Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 17 of 52
Found at i:2642768 original size:3 final size:3
Alignment explanation
Indices: 2642760--2642797 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2642750 GTTAAACCTA
* *
2642760 AAT AAT AAT ACT AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2642798 AGCCTAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2646770 original size:13 final size:13
Alignment explanation
Indices: 2646752--2646777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2646742 TACAGCAAGT
2646752 ATGTATCGATACA
1 ATGTATCGATACA
2646765 ATGTATCGATACA
1 ATGTATCGATACA
2646778 CAAAAAATTG
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:2647823 original size:17 final size:17
Alignment explanation
Indices: 2647801--2647834 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2647791 TTGTTTGTTA
2647801 ATATGATGTT-AATTTTT
1 ATATGAT-TTCAATTTTT
2647818 ATATGATTTCAATTTTT
1 ATATGATTTCAATTTTT
2647835 TCATGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (17 bp):
ATATGATTTCAATTTTT
Found at i:2650640 original size:20 final size:19
Alignment explanation
Indices: 2650615--2650660 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2650605 TAAATTCACA
*
2650615 TTAAATTAGTTTTAAAAATT
1 TTAAATTA-TTTCAAAAATT
**
2650635 TTAAATTATTTCATGAATT
1 TTAAATTATTTCAAAAATT
2650654 TTAAATT
1 TTAAATT
2650661 TTTTTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TTAAATTATTTCAAAAATT
Found at i:2652627 original size:33 final size:32
Alignment explanation
Indices: 2652582--2652645 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
2652572 TTTGAAGCAA
2652582 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATATC--CATGTATCGATACAT
*
2652615 TGTATCGCTACAATATGCCATGTATCGATAC
1 TGTATCGATACAATAT-CCATGTATCGATAC
2652646 GAACAGTGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAATATCCATGTATCGATACAT
Found at i:2652733 original size:32 final size:33
Alignment explanation
Indices: 2652697--2652761 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
2652687 ATAATTGTGC
* *
2652697 ATGTATTGATACAATGAAT-ATGTATCAATACA
1 ATGTATCGATACAAAGAATAATGTATCAATACA
* *
2652729 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCAATACA
2652762 TCTGGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCAATACA
Found at i:2653693 original size:33 final size:33
Alignment explanation
Indices: 2653640--2653706 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
2653630 AAGTGCACTA
2653640 AAGTGCTCATCCATGCGCTGC-AAGAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCGAA-AGTGAAGTG
*
2653673 AAGTGCTCA-CTCATGTGCTGCGAAAGTGAAGTG
1 AAGTGCTCATC-CATGCGCTGCGAAAGTGAAGTG
2653706 A
1 A
2653707 TCAACTCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 28 0.90
34 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (33 bp):
AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
Found at i:2654295 original size:20 final size:20
Alignment explanation
Indices: 2654270--2654361 Score: 141
Period size: 20 Copynumber: 4.6 Consensus size: 20
2654260 AAATACCCAG
2654270 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2654290 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
2654310 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
2654330 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2654350 ATGTATCGATAC
1 ATGTATCGATAC
2654362 TGTCGCAACG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.02
20 62 0.97
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2655598 original size:122 final size:127
Alignment explanation
Indices: 2655372--2655878 Score: 421
Period size: 122 Copynumber: 3.9 Consensus size: 127
2655362 GATATTCTAG
* ** * *
2655372 AAATAAAAATCGGGGTTGGAGTATCCCTTC-GAAAATAATAGGGTTAGAGTATCCCTGATTAT-A
1 AAAT-AAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGA
* * * *
2655435 GAAAATTGATATTTTAAAAATAAAATC-AGAGTTGGAGTATCCCCGATTGTGGAAAATT-G-G-T
64 G-AAATTGATGTTTTAGAAATAAAATCGAGAGTTGAAATATCCCCGATTGTGGAAAATTGGTGTT
* * *
2655496 -AATAAAGTCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGA
* *
2655560 AATTGGTGTTTTAGAAATAAAATCGA-AGTTGAAATATCCCCGATTGTGGAGAATTGGTGTTTT
66 AATTGATGTTTTAGAAATAAAATCGAGAGTTGAAATATCCCCGATTGTGGAAAATTGGTG--TT
*
2655623 AAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGA
1 --AAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGA
* * * * * * * **
2655688 AAAATTAATGTTTTAGAAATAAAATCG-GGGTTGGAGTATCCCCTCGGAAATGACGG--GGTTGG
64 GAAATTGATGTTTTAGAAATAAAATCGAGAGTTGAAATAT-CCC-C-G-ATTG-TGGAAAATTGG
*
2655750 AGTAT
124 TGT-T
*** * *
2655755 CCCCTCGGAAATAACGGGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCGATT
1 -AAAT---AAA-ATCGGGGTTGGAGTATCCCCTCA-GAAATAACGGGGTTGGAGTATCCCCGATT
* * * * *
2655819 GTGAAAAATT-AGTGTTTTGGAAATAAAATCG-GAGTTGGAATATCCCCGATTGTGAAAAAT
60 ATGAGAAATTGA-TGTTTTAGAAATAAAATCGAGAGTTGAAATATCCCCGATTGTGGAAAAT
2655879 CAACGTTTTG
Statistics
Matches: 313, Mismatches: 44, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
122 95 0.30
123 8 0.03
124 1 0.00
127 1 0.00
130 91 0.29
131 8 0.03
132 4 0.01
133 7 0.02
134 11 0.04
135 87 0.28
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (127 bp):
AAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGA
AATTGATGTTTTAGAAATAAAATCGAGAGTTGAAATATCCCCGATTGTGGAAAATTGGTGTT
Found at i:2655649 original size:51 final size:51
Alignment explanation
Indices: 2655532--2655651 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
2655522 TCAGAAATAA
* *
2655532 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAAAAATAAAAC
** * *
2655583 CGAAGTTGAAATATCCCCGATTGTG-GAGAATTGGTGTTTTAAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAGA-AATTGGTGTTTTAAAAATAAAAC
2655634 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2655652 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 2 0.03
51 56 0.97
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAAAAATAAAAC
Found at i:2655708 original size:79 final size:79
Alignment explanation
Indices: 2655594--2655758 Score: 249
Period size: 79 Copynumber: 2.1 Consensus size: 79
2655584 GAAGTTGAAA
* * * **
2655594 TATCCCCGATTGTGGAGAATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
1 TATCCCCGATTATGAAAAATTAATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
2655659 TAACGGGGTTGGAG
66 TAACGGGGTTGGAG
* * *
2655673 TATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAA
1 TATCCCCGATTATGAAAAATTAATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
*
2655738 TGACGGGGTTGGAG
66 TAACGGGGTTGGAG
2655752 TATCCCC
1 TATCCCC
2655759 TCGGAAATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
TATCCCCGATTATGAAAAATTAATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
TAACGGGGTTGGAG
Found at i:2655746 original size:28 final size:28
Alignment explanation
Indices: 2655713--2655814 Score: 168
Period size: 28 Copynumber: 3.6 Consensus size: 28
2655703 GAAATAAAAT
*
2655713 CGGGGTTGGAGTATCCCCTCGGAAATGA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2655741 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
***
2655769 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2655797 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2655815 GATTGTGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:2655887 original size:51 final size:50
Alignment explanation
Indices: 2655799--2655929 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 50
2655789 TGAAATAACG
* ** * *
2655799 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAACGTTTTGAAAATAAAACC
* **
2655849 GGAGTTGGAATATCCCCGATTGTGAAAAATCAACGTTTTGAAAATGGAACC
1 GG-GTTGGAGTATCCCCGATTGTGAAAAATCAACGTTTTGAAAATAAAACC
*
2655900 GGGATTGGAGTATCCCCGAGT-TGAAAAATC
1 GGG-TTGGAGTATCCCCGATTGTGAAAAATC
2655930 TAAAAATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 12 0.17
51 57 0.83
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAACGTTTTGAAAATAAAACC
Found at i:2658842 original size:45 final size:42
Alignment explanation
Indices: 2658701--2658846 Score: 127
Period size: 42 Copynumber: 3.4 Consensus size: 42
2658691 AGCAAAAAAG
* *
2658701 AGTACGTCCTG-TTTTTAGAGGA-AAAAGGAAAAAAGGAAAATGAA
1 AGTACGTCCTGCTCTTTA-AGGACAAAA-GAAAGAA-GAAAAT-AA
* * *
2658745 A-TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAA
1 AGTACGTCCTGCTCTTTAAGGACAAAAGAAAGAAGAAAATAA
* * *
2658786 AGTGCGTCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGAGAATGA
1 AGTACGTCCTGCTCTTTAAGGACAAAA--G-AAAGAAGAAAATAA
*
2658831 AGTATGTCCTGCTCTT
1 AGTACGTCCTGCTCTT
2658847 CGAGGGCAAG
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
41 3 0.04
42 30 0.35
43 17 0.20
44 10 0.12
45 25 0.29
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (42 bp):
AGTACGTCCTGCTCTTTAAGGACAAAAGAAAGAAGAAAATAA
Found at i:2658883 original size:43 final size:42
Alignment explanation
Indices: 2658718--2658896 Score: 166
Period size: 42 Copynumber: 4.1 Consensus size: 42
2658708 CCTGTTTTTA
* * *
2658718 GAGGA-AAAAGGAAAAAAGGAAAATGAAATGCGTCCTGCTCTTT
1 GAGGACAAAAGG-GAAAAGGAAAAT-AAGTGTGTCCTGCTCTTT
*
2658761 GAGGACAAAA--GAAAGAGGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAAGGGAAA-AGGAAAAT-AAGTGTGTCCTGCTCTTT
* * * *
2658803 AAGGACAAAAGGGAAAAGAAGAGAATGAAGTATGTCCTGCTCTTC
1 GAGGACAAAAGGGAAAAG--GAAAAT-AAGTGTGTCCTGCTCTTT
* **
2658848 GAGGGCAAGGGGGAAAAGGAAAATAAGGTGTGTCCTGCTCTTT
1 GAGGACAAAAGGGAAAAGGAAAATAA-GTGTGTCCTGCTCTTT
2658891 GAGGAC
1 GAGGAC
2658897 TAGGAGGTGC
Statistics
Matches: 112, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 36 0.32
43 31 0.28
44 8 0.07
45 34 0.30
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.18
Consensus pattern (42 bp):
GAGGACAAAAGGGAAAAGGAAAATAAGTGTGTCCTGCTCTTT
Found at i:2659032 original size:61 final size:61
Alignment explanation
Indices: 2658879--2660135 Score: 1461
Period size: 61 Copynumber: 20.8 Consensus size: 61
2658869 AATAAGGTGT
* * *
2658879 GTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* ** * * *
