCT
984800 TTTT-
64 TTTTA
* *
984804 AAGTCCACAACTTCGTGGCA-TCTTT
1 AAGCCCACAACTCCGTGGCACTCTTT
984829 CACCCTTCTC
Statistics
Matches: 376, Mismatches: 34, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
61 113 0.30
64 22 0.06
65 6 0.02
66 7 0.02
67 21 0.06
68 126 0.34
69 50 0.13
70 31 0.08
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (68 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
TTA
Found at i:984875 original size:32 final size:32
Alignment explanation
Indices: 984834--984950 Score: 153
Period size: 32 Copynumber: 3.6 Consensus size: 32
984824 TCTTTCACCC
984834 TTCTCAAAGCCCACACAAGTCAGTGGCAACCTT
1 TTCT-AAAGCCCACACAAGTCAGTGGCAACCTT
** **
984867 TTCTAAAGCCCACACAAGTTGGTGGCAACCAG
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCTT
* *
984899 CTCTAAAGCCCACACAAGTCAGTGGCAATCTTT
1 TTCTAAAGCCCACACAAGTCAGTGGCAA-CCTT
*
984932 TTCAAAAGCCCACACAAGT
1 TTCTAAAGCCCACACAAGT
984951 TGGTGGCATC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 49 0.69
33 22 0.31
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (32 bp):
TTCTAAAGCCCACACAAGTCAGTGGCAACCTT
Found at i:985039 original size:139 final size:139
Alignment explanation
Indices: 984876--985148 Score: 492
Period size: 139 Copynumber: 2.0 Consensus size: 139
984866 TTTCTAAAGC
** *
984876 CCACACAAGTTGGTGGCAACCAGCTCTAAAGCCCACACAAGTCAGTGGCAATCTTTTTCAAAAGC
1 CCACACAAGTCAGTGGCAACCAGCTCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAGC
* *
984941 CCACACAAGTTGGTGGCATCTTCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
66 CCACACAAGTTGGTGGCATCTTCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACACTGGCA
985006 CCTTTAAGT
131 CCTTTAAGT
985015 CCACACAAGTCAGTGGCAACCAGCTCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAGC
1 CCACACAAGTCAGTGGCAACCAGCTCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAGC
*
985080 CCACACAAGTTGGTGGCATCTTCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATACTGGCA
66 CCACACAAGTTGGTGGCATCTTCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACACTGGCA
985145 CCTT
131 CCTT
985149 CATCTTTAAG
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (139 bp):
CCACACAAGTCAGTGGCAACCAGCTCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAGC
CCACACAAGTTGGTGGCATCTTCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACACTGGCA
CCTTTAAGT
Found at i:985084 original size:33 final size:32
Alignment explanation
Indices: 985015--985089 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
985005 ACCTTTAAGT
*
985015 CCACACAAGTCAGTGGCAACCAGCTCTAAAGC
1 CCACACAAGTCAGTGGCAACCAGCTCAAAAGC
***
985047 CCACACAAGTCAGTGGCAACCTTTTTCAAAAGC
1 CCACACAAGTCAGTGGCAACC-AGCTCAAAAGC
985080 CCACACAAGT
1 CCACACAAGT
985090 TGGTGGCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
32 21 0.55
33 17 0.45
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.16
Consensus pattern (32 bp):
CCACACAAGTCAGTGGCAACCAGCTCAAAAGC
Found at i:985259 original size:92 final size:92
Alignment explanation
Indices: 985102--985896 Score: 1455
Period size: 92 Copynumber: 8.6 Consensus size: 92
985092 GTGGCATCTT
* *
985102 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATACTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
985167 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
985194 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
985259 AGTTGTCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
985286 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
985351 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
985378 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGTATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
985443 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
985470 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
985535 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
985562 CCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
985627 AACTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
985654 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
985719 AGCTGGCCTTGAATTAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
985746 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
985811 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
985838 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
985897 TGTTAGGATT
Statistics
