Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 129 of 141
Found at i:38684209 original size:28 final size:26
Alignment explanation
Indices: 38684132--38684212 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
38684122 TGAATAAAAT
* * **
38684132 TATAAAAATATAAAAGATATATATGTG
1 TATAAAATTATGAAA-ATATATACATG
38684159 TATAAAATTATGAAAATATATACATG
1 TATAAAATTATGAAAATATATACATG
*
38684185 TATACAAATT-TTAAAATTATTATACATG
1 TATA-AAATTATGAAAA-TA-TATACATG
38684213 AAAATATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.39
27 20 0.43
28 8 0.17
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (26 bp):
TATAAAATTATGAAAATATATACATG
Found at i:38684320 original size:37 final size:39
Alignment explanation
Indices: 38684242--38684322 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
38684232 ATGTACATAC
* *
38684242 ATATATACGTATATAACTATCATAAAATATTAAAAGTAT
1 ATATATACGTATATAACAATCATAAAATATTAAAAGAAT
* **
38684281 ATATATAGGTATATATGAATCATAAAATA-T-AAAGAAT
1 ATATATACGTATATAACAATCATAAAATATTAAAAGAAT
38684318 ATATA
1 ATATA
38684323 CAAAATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 11 0.30
38 1 0.03
39 25 0.68
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (39 bp):
ATATATACGTATATAACAATCATAAAATATTAAAAGAAT
Found at i:38685809 original size:2 final size:2
Alignment explanation
Indices: 38685802--38685826 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38685792 TACTGACCCT
38685802 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
38685827 TTTTCATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38687947 original size:40 final size:40
Alignment explanation
Indices: 38687873--38687953 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
38687863 TTATCAATCA
* * *
38687873 AGAATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCG
1 AGAATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCG
* *
38687913 AGAATTAGCGGCTCTTTTTGAAAAACGCTGCTATAGGTCG
1 AGAATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCG
38687953 A
1 A
38687954 CTATTAAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (40 bp):
AGAATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCG
Found at i:38688101 original size:39 final size:40
Alignment explanation
Indices: 38687997--38688143 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
38687987 CTTTAGTGGT
* * * *
38687997 ATTAGCGGTGCTTTTCGAAAAACGCTGCTAAAGATCGAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC
**
38688037 ATTAGCGGTTCTTTTTGAAAAACGCCGCTATAGATCGAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC
*
38688077 ATTA-CGACGCTTTTTGAAAAACGCCGCTATAGATCGAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC
* * * *
38688116 TTTAGTGGCGCTTTATCAAAAACGCCGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGC
38688144 AAAAAACATT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.37
40 59 0.63
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC
Found at i:38688469 original size:7 final size:7
Alignment explanation
Indices: 38688448--38688556 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
38688438 TTAATTATCA
*
38688448 TTATAGT
1 TTATGGT
*
38688455 TTAGGGT
1 TTATGGT
38688462 TTATGGT
1 TTATGGT
* *
38688469 TTAGGGA
1 TTATGGT
*
38688476 ATATGGT
1 TTATGGT
*
38688483 TTAGGGT
1 TTATGGT
*
38688490 TTAAGGT
1 TTATGGT
*
38688497 TTAGGAGT
1 TTATG-GT
38688505 TACTAT--T
1 T--TATGGT
*
38688512 TTAAGG-
1 TTATGGT
*
38688518 TTATGGA
1 TTATGGT
38688525 TTATGGGT
1 TTAT-GGT
* *
38688533 TTAGGGA
1 TTATGGT
38688540 TTATGGT
1 TTATGGT
38688547 TTATGGT
1 TTATGGT
38688554 TTA
1 TTA
38688557 AGGGTTGGGG
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
5 2 0.03
6 5 0.07
7 58 0.77
8 8 0.11
10 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:38688470 original size:14 final size:14
Alignment explanation
Indices: 38688448--38688562 Score: 83
Period size: 14 Copynumber: 8.1 Consensus size: 14
38688438 TTAATTATCA
*
38688448 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
38688462 TTATGGTTTAGGGA
1 TTATGGTTTAGGGT
*
38688476 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
38688490 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
*
38688505 TACTAT--TTTAAGG-
1 T--TATGGTTTAGGGT
*
38688518 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
38688533 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
38688547 TTATGGTTTAAGGGT
1 TTATGGTTT-AGGGT
38688562 T
1 T
38688563 GGGGTTTAAG
Statistics
Matches: 78, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
11 3 0.04
13 4 0.05
14 47 0.60
15 22 0.28
17 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:38688542 original size:15 final size:14
Alignment explanation
Indices: 38688522--38688591 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
38688512 TTAAGGTTAT
38688522 GGATTATGGGTTTAG
1 GGATTAT-GGTTTAG
*
38688537 GGATTATGGTTTAT
1 GGATTATGGTTTAG
* * * *
38688551 GGTTTAAGGGTTGG
1 GGATTATGGTTTAG
* *
38688565 GGTTTAAGGTTTAG
1 GGATTATGGTTTAG
*
38688579 GGGTNTATGGTTT
1 GGAT-TATGGTTT
38688592 TCTCTAAATG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 30 0.68
15 14 0.32
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.43
Consensus pattern (14 bp):
GGATTATGGTTTAG
Found at i:38688554 original size:21 final size:20
Alignment explanation
Indices: 38688459--38688591 Score: 81
Period size: 21 Copynumber: 6.2 Consensus size: 20
38688449 TATAGTTTAG
*
38688459 GGTTTATGGTTTAGGGAATAT
1 GGTTTATGGTTTAGGG-TTAT
* * *
38688480 GGTTTAGGGTTTAAGGTTTAG
1 GGTTTATGGTTT-AGGGTTAT
*
38688501 GAGTTACTAT--TTTAAGGTTAT
1 G-GTT--TATGGTTTAGGGTTAT
*
38688522 GGATTATGGGTTTAGGGATTAT
1 GGTTTAT-GGTTTAGGG-TTAT
**
38688544 GGTTTATGGTTTAAGGGTTGG
1 GGTTTATGGTTT-AGGGTTAT
*
38688565 GGTTTAAGGTTTAGGGGTNTAT
1 GGTTTATGGTTTA-GGGT-TAT
38688587 GGTTT
1 GGTTT
38688592 TCTCTAAATG
Statistics
Matches: 85, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.04
20 3 0.04
21 48 0.56
22 29 0.34
24 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (20 bp):
GGTTTATGGTTTAGGGTTAT
Found at i:38700565 original size:27 final size:27
Alignment explanation
Indices: 38700535--38700712 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38700525 ATATTGAGTC
* * * *