2658939 GTCCTGTTCCCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2659000 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2659061 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
2659122 ATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
2659183 GTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2659244 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2659299 GTCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
2659354 GTCTTGCTCTTTAAGGACTA-AAGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAAAAAAGG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG----GAAAAGG
2659418 C
61 C
* * *
2659419 ATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGC
* *
2659481 GTCCTGCTCTTTGAGGACTA-AAGGTGCAACCAACTTGTGTGGGCTTTAAAA-GAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
2659540 GTCCTGCTCTTTGAGGACTAGAGGGTGCCACAAACTCGTGTGGGCTTTGAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
2659601 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* **
2659656 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTCGGCTTTAAAAATAAAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT---AA-AAGGAAAAGGC
* * * * * * * *
2659720 ATCCTGCTTTTTGAGGACTGGAGGGTGCCGCTAACTCGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
2659781 ATCTTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGC
* * * * * *
2659843 ATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2659903 ATCTTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
2659964 ATCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGAC
1 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGC
* * * ** *
2660028 GTCCTGCTCTTTGAGGACTA-TAGGTGCCACCAGCTTGTGTAGGCTTTAAAAAAAAAAGTC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * * *
2660088 ATCATGCTCTTTAAGAACTAAAAGGTGCCACCAACTCGTGTGAGCTTT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
2660136 GAAGAAAGGT
Statistics
Matches: 1039, Mismatches: 122, Indels: 71
0.84 0.10 0.06
Matches are distributed among these distances:
54 52 0.05
55 101 0.10
56 2 0.00
59 28 0.03
60 166 0.16
61 438 0.42
62 98 0.09
63 33 0.03
64 47 0.05
65 44 0.04
66 30 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:2659266 original size:26 final size:26
Alignment explanation
Indices: 2659237--2659325 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
2659227 CTTTAAAAGG
2659237 AAAAGGTGTCCTGCTCTTTGAGGACT
1 AAAAGGTGTCCTGCTCTTTGAGGACT
** * * *
2659263 AAAAGGTG-CCACCAACTTGTGTGGGCTTT
1 AAAAGGTGTCCTGC-TCTT-TGAGGAC--T
* *
2659292 GAAAGGTGTCCTGCTTTTTGAGGACT
1 AAAAGGTGTCCTGCTCTTTGAGGACT
2659318 AAAAGGTG
1 AAAAGGTG
2659326 CCACCAACTT
Statistics
Matches: 45, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 5 0.11
28 5 0.11
29 10 0.22
30 3 0.07
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (26 bp):
AAAAGGTGTCCTGCTCTTTGAGGACT
Found at i:2659299 original size:29 final size:29
Alignment explanation
Indices: 2659264--2659352 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
2659254 TTGAGGACTA
2659264 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTG
* ** * *
2659293 AAAGGTG--TCCTGCTT-TTTGAGGAC--TA
1 AAAGGTGCCACCAACTTGTGTG-GG-CTTTG
2659319 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTG
2659348 AAAGG
1 AAAGG
2659353 CGTCTTGCTC
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 11 0.26
27 8 0.19
28 8 0.19
29 16 0.37
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:2666475 original size:28 final size:28
Alignment explanation
Indices: 2666436--2666509 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
2666426 GTAATAAAGT
*
2666436 CGGGGTTAGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2666464 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
2666492 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2666510 GATTATGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:2666646 original size:28 final size:27
Alignment explanation
Indices: 2666546--2666645 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 27
2666536 ATAAAATCGA
*
2666546 GGTTGGAGTATCCCTTCGAAAATGAT-G
1 GGTTGGAGTATCCC-TCGAAAATAATGG
* *
2666573 GGTTGGAGTATCCCCTCAAAAATAACGG
1 GGTTGGAGTAT-CCCTCGAAAATAATGG
2666601 GGTTGGAGTATCCC-CGATGAAATAATGG
1 GGTTGGAGTATCCCTCGA--AAATAATGG
2666629 GGTTGGAGTAT-CCTCGA
1 GGTTGGAGTATCCCTCGA
2666646 TTGTGAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.03
27 24 0.38
28 37 0.59
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCTCGAAAATAATGG
Found at i:2666678 original size:134 final size:134
Alignment explanation
Indices: 2666438--2666686 Score: 376
Period size: 134 Copynumber: 1.9 Consensus size: 134
2666428 AATAAAGTCG
** **
2666438 GGGTTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAG
1 GGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAG
2666503 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-GAGGTTGGAGTATCCCTTCGAAA
66 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGA-GTTGGAGTATCCCTTCGAAA
2666567 ATGAT
130 ATGAT
* * *
2666572 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAATAATGGGGTTGGAG
1 GGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAG
* * *
2666637 TATCCTCGATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTGGA
66 TATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAATCGGAGTTGGA
2666687 ATATTCTCGA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 1 0.01
134 100 0.97
135 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (134 bp):
GGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAG
TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCTTCGAAAA
TGAT
Found at i:2670726 original size:13 final size:13
Alignment explanation
Indices: 2670708--2670733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2670698 ACATAAGTTC
2670708 TGTATCGATACAA
1 TGTATCGATACAA
2670721 TGTATCGATACAA
1 TGTATCGATACAA
2670734 AGCTACCTTG
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):
TGTATCGATACAA
Found at i:2674148 original size:17 final size:16
Alignment explanation
Indices: 2674095--2674164 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
2674085 AAAAATGCGT
*
2674095 GAAATGAAAAAAGTGCA
1 GAAATGAAAAAA-TGAA
* *
2674112 GAAGT-AAAAAATAAA
1 GAAATGAAAAAATGAA
* *
2674127 AAAATGAAAAAAATGAG
1 GAAATG-AAAAAATGAA
*
2674144 GAAATGAAGAAATGAA
1 GAAATGAAAAAATGAA
2674160 GAAAT
1 GAAAT
2674165 ACAGTATTCC
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
15 5 0.12
16 19 0.46
17 17 0.41
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (16 bp):
GAAATGAAAAAATGAA
Found at i:2674887 original size:112 final size:112
Alignment explanation
Indices: 2674686--2674901 Score: 281
Period size: 112 Copynumber: 1.9 Consensus size: 112
2674676 GACCTGAAAG
* * *
2674686 AACATCAAATTTGTCTGATTTTCAAAGAAATTCAGATTTTATAGAACCTGATCCATTCGTGCCTA
1 AACATCAAATTTATCTGATTTTCAAAGAAATTCAGATTTTATAGAACCTGATCCATTCATACCTA
* *
2674751 GGAAAATGGGGAATGTATTATATCAATTTTGAAAATTTTGAGCCAAT
66 GGAAAATGGGGAATGCATCATATCAATTTTGAAAATTTTGAGCCAAT
* * * * * *
2674798 AACATCACATTTATTTGATTTTCAAAGAAATTTATATTTTATACG-ATCTGATCCATTTATACCT
1 AACATCAAATTTATCTGATTTTCAAAGAAATTCAGATTTTATA-GAACCTGATCCATTCATACCT
* * * *
2674862 AGGAAAATGGGGCATGCATCCTATCAGTTTTGAAATTTTT
65 AGGAAAATGGGGAATGCATCATATCAATTTTGAAAATTTT
2674902 TATCCAACCA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
112 87 0.99
113 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (112 bp):
AACATCAAATTTATCTGATTTTCAAAGAAATTCAGATTTTATAGAACCTGATCCATTCATACCTA
GGAAAATGGGGAATGCATCATATCAATTTTGAAAATTTTGAGCCAAT
Found at i:2675559 original size:44 final size:43
Alignment explanation
Indices: 2675402--2675713 Score: 115
Period size: 44 Copynumber: 7.1 Consensus size: 43
2675392 TATCACACTG
* * * * *
2675402 GCATTTACATCATTTCATGTACATTTGCCCTTTTATTGATGCCT
1 GCATTTGCATTATTTCATGCACATTTGCAC-TTTATTGATGCTT
* * * * * *
2675446 GCAATTGCATTGTTTCGCT-CACATCTGCACTTTAGATGAT-ATT
1 GCATTTGCATTATTTC-ATGCACATTTGCACTTTA-TTGATGCTT
* * ***
2675489 AGTATTTGCATAATTTCATATGCATTTAGCACTTTATTGATGCTT
1 -GCATTTGCATTATTTCATGCACATTT-GCACTTTATTGATGCTT
*
2675534 GCATTTGCATTATTTCATGCACATTTG---TATATTAGATGACATT
1 GCATTTGCATTATTTCATGCACATTTGCACTTTATT-GATG-C-TT
* * *
2675577 GGCATTTGCATCATTTCAAATG--CATGTGCCCTTCTTATTGATGCTT
1 -GCATTTGCATTATTTC--ATGCACATTTGCAC-T-TTATTGATGCTT
* * * * * * *
2675623 ACATTTGCATCATTACACGCACATCTGTAC-TT-TGGATGACATT
1 GCATTTGCATTATTTCATGCACATTTGCACTTTATTGATG-C-TT
* * ***
2675666 GGTATTTGCATCA-TTCATATGCA-TTGCACTTTATTGATGCTT
1 -GCATTTGCATTATTTCATGCACATTTGCACTTTATTGATGCTT
2675708 GCATTT
1 GCATTT
2675714 ACATCACCTC
Statistics
Matches: 196, Mismatches: 48, Indels: 51
0.66 0.16 0.17
Matches are distributed among these distances:
40 5 0.03
41 14 0.07
42 10 0.05
43 21 0.11
44 100 0.51
45 31 0.16
46 5 0.03
47 1 0.01
48 5 0.03
49 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (43 bp):
GCATTTGCATTATTTCATGCACATTTGCACTTTATTGATGCTT
Found at i:2675569 original size:88 final size:87
Alignment explanation
Indices: 2675404--2675713 Score: 340
Period size: 88 Copynumber: 3.5 Consensus size: 87
2675394 TCACACTGGC
* * * * * * * *
2675404 ATTTACATCATTTCATGTACATTTGCCCTTTTATTGATGCCTGCAATTGCATTGTTTCGCT-CAC
1 ATTTGCATCATTTCATATGCATTTGCAC-TTTATTGATGCTTGCATTTGCATTATTTC-ATGCAC
* * *
2675468 ATCTGCACTTTAGATGATATTAGT
64 ATCTGTACTTTAGATGACATTGGT
*
2675492 ATTTGCATAATTTCATATGCATTTAGCACTTTATTGATGCTTGCATTTGCATTATTTCATGCACA
1 ATTTGCATCATTTCATATGCATTT-GCACTTTATTGATGCTTGCATTTGCATTATTTCATGCACA
* *
2675557 TTTGTA-TATTAGATGACATTGGC
65 TCTGTACT-TTAGATGACATTGGT
* * * * * * *
2675580 ATTTGCATCATTTCAAATGCATGTGCCCTTCTTATTGATGCTTACATTTGCATCATTACACGCAC
1 ATTTGCATCATTTCATATGCATTTGCAC-T-TTATTGATGCTTGCATTTGCATTATTTCATGCAC
*
2675645 ATCTGTACTTTGGATGACATTGGT
64 ATCTGTACTTTAGATGACATTGGT
2675669 ATTTGCATCA-TTCATATGCA-TTGCACTTTATTGATGCTTGCATTT
1 ATTTGCATCATTTCATATGCATTTGCACTTTATTGATGCTTGCATTT
2675714 ACATCACCTC
Statistics
Matches: 187, Mismatches: 29, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