Matches: 676, Mismatches: 27, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 676 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:985841 original size:21 final size:20
Alignment explanation
Indices: 985817--985884 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
985807 ATGTAGCTGG
985817 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
985838 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
985859 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
985881 CCTT
1 CCTT
985885 CATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:986131 original size:21 final size:21
Alignment explanation
Indices: 986098--986138 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
986088 CTAAGTAAAA
986098 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
986119 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
986139 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:986203 original size:20 final size:19
Alignment explanation
Indices: 986178--986248 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
986168 ACCCTGAAAA
986178 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
986198 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
986217 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
986238 GTATCGATACA
1 GTATCGATACA
986249 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:986312 original size:53 final size:53
Alignment explanation
Indices: 986218--986354 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
986208 AAATTGCATA
*
986218 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
* *
986272 GTATCGATACACACAATATGTATCGATATAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
986325 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
986355 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 64 0.82
54 14 0.18
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:986414 original size:25 final size:24
Alignment explanation
Indices: 986386--986438 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
986376 TTTCACTGTT
986386 CATCACTACTGTTCATGTATCGATA
1 CATCACTACT-TTCATGTATCGATA
*
986411 CAT--C-ACTTTCATGTATTGATA
1 CATCACTACTTTCATGTATCGATA
986432 CATCACT
1 CATCACT
986439 GTTCACATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 16 0.67
22 3 0.12
23 2 0.08
25 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (24 bp):
CATCACTACTTTCATGTATCGATA
Found at i:986423 original size:21 final size:22
Alignment explanation
Indices: 986393--986443 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
986383 GTTCATCACT
986393 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
*
986415 ACT-TTCATGTATTGATACATC
1 ACTGTTCATGTATCGATACATC
986436 ACTGTTCA
1 ACTGTTCA
986444 CATTGTTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (22 bp):
ACTGTTCATGTATCGATACATC
Found at i:986522 original size:13 final size:13
Alignment explanation
Indices: 986504--986538 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
986494 TATTCATGTG
986504 TCGATACATTGTA
1 TCGATACATTGTA
*
986517 TCGATACAGTGTA
1 TCGATACATTGTA
986530 TCGATACAT
1 TCGATACAT
986539 CATAAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
TCGATACATTGTA
Found at i:986652 original size:20 final size:20
Alignment explanation
Indices: 986609--986652 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
986599 TTCAAATGCA
* **
986609 TGTATCGATACATTATAATT
1 TGTATCGATACATTAGAACG
*
986629 TGTATCGATACATTAGAGCG
1 TGTATCGATACATTAGAACG
986649 TGTA
1 TGTA
986653 AGTGCGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTAGAACG
Found at i:987369 original size:21 final size:20
Alignment explanation
Indices: 987345--987412 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
987335 ATGTAGCTGG
987345 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
987366 CCTTTAAGTC--CAATATTGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
987387 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
987409 CCTT
1 CCTT
987413 ATTCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:987391 original size:43 final size:43
Alignment explanation
Indices: 987328--987505 Score: 203
Period size: 43 Copynumber: 4.0 Consensus size: 43
987318 TGAGCTCACA
*
987328 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * *
987371 AAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTATTCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTT
* * * * *