38700535 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38700562 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38700589 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38700617 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38700644 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38700671 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38700698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38700713 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38700674 original size:82 final size:81
Alignment explanation
Indices: 38700556--38700711 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38700546 TGCTATATAA
* *
38700556 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38700621 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38700638 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38700702 CACTTAGTGC
65 CACTTAGTGC
38700712 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38705374 original size:51 final size:49
Alignment explanation
Indices: 38705256--38705433 Score: 214
Period size: 51 Copynumber: 3.5 Consensus size: 49
38705246 GATGGTCATG
* * * *
38705256 TGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAAAGATAGGT-AGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTGGTCA-CA
* * *
38705306 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT-GGTCACA
*
38705357 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TGGTCACA
*
38705408 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
38705434 TGTGAACATG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 37 0.33
51 72 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTGGTCACA
Found at i:38705512 original size:46 final size:44
Alignment explanation
Indices: 38705444--38705531 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 44
38705434 TGTGAACATG
* *
38705444 TATCATTAATTATAAAGTGGTTGCTATGTTCTG-ATCTCACCGGA
1 TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATC-CACCGGA
* *
38705488 TATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCCACCG
38705532 TGTATTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.38
46 20 0.54
47 3 0.08
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (44 bp):
TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCCACCGGA
Found at i:38705707 original size:37 final size:38
Alignment explanation
Indices: 38705638--38705710 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
38705628 ATGCGTGGAA
* * *
38705638 TTGAATTTAATATTGACTTGAAAATGACAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
38705676 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
38705711 ATTATGACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:38710850 original size:51 final size:51
Alignment explanation
Indices: 38710712--38710864 Score: 182
Period size: 50 Copynumber: 3.0 Consensus size: 51
38710702 ATGTGAAAGT
*
38710712 GAAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
* * * * ***
38710763 GAAAG-AAAGGTCGCATGTGTAGTACTATGTACAGGCTACTACGTGTATTG
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
* * * * *
38710813 GATAGTGATGGTCACATGTGTAGTACTATCTGTAGGCTACTATGTGAACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
38710864 G
1 G
38710865 TATCATTAAT
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 41 0.51
51 40 0.49
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
Found at i:38718120 original size:29 final size:29
Alignment explanation
Indices: 38718078--38718134 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
38718068 CAAATGAAAA
38718078 AATCTCTCCAGTCCTATCTCTCTTCCAAG
1 AATCTCTCCAGTCCTATCTCTCTTCCAAG
*
38718107 AATCTCTTCAGTCCTATCTCTCTTCCAA
1 AATCTCTCCAGTCCTATCTCTCTTCCAA
38718135 TTCAGGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.37
Consensus pattern (29 bp):
AATCTCTCCAGTCCTATCTCTCTTCCAAG
Found at i:38721673 original size:28 final size:28
Alignment explanation
Indices: 38721642--38721761 Score: 98
Period size: 28 Copynumber: 4.2 Consensus size: 28
38721632 CTCGCCAAGT
* *
38721642 AGGCATCCTTTTAACAGAGTTTGCCAC-A
1 AGGCATCC-TTTAACAGAGATAGCCACAA
* * * *
38721670 AGGCATTCATTTAGCTGAGATAGGCACAA
1 AGGCA-TCCTTTAACAGAGATAGCCACAA
* *
38721699 AGGCATCCTTTAACAGAGATAGACATAA
1 AGGCATCCTTTAACAGAGATAGCCACAA
* * * *
38721727 AGACACCCTTTTAATAGAGATAGCTACAA
1 AGGCATCC-TTTAACAGAGATAGCCACAA
38721756 AGGCAT
1 AGGCAT
38721762 AATGTATTTG
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
28 42 0.60
29 28 0.40
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (28 bp):
AGGCATCCTTTAACAGAGATAGCCACAA
Found at i:38721757 original size:29 final size:27
Alignment explanation
Indices: 38721686--38721757 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
38721676 TCATTTAGCT
* *
38721686 GAGATAGGCACAAAGGCATCCTTTAACA
1 GAGATA-GCACAAAGACACCCTTTAACA
* *
38721714 GAGATAGACATAAAGACACCCTTTTAATA
1 GAGATAG-CACAAAGACACCC-TTTAACA
38721743 GAGATAGCTACAAAG
1 GAGATAGC-ACAAAG
38721758 GCATAATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.47
29 18 0.50
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (27 bp):
GAGATAGCACAAAGACACCCTTTAACA
Found at i:38728678 original size:13 final size:13
Alignment explanation
Indices: 38728660--38728686 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38728650 ATCTCAGGTA
38728660 ATTCTCATAATTG
1 ATTCTCATAATTG
38728673 ATTCTCATAATTG
1 ATTCTCATAATTG
38728686 A
1 A
38728687 GGCTCAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTCTCATAATTG
Found at i:38749356 original size:20 final size:18
Alignment explanation
Indices: 38749328--38749382 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 18
38749318 TAGTATTTTA
38749328 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAAGT
38749346 AATT-ATCTTAATATTAAA-T
1 --TTAAT-TTAATATTAAAGT
38749365 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAAGT
38749383 GTTTAAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.41
18 3 0.09
19 3 0.09
20 13 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTAATTTAATATTAAAGT
Found at i:38762001 original size:13 final size:15
Alignment explanation
Indices: 38761983--38762014 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
38761973 ACTACCCTAG
38761983 CTTTTAAC-T-GAAA
1 CTTTTAACATAGAAA
38761996 CTTTTAACATAGAAA
1 CTTTTAACATAGAAA
38762011 CTTT
1 CTTT
38762015 AGATTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (15 bp):
CTTTTAACATAGAAA