85 17 0.09
86 1 0.01
87 9 0.05
88 97 0.52
89 62 0.33
90 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (87 bp):
ATTTGCATCATTTCATATGCATTTGCACTTTATTGATGCTTGCATTTGCATTATTTCATGCACAT
CTGTACTTTAGATGACATTGGT
Found at i:2676565 original size:20 final size:20
Alignment explanation
Indices: 2676520--2676575 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
2676510 TGTATCGATA
**
2676520 AATTGTATCGATACATGTTC
1 AATTGTATCGATACATGCAC
2676540 -ATTGTATCGATACATGCAC
1 AATTGTATCGATACATGCAC
2676559 AATTGTATCGATACATG
1 AATTGTATCGATACATG
2676576 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
AATTGTATCGATACATGCAC
Found at i:2676624 original size:20 final size:20
Alignment explanation
Indices: 2676599--2676636 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2676589 CTACCTTACC
2676599 ACTGTTTATAACGATACATG
1 ACTGTTTATAACGATACATG
*
2676619 ACTGTTTATATCGATACA
1 ACTGTTTATAACGATACA
2676637 ATGTATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
ACTGTTTATAACGATACATG
Found at i:2677290 original size:33 final size:33
Alignment explanation
Indices: 2677253--2677319 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2677243 TTCAACGATT
2677253 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2677286 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2677319 T
1 T
2677320 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2677291 original size:13 final size:13
Alignment explanation
Indices: 2677273--2677297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2677263 CATAAAATGT
2677273 TGTATCGATACAA
1 TGTATCGATACAA
2677286 TGTATCGATACA
1 TGTATCGATACA
2677298 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2677378 original size:13 final size:13
Alignment explanation
Indices: 2677360--2677384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2677350 ATTACTCAAA
2677360 TGTATCGATACAT
1 TGTATCGATACAT
2677373 TGTATCGATACA
1 TGTATCGATACA
2677385 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:2677486 original size:52 final size:52
Alignment explanation
Indices: 2677393--2677516 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
2677383 CACTGATCTT
*
2677393 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2677444 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2677496 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2677517 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2681931 original size:13 final size:13
Alignment explanation
Indices: 2681913--2681938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2681903 AATTTTTTTG
2681913 TGTATCGATACAT
1 TGTATCGATACAT
2681926 TGTATCGATACAT
1 TGTATCGATACAT
2681939 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2682677 original size:21 final size:21
Alignment explanation
Indices: 2682636--2682679 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2682626 CTCCCCTTTA
* *
2682636 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2682657 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2682678 TC
1 TC
2682680 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2687662 original size:1 final size:1
Alignment explanation
Indices: 2687656--2687738 Score: 67
Period size: 1 Copynumber: 83.0 Consensus size: 1
2687646 CGTCCTCCAC
* * * * * * * * *
2687656 AAAAAAAAACAAAAAAACAACAAAACAAAAAATAATAAAAAAATAAAAAAAAAAAACAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
2687721 AAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAA
2687739 GGGGTCCGGA
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:2687671 original size:8 final size:8
Alignment explanation
Indices: 2687658--2687738 Score: 76
Period size: 8 Copynumber: 9.9 Consensus size: 8
2687648 TCCTCCACAA
2687658 AAAAAAAC
1 AAAAAAAC
2687666 AAAAAAAC
1 AAAAAAAC
*
2687674 AACAAAAC
1 AAAAAAAC
*
2687682 AAAAAATAAT
1 -AAAAA-AAC
*
2687692 AAAAAAATA
1 AAAAAAA-C
*
2687701 AAAAAAAA
1 AAAAAAAC
2687709 AAACAAAAC
1 AAA-AAAAC
2687718 AAAAAAAC
1 AAAAAAAC
2687726 --AAAAAC
1 AAAAAAAC
2687732 AAAAAAA
1 AAAAAAA
2687739 GGGGTCCGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
6 6 0.10
8 31 0.50
9 23 0.37
10 2 0.03
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2687683 original size:26 final size:25
Alignment explanation
Indices: 2687654--2687738 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
2687644 GGCGTCCTCC
2687654 ACAAAAAAAAACAAAAAAACAACAAA
1 ACAAAAAAAAACAAAAAAACAA-AAA
* * *
2687680 ACAAAAAATAATAAAAAAATAAAAA
1 ACAAAAAAAAACAAAAAAACAAAAA
*
2687705 AAAAAAACAAAACAAAAAAAC-AAAA
1 ACAAAAA-AAAACAAAAAAACAAAAA
2687730 ACAAAAAAA
1 ACAAAAAAA
2687739 GGGGTCCGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.04
25 19 0.38
26 29 0.58
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.04
Consensus pattern (25 bp):
ACAAAAAAAAACAAAAAAACAAAAA
Found at i:2689236 original size:30 final size:29
Alignment explanation
Indices: 2689175--2689454 Score: 268
Period size: 28 Copynumber: 9.6 Consensus size: 29
2689165 TTCCTCACCC
2689175 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATC-TT
2689205 TTC-AAAGCCCACAAGTCAGTGGCATCTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATC---TT
* *
2689236 TTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
* * * *
2689266 TTCAAAAGCCCACAAATCGGTGGCAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* * *
2689294 TTC-AAAGCCCATAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
* *
2689323 TTCAAAAGCCCATAAGTTAGTGGCATCTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--TCTT
* *
2689354 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* *
2689383 TT-AAAAGCCTATAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGC-ATCTT
* *
2689411 TT-AAAAGCCCACAAGTCAGTGGCAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
*
2689438 TTCAAAAGCACACAAGT
1 TTCAAAAGCCCACAAGT
2689455 TGATGCAATC
Statistics
Matches: 214, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
27 23 0.11
28 58 0.27
29 33 0.15
30 46 0.21
31 33 0.15
32 20 0.09
33 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTT
Found at i:2689571 original size:52 final size:50
Alignment explanation
Indices: 2689502--2689691 Score: 223
Period size: 52 Copynumber: 3.9 Consensus size: 50
2689492 CGTCTTCTTC
* *
2689502 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
2689554 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
2689598 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
* *
2689649 TATGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
2689692 CATCTTTAAC
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
43 36 0.31
46 2 0.02
47 2 0.02
50 2 0.02
52 75 0.64
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:2689616 original size:43 final size:44
Alignment explanation
Indices: 2689554--2689690 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 44
2689544 TTGGTACCTT
* *
2689554 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCC
* *
2689598 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TCC
* *
2689648 TTATGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCT
1 -TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
2689691 TCATCTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
43 34 0.45
44 1 0.01
45 1 0.01
46 1 0.01
49 1 0.01
50 3 0.04
51 1 0.01
52 34 0.45
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (44 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:2689666 original size:95 final size:95
Alignment explanation
Indices: 2689503--2689690 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
2689493 GTCTTCTTCT
*
2689503 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
2689568 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
* *
2689598 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTATGTCCTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATAT
*
2689661 CGCTGGCCTTGAATCAGCACATTGGCACCT
64 AGCTGGCCTTGAATCAGCACATTGGCACCT
2689691 TCATCTTTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
94 2 0.02
95 83 0.95
96 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:2690541 original size:13 final size:13
Alignment explanation
Indices: 2690523--2690547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2690513 CATAAAGTGT
2690523 TGTATCGATACAA
1 TGTATCGATACAA
2690536 TGTATCGATACA
1 TGTATCGATACA
2690548 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2690628 original size:13 final size:13
Alignment explanation
Indices: 2690610--2690634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2690600 ATCACTTAAA
2690610 TGTATCGATACAT
1 TGTATCGATACAT
2690623 TGTATCGATACA
1 TGTATCGATACA
2690635 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:2690699 original size:52 final size:52
Alignment explanation
Indices: 2690643--2690771 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2690633 CACTGATCTT
* *
2690643 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
**
2690695 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
2690747 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2690772 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:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:2694596 original size:15 final size:15
Alignment explanation
Indices: 2694576--2694606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2694566 ATTTTGTTTG
*
2694576 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2694591 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2694606 G
1 G
2694607 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2696457 original size:21 final size:21
Alignment explanation
Indices: 2696410--2696454 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2696400 AAGTTTTCAT
2696410 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
2696430 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
2696452 TTT
1 TTT
2696455 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:2698689 original size:13 final size:13
Alignment explanation