987420 AAGTCCATTGTAGGTGGCTTTGAATCGGCACATTGGCACCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
987463 AAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
987506 TCCATCTTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 74 0.67
44 1 0.01
48 1 0.01
49 34 0.31
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:987489 original size:92 final size:92
Alignment explanation
Indices: 987328--987549 Score: 320
Period size: 92 Copynumber: 2.4 Consensus size: 92
987318 TGAGCTCACA
* *
987328 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTAGCCTTG
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTA
987393 AATCAGCATATTGGCACCTTATTCTTT
66 AATCAGCATATTGGCACCTTATTCTTT
* * * * *
987420 AAGTCCATTGTAGGTGGCTTTGAATCGGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTA
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTA
*
987485 AATCAGCATATTGGCACCTTTTCCATCTTT
66 AATCAGCATATTGGCACCTTAT---TCTTT
*
987515 ATGAT-CAATGTAGCTGGCCTTGAATCAGCACATTG
1 AAG-TCCAATGTAGCTGGCCTTGAATCAGCACATTG
987550 ACATCATTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 79 0.70
95 33 0.29
96 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (92 bp):
AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTA
AATCAGCATATTGGCACCTTATTCTTT
Found at i:987588 original size:55 final size:52
Alignment explanation
Indices: 987459--987596 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 52
987449 ACATTGGCAC
* * * *
987459 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGACCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* * * *
987511 CTTTATGATCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCTCAT
1 CTTTAAGACCAATATAGCTGGCCTTGAATCAGCACATTGACA-C-CTTTTC-CAT
* * * *
987566 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGACCAATATAGCTGGCCTTGAATCA
987597 ACATATTGGC
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
52 35 0.51
53 1 0.01
54 5 0.07
55 27 0.40
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTTAAGACCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:987670 original size:67 final size:68
Alignment explanation
Indices: 987562--987688 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
987552 ATCATTTTTC
* * *
987562 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
987626 TCT
66 TCT
* * * *
987629 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
987689 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:988479 original size:13 final size:13
Alignment explanation
Indices: 988461--988514 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 13
988451 AAAGTGTTGA
988461 ATCGATACAATGT
1 ATCGATACAATGT
988474 ATCGATACGTAAGTGTTGT
1 ATCGATAC--AA----TGT
988493 ATCGATACAATGT
1 ATCGATACAATGT
988506 ATCGATACA
1 ATCGATACA
988515 TAAGTTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 20 0.57
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:988497 original size:32 final size:32
Alignment explanation
Indices: 988438--988535 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
988428 TTCAACGATT
*
988438 TGTATCGATACATAAAGTGTTGAATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
988471 TGTATCGATACGTAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
988503 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
988535 T
1 T
988536 ATAAGCTACT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:988533 original size:19 final size:18
Alignment explanation
Indices: 988436--988533 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
988426 ATTTCAACGA
988436 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
988455 TGTTGAATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
988471 --TGTATCGATACGTAAG
1 TTTGTATCGATACATAAG
988487 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
988503 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
988519 TTTTGTATCGATACA
1 -TTTGTATCGATACA
988534 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 24 0.38
20 11 0.17
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:988644 original size:52 final size:52
Alignment explanation
Indices: 988580--988708 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
988570 CTCAAATGTT
988580 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
988632 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
988684 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