Found at i:38769026 original size:40 final size:40
Alignment explanation
Indices: 38768928--38769097 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
38768918 TCCTCATTCA
* * * *
38768928 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA-T
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38768967 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38769007 AATGCCTTCGGGACTTAACCC-GACTTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGA-TTTAATAACTCGCACG
* * * *
38769047 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38769087 AAGGCCTTCGG
1 AATGCCTTCGG
38769098 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 36 0.31
40 79 0.68
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:38774461 original size:46 final size:45
Alignment explanation
Indices: 38774352--38774607 Score: 173
Period size: 45 Copynumber: 5.7 Consensus size: 45
38774342 GATCGGAGGG
* * * * *
38774352 TGCCATGGTCTCTTTCAACCACT-GTCTTATTTA-TTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCA-TGGTCTTATTCATTTC-CATCGTGA
*
38774397 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT-CCATCGTGA
* *
38774443 TGCCATAGTGTCTTTCAACTATGGTCTTATTTC-TTT-GATTCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA-TTCATTTCCA-TCGTGA
* * * * ***
38774488 TGCCATAGTGTCTTTCAGCTATAGTCTTACTCGA-TAGAATCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTCCATCGTGA
* * * * * * * *
38774533 TGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAAT-ATGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTC-CATCGTGA
* * *
38774578 TGTCATAGTGTCTTTCAACTATGGTATTAT
1 TGCCATAGTGTCTTTCAACCATGGTCTTAT
38774608 CTATTCCCGG
Statistics
Matches: 174, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
44 5 0.03
45 123 0.71
46 42 0.24
47 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCATCGTGA
Found at i:38774515 original size:45 final size:44
Alignment explanation
Indices: 38774394--38774607 Score: 191
Period size: 45 Copynumber: 4.8 Consensus size: 44
38774384 ATTCTCGTCT
* *
38774394 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCCATCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT--GATCG
*
38774440 TGTTGCCATAGTGTCTTTCAACTATGGTCTTATTTC-TTTGATTCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTGA-TCG
* * * *
38774485 TGATGCCATAGTGTCTTTCAGCTATAGTCTTACTCGA-TAGAATCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTG-ATCG
* * * * * *
38774530 TGATGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAAT-A
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TT-TGATCG
* * *
38774575 TGGTGTCATAGTGTCTTTCAACTATGGTATTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTAT
38774608 CTATTCCCGG
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
44 4 0.03
45 95 0.68
46 37 0.27
47 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (44 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGATCG
Found at i:38774637 original size:45 final size:45
Alignment explanation
Indices: 38774533--38774657 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 45
38774523 AGAATCGTGA
* * * * *
38774533 TGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAATATGG
1 TGCCATAATATCTTTCAACTATGGTATTACTCATTCCCAATATAG
* * * **
38774578 TGTCATAGTGTCTTTCAACTATGGTATTA-TCTATTCCCGGTATAG
1 TGCCATAATATCTTTCAACTATGGTATTACTC-ATTCCCAATATAG
* *
38774623 TGCCATAATATCTTTCAACTATGGTCTTAATCATT
1 TGCCATAATATCTTTCAACTATGGTATTACTCATT
38774658 TCCTTCAAGC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.03
45 60 0.94
46 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (45 bp):
TGCCATAATATCTTTCAACTATGGTATTACTCATTCCCAATATAG
Found at i:38777252 original size:90 final size:90
Alignment explanation
Indices: 38777106--38777283 Score: 212
Period size: 90 Copynumber: 2.0 Consensus size: 90
38777096 TTTGTATCTT
* * * * * * ** * *
38777106 TTTGAAAATGCGTGACTAAATTGTAAATTTACACATCTCACATCTAACGTTTGTTACCAAGTTAA
1 TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
*
38777171 AAGGCCAGTGACCAGCTTGTAACCG
66 AAGGCCAGTGACCAACTTGTAACCG
* * *
38777196 TTTGAAATTGAGTGACCAAATTATAAATTTACCCATCACACACCTGACATCCGTTACAAAGCTAA
1 TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
* *
38777261 TAGGCCTGTGACCAACTTGTAAC
66 AAGGCCAGTGACCAACTTGTAAC
38777284 TTTTGAATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (90 bp):
TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
AAGGCCAGTGACCAACTTGTAACCG
Found at i:38778231 original size:20 final size:19
Alignment explanation
Indices: 38778202--38778259 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
38778192 TTTTTTAAAA
*
38778202 ATAAAAATTTTAAAATTTTT
1 ATAAATATTTT-AAATTTTT
*
38778222 ATAAATATTTTGAA-TTTT
1 ATAAATATTTTAAATTTTT
*
38778240 AAAAATTATTTTCAAATTTT
1 ATAAA-TATTTT-AAATTTT
38778260 GAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 12 0.39
21 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAAATATTTTAAATTTTT
Found at i:38778249 original size:19 final size:19
Alignment explanation
Indices: 38778218--38778273 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
38778208 ATTTTAAAAT
*
38778218 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
38778236 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
*
38778256 TTTTGAAAATTATTTTGA
1 TTTTAAAAATTATTTTGA
38778274 TCTTTTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 17 0.53
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:38778264 original size:20 final size:19
Alignment explanation
Indices: 38778208--38778271 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
38778198 AAAAATAAAA
*
38778208 ATTTTAAAATTTTTATAAA-T
1 ATTTT-AAA-TTTTAAAAATT
*
38778228 ATTTTGAATTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
*
38778247 ATTTTCAAATTTTGAAAATT
1 ATTTT-AAATTTTAAAAATT
38778267 ATTTT
1 ATTTT
38778272 GATCTTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 22 0.58
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:38782359 original size:22 final size:22
Alignment explanation
Indices: 38782331--38782374 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38782321 ATTTGGTTTT
38782331 TATATTTTCGTACATAATTATG
1 TATATTTTCGTACATAATTATG
38782353 TATATTTTCGTACATAATTATG
1 TATATTTTCGTACATAATTATG
38782375 AGAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (22 bp):
TATATTTTCGTACATAATTATG