Indices: 2698671--2698696 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2698661 AATTTTTTTG
2698671 TGTATCGATACAT
1 TGTATCGATACAT
2698684 TGTATCGATACAT
1 TGTATCGATACAT
2698697 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2699706 original size:3 final size:3
Alignment explanation
Indices: 2699692--2699722 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2699682 CATCAAAGAC
*
2699692 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2699723 CTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2704327 original size:49 final size:50
Alignment explanation
Indices: 2704204--2704337 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
2704194 TTTCACAATT
* * ** *
2704204 TGTATCGATACATTGTTCATTGTATCGATACATTATGGGTTTTACTTAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAAA
2704254 TGTATCGATACATTATTCATTGTATCGATACATTCTGGG-TTTACCCAAA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAAA
* *
2704303 TGTATCGATACAGTT-TTCAATGTATTGATACATTC
1 TGTATCGATACA-TTATTCATTGTATCGATACATTC
2704338 AGGAATTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
49 37 0.49
50 39 0.51
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAAA
Found at i:2706659 original size:20 final size:20
Alignment explanation
Indices: 2706626--2706697 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
2706616 TACCCAGATA
*
2706626 TATCGATACATTGTTCATTG
1 TATCGATACATTGTTTATTG
* * *
2706646 TATTGATACGTTGTTTATTA
1 TATCGATACATTGTTTATTG
2706666 TATCGATACATTGTTTATTG
1 TATCGATACATTGTTTATTG
2706686 TATCGATACATT
1 TATCGATACATT
2706698 ATATCGATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (20 bp):
TATCGATACATTGTTTATTG
Found at i:2706704 original size:13 final size:13
Alignment explanation
Indices: 2706686--2706710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2706676 TTGTTTATTG
2706686 TATCGATACATTA
1 TATCGATACATTA
2706699 TATCGATACATT
1 TATCGATACATT
2706711 CTGGGTTTGC
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2709186 original size:51 final size:52
Alignment explanation
Indices: 2709124--2709237 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 52
2709114 TATTTTCGAG
*
2709124 GGGATAGTCCAAAC-CCAATTTTA-TTTCTAAAACACCAA-TTTTCTACAATCA
1 GGGATACTCCAAACTCCAATTTTATTTTC-AAAACACCAATTTTTC-ACAATCA
** *
2709175 GGGATACTCC-AACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATTA
1 GGGATACTCCAAACTCCAATTTTATTTTCAAAACACCAATTTTTCACAATCA
2709226 GGGATACTCCAA
1 GGGATACTCCAA
2709238 CCCCGTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 3 0.05
51 42 0.76
52 10 0.18
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAAACTCCAATTTTATTTTCAAAACACCAATTTTTCACAATCA
Found at i:2709238 original size:51 final size:51
Alignment explanation
Indices: 2709141--2709238 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
2709131 TCCAAACCCA
2709141 ATTTTATTTCTAAAACACCAATTTTCTACAATCAGGGATACTCCAACTCTG
1 ATTTTATTTCTAAAACACCAATTTTCTACAATCAGGGATACTCCAACTCTG
*
2709192 ATTTTATTT-TCAAAACACCAATTTT-TCACAATTAGGGATACTCCAAC
1 ATTTTATTTCT-AAAACACCAATTTTCT-ACAATCAGGGATACTCCAAC
2709239 CCCGTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (51 bp):
ATTTTATTTCTAAAACACCAATTTTCTACAATCAGGGATACTCCAACTCTG
Found at i:2709258 original size:28 final size:27
Alignment explanation
Indices: 2709225--2709297 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
2709215 TTTCACAATT
2709225 AGGGATACTCCAACCCCGTTATTTCATCG
1 AGGGATACTCCAACCCCGTTATTTC-T-G
*
2709254 -GGGATACTCCAACCCTGTTATTTCTG
1 AGGGATACTCCAACCCCGTTATTTCTG
2709280 AGGGAATACTCCAACCCC
1 AGGG-ATACTCCAACCCC
2709298 AACTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 35 0.88
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (27 bp):
AGGGATACTCCAACCCCGTTATTTCTG
Found at i:2709383 original size:51 final size:51
Alignment explanation
Indices: 2709285--2709397 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
2709275 TTCTGAGGGA
* * **
2709285 ATACTCCAACCCCAACTTTATTTCTAAAATATCGATTTCTCACAATCGGGG
1 ATACTCCAACCCCAACCTTATTTCTAAAACATCGATTTCTCACAATCGAAG
* * *
2709336 ATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTT-TCCATAATCGAAG
1 ATACTCCAACCCCAACCTTATTTCTAAAACATCGATTTCT-CACAATCGAAG
*
2709387 ATACTCTAACC
1 ATACTCCAACC
2709398 TCGTTATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 52 0.98
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (51 bp):
ATACTCCAACCCCAACCTTATTTCTAAAACATCGATTTCTCACAATCGAAG
Found at i:2709390 original size:158 final size:158
Alignment explanation
Indices: 2709098--2709406 Score: 347
Period size: 158 Copynumber: 2.0 Consensus size: 158
2709088 CATAATGAGA
* * * * *
2709098 GATACTCTAATCCTGTTATTTTCGAGGGGATAGTCCAAACCCAATTTTATTTCTAAAACACCAAT
1 GATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAAACCCAACTTTATTTCTAAAACACCAAT
* * ** * * *
2709163 TTTCTACAATCAGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATTAGG
66 TTTCTACAATCAGGGATACTCCAACCCCGACCTTATTTTCAAAACACCAATTTTCCACAATGAGA
2709228 GATACTCCAACCCCGTTATTTCATCGGG
131 GATACTCCAACCCCGTTATTTCATCGGG
* * * *
2709256 GATACTCCAACCCTGTTA-TTTCTGAGGGAATACTCCAACCCCAACTTTATTTCTAAAATATCGA
1 GATACTCCAACCCTGTTATTTTC-GAGGGAATACTCCAAACCCAACTTTATTTCTAAAACACCAA
* * * * *
2709320 -TTTCTCACAATCGGGGATACTCCAACCCCGACCTTA-TTTCTAAAGCATCGATTTTCCATAATC
65 TTTTCT-ACAATCAGGGATACTCCAACCCCGACCTTATTTTC-AAAACACCAATTTTCCACAAT-
* *
2709383 GA-AGATACTCTAACCTCGTTATTT
127 GAGAGATACTCCAACCCCGTTATTT
2709407 TTGAAGGGAT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
157 13 0.10
158 110 0.89
159 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (158 bp):
GATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAAACCCAACTTTATTTCTAAAACACCAAT
TTTCTACAATCAGGGATACTCCAACCCCGACCTTATTTTCAAAACACCAATTTTCCACAATGAGA
GATACTCCAACCCCGTTATTTCATCGGG
Found at i:2709545 original size:78 final size:78
Alignment explanation
Indices: 2709334--2709559 Score: 267
Period size: 79 Copynumber: 2.9 Consensus size: 78
2709324 TCACAATCGG
* ** *
2709334 GGATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTCCATAATCGAAGATACTCTAA-CC
1 GGATACTCCAACCCCGACTTTATTTCTAAA-CATCGATTTTCCATAATCGGGGATACTCCAACCC
* *
2709398 TCGTTATTTTTGAAG
65 T-GTTATTTCTGAAA
* * * * * * *
2709413 GGATACTCTAACCTCGATTTTATTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAACCC
1 GGATACTCCAACCCCGACTTTA-TTTCTAAACATCGATTTTCCATAATCGGGGATACTCCAACCC
2709478 TGTTATTTCTGAAA
65 TGTTATTTCTGAAA
* *
2709492 GGATACTCCAACCCCTA-TTTATTTCTAGAACATCGATTTTCCATAATCGGGGATACTCCAGCCC
1 GGATACTCCAACCCCGACTTTATTTCTA-AACATCGATTTTCCATAATCGGGGATACTCCAACCC
2709556 TGTT
65 TGTT
2709560 TTTATTCCCA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 5 0.04
78 40 0.33
79 68 0.55
80 10 0.08
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCCGACTTTATTTCTAAACATCGATTTTCCATAATCGGGGATACTCCAACCCT
GTTATTTCTGAAA
Found at i:2712354 original size:79 final size:79
Alignment explanation
Indices: 2712218--2712387 Score: 223
Period size: 79 Copynumber: 2.2 Consensus size: 79
2712208 ACGACGAGGC
* * * * * *
2712218 TGGAGTACCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCAGGGTTAGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCAGTGTTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTC
**
2712283 GGAAATAACAGGGT
66 AAAAATAACAGGGT
* * *
2712297 TGGAGTATCCCTAATTATAGAAAATTAGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTAATTATAGAAAATCAGTGTTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTC
**
2712362 AAAAATAATGGGGT
66 AAAAATAACAGGGT
2712376 TGGAGTATCCCT
1 TGGAGTATCCCT
2712388 GTGAAAATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCAGTGTTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTC
AAAAATAACAGGGT
Found at i:2712378 original size:28 final size:29
Alignment explanation
Indices: 2712344--2712415 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 29
2712334 AATAAAATCA
*
2712344 GGGTTGGAGTATCCCCT-CAAAAATAATG
1 GGGTTGGAGTATCCCCTGCAAAAATAACG
**
2712372 GGGTTGGAGTAT-CCCTGTGAAAATAACG
1 GGGTTGGAGTATCCCCTGCAAAAATAACG
2712400 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2712416 GATTGTGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.10
28 32 0.82
29 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCTGCAAAAATAACG
Found at i:2712455 original size:107 final size:107
Alignment explanation
Indices: 2712265--2712465 Score: 246
Period size: 107 Copynumber: 1.9 Consensus size: 107
2712255 AATAAAATCA
* * * * *
2712265 GGGTTAGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATCCCTAATTATAGAAAATTAGTGTTT
1 GGGTTAGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTT
*
2712330 TGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAATG
66 TGAAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAATG
* * * *
2712372 GGGTTGGAGTAT-CCCTGTGAAAATAACGGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATAT
1 GGGTTAGAGTATCCCCT-TGAAAATAACAGGGTTGGAGTATCCCCAATTATAGA-AAATCAATAT
* *
2712435 TTT-AGGAATAAAACCGGGGTTGGAGTATCCC
64 TTTGA-AAATAAAACCAGGGTTGGAGTATCCC
2712466 GGAGTGTGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
106 7 0.09
107 72 0.91
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (107 bp):
GGGTTAGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTT
TGAAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAATG
Found at i:2712464 original size:51 final size:51
Alignment explanation
Indices: 2712398--2712497 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
2712388 GTGAAAATAA
*
2712398 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAAC
1 CGGGGTTGGAGTATCCCCGAGTGTGAGAAATCAATATTTTAGGAATAAAAC
*
2712449 CGGGGTTGGAGTATCCCGGAGTGTGAGAAATCAATATTTTAGGAATAAA
1 CGGGGTTGGAGTATCCCCGAGTGTGAGAAATCAATATTTTAGGAATAAA
2712498 GCAAGGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGAGTGTGAGAAATCAATATTTTAGGAATAAAAC
Found at i:2712630 original size:79 final size:79
Alignment explanation
Indices: 2712449--2712676 Score: 339
Period size: 79 Copynumber: 2.9 Consensus size: 79