988709 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:992036 original size:26 final size:26
Alignment explanation
Indices: 991985--992040 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
991975 TTTGAGAAAG
***
991985 GGGGAGAAATTTTTATTTTGGCAAAA
1 GGGGAGAAATTTTTATTTTAAAAAAA
992011 GGGGAGAAATTTTT-TTTTAAAAAAA
1 GGGGAGAAATTTTTATTTTAAAAAAA
*
992036 AGGGA
1 GGGGA
992041 ACAAAATCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (26 bp):
GGGGAGAAATTTTTATTTTAAAAAAA
Found at i:992771 original size:19 final size:20
Alignment explanation
Indices: 992747--992801 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
992737 GTATCAATAC
*
992747 ATTGTATCGATACATGCT-T
1 ATTGTATCGATACATGCTCA
*
992766 ATTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
*
992786 ATTGTATCGAAACATG
1 ATTGTATCGATACATG
992802 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:992864 original size:13 final size:13
Alignment explanation
Indices: 992846--992875 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
992836 GATACATGGG
992846 ACATTGTATCGAT
1 ACATTGTATCGAT
992859 ACATTGTATCGAT
1 ACATTGTATCGAT
992872 ACAT
1 ACAT
992876 GAAGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:992872 original size:33 final size:33
Alignment explanation
Indices: 992830--992894 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
992820 CTAAATGAAA
*
992830 TGTATCGATACATG-GGACATTGTATCGATACAT
1 TGTATCGATACATGAAGA-ATTGTATCGATACAT
992863 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATGAAGAATTGTATCGATACA
992895 CTATGCCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTGTATCGATACAT
Found at i:995933 original size:79 final size:78
Alignment explanation
Indices: 995799--995983 Score: 205
Period size: 79 Copynumber: 2.4 Consensus size: 78
995789 AACGGGGCTA
*
995799 GAGTATCCCCGATTATGGAAAATCGATGTTCCAGAAATAAAATCGAGGTTAGAGTA-TCTCCTCG
1 GAGTATCCCCGATTATAGAAAATCGATGTTCCAGAAATAAAATCGAGGTTAGAGTATTC-CCTC-
*
995863 GAAATAATAGGGTTG
64 GAAATAACAGGGTTG
* ** *
995878 GAGTATCCCTGATTATAGAAAATCGGTAT-TTTGA-AAATAAAATCGAGGTTGGAGTATTCCCTC
1 GAGTATCCCCGATTATAGAAAATC-G-ATGTTCCAGAAATAAAATCGAGGTTAGAGTATTCCCTC
*
995941 GAAATAACGGGGTTG
64 GAAATAACAGGGTTG
* ** * *
995956 AAGTATTACCGATTGTAAAAAATCGATG
1 GAGTATCCCCGATTATAGAAAATCGATG
995984 ATTTAGAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
76 2 0.02
77 1 0.01
78 31 0.35
79 47 0.53
80 6 0.07
81 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
GAGTATCCCCGATTATAGAAAATCGATGTTCCAGAAATAAAATCGAGGTTAGAGTATTCCCTCGA
AATAACAGGGTTG
Found at i:996022 original size:51 final size:50
Alignment explanation
Indices: 995948--996066 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 50
995938 CTCGAAATAA
* * * *
995948 CGGGGTTGAAGTATTACCGATTGTAAAAAATCGATGA-TTTAGAAATAAGGT
1 CGGGGTTGAAGTA-TCCCAATTGTAAAAAATCAAT-ATTTTAGAAATAAAGT
* *
995999 CGGGGTTGAAGTATCCTCAATTGTGAGAAATCAATATTTTAGAAATAAAGT
1 CGGGGTTGAAGTATCC-CAATTGTAAAAAATCAATATTTTAGAAATAAAGT
*
996050 CGAGGTT-AGAGTATCCC
1 CGGGGTTGA-AGTATCCC
996067 CTTAGAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (50 bp):
CGGGGTTGAAGTATCCCAATTGTAAAAAATCAATATTTTAGAAATAAAGT
Found at i:996145 original size:51 final size:51
Alignment explanation
Indices: 996083--996197 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
996073 AATAACGGGA
*
996083 TTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTT-GAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGGA-AAATTGGTATTTTAG-AAATAAAATCGGAG
*
996134 TTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGG
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGAG
996185 TTGGAGTATCCCC
1 TTGGAGTATCCCC
996198 TTGGAAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 57 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGAG
Found at i:996223 original size:130 final size:129
Alignment explanation
Indices: 995874--996228 Score: 383
Period size: 130 Copynumber: 2.7 Consensus size: 129
995864 AAATAATAGG
* * *
995874 GTTGGAGTATCCCTGATTATAGAAAATCGGTATTTT-GAAAATAAAATCGAGGTTGGAGTATTCC
1 GTTGGAGTATCCCCGATTGT-GAAAATCGGTATTTTAG-AAATAAAATCGAGGTTGGAGTATCCC
* * * ** **
995938 C-TCGAAATAACGGGGTTGAAGTATTACCGATTGTAAAAAATCGATGATTTAGAAATAAGGTCGG
64 CTTAGAAATAACGGGATTGGAGTATCCCCGATTGTAAAAAATCGATGATTTAGAAATAAAATCGG
*
996002 G
129 A
* * * ** * *
996003 GTTGAAGTATCCTCAATTGTGAGAAATCAATATTTTAGAAATAAAGTCGAGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGA-AAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