Found at i:38786541 original size:43 final size:43
Alignment explanation
Indices: 38786492--38786676 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
38786482 TTTTAAAAAA
* * *
38786492 AAACGCCGCTAAAGACCAAGGCCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
38786535 AAACGCCGCTAAAGACTAAGACCTTTAGCGGCGCTCTTCTCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
38786578 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
38786621 AAACGTCACTATAGACTATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
38786664 AAACGCCACTAAA
1 AAACGCCACTAAA
38786677 AACATAATAT
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:38786590 original size:86 final size:86
Alignment explanation
Indices: 38786492--38786676 Score: 280
Period size: 86 Copynumber: 2.2 Consensus size: 86
38786482 TTTTAAAAAA
* * * *
38786492 AAACGCCGCTAAAGACCAAGGCCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACTAAGAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
*
38786557 CTTTAGCGGCGCTCTTCTCAC
66 CTTTAGCGGCGCTCTTATCAC
* * * *
38786578 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCACTATAGACTATGAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
*
38786643 CTTTAGCGGCGCTTTTATCAC
66 CTTTAGCGGCGCTCTTATCAC
38786664 AAACGCCACTAAA
1 AAACGCCACTAAA
38786677 AACATAATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (86 bp):
AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
CTTTAGCGGCGCTCTTATCAC
Found at i:38790300 original size:22 final size:22
Alignment explanation
Indices: 38790263--38790315 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
38790253 ACCCTAACCC
38790263 AACCCTTAAATCCCTAAATCATA
1 AACCC-TAAATCCCTAAATCATA
* * *
38790286 AACCCTAAATTCCTAACTCTTA
1 AACCCTAAATCCCTAAATCATA
*
38790308 ACCCCTAA
1 AACCCTAA
38790316 CTCTTAACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTAAATCCCTAAATCATA
Found at i:38790314 original size:14 final size:14
Alignment explanation
Indices: 38790297--38790324 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38790287 ACCCTAAATT
38790297 CCTAACTCTTAACC
1 CCTAACTCTTAACC
38790311 CCTAACTCTTAACC
1 CCTAACTCTTAACC
38790325 ATTAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (14 bp):
CCTAACTCTTAACC
Found at i:38790345 original size:21 final size:20
Alignment explanation
Indices: 38790321--38790361 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
38790311 CCTAACTCTT
*
38790321 AACCATTAAACCTTAAATCCC
1 AACCATTAAACCAT-AATCCC
*
38790342 AACCCTTAAACCATAATCCC
1 AACCATTAAACCATAATCCC
38790362 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCATTAAACCATAATCCC
Found at i:38790619 original size:20 final size:21
Alignment explanation
Indices: 38790594--38790633 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38790584 CTAGTTAATC
38790594 TAAACCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
38790614 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
38790634 CCTTAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:38790663 original size:15 final size:14
Alignment explanation
Indices: 38790593--38790664 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 14
38790583 ACTAGTTAAT
*
38790593 CTAAACCCTAAACC
1 CTAAACCATAAACC
* *
38790607 ATAAA-CTTAAACC
1 CTAAACCATAAACC
38790620 CTAAAACCATAAACC
1 CT-AAACCATAAACC
*
38790635 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
38790649 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
38790664 C
1 C
38790665 CAGCCTTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 8 0.17
14 17 0.37
15 21 0.46
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:38791148 original size:12 final size:12
Alignment explanation
Indices: 38791131--38791156 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38791121 TTTTTTATCC
38791131 AAACGCCGCTAA
1 AAACGCCGCTAA
38791143 AAACGCCGCTAA
1 AAACGCCGCTAA
38791155 AA
1 AA
38791157 GTCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:38793347 original size:4 final size:4
Alignment explanation
Indices: 38793338--38793373 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
38793328 TACACTGTTG
38793338 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
38793374 CACATTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:38803165 original size:23 final size:22
Alignment explanation
Indices: 38803113--38803165 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38803103 TCCACGTCTT
*
38803113 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38803135 -TTCATTTTCTCTTCTTTCTT-TAA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38803158 TTTCTTTT
1 TTTCTTTT
38803166 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 13 0.50
24 5 0.19
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38803205 original size:21 final size:21
Alignment explanation
Indices: 38803158--38803216 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
38803148 CTTTCTTTAA
* *
38803158 TTTCTTTTTCACTCTCAATCTCTT
1 TTTCTTTTT--CT-TCATTCTCCT
38803182 TTTGCTTTTT-TTCATTCTCCT
1 TTT-CTTTTTCTTCATTCTCCT
38803203 TTTCTTTTTCTTCA
1 TTTCTTTTTCTTCA
38803217 CTTGTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 6 0.19
21 15 0.48
22 1 0.03
24 3 0.10
25 6 0.19
ACGTcount: A:0.08, C:0.25, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTCTTTTTCTTCATTCTCCT
Found at i:38810239 original size:20 final size:20
Alignment explanation
Indices: 38810210--38810248 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38810200 AGATATCATC
38810210 ATTTTCAACTTAATTTGAAT
1 ATTTTCAACTTAATTTGAAT
*
38810230 ATTTTTAACTTAATTTGAA
1 ATTTTCAACTTAATTTGAA
38810249 AGAAATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTTCAACTTAATTTGAAT
Found at i:38813500 original size:27 final size:27
Alignment explanation
Indices: 38813439--38813522 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
38813429 TCCCAAACTA
* *
38813439 TTATAAAATGACTGTTATGCCCCCCACG
1 TTATAAAATGACTGTTATG-CCCCTATG
**
38813467 TGGTAAAATGACTGTTATGCCCCTATG
1 TTATAAAATGACTGTTATGCCCCTATG
* *
38813494 TTATAAAATGACCG-TATG-CTCTATG
1 TTATAAAATGACTGTTATGCCCCTATG
38813519 TTAT
1 TTAT
38813523 GTATGAGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.21
26 4 0.08
27 17 0.35
28 17 0.35
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
TTATAAAATGACTGTTATGCCCCTATG
Found at i:38813848 original size:33 final size:32