2712439 GGAATAAAAC
* * * * *
2712449 CGGGGTTGGAGTATCCCGGAGTGTGAGAAATCAATATTTTAGGAATAAAGCAAGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC-CGGGGTTGGAGTA
* *
2712514 TTCCCTCGGAAATTA
65 TCCCCTCGGAAATAA
* *
2712529 CAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
2712594 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
2712608 CGGGGTTGGAATATTCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
2712673 CCCC
66 CCCC
2712677 GATTATGAAA
Statistics
Matches: 134, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 88 0.66
80 46 0.34
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2712667 original size:51 final size:51
Alignment explanation
Indices: 2712608--2712726 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
2712598 TCGGAAATAA
* * * *
2712608 CGGGGTTGGAATATTCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGC
1 CGGGGTTGGAATATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGC
* *
2712659 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGC
1 CGGGGTTGGAATATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGC
*
2712710 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAATATCCC
2712727 TTCGAAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAATATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGC
Found at i:2712706 original size:130 final size:130
Alignment explanation
Indices: 2712531--2712804 Score: 435
Period size: 130 Copynumber: 2.1 Consensus size: 130
2712521 GGAAATTACA
* *
2712531 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * *
2712596 CCTCGGAAATAACGGGGTTGGAA-TAT-TCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGC
66 CCTCGAAAATAACGGGGTT-AAAGTATCTCC-GATTATGAGAAATCAATATTTTAGAAATAAAGC
2712659 CG
129 CG
* *
2712661 GGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
2712726 CTTCGAAAATAACGGGGTTAAAGTATCTCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCG
66 CCTCGAAAATAACGGGGTTAAAGTATCTCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCG
2712791 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
2712805 GCTCGGAAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 2 0.02
130 128 0.96
131 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (130 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAACGGGGTTAAAGTATCTCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCG
Found at i:2712742 original size:79 final size:79
Alignment explanation
Indices: 2712659--2712833 Score: 289
Period size: 79 Copynumber: 2.2 Consensus size: 79
2712649 GAAATAAAGC
*
2712659 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
2712724 CC-CTTCGAAAATAA
66 CCGC-TCGAAAATAA
* * *
2712738 CGGGGTTAAAGTATCTCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
*
2712803 CCGCTCGGAAATAA
66 CCGCTCGAAAATAA
2712817 CGGGGTTAGAGTATCCC
1 CGGGGTTAGAGTATCCC
2712834 GATGATTAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 87 0.99
80 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
CCGCTCGAAAATAA
Found at i:2712828 original size:28 final size:25
Alignment explanation
Indices: 2712789--2712858 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
2712779 GGAATAAAGC
* *
2712789 CGGGGTTGGAGTATCCGCTCGGAAATAA
1 CGGGGTTAGAGTATCCGAT--G-AATAA
*
2712817 CGGGGTTAGAGTATCCCGATGATTAA
1 CGGGGTTAGAGTAT-CCGATGAATAA
2712843 CGGGGTTAGAGTATCC
1 CGGGGTTAGAGTATCC
2712859 CCGATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 2 0.05
26 18 0.47
27 1 0.03
28 13 0.34
29 4 0.11
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.24
Consensus pattern (25 bp):
CGGGGTTAGAGTATCCGATGAATAA
Found at i:2712954 original size:51 final size:51
Alignment explanation
Indices: 2712843--2713081 Score: 262
Period size: 51 Copynumber: 4.6 Consensus size: 51
2712833 CGATGATTAA
* * * ** *
2712843 CGGGGTTAGAGTATCCCCGATTGTGAAAAAATGGTGTTTTTGGAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGGTG-TTTTAAAAATAAAAC
* * * * * *
2712895 CGGAGTTGGAGTATCCTCGATTATAGAAAATTGGTATTTTAAAAATAACAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAAC
* ** *
2712946 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTCGAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAAC
* * * *
2712997 CGGAGTTAGAGTGTCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAAC
* *
2713048 CGGGGTTAGAGTACCCCCCGATTATGAAAAATTG
1 CGGGGTTAGAGTA-TCCCCGATTATGGAAAATTG
2713082 AGAAACTTAA
Statistics
Matches: 153, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
51 108 0.71
52 45 0.29
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAAC
Found at i:2713026 original size:102 final size:103
Alignment explanation
Indices: 2712843--2713081 Score: 327
Period size: 102 Copynumber: 2.3 Consensus size: 103
2712833 CGATGATTAA
* * * * *
2712843 CGGGGTTAGAGTATCCCCGATTGTGAAAAAATGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTAGAGTA
* * *
2712908 TCCTCGATTATAGAAAATTGGTATTTTAAAAATAACAC
66 TCCCCGATTATAGAAAATTAGTATTTTAAAAATAAAAC
* * *
2712946 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTG-TTTCGAAAATAAAATCGGAGTTAGAGTG
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTAGAGTA
* * *
2713010 TCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
66 TCCCCGATTATAGAAAATTAGTATTTTAAAAATAAAAC
*
2713048 CGGGGTTAGAGTACCCCCCGATTATGAAAAATTG
1 CGGGGTTAGAGTA-TCCCCGATTATGAAAAATTG
2713082 AGAAACTTAA
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
102 68 0.58
103 50 0.42
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (103 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTAGAGTA
TCCCCGATTATAGAAAATTAGTATTTTAAAAATAAAAC
Found at i:2715393 original size:20 final size:20
Alignment explanation
Indices: 2715368--2715461 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
2715358 AAAATGCCCG
*
2715368 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
2715388 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
2715408 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
* *
2715428 GATGTACCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
*
2715448 AATGTAACGATACA
1 AATGTATCGATACA
2715462 TCTGGGTAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 63 0.97
21 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:2718013 original size:19 final size:20
Alignment explanation
Indices: 2717989--2718042 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2717979 ACATTATGCT
* **
2717989 TTGTATTGATACATGTTC-A
1 TTGTATCGATACATGCACAA
2718008 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
2718028 TTGTATCGATACATG
1 TTGTATCGATACATG
2718043 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:2718095 original size:20 final size:20
Alignment explanation
Indices: 2718069--2718124 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2718059 CCCTACCACT
2718069 ATTTGTATCGATACATGACT-
1 ATTTGTATCGATACATGA-TA
*
2718089 GTTTGTATCGATACATGATA
1 ATTTGTATCGATACATGATA
*
2718109 AATTGTATCGATACAT
1 ATTTGTATCGATACAT
2718125 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTTGTATCGATACATGATA
Found at i:2719153 original size:13 final size:13
Alignment explanation
Indices: 2719135--2719160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2719125 CACACCCAGA
2719135 TGTATCGATACAT
1 TGTATCGATACAT
2719148 TGTATCGATACAT
1 TGTATCGATACAT
2719161 GGATAATTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2719171 original size:20 final size:21
Alignment explanation
Indices: 2719141--2719181 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
2719131 CAGATGTATC
2719141 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
2719162 GATA-ATTGTATCGATACATG
1 GATACATTGTATCGATACATG
2719182 AAACTGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:2719247 original size:13 final size:13
Alignment explanation
Indices: 2719226--2719255 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2719216 CGATACATGG
*
2719226 TACATTGTATCGA
1 TACAATGTATCGA
2719239 TACAATGTATCGA
1 TACAATGTATCGA
2719252 TACA
1 TACA
2719256 TGATGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:2719275 original size:33 final size:33
Alignment explanation
Indices: 2719211--2719275 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
2719201 TACCACTATT
* * *
2719211 TGTATCGATACATGGTACATTGTATCGATACAA
1 TGTATCGATACATGATACAATGAATCGATACAA
*
2719244 TGTATCGATACATGATGA-AATGAATCTATACA
1 TGTATCGATACATGAT-ACAATGAATCGATACA
2719276 TTGCTTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGATACAATGAATCGATACAA
Found at i:2720433 original size:76 final size:76
Alignment explanation
Indices: 2720257--2720401 Score: 211
Period size: 76 Copynumber: 1.9 Consensus size: 76
2720247 ATCATCACTT
* *
2720257 TTATCAATTTGTTTTGGTTATTGATGGAAAATTATAGAAACCACATATTCCTCATCATGTCTTTT
1 TTATCAATTTGTTTTGGTTATTGATAGAAAATTATAGAAACCACATAATCCTCATCATGTCTTTT
2720322 TCTTCAAGCCA
66 TCTTCAAGCCA
** * * *
2720333 TTATCAATTTGTTCCGGTTATTGATAGAAAATTGTAGAAACCACATAATCC-CTTCATGTTTTTC
1 TTATCAATTTGTTTTGGTTATTGATAGAAAATTATAGAAACCACATAATCCTCATCATGTCTTT-
2720397 TTCTT
65 TTCTT
2720402 TAGGTTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 10 0.16
76 51 0.84
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (76 bp):
TTATCAATTTGTTTTGGTTATTGATAGAAAATTATAGAAACCACATAATCCTCATCATGTCTTTT
TCTTCAAGCCA
Found at i:2721138 original size:120 final size:120
Alignment explanation
Indices: 2720946--2721298 Score: 413
Period size: 120 Copynumber: 2.9 Consensus size: 120
2720936 TTTTGACCCT
* * * * * *
2720946 GTCAACCTCTTTAACTAGTTAACTTGTCAATTTCATCTCGGTTAACCTTTTTAACTTGTTAACTT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTCATCCCGGTCAACCTCTTTAACTTGTTAACTT
* * * * *
2721011 ATTGATTTCATCTTGGTCAACCTCTTTTACTTGTTGACTTAT-TGATTTCATCTTG
66 GTTGATTTCATCTTGGTCAACCTCTTTAACTTGTTGACTTGTCAG-TTTCATCTTA
* *
2721066 GTCAACCTCTTTAACTTGTTGACTTAT-AGGTTTCATCCCGGTCAAACTCTTTAACTTGTTAACT
1 GTCAACCTCTTTAACTTGTTGACTTGTCA-GTTTCATCCCGGTCAACCTCTTTAACTTGTTAACT
* * *
2721130 TGTCGATTTTATCTTGGTCAACCTCTTTAACTTGTTAACTTGTCAGTTTCATCTTA