* * * * *
996068 TTAGAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAATTGGTG-TTTTGAAAATAAAATCGG
65 TTAGAAATAACGGGATTGGAGTATCCCCGATTGTAAAAAATCGATGATTTAG-AAATAAAATCGG
996132 A
129 A
* *
996133 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGT-GAAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
* * * *
996198 TTGGAAATAACAGAATTGGAGTATCCTCGAT
65 TTAGAAATAACGGGATTGGAGTATCCCCGAT
996229 GAAATAACAG
Statistics
Matches: 185, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
128 2 0.01
129 54 0.29
130 127 0.69
131 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (129 bp):
GTTGGAGTATCCCCGATTGTGAAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
TAGAAATAACGGGATTGGAGTATCCCCGATTGTAAAAAATCGATGATTTAGAAATAAAATCGGA
Found at i:996256 original size:28 final size:29
Alignment explanation
Indices: 996182--996256 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
996172 AATAAAATCG
*
996182 GGGTTGGAGTATCCCC-TTGGAAATAACA
1 GGGTTGGAGTATCCCCGATGGAAATAACA
** *
996210 GAATTGGAGTATCCTCGAT-GAAATAACA
1 GGGTTGGAGTATCCCCGATGGAAATAACA
*
996238 GGGTTGGAGTACCCCCGAT
1 GGGTTGGAGTATCCCCGAT
996257 TATGAAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCGATGGAAATAACA
Found at i:996393 original size:51 final size:51
Alignment explanation
Indices: 996333--996501 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
996323 AAATAATAGG
* * *
996333 GTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAATCGGA
** * * *
996384 GTTGGAGTATCCCCGATTGCGGTAAAA-CGATGCTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-AAGAAAAATTGATGTTTTGA-AAATAAAATCGGA
* * *
996435 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAATCGGA
*
996485 GATTGGAGTATTCCCGA
1 G-TTGGAGTATCCCCGA
996502 GATGAAAAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
50 7 0.07
51 85 0.88
52 5 0.05
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAATCGGA
Found at i:998886 original size:20 final size:20
Alignment explanation
Indices: 998853--998909 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
998843 ATGTATCAAT
* *
998853 ACAATGTATTGATACAATGA
1 ACAATATATCGATACAATGA
*
998873 GCAATATATCGATACAATGA
1 ACAATATATCGATACAATGA
* *
998893 ATAATGTATCGATACAA
1 ACAATATATCGATACAA
998910 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
ACAATATATCGATACAATGA
Found at i:999748 original size:85 final size:83
Alignment explanation
Indices: 999621--999778 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 83
999611 AGTACATCCA
999621 GCTTTTCGAGGACAAAGGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAA-AGAAA
1 GCTTTTCGAGGACAAAGGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGAGAAA
999685 GAGGAAAACAAAGTGTCCT
66 -AGGAAAACAAAGTGTCCT
* * ** * *
999704 GCTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAG
1 GCTTTTCGAGGAC-AAA-GGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAA-GAG
999769 AAAAGGAAAA
63 AAAAGGAAAA
999779 GGCGTCCTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
83 12 0.18
84 3 0.05
85 38 0.58
86 7 0.11
87 5 0.08
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (83 bp):
GCTTTTCGAGGACAAAGGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGAGAAA
AGGAAAACAAAGTGTCCT
Found at i:999757 original size:45 final size:42
Alignment explanation
Indices: 999628--999777 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 42
999618 CCAGCTTTTC
* * *
999628 GAGGACAAAGGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTT
1 GAGGACAAAGGAAAAGAAGGAAATG-AATGTGTCCTGCTCTTT
* ** * *
999671 GAGGACAAAAG-AAAG-AGGAAAACAAAGTGTCCTGCTTTTT
1 GAGGACAAAGGAAAAGAAGGAAATGAATGTGTCCTGCTCTTT
*
999711 GAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCCTGCTCTTT
1 GAGGAC-AAA-GGAAAAGAAGGAAATGAA-TGTGTCCTGCTCTTT
*
999756 GAGGACAAAGGAGAA-AAGGAAA
1 GAGGACAAAGGAAAAGAAGGAAA
999778 AGGCGTCCTA
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
40 20 0.23
41 8 0.09
42 10 0.12
43 19 0.22
44 10 0.12
45 19 0.22
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (42 bp):
GAGGACAAAGGAAAAGAAGGAAATGAATGTGTCCTGCTCTTT
Found at i:999795 original size:38 final size:44
Alignment explanation
Indices: 999699--999804 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 44
999689 AAAACAAAGT
*
999699 GTCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAGTGT
1 GTCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGGAA-GAAGTGC
* *
999744 GTCCTGCTCTTTGAGGAC-AAA-GGAGAA-AA-GGAA-AAG-GC
1 GTCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGGAAGAAGTGC
*
999782 GTCCTACTTTTTGAGGACTAAAA
1 GTCCTGCTTTTTGAGGAC-AAAA
999805 AGTGCCACCA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
38 17 0.31
39 3 0.06
40 3 0.06
41 4 0.07
42 2 0.04
43 5 0.09
44 3 0.06
45 17 0.31
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (44 bp):
GTCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGGAAGAAGTGC
Found at i:999806 original size:85 final size:84
Alignment explanation
Indices: 999622--999804 Score: 214
Period size: 85 Copynumber: 2.2 Consensus size: 84
999612 GTACATCCAG
* * **
999622 CTTTTCGAGGAC-AAA-GGAAAAAAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAA
1 CTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAA
* *
999685 GAGGAAAACAAAGTGTCCTG
66 GAGG-AAACAAAGCGTCCTA
* *
999705 CTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGA
1 CTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAATGCGTCCTGCTCTTTGAGGACAAA--AGA
*
999770 AA-AGG-AA-AAGGCGTCCTA
64 AAGAGGAAACAAAGCGTCCTA
999788 CTTTTTGAGGACTAAAA
1 CTTTTTGAGGAC-AAAA
999805 AGTGCCACCA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
83 31 0.36
84 9 0.10
85 38 0.44
86 3 0.03
87 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (84 bp):
CTTTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAA
GAGGAAACAAAGCGTCCTA
Found at i:1000012 original size:122 final size:115
Alignment explanation
Indices: 999791--1000159 Score: 384
Period size: 122 Copynumber: 3.1 Consensus size: 115
999781 CGTCCTACTT
* **
999791 TTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGACTTTGAAAA-GAAAAGGCATCCTGCTCTTT
1 TTTGAGGACTAAAAAGTGCCACCAACTTGTGTGG-CTTT-AAAAGGAAAAGGTGTCCTGCTCTTT
*
999855 GAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATTC-TGCTC
64 GAGGACTGGAAGGTGCCACCAACTTGTGTGAGCTTT--AAA-AG---GCA-TCATGCTC
** * * *
999913 TTTGAGGACTGGAAGGTGCCACTAACTTGTGTGAGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTG
1 TTTGAGGACTAAAAAGTGCCACCAACTTGTGTG-GCTTTAAAAGGAAAAGGTGTCCTGCTCTTTG
999978 AGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTTAAAAGGCATCATGCTC
65 AGGACT-GGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGCATCATGCTC
* * * *
1000029 TTTGAAGACAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTGCTCTTT
1 TTTGAGGAC-TAAAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * * ** * * * *
1000094 GAGGACCAGAAAAGTGCCATTAACTTGTGTGGGCTTTAAAAGGCATCCTACGC
64 GAGGA-CTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGCATCATGCTC
*
1000147 TTTGAGGATTAAA
1 TTTGAGGACTAAA
1000160 GGGCGAAAGG
Statistics
Matches: 210, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
115 2 0.01
116 16 0.08
117 56 0.27
118 43 0.20
119 2 0.01
120 3 0.01
121 4 0.02
122 79 0.38
123 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (115 bp):
TTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGA
GGACTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGCATCATGCTC
Found at i:1000112 original size:62 final size:60
Alignment explanation
Indices: 999769--1000135 Score: 334
Period size: 61 Copynumber: 6.1 Consensus size: 60
999759 GACAAAGGAG
* * * *
999769 AAAAGGAAAAGGCGTCCTACTTTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGACTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGAC-AGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
999830 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * * *
999891 GCAAAGAGAAA-GCATTCTGCTCTTTGAGGACTGGAAGGTGCCACTAACTTGTGTGAGCTTT
1 -AAAAGA-AAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * ** *
999952 AAAAGGAGAAGGTGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGAGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1000013 -----AAAAGGCATCATGCTCTTTGAAGACAAAAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGAC-AGAAAAGTGCCACCAACTTGTGTGGGCTTT
* **
1000069 AAAAGAAAAAGGTGTCCTGCTCTTTGAGGACCAGAAAAGTGCCATTAACTTGTGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGA-CAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1000131 AAAAG
1 AAAAG
1000136 GCATCCTACG
Statistics
Matches: 254, Mismatches: 39, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
55 20 0.08
56 24 0.09
60 5 0.02
61 146 0.57
62 58 0.23
63 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTT
Done.