Alignment explanation
Indices: 38813792--38813853 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
38813782 TTATTGTCAC
38813792 TGTAATGGGCTAAGACCACATTGATACTGATAT
1 TGTAATGGGCTAAGACCACATTGA-ACTGATAT
*
38813825 TGTAATGGGCTAAGGCTCA-ATTGAACTGA
1 TGTAATGGGCTAAGAC-CACATTGAACTGA
38813854 ACTGTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.19
33 20 0.74
34 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (32 bp):
TGTAATGGGCTAAGACCACATTGAACTGATAT
Found at i:38817591 original size:16 final size:15
Alignment explanation
Indices: 38817566--38817599 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
38817556 AAAGCTGATA
*
38817566 ATAATTAATATACATT
1 ATAATAAATATA-ATT
38817582 ATAATAAATATAATT
1 ATAATAAATATAATT
38817597 ATA
1 ATA
38817600 TTAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:38830411 original size:6 final size:6
Alignment explanation
Indices: 38830400--38830432 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
38830390 GATAAACCAA
38830400 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
38830433 TTACTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:38833148 original size:6 final size:6
Alignment explanation
Indices: 38833130--38833159 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
38833120 GCAAATGAAT
38833130 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
38833160 TGGGAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:38834885 original size:19 final size:19
Alignment explanation
Indices: 38834863--38834901 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38834853 GAAGGGATAC
38834863 AAACAGAGTTGATGTCTTG
1 AAACAGAGTTGATGTCTTG
38834882 AAACAGAGTTGATGTCTTG
1 AAACAGAGTTGATGTCTTG
38834901 A
1 A
38834902 TGAGTAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AAACAGAGTTGATGTCTTG
Found at i:38837538 original size:24 final size:24
Alignment explanation
Indices: 38837510--38837557 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38837500 AAGAGGTCCC
*
38837510 ATGTAAGACCATGTCTAGGACATG
1 ATGTAAGACCATGTATAGGACATG
38837534 ATGTAAGACCATGTATAGGACATG
1 ATGTAAGACCATGTATAGGACATG
38837558 GCGTTGGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
ATGTAAGACCATGTATAGGACATG
Found at i:38837609 original size:50 final size:50
Alignment explanation
Indices: 38837534--38837716 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 50
38837524 CTAGGACATG
* *
38837534 ATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATAAGAGATCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCC
* * *
38837584 ATGTAAGACCATGTCTAGGACATGGCATTGGTACCGAGATGAGAGGTTCCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGA-GAT-CCC
* * * *
38837636 A--TAAGACCATGTTTGGGACATGGCATGGGCACC-A-ATATGAGAACTCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAG-A-TCCC
* * *
38837684 ATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCA
38837717 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
47 1 0.01
48 8 0.07
49 2 0.02
50 94 0.85
51 2 0.02
52 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCC
Found at i:38843413 original size:50 final size:49
Alignment explanation
Indices: 38843338--38843565 Score: 215
Period size: 50 Copynumber: 4.6 Consensus size: 49
38843328 CATTTGGGTA
* * * * *
38843338 AAGATGTCCCATGTAATACCGTGTCTGCAACATGGCGTTGGCGCCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCACCGAGAT
* * *
38843388 AAGATGTCCCATGTAAGACCATGTCTAGGACATGTCGTTGACACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGAT
* * * *
38843438 AAGAGGTCCCATGTAGGAGCATGTCTGGGATATGGCGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGAT
* * * * *
38843488 GAGAGGTCCC-TCGTAAGACCATGTCTAGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCAT-GTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGAT
** * *
38843538 AAGAAATCCCACGTAAGACCATATCTGG
1 AAGAGGTCCCATGTAAGACCATGTCTGG
38843566 GATATGGCAT
Statistics
Matches: 146, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 3 0.02
50 142 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGAT
Found at i:38843540 original size:100 final size:100
Alignment explanation
Indices: 38843369--38843578 Score: 251
Period size: 100 Copynumber: 2.1 Consensus size: 100
38843359 TGTCTGCAAC
* * * * * *
38843369 ATGGCGTTGGCGCCGAGATAAGATGTCCCATGTAAGACCATGTCTAGGACATGTCGTTGACACCG
1 ATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGACACCA
** * * * *
38843434 AGATAAGAGGTCCCATGTAGGAGCATGTCTGGGAT
66 AGATAAGAAATCCCACGTAAGACCATATCTGGGAT
* * *
38843469 ATGGCGTTGGCACTGAGATGAGAGGTCCC-TCGTAAGACCATGTCTAGGACATGGCATGGGCACC
1 ATGGCGTTGGCACCGAGATAAGAGGTCCCAT-GTAAGACCATGTCTAGGACATGGCATGGACACC
*
38843533 AATATAAGAAATCCCACGTAAGACCATATCTGGGAT
65 AAGATAAGAAATCCCACGTAAGACCATATCTGGGAT
*
38843569 ATGGCATTGG
1 ATGGCGTTGG
38843579 TAGTACAGGA
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 91 0.99
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (100 bp):
ATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGACACCA
AGATAAGAAATCCCACGTAAGACCATATCTGGGAT
Found at i:38845277 original size:33 final size:33
Alignment explanation
Indices: 38845227--38845401 Score: 163
Period size: 33 Copynumber: 5.3 Consensus size: 33
38845217 TGGCAACCAT
* * * **
38845227 AGAGTAAGTTCATTGGGACAGTAAACATAAAGT
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
38845260 AGGGTAAGTCCGCTGGGATAGTAAACA-AAGAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAA-AAC
* * * *
38845293 AAAGTAAGTCCGCTAGGATAGTAAACACAAAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
38845326 AGAGTAAGTCCATTGGGACAATAAACACAAAAT
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
38845359 AGGGTAAGTCCACTGGGACAGTAAATACAGAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
*
38845392 AGGGTAAGTC
1 AGAGTAAGTC
38845402 TGTCGGGACA
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
32 2 0.02
33 113 0.97
34 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (33 bp):
AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
Found at i:38854556 original size:50 final size:50
Alignment explanation
Indices: 38854368--38854658 Score: 296
Period size: 50 Copynumber: 5.8 Consensus size: 50
38854358 GATAATAACA
* ** * * * **
38854368 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-AT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