65 TGTTGATTTCATCTTGGTCAACCTCTTTAACTTGTTGACTTGTCAGTTTCATCTTA
** * * *** *
2721186 GTCAATTTTTTTAACTTGTTGACTTGTCAGTTTTATCCTAATCAACCTCTTTAACTTGTTGACTT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTCATCCCGGTCAACCTCTTTAACTTGTTAACTT
* *** *
2721251 GTTGGTTTCATCTCAATCAACCTCTTTAACTTGTTGACATGTCAGTTT
66 GTTGATTTCATCTTGGTCAACCTCTTTAACTTGTTGACTTGTCAGTTT
2721299 TGTCCTTGTT
Statistics
Matches: 196, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 193 0.98
121 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (120 bp):
GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTCATCCCGGTCAACCTCTTTAACTTGTTAACTT
GTTGATTTCATCTTGGTCAACCTCTTTAACTTGTTGACTTGTCAGTTTCATCTTA
Found at i:2721286 original size:40 final size:40
Alignment explanation
Indices: 2720921--2721293 Score: 340
Period size: 40 Copynumber: 9.3 Consensus size: 40
2720911 TAGTCACTCT
* * *
2720921 TTGTTGACTTGTCGATTTTGA-CCCTGTCAACCTCTTTAAC
1 TTGTTGACTTGTCGA-TTTCATCTCGGTCAACCTCTTTAAC
* * * * *
2720961 TAGTTAACTTGTCAATTTCATCTCGGTTAACCTTTTTAAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
* * * * *
2721001 TTGTTAACTTATTGATTTCATCTTGGTCAACCTCTTTTAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
* * *
2721041 TTGTTGACTTATTGATTTCATCTTGGTCAACCTCTTTAAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
* * * * *
2721081 TTGTTGACTTATAGGTTTCATCCCGGTCAAACTCTTTAAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
* * *
2721121 TTGTTAACTTGTCGATTTTATCTTGGTCAACCTCTTTAAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
* ** ** *
2721161 TTGTTAACTTGTC-AGTTTCATCTTAGTCAATTTTTTTAAC
1 TTGTTGACTTGTCGA-TTTCATCTCGGTCAACCTCTTTAAC
* **
2721201 TTGTTGACTTGTC-AGTTTTATC-CTAATCAACCTCTTTAAC
1 TTGTTGACTTGTCGA-TTTCATCTC-GGTCAACCTCTTTAAC
* * **
2721241 TTGTTGACTTGTTGGTTTCATCTCAATCAACCTCTTTAAC
1 TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
*
2721281 TTGTTGACATGTC
1 TTGTTGACTTGTC
2721294 AGTTTTGTCC
Statistics
Matches: 280, Mismatches: 48, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.02
40 274 0.98
41 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (40 bp):
TTGTTGACTTGTCGATTTCATCTCGGTCAACCTCTTTAAC
Found at i:2721286 original size:80 final size:80
Alignment explanation
Indices: 2720946--2721340 Score: 364
Period size: 80 Copynumber: 4.9 Consensus size: 80
2720936 TTTTGACCCT
* * * * * *
2720946 GTCAACCTCTTTAACTAGTTAACTTGTCAATTTCAT-CTCGGTTAACCTTTTTAACTTGTTAACT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTTATCCT-GGTCAACCTCTTTAACTTGTTAACT
* **
2721010 TATTGATTTCATCTTG
65 TATTGGTTTCATCTCA
* * * * * *
2721026 GTCAACCTCTTTTACTTGTTGACTTAT-TGATTTCATCTTGGTCAACCTCTTTAACTTGTTGACT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAG-TTTTATCCTGGTCAACCTCTTTAACTTGTTAACT
* * *
2721090 TATAGGTTTCATCCCG
65 TATTGGTTTCATCTCA
* * *
2721106 GTCAAACTCTTTAACTTGTTAACTTGTC-GATTTTATCTTGGTCAACCTCTTTAACTTGTTAACT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAG-TTTTATCCTGGTCAACCTCTTTAACTTGTTAACT
* ** *
2721170 TGTCAGTTTCATCTTA
65 TATTGGTTTCATCTCA
** * ** *
2721186 GTCAATTTTTTTAACTTGTTGACTTGTCAGTTTTATCCTAATCAACCTCTTTAACTTGTTGACTT
1 GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTTATCCTGGTCAACCTCTTTAACTTGTTAACTT
*
2721251 GTTGGTTTCATCTCA
66 ATTGGTTTCATCTCA
* * * * * * * *
2721266 ATCAACCTCTTTAACTTGTTGACATGTCAGTTTTGTCCTTGTTAATCTTCTTAAACTCGTTAACC
1 GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTTATCCTGGTCAA-CCTCTTTAACTTGTTAA-C
2721331 TTATTGGTTT
64 TTATTGGTTT
2721341 TGCCCTGGTC
Statistics
Matches: 258, Mismatches: 51, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
80 233 0.90
81 15 0.06
82 10 0.04
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (80 bp):
GTCAACCTCTTTAACTTGTTGACTTGTCAGTTTTATCCTGGTCAACCTCTTTAACTTGTTAACTT
ATTGGTTTCATCTCA
Found at i:2721523 original size:65 final size:66
Alignment explanation
Indices: 2721450--2721585 Score: 222
Period size: 65 Copynumber: 2.1 Consensus size: 66
2721440 TTCACCTTCA
* *
2721450 TCAACCCTATTTCAACTTAGGTTTCACCTTAGTCA-TTTTAGTTGACTTTATTGGTTTTGCAC-T
1 TCAACCCTATTTCAACTTAGGTTTCACCTTAGTCACTTTGAGTTAACTTTATTGGTTTTGC-CTT
2721513 GG
65 GG
*
2721515 TCAACCCTATTTCAACTTAGGTTTCACTTTAGTCACTTTGAGTTAACTTTATTGGTTTTGCCTTG
1 TCAACCCTATTTCAACTTAGGTTTCACCTTAGTCACTTTGAGTTAACTTTATTGGTTTTGCCTTG
2721580 G
66 G
2721581 TCAAC
1 TCAAC
2721586 TTCTTTTTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 35 0.53
66 31 0.47
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (66 bp):
TCAACCCTATTTCAACTTAGGTTTCACCTTAGTCACTTTGAGTTAACTTTATTGGTTTTGCCTTG
G
Found at i:2721751 original size:66 final size:66
Alignment explanation
Indices: 2721663--2721874 Score: 240
Period size: 66 Copynumber: 3.3 Consensus size: 66
2721653 TTTAAACTCA
* *
2721663 TTGAC-TTATTGGTTTTACCTTGGTTAACCTCTTTTTAACTTAGGTTTCACCCTAGTCACTTTTA
1 TTGACTTTATTTGTTTTGCCTTGGTTAACCTCTTTTTAACTTAGGTTTCACCCTAGTCACTTTTA
2721727 G
66 G
* * *
2721728 TTGACTTTATTTGTTTAT-TCTTGGTCAACCT-TATTTCAACTTAGGTTTCACCCTAGTCA-TTT
1 TTGACTTTATTTGTTT-TGCCTTGGTTAACCTCT-TTTTAACTTAGGTTTCACCCTAGTCACTTT
2721790 GTAG
64 -TAG
* * * * **
2721794 TTGACTTTATTGGTTTTGCCTTGGTTAACTTCTTTTTGACTTAGATTTTGCCCTAGTCACCTTTT
1 TTGACTTTATTTGTTTTGCCTTGGTTAACCTCTTTTTAACTTAGGTTTCACCCTAGTCA-CTTTT
2721859 -G
65 AG
2721860 TTGAC-TTA-TTGTTTT
1 TTGACTTTATTTGTTTT
2721875 AGTCCCAATC
Statistics
Matches: 125, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
64 6 0.05
65 13 0.10
66 100 0.80
67 3 0.02
68 3 0.02
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (66 bp):
TTGACTTTATTTGTTTTGCCTTGGTTAACCTCTTTTTAACTTAGGTTTCACCCTAGTCACTTTTA
G
Found at i:2721766 original size:237 final size:232
Alignment explanation
Indices: 2721324--2722019 Score: 722
Period size: 237 Copynumber: 3.0 Consensus size: 232
2721314 TCTTAAACTC
* * *
2721324 GTTAACCTTATTGGTTTTGCCCTGGTCAACTTTTTTTTGACTTAGGTTTTGCCTAGTCACCCTTT
1 GTTAACTTTATTGGTTTTGCCTTGGTCAACTTCTTTTTGACTTAGGTTTTGCCTAGTCACCCTTT
* * * * * * *
2721389 ATTGA-TTGTTGGTTTTGTCTCGTTTAACCCCCTAAACTCA--ACTTTATTAATTTCACCTTCAT
66 GTTGACTTATT-GTTTAGTCCCGATCAA-CCCTTAAACTCATTAC-TTATTAATTTCACCTTCAT
*
2721451 CAACCCTATTTCAACTTAGGTTTCACCTTAGTCATTTTAGTTGACTTTATTGGTTTTGCACTGGT
128 CAACCCTATTTCAACTTAGGTTTCACCCTAGTCATTTTAGTTGACTTTATTGGTTTTGCACTGGT
**
2721516 CAACCCTATTTCAACTTAGGTTTCACTTTAGTCACTTTG-A
193 CAACCCTATTTCAACTTAGGTTTCACCCTAGTCA-TTTGTA
* * *
2721556 GTTAACTTTATTGGTTTTGCCTTGGTCAACTTCTTTTTGTCTTAGGTTTTAGCCTGGTTACCCTT
1 GTTAACTTTATTGGTTTTGCCTTGGTCAACTTCTTTTTGACTTAGGTTTT-GCCTAGTCACCCTT
* ** * **
2721621 TGTTGACTTATTAGTTTCGTCCCGATCAACCCTTTAAACTCATTGACTTATTGGTTTTACCTTGG
65 TGTTGACTTATT-GTTTAGTCCCGATCAACCC-TTAAACTCATT-ACTTATTAATTTCACCTTCA
* * * * *
2721686 TTAACCTCT-TTTTAACTTAGGTTTCACCCTAGTCACTTTTAGTTGACTTTATTTGTTTATTC-T
127 TCAACC-CTATTTCAACTTAGGTTTCACCCTAGTCA-TTTTAGTTGACTTTATTGGTTT-TGCAC
*
2721749 TGGTCAACCTTATTTCAACTTAGGTTTCACCCTAGTCATTTGTA
189 TGGTCAACCCTATTTCAACTTAGGTTTCACCCTAGTCATTTGTA
* * * *
2721793 GTTGACTTTATTGGTTTTGCCTTGGTTAACTTCTTTTTGACTTAGATTTTGCCCTAGTCACCTTT
1 GTTAACTTTATTGGTTTTGCCTTGGTCAACTTCTTTTTGACTTAGGTTTTG-CCTAGTCACCCTT
* * *
2721858 TGTTGACTTATTGTTTTAGTCCCAATCAACCACTTAAACTCATTAACTTTATTAATTTCACCCTA
65 TGTTGACTTATTG-TTTAGTCCCGATCAACC-CTTAAACTCATT-AC-TTATTAATTTCACCTTC
* ** * *** * * * * * *
2721923 ATCAACTCTATTTTGACCTAGGTTTCATTTTAGTCACCTTTAATCGACTTTATTAGTTTTGCCCC
126 ATCAACCCTATTTCAACTTAGGTTTCACCCTAGTCA-TTTTAGTTGACTTTATTGGTTTTGCACT
** *
2721988 GGTCAATTTCT-TTTCAACTTAGGTTTCGCCCT
190 GGTCAA-CCCTATTTCAACTTAGGTTTCACCCT
2722020 CATCACCTTT
Statistics
Matches: 385, Mismatches: 62, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
232 46 0.12
233 20 0.05
234 24 0.06
236 48 0.12
237 161 0.42
238 85 0.22
239 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (232 bp):
GTTAACTTTATTGGTTTTGCCTTGGTCAACTTCTTTTTGACTTAGGTTTTGCCTAGTCACCCTTT
GTTGACTTATTGTTTAGTCCCGATCAACCCTTAAACTCATTACTTATTAATTTCACCTTCATCAA
CCCTATTTCAACTTAGGTTTCACCCTAGTCATTTTAGTTGACTTTATTGGTTTTGCACTGGTCAA
CCCTATTTCAACTTAGGTTTCACCCTAGTCATTTGTA
Found at i:2722028 original size:172 final size:171
Alignment explanation
Indices: 2721769--2722355 Score: 504
Period size: 172 Copynumber: 3.4 Consensus size: 171
2721759 TATTTCAACT
* * * * * * **
2721769 TAGGTTTCACCCTAGTCA-TTTGTAGTTGACTTTATTGGTTTTGCCTTGGTTAACTTCTTTTTGA
1 TAGGTTTCACCTTAGTCACCTT-TAATCGACTTTATTGGTTTTGCCCTGGTCAACTTCTTTTCAA
* * ** * *
2721833 CTTAGATTTTGCCCTAGTCACCTTTTGTTGACTTAT-TGTTTTAGTCCCAATCAACCACTTAAAC
65 CTTAGGTTTCGCCCTA-TCACCTTTTGTTGACTTATCAATTTT-GTCCCGATCAACCCCTTAAAC
* * * *
2721897 TCATTAACTTTATTAATTTCACCCTAATCAACTCTATTTTGACC
128 TCATTGACTTTATTAATTTCACCATAATCAACCCCATTTTGACC
** * * *
2721941 TAGGTTTCATTTTAGTCACCTTTAATCGACTTTATTAGTTTTGCCCCGGTCAATTTCTTTTCAAC
1 TAGGTTTCACCTTAGTCACCTTTAATCGACTTTATTGGTTTTGCCCTGGTCAACTTCTTTTCAAC
** * *
2722006 TTAGGTTTCGCCCTCATCACCTTTTGTTGACTTATCAATTTTGTCTTGATTAACCCCTTAAACTT
66 TTAGGTTTCGCCCT-ATCACCTTTTGTTGACTTATCAATTTTGTCCCGATCAACCCCTTAAACTC
* ** ** * * *
2722071 ATTGATTTTATTGGTTTTGCCATGATTAACCCCATTTTGACT
130 ATTGACTTTATTAATTTCACCATAATCAACCCCATTTTGACC
* * * * *
2722113 TAGGTTTCACCTTAGTCACTTTTAGTTGACTTTATTGGTTTTGTCCTGGTCAGCTTCTTTTCAAC
1 TAGGTTTCACCTTAGTCACCTTTAATCGACTTTATTGGTTTTGCCCTGGTCAACTTCTTTTCAAC
* * * * * * * *
2722178 TTTGGTTTCACCTTGGTCACCCTGTGTTGGCTTATCAATTTTGTCCCGGTCAACCCCTTAAACTC
66 TTAGGTTTCGCCCT-ATCACCTTTTGTTGACTTATCAATTTTGTCCCGATCAACCCCTTAAACTC
** * * * * * *
2722243 ATTGACTTTATTGGTTTCGCCTTAGTTAACCCTA-TTTGACT
130 ATTGACTTTATTAATTTCACCATAATCAACCCCATTTTGACC
* * *
2722284 TAGGTTTCACCCTTA-TCA-CTTCT-AGCTGACTTTATT-GTTTTCACCCTAGTCAACTTCTTTT
1 TAGGTTTCA-CCTTAGTCACCTT-TAATC-GACTTTATTGGTTTT-GCCCTGGTCAACTTCTTTT
*
2722345 CGACTTAGGTT
62 CAACTTAGGTT
2722356 CCACCCTTGT
Statistics
Matches: 334, Mismatches: 74, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
170 7 0.02
171 53 0.16
172 267 0.80
173 7 0.02
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (171 bp):
TAGGTTTCACCTTAGTCACCTTTAATCGACTTTATTGGTTTTGCCCTGGTCAACTTCTTTTCAAC