38854417 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
38854467 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
38854517 TGCCAATGCCATATCCCAGACATGGTCCTACATGAGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
38854567 TGTCAACGCCATGTCCTAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
38854617 TGCCAACGCCATGTTGCAGACACGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38854659 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 39, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
49 38 0.19
50 164 0.81
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:38875378 original size:7 final size:7
Alignment explanation
Indices: 38875366--38875390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38875356 ATTTGGGAAA
38875366 TTTAGGG
1 TTTAGGG
38875373 TTTAGGG
1 TTTAGGG
38875380 TTTAGGG
1 TTTAGGG
38875387 TTTA
1 TTTA
38875391 AGAGGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:38886606 original size:51 final size:50
Alignment explanation
Indices: 38886473--38886662 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 50
38886463 GTGAAAGTGA
* * * *
38886473 TGGTCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGGT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA-GTT
* * *
38886523 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAG-TT
* * * * * * *
38886574 TGATCACGTGTGTAGTACTATGTGCAGACTACTATGTGTATCGGATAATGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGT-T
* *
38886625 TGGTCACATGTGTAGTACTATGTGCAGGATAGTATGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
38886663 AACCGGTATC
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 41 0.36
51 74 0.64
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTT
Found at i:38886738 original size:46 final size:43
Alignment explanation
Indices: 38886664--38886762 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
38886654 TAGTATGTGA
*
38886664 ACCGGTATCATTAATTATAAAGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTACAAAGTGGTTGCTATGTGCTGAAT-CC
* *
38886707 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCC
38886753 ACCGTGTATC
1 ACCG-GTATC
38886763 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 14 0.29
46 26 0.54
47 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCC
Found at i:38897789 original size:7 final size:7
Alignment explanation
Indices: 38897777--38897818 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
38897767 TAAATAAGAG
38897777 CTCATCC
1 CTCATCC
38897784 CTCATCC
1 CTCATCC
*
38897791 ATCATCC
1 CTCATCC
*
38897798 ATCATCC
1 CTCATCC
*
38897805 CTCATCT
1 CTCATCC
38897812 CTCATCC
1 CTCATCC
38897819 ACCCTCTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (7 bp):
CTCATCC
Found at i:38897802 original size:21 final size:21
Alignment explanation
Indices: 38897778--38897819 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38897768 AAATAAGAGC
38897778 TCATCCCTCATC-CATCATCCA
1 TCATCCCTCATCTC-TCATCCA
38897799 TCATCCCTCATCTCTCATCCA
1 TCATCCCTCATCTCTCATCCA
38897820 CCCTCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.21, C:0.48, G:0.00, T:0.31
Consensus pattern (21 bp):
TCATCCCTCATCTCTCATCCA
Found at i:38908817 original size:51 final size:50
Alignment explanation
Indices: 38908759--38908943 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
38908749 CCGGTTTACA
* * *
38908759 TAGTAGCCTGCACATAGTACTACACATATGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGGTACACG
* ** * * * *
38908810 TAGTAGCCTGCACATAATACTACACGCGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-ATCCGGTACACG
*
38908861 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGGTACACG
* *
38908911 TAGTATCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
38908944 TAGCAACTTC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 43 0.39
51 63 0.58
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGGTACACG
Found at i:38908941 original size:101 final size:101
Alignment explanation
Indices: 38908757--38908941 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
38908747 ACCCGGTTTA
* *
38908757 CATAGTAGCCTGCACATAGTACTACACATATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCA-TATCATCCGATACACGTAGTAGCCTGCA
*
38908822 CATAATACTACACGCGTGATCGAAGCTATCCGGTACG
65 CATAATACTACACACGTGATCGAAGCTATCCGGTACG
* * *
38908859 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTATCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCATATCA-TCCGATACACGTAGTAGCCTGCA
*
38908923 CATAGTACTACACACGTGA
65 CATAATACTACACACGTGA
38908942 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATACGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAATACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:38912550 original size:16 final size:15
Alignment explanation
Indices: 38912525--38912555 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
38912515 TGATAGATCT
38912525 CTGACGAACTTCCAA
1 CTGACGAACTTCCAA
38912540 CTGATCGAACTTCCAA
1 CTGA-CGAACTTCCAA
38912556 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (15 bp):
CTGACGAACTTCCAA
Found at i:38912810 original size:21 final size:21
Alignment explanation
Indices: 38912784--38912825 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38912774 ACGTAACACT
38912784 TAATTCATCATCATTACCATA
1 TAATTCATCATCATTACCATA
*
38912805 TAATTCATTATCATTACCATA
1 TAATTCATCATCATTACCATA
38912826 CGATCATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTCATCATCATTACCATA
Found at i:38919118 original size:27 final size:27
Alignment explanation
Indices: 38919080--38919258 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
38919070 TAAATTGTAC
38919080 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
38919107 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
38919133 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
38919161 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
38919189 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
38919216 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
38919243 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
38919259 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:38919248 original size:82 final size:81
Alignment explanation
Indices: 38919077--38919258 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
38919067 GATTAAATTG
* *
38919077 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38919142 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
38919158 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
38919222 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
38919240 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
38919259 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:38919927 original size:79 final size:79
Alignment explanation
Indices: 38919796--38919955 Score: 275
Period size: 79 Copynumber: 2.0 Consensus size: 79
38919786 TCACGTACAT
* *
38919796 AAAATTTATCGTAGGATGGGTGAAAGGCCGTTTAGTCGTTTGATTGTAACGAAAATAAATTGATT
1 AAAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTTTGAATGTAACGAAAATAAATTGATT
38919861 TATGAAAATGCTTC
66 TATGAAAATGCTTC
* *
38919875 AAAATTTATCGTAGAATGGGTGAAAGGCCGTTTTGTTGTTTGAATGTAACGAAAATAAATTGATT
1 AAAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTTTGAATGTAACGAAAATAAATTGATT
*
38919940 TGTGAAAATGCTTC
66 TATGAAAATGCTTC
38919954 AA
1 AA
38919956 TGTCCTATTG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (79 bp):
AAAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTTTGAATGTAACGAAAATAAATTGATT
TATGAAAATGCTTC
Found at i:38922858 original size:33 final size:33
Alignment explanation
Indices: 38922815--38922912 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 33
38922805 TTACTTTTAG
*
38922815 AGCGGACTATCTCTATTCTTTGTTTATTGTCCT
1 AGCGGACTATCTCTATTCTATGTTTATTGTCCT
* * * * * * *
38922848 AGTGGGCTATCTCTGTTATGTGTTTACTGCCCT
1 AGCGGACTATCTCTATTCTATGTTTATTGTCCT
* *
38922881 AGCGGACTATCCCCATTCTATGTTTATTGTCC
1 AGCGGACTATCTCTATTCTATGTTTATTGTCC
38922913 CAATAGACTA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (33 bp):
AGCGGACTATCTCTATTCTATGTTTATTGTCCT
Found at i:38928375 original size:28 final size:27
Alignment explanation
Indices: 38928318--38928414 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
38928308 TAAATTGTGC
*
38928318 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
38928345 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
38928373 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
38928400 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38928415 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:38950255 original size:28 final size:27
Alignment explanation
Indices: 38950223--38950275 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
38950213 AAAATAATTA
*
38950223 AAATTAAATATGTTAACAATTTAAGTTT
1 AAATTAAATATGTTAA-AATTAAAGTTT
* *
38950251 AAATTAATTATTTTAAAATTAAAGT
1 AAATTAAATATGTTAAAATTAAAGT
38950276 GTGAATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (27 bp):
AAATTAAATATGTTAAAATTAAAGTTT
Found at i:38950282 original size:27 final size:28
Alignment explanation
Indices: 38950223--38950282 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
38950213 AAAATAATTA
* *
38950223 AAATTAAATATGTTAACAATTTAAGTTT
1 AAATTAAATATGTTAACAATTAAAGTGT
* *
38950251 AAATTAATTATTTTAA-AATTAAAGTGT
1 AAATTAAATATGTTAACAATTAAAGTGT
*
38950278 GAATT
1 AAATT
38950283 TCAACAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAACAATTAAAGTGT
Found at i:38954850 original size:27 final size:27
Alignment explanation
Indices: 38954815--38954901 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
38954805 AAAGGTTGTT
* *
38954815 AAATAACCGTAATA-CCCTCAT-TGGTTA
1 AAATGACCGTAATACCCCT-ATAAGG-TA
*
38954842 AAATGACCGAAATACCCCTATAAGGTA
1 AAATGACCGTAATACCCCTATAAGGTA
* * *
38954869 AAATGACCGTAATGCCCCTAGAGGGT-
1 AAATGACCGTAATACCCCTATAAGGTA
38954895 AAATGAC
1 AAATGAC
38954902 TGATTTGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.14
27 38 0.75
28 6 0.12
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTATAAGGTA
Found at i:38957069 original size:22 final size:22
Alignment explanation
Indices: 38957044--38957085 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38957034 TACCAAGTTG
38957044 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
38957063 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
38957085 A
1 A
38957086 GTTGTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:38957072 original size:16 final size:15
Alignment explanation
Indices: 38957047--38957080 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
38957037 CAAGTTGATA
*
38957047 ATAATTAATATATATT
1 ATAATAAATATA-ATT
38957063 ATAATAAATATAATT
1 ATAATAAATATAATT
38957078 ATA
1 ATA
38957081 TATTAGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:38961132 original size:13 final size:13
Alignment explanation
Indices: 38961101--38961134 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
38961091 TTTCTAAGAT
38961101 GGGAAATGAACAA
1 GGGAAATGAACAA
38961114 -GGAAATGAACAA
1 GGGAAATGAACAA
38961126 GGGAAATGA
1 GGGAAATGA
38961135 GAAAACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.53, C:0.06, G:0.32, T:0.09
Consensus pattern (13 bp):
GGGAAATGAACAA
Found at i:38961827 original size:27 final size:28
Alignment explanation
Indices: 38961768--38961821 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
38961758 AAAATAATTA
*
38961768 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
38961796 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
38961822 TGAATTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:38962118 original size:68 final size:67
Alignment explanation
Indices: 38961955--38962243 Score: 277
Period size: 68 Copynumber: 4.2 Consensus size: 67
38961945 AAAGAGGATA
* *
38961955 AGGTTTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGAT-ATGG-CA-TAAACTTATAG
1 AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCT-ATGA-GGACATTAAAC--ATGG
38962017 GGTTGCA-
62 GGTT--AT
* * *
38962024 AGGTATAAGACCATAGCTCGACTATGGCAACTAATAAAGTCTATGAGGATATTAAACATGGGGTT
1 AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGTT
38962089 AT
66 AT
*
38962091 GAGGTATAAGACTATAGCTCGACTATGGCAACCAATAGAGT-T-TGCCAGGACATTAAACATGGG
1 -AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATG--AGGACATTAAACATGGG
38962154 GTTACT
63 GTTA-T
* * * * ** * *
38962160 AGGTATAAGACCATAGCTC-AGTTATAGCAACTAATAGAGTCCACCAAGACATTAAACATCGGGT
1 AGGTATAAGACCATAGCTCGA-CTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGT
*
38962224 TACA
65 TA-T
*
38962228 AGGTGTAAGACCATAG
1 AGGTATAAGACCATAG
38962244 ATTTGCTATG
Statistics
Matches: 189, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