TTAGGTTTCGCCCTATCACCTTTTGTTGACTTATCAATTTTGTCCCGATCAACCCCTTAAACTCA
TTGACTTTATTAATTTCACCATAATCAACCCCATTTTGACC
Found at i:2723248 original size:17 final size:17
Alignment explanation
Indices: 2723226--2723258 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2723216 TGTTTGTTGA
2723226 TATGATGTT-AATTTTTG
1 TATGAT-TTCAATTTTTG
2723243 TATGATTTCAATTTTT
1 TATGATTTCAATTTTT
2723259 TCATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
TATGATTTCAATTTTTG
Found at i:2723812 original size:166 final size:165
Alignment explanation
Indices: 2723492--2723821 Score: 416
Period size: 166 Copynumber: 2.0 Consensus size: 165
2723482 AGGACTAAAT
* * *
2723492 TGTAAATAGTAAAAATTTTGTTCCAAGGCCAAAGTTACTTGGCCGAATCTTTCTTGTGACTTTTA
1 TGTAAATAGTAAAAATTTTGTTACAAGGCAAAAGTTACTTGGCCGAATCTTTCTTGTGAATTTTA
* * * **
2723557 TATGTGATTTTTGGTACTGATTTTGATATGTTTGATGCTTAATTTTGTGTTTCAATTATATAAGG
66 TATCTAATTTTTGGTA-TGATTTTGATATATTTGACACTTAATTTTGTGTTTCAATTATATAAGG
* * *
2723622 ACCAATTTTTAGTTTTAGAAAGTTT-AGGGATTTAAG
130 ACCAATTTGTAATTTTAAAAAGTTTAAGGG-TTTAAG
* * *
2723658 TGTAAATATTGAAAATTTTGTTATAAGGCTAAAAG-TACTTGGCCGAATCTTTCTTGT-AATTTT
1 TGTAAATAGTAAAAATTTTGTTACAAGGC-AAAAGTTACTTGGCCGAATCTTTCTTGTGAATTTT
* * *
2723721 TTGATCTAATTTTTGTGT-TGATTTTGATATATTTGACACTTAATTTTGTGTTTTAATTATGTAA
65 AT-ATCTAATTTTTG-GTATGATTTTGATATATTTGACACTTAATTTTGTGTTTCAATTATATAA
*
2723785 GGACTAATTTGTAATTTTAAAAAAGTTTAAGGGTTTA
128 GGACCAATTTGTAATTTT-AAAAAGTTTAAGGGTTTA
2723822 TTTATAAATA
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
165 62 0.44
166 69 0.49
167 10 0.07
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (165 bp):
TGTAAATAGTAAAAATTTTGTTACAAGGCAAAAGTTACTTGGCCGAATCTTTCTTGTGAATTTTA
TATCTAATTTTTGGTATGATTTTGATATATTTGACACTTAATTTTGTGTTTCAATTATATAAGGA
CCAATTTGTAATTTTAAAAAGTTTAAGGGTTTAAG
Found at i:2723843 original size:136 final size:137
Alignment explanation
Indices: 2723696--2723949 Score: 312
Period size: 137 Copynumber: 1.9 Consensus size: 137
2723686 CTAAAAGTAC
* * * * * * *
2723696 TTGGCCGAATCTTTCTTGTAATTTTTTGATCTAATTTTT-GTGTTGATTTTGATATATTTGACAC
1 TTGGCCAAATCTTTCTTATAACTTTCTAATCTAATTTTTGGTATTGATTTTAATATATTTGACAC
* * * ***
2723760 TTAATTTTGTGTTTTAATTATGTAAGGACTAATTTGTAATTTTAAAAAAGTTTAAGGGTTTATTT
66 TTAATTTTGTGTTCTAATTATATAAGGACTAAATTGTAAAAATAAAAAAGTTTAAGGGTTTATTT
2723825 ATAAATA
131 ATAAATA
* * * * ***
2723832 TTGGCCAAATCTTTGTTATGACTTTCTAATGTGATTTTTGGTATTGATTTTAATATATTTGATGT
1 TTGGCCAAATCTTTCTTATAACTTTCTAATCTAATTTTTGGTATTGATTTTAATATATTTGACAC
*
2723897 TTAATTTTGTGTTCTAATTATATAGGGACTAAATTGTAAAAATAAAAAAGTTT
66 TTAATTTTGTGTTCTAATTATATAAGGACTAAATTGTAAAAATAAAAAAGTTT
2723950 TGTTTCAAGG
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
136 30 0.31
137 66 0.69
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (137 bp):
TTGGCCAAATCTTTCTTATAACTTTCTAATCTAATTTTTGGTATTGATTTTAATATATTTGACAC
TTAATTTTGTGTTCTAATTATATAAGGACTAAATTGTAAAAATAAAAAAGTTTAAGGGTTTATTT
ATAAATA
Found at i:2725620 original size:19 final size:20
Alignment explanation
Indices: 2725596--2725648 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2725586 ATAATCCAGA
*
2725596 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
* *
2725615 TGTATCAATACATACTCAAT
1 TGTATCGATACATGCTCAAT
2725635 TGTATCGATACATG
1 TGTATCGATACATG
2725649 AAACTGATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:2728555 original size:64 final size:64
Alignment explanation
Indices: 2728479--2728607 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
2728469 ATGACAGGAG
2728479 ATAAGAGCTTATTCACAGAGATCAAATCAAAGGAAAGTGGATGTGTTACATTTGGTGATAATTC
1 ATAAGAGCTTATTCACAGAGATCAAATCAAAGGAAAGTGGATGTGTTACATTTGGTGATAATTC
2728543 ATAAGAGCTTATTCACAGAGATCAAATCAAAGGAAAGTGGATGTGTTACATTTGGTGATAATTC
1 ATAAGAGCTTATTCACAGAGATCAAATCAAAGGAAAGTGGATGTGTTACATTTGGTGATAATTC
2728607 A
1 A
2728608 AAAGGAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (64 bp):
ATAAGAGCTTATTCACAGAGATCAAATCAAAGGAAAGTGGATGTGTTACATTTGGTGATAATTC
Found at i:2730711 original size:17 final size:17
Alignment explanation
Indices: 2730689--2730727 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2730679 ATTCGAGATG
2730689 AGCATGATGGGAGAACT
1 AGCATGATGGGAGAACT
2730706 AGCATGATGGGAGAACT
1 AGCATGATGGGAGAACT
2730723 AGCAT
1 AGCAT
2730728 TCTTTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (17 bp):
AGCATGATGGGAGAACT
Found at i:2733831 original size:14 final size:14
Alignment explanation
Indices: 2733814--2733842 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2733804 TTTAAAAATA
2733814 AATTTTGGCATTTG
1 AATTTTGGCATTTG
2733828 AATTTTGGCATTTG
1 AATTTTGGCATTTG
2733842 A
1 A
2733843 CAAAAGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (14 bp):
AATTTTGGCATTTG
Found at i:2734606 original size:20 final size:19
Alignment explanation
Indices: 2734541--2734611 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
2734531 AACCCTAAAA
* *
2734541 TGTATCAATACACATCCAAA
1 TGTATCGATACACAT-CAAT
**
2734561 TGTATCGATACATGTTC-AT
1 TGTATCGATACA-CATCAAT
*
2734580 TGCATCGATACACACTCAAT
1 TGTATCGATACACA-TCAAT
2734600 TGTATCGATACA
1 TGTATCGATACA
2734612 TGAAACTGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 14 0.35
20 25 0.62
21 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (19 bp):
TGTATCGATACACATCAAT
Found at i:2737834 original size:10 final size:10
Alignment explanation
Indices: 2737819--2737843 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2737809 AAGTATAACA
2737819 ACACTATGTC
1 ACACTATGTC
2737829 ACACTATGTC
1 ACACTATGTC
2737839 ACACT
1 ACACT
2737844 CCAAATTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (10 bp):
ACACTATGTC
Found at i:2739341 original size:18 final size:18
Alignment explanation
Indices: 2739308--2739342 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2739298 TTCTTTTATA
*
2739308 ATTTAAAAATATAAAAAC
1 ATTTAAAAATAAAAAAAC
*
2739326 ATTTAAAATTAAAAAAA
1 ATTTAAAAATAAAAAAA
2739343 TATGCTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATTTAAAAATAAAAAAAC
Found at i:2741687 original size:20 final size:20
Alignment explanation
Indices: 2741659--2741705 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2741649 AGAAAGAATT
2741659 GAAGAGGGATACAAGAGAGG
1 GAAGAGGGATACAAGAGAGG
* **
2741679 GATGAGGGATACTTGAGAGG
1 GAAGAGGGATACAAGAGAGG
2741699 GAAGAGG
1 GAAGAGG
2741706 AGCCTCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.47, T:0.11
Consensus pattern (20 bp):
GAAGAGGGATACAAGAGAGG
Found at i:2741843 original size:27 final size:28
Alignment explanation
Indices: 2741782--2741852 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
2741772 AAACAAGCCT
*
2741782 CCATATTTGACAAATC-CAAAGAAAACCA
1 CCATTTTTGACAAA-CACAAAGAAAACCA
*
2741810 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGAAAACCA
2741837 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
2741853 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (28 bp):
CCATTTTTGACAAACACAAAGAAAACCA
Found at i:2744080 original size:11 final size:11
Alignment explanation
Indices: 2744064--2744101 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2744054 TACTATTATA
2744064 TTATTAATCAT
1 TTATTAATCAT
*
2744075 TTATT-ATTAT
1 TTATTAATCAT
*
2744085 TTATCAATCAT
1 TTATTAATCAT
2744096 TTATTA
1 TTATTA
2744102 TTATGTTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTAATCAT
Found at i:2744093 original size:21 final size:22
Alignment explanation
Indices: 2744057--2744105 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
2744047 CATTAGTTAC
*
2744057 TATTATATTATTAATCATTTAT
1 TATTATATTATCAATCATTTAT
2744079 TATTAT-TTATCAATCATTTAT
1 TATTATATTATCAATCATTTAT
2744100 TATTAT
1 TATTAT
2744106 GTTAGTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATATTATCAATCATTTAT
Found at i:2744125 original size:58 final size:55
Alignment explanation
Indices: 2744049--2744160 Score: 129
Period size: 58 Copynumber: 2.0 Consensus size: 55
2744039 CACAATGCCA
*
2744049 TTAGTTACTATTATATTATTAATCATTTAT-TATTATTTATCAATCATTTATTATTATG
1 TTAGTTACTATTATATTA-TAATCATTTATCTATTAATTAT-AA--ATTTATTATTATG
* * *
2744107 TTAGTTA-TCTTATTATTATAATTATTTATCTTTTAATTATAAATTTATTATTAT
1 TTAGTTACTATTA-TATTATAATCATTTATCTATTAATTATAAATTTATTATTAT
2744161 ATTATCAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
55 12 0.25
57 16 0.33
58 20 0.42
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (55 bp):
TTAGTTACTATTATATTATAATCATTTATCTATTAATTATAAATTTATTATTATG
Found at i:2744137 original size:21 final size:21
Alignment explanation
Indices: 2744096--2744148 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2744086 TATCAATCAT
*
2744096 TTATTATTAT-GTTAGTTATC
1 TTATTATTATAATTAGTTATC
*
2744116 TTATTATTATAATTATTTATC
1 TTATTATTATAATTAGTTATC
2744137 TT-TTAATTATAA
1 TTATT-ATTATAA
2744149 ATTTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTATAATTAGTTATC
Found at i:2746161 original size:45 final size:45
Alignment explanation
Indices: 2746092--2746180 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
2746082 TGATGTCTTC
* *
2746092 AAGGCTTCATGGTTTTAAGACGTGCTTCTCATATATAGCTACTAA
1 AAGGCTTCATGCTTTTAAGACGTGCTTCTCATATATAGATACTAA
*
2746137 AAGGCTTCATGCTTTTAAGGCGTGCTTCTCATATATAGATACTA
1 AAGGCTTCATGCTTTTAAGACGTGCTTCTCATATATAGATACTA
2746181 TAATTTTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (45 bp):
AAGGCTTCATGCTTTTAAGACGTGCTTCTCATATATAGATACTAA
Found at i:2746641 original size:11 final size:11
Alignment explanation
Indices: 2746625--2746649 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2746615 GACTAGAGAA
2746625 TATTATTATAT
1 TATTATTATAT
2746636 TATTATTATAT
1 TATTATTATAT
2746647 TAT
1 TAT
2746650 AGCAGCTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATAT
Found at i:2748589 original size:1 final size:1
Alignment explanation
Indices: 2748583--2748615 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
2748573 CCTTTAACTT
2748583 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2748616 CCTAATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2750039 original size:2 final size:2
Alignment explanation
Indices: 2750032--2750067 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2750022 ATTGAAGGTA
*
2750032 AT AT AT AT AT AT AT AC 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 AT AT AT AT
2750068 GAGAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2753579 original size:14 final size:15
Alignment explanation
Indices: 2753560--2753588 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2753550 ATCTAATTTC
2753560 AATTAAT-ATAAATA
1 AATTAATAATAAATA
2753574 AATTAATAATAAATA
1 AATTAATAATAAATA
2753589 TGCTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTAATAATAAATA
Found at i:2753903 original size:2 final size:2
Alignment explanation
Indices: 2753839--2753883 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2753829 ATTTTCCCTT
2753839 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2753881 TC T
1 TC T
2753884 GTGTGTGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2755566 original size:165 final size:163
Alignment explanation
Indices: 2755350--2755863 Score: 468
Period size: 166 Copynumber: 3.1 Consensus size: 163
2755340 TTAACTACCA
* * * *
2755350 TTAAATTAGTTTTGGAAAATGTCTTTTA-TTTCATAAATTTTTCATTTTTTCTTGAAATTCTCAT
1 TTAAATTAGTTTTGAAAAATATCATTTATTTTCATAAGTTTTTCATTTTTTCTTGAAATTCTCAT
* * * *
2755414 GTTTCCGAAATATAAAGTTTTCTACTCTACAAATAATTTTGGGAAGATTTTTCTTTGTTTATAAT
66 GTTTCCGAAAAATAAAGTTTTCTACTCTACAAAT-ATTTTGGGAGGATTTTTCTTAGTTTAAAAT
* *
2755479 TTTTAAAATTTATCAAATATCATCATTTAATTCAT
130 TTTTAAAATTAATCAAATAT-GTCATTTAATTCAT
* * *
2755514 GGTAAATTAGTTTTAAAAAAT-TCATTTATTTTCATAAGTTTTTTATTTTTTCTTTGAAATTCTC
1 -TTAAATTAGTTTTGAAAAATATCATTTATTTTCATAAGTTTTTCATTTTTTC-TTGAAATTCTC
** ** * * * * * * *
2755578 ATACTTCTAAAAAATAAAATTTTCTATTCCATAAATGTTTTTGGGAGGATTTTTCTCAATTTAAA
64 ATGTTTCCGAAAAATAAAGTTTTCTACTCTACAAAT-ATTTTGGGAGGATTTTTCTTAGTTTAAA
* * * * *
2755643 ATTTTTAAAATTCATCCAACAGTGTCA-TTAGACTCCCT
128 ATTTTTAAAATTAATCAAATA-TGTCATTTA-A-TTCAT
* * * * *
2755681 TTAAATAATTTTTGAAAAATAT-ATTTATTTTCATAAGTTTTACATTTTTTCTTAAAATTTTTC-
1 TTAAATTAGTTTTGAAAAATATCATTTATTTTCATAAGTTTTTCATTTTTTCTTGAAA-TTCTCA
* ** * *
2755744 TGTTTTCGAAAAATCGAGTTTTCT-CT-TCCATAATATTTTCGGG-GGATTTTTCTTGGTTTAAA
65 TGTTTCCGAAAAATAAAGTTTTCTACTCTACA-AATATTTT-GGGAGGATTTTTCTTAGTTTAAA
* * *
2755806 ATTTTTAAAATTAATCTAATATTGTCATTAAATTCACA
128 ATTTTTAAAATTAATCAAATA-TGTCATTTAATTCA-T
*
2755844 TTAAATCAGTTTTGAAAAAT
1 TTAAATTAGTTTTGAAAAAT
2755864 TCAAATTATT
Statistics
Matches: 276, Mismatches: 62, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
162 2 0.01
163 63 0.23
164 15 0.05
165 62 0.22
166 129 0.47
167 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (163 bp):
TTAAATTAGTTTTGAAAAATATCATTTATTTTCATAAGTTTTTCATTTTTTCTTGAAATTCTCAT
GTTTCCGAAAAATAAAGTTTTCTACTCTACAAATATTTTGGGAGGATTTTTCTTAGTTTAAAATT
TTTAAAATTAATCAAATATGTCATTTAATTCAT
Found at i:2762034 original size:13 final size:13
Alignment explanation
Indices: 2762016--2762041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2762006 TACACCAAGT
2762016 ATGTATCGATACA
1 ATGTATCGATACA
2762029 ATGTATCGATACA
1 ATGTATCGATACA
2762042 CAAAAAAATT
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:2763362 original size:13 final size:13
Alignment explanation
Indices: 2763344--2763386 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
2763334 AATGATGCAG
2763344 AAATTTATGAAGA
1 AAATTTATGAAGA
*
2763357 AAA-TT-TGCAG-
1 AAATTTATGAAGA
2763367 AAATTTATGAAGA
1 AAATTTATGAAGA
2763380 AAATTTA
1 AAATTTA
2763387 GAACAAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 3 0.12
11 6 0.24
12 6 0.24
13 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.14, T:0.33
Consensus pattern (13 bp):
AAATTTATGAAGA
Found at i:2763369 original size:23 final size:23
Alignment explanation
Indices: 2763339--2763385 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
2763329 TTGACAATGA
2763339 TGCAGAAATTTATGAAGAAAATT
1 TGCAGAAATTTATGAAGAAAATT
2763362 TGCAGAAATTTATGAAGAAAATT
1 TGCAGAAATTTATGAAGAAAATT
2763385 T
1 T
2763386 AGAACAAGCA
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:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (23 bp):
TGCAGAAATTTATGAAGAAAATT
Found at i:2765980 original size:13 final size:13
Alignment explanation
Indices: 2765962--2765987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2765952 CACTTTTAAA
2765962 TGTATCGATACAT
1 TGTATCGATACAT
2765975 TGTATCGATACAT
1 TGTATCGATACAT
2765988 AACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2766019 original size:21 final size:21
Alignment explanation
Indices: 2765993--2766069 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
2765983 TACATAACCA
*
2765993 AATGTATCGATACTTGAAAAT
1 AATGTATCGATACTTGAAAAG
2766014 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACTTGAAAAG
2766035 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACTTGAAAAG
2766056 AATGTATCGATACT
1 AATGTATCGATACT
2766070 GGTAATTGGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACTTGAAAAG
Found at i:2766152 original size:20 final size:20
Alignment explanation
Indices: 2766111--2766162 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2766101 CTTAACTATT
* *
2766111 TGTATCGAAACA-CCCAATA
1 TGTATCGATACATCCCAAAA
2766130 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCCCAAAA
2766150 TGTATCGATACAT
1 TGTATCGATACAT
2766163 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCCCAAAA
Found at i:2772474 original size:20 final size:20
Alignment explanation
Indices: 2772439--2772479 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2772429 CAAATTTCTT
2772439 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
2772461 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
2772480 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:2772747 original size:20 final size:21
Alignment explanation
Indices: 2772722--2772764 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2772712 GCAGCACCCA
*
2772722 CCAGGTCGCGACC-GGCACTC
1 CCAGGTCGCAACCAGGCACTC
*
2772742 CCAGGTCGCAACCAGGCAGTC
1 CCAGGTCGCAACCAGGCACTC
2772763 CC
1 CC
2772765 CACACTAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.19, C:0.44, G:0.28, T:0.09
Consensus pattern (21 bp):
CCAGGTCGCAACCAGGCACTC
Found at i:2774724 original size:20 final size:20
Alignment explanation
Indices: 2774699--2774748 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2774689 ACCCTAAAAA
*
2774699 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
2774719 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
2774739 GTATCGATAC
1 GTATCGATAC
2774749 TTGAAAACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:2775749 original size:222 final size:222
Alignment explanation
Indices: 2775363--2775784 Score: 765
Period size: 222 Copynumber: 1.9 Consensus size: 222
2775353 ATCAATTCGG
2775363 TTAGTGAATTGGGTAATCACTCGACAAGAAAGTGTCGAGGAGAGAGGATGTAGGTGCCGTTTTTG
1 TTAGTGAATTGGGTAATCACTCGACAAGAAAGTGTCGAGGAGAGAGGATGTAGGTGCCGTTTTTG
** *
2775428 GACCGAACCTCTATAAATATTTTGTGTCAAGTTTTCCTTCCCTAATCTTTTTTTCATTTCGAATT
66 GACCGAACCTCTATAAATATTTTGTGTCAAGTTTTCCTTCCCTAATCCCTTTTACATTTCGAATT
*
2775493 GTTTTGTTCCAAACTTGTTCAAAACCCAAAAATTCGAAAAGAACCAATTCACCCCCCTCTTGGTT
131 GTGTTGTTCCAAACTTGTTCAAAACCCAAAAATTCGAAAAGAACCAATTCACCCCCCTCTTGGTT
2775558 CATTACTCCATAAGCTTTCAAATTCTC
196 CATTACTCCATAAGCTTTCAAATTCTC
2775585 TTAGTGAATTGGGTAATCACTCGACAAGAAAGTGTCGAGGAGAGAGGATGTAGGTGCCGTTTTTG
1 TTAGTGAATTGGGTAATCACTCGACAAGAAAGTGTCGAGGAGAGAGGATGTAGGTGCCGTTTTTG
*
2775650 GACCGAACCTCTATAAATATTTTGTGTCAAGCTTTT-CTTCCTTAATCCCTTTTACATTTCGAAT
66 GACCGAACCTCTATAAATATTTTGTGTCAAG-TTTTCCTTCCCTAATCCCTTTTACATTTCGAAT
* *
2775714 TGTGTTGTTCCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAATCAATTCACCCCCCTCTTGGT
130 TGTGTTGTTCCAAACTTGTTCAAAACCCAAAAATTCGAAAAGAACCAATTCACCCCCCTCTTGGT
2775779 TCATTA
195 TCATTA
2775785 TTCCTTGAGC
Statistics
Matches: 192, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
222 188 0.98
223 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (222 bp):
TTAGTGAATTGGGTAATCACTCGACAAGAAAGTGTCGAGGAGAGAGGATGTAGGTGCCGTTTTTG
GACCGAACCTCTATAAATATTTTGTGTCAAGTTTTCCTTCCCTAATCCCTTTTACATTTCGAATT
GTGTTGTTCCAAACTTGTTCAAAACCCAAAAATTCGAAAAGAACCAATTCACCCCCCTCTTGGTT
CATTACTCCATAAGCTTTCAAATTCTC
Found at i:2777663 original size:20 final size:21
Alignment explanation
Indices: 2777621--2777663 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
2777611 TTGGAAACAA
*
2777621 AAAAGGGGAGAGATATTTTTT
1 AAAAGGGGAGAGAAATTTTTT
2777642 AAAA-GGGA-AGAAATTTTATT
1 AAAAGGGGAGAGAAATTTT-TT
2777662 AA
1 AA
2777664 GTGGGAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 8 0.40
21 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (21 bp):
AAAAGGGGAGAGAAATTTTTT
Found at i:2778179 original size:21 final size:21
Alignment explanation
Indices: 2778155--2778205 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
2778145 TCAATACCAA
2778155 AAATGTTTTAGAGTTAAATAT
1 AAATGTTTTAGAGTTAAATAT
2778176 AAATGTTTTAGAGTTAAATAT
1 AAATGTTTTAGAGTTAAATAT
2778197 AAATGTTTT
1 AAATGTTTT
2778206 TCAAGCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
AAATGTTTTAGAGTTAAATAT
Found at i:2778339 original size:21 final size:21
Alignment explanation
Indices: 2778310--2778350 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2778300 AAAGGCCAAA
*
2778310 ACCCTAGAAAGTATTGATACAG
1 ACCCTAG-AAGTATCGATACAG
2778332 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
2778351 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:2780655 original size:20 final size:20
Alignment explanation
Indices: 2780630--2780683 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2780620 TTTGTATCGA
*
2780630 TGTATCGATACATGCACAGT
1 TGTATCGATACATGCACAAT
*
2780650 TGTATCGATATATGCACAAT
1 TGTATCGATACATGCACAAT
2780670 TGTATCGATACATG
1 TGTATCGATACATG
2780684 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGCACAAT
Done.