66 3 0.02
67 2 0.01
68 137 0.72
69 42 0.22
70 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (67 bp):
AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGTT
AT
Found at i:38962254 original size:136 final size:136
Alignment explanation
Indices: 38961954--38962243 Score: 343
Period size: 136 Copynumber: 2.1 Consensus size: 136
38961944 GAAAGAGGAT
* *
38961954 AAGGTTTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGATATGGCATAAACTTATAGGG
1 AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGGCATAAAC-TATAGGG
* * * ** * * *
38962019 TTGCAAGGTATAAGACCATAGCTCGACTATGGCAACTAATAAAGTCTATGAGGATATTAAACATG
65 TTACAAGGTATAAGACCATAGCTCGACTATAGCAACTAATAAAGTCCACCAAGACATTAAACATC
*
38962084 GGGTTAT
130 GGGTTAC
* * * * *
38962091 GAGGTATAAGACTATAGCTCGACTATGGCAACCAATAGAGTTTGCCA-GGACATTAAAC-ATGGG
1 AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGG-CA-TAAACTATAGG
* * *
38962154 GTTACTAGGTATAAGACCATAGCTC-AGTTATAGCAACTAATAGAGTCCACCAAGACATTAAACA
64 GTTACAAGGTATAAGACCATAGCTCGA-CTATAGCAACTAATAAAGTCCACCAAGACATTAAACA
38962218 TCGGGTTAC
128 TCGGGTTAC
*
38962227 AAGGTGTAAGACCATAG
1 AAGGTATAAGACCATAG
38962244 ATTTGCTATG
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
135 1 0.01
136 79 0.62
137 43 0.34
138 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (136 bp):
AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGGCATAAACTATAGGGT
TACAAGGTATAAGACCATAGCTCGACTATAGCAACTAATAAAGTCCACCAAGACATTAAACATCG
GGTTAC
Found at i:38967496 original size:45 final size:45
Alignment explanation
Indices: 38967446--38967531 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
38967436 TGTTATTATG
* * * *
38967446 AAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCGTCATGATA
1 AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCATGATA
*
38967491 AAAATGAATAAGACCATAGGTGAAAGACGCTATGGCATCAT
1 AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCAT
38967532 ATGAAAACGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (45 bp):
AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCATGATA
Found at i:38970884 original size:60 final size:60
Alignment explanation
Indices: 38970811--38970931 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
38970801 CATGAATTTA
38970811 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
1 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
38970871 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
1 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
38970931 C
1 C
38970932 AGATAAGATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (60 bp):
CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
Found at i:38988167 original size:27 final size:27
Alignment explanation
Indices: 38988136--38988313 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38988126 TAAATTGTAC
38988136 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38988163 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38988189 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38988217 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38988245 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38988272 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38988299 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38988314 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38988250 original size:82 final size:81
Alignment explanation
Indices: 38988137--38988292 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38988127 AAATTGTACA
* *
38988137 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38988201 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38988218 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38988283 TGCGAGTTGA
65 TGCGAATTGA
38988293 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38988304 original size:82 final size:81
Alignment explanation
Indices: 38988133--38988313 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38988123 GATTAAATTG
* *
38988133 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38988198 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38988214 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38988278 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38988296 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38988314 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38996230 original size:27 final size:27
Alignment explanation
Indices: 38996199--38996376 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38996189 TAAATTGTAC
38996199 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38996226 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38996252 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38996280 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38996308 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38996335 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38996362 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38996377 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38996313 original size:82 final size:81
Alignment explanation
Indices: 38996200--38996355 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38996190 AAATTGTACA
* *
38996200 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38996264 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38996281 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38996346 TGCGAGTTGA
65 TGCGAATTGA
38996356 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38996367 original size:82 final size:81
Alignment explanation
Indices: 38996196--38996376 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38996186 GATTAAATTG
* *
38996196 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38996261 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38996277 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38996341 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38996359 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38996377 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38999709 original size:19 final size:18
Alignment explanation
Indices: 38999687--38999734 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
38999677 TGAAAATCAT
*
38999687 AAAAATATTAATAATTATA
1 AAAAATATTAA-AAATATA
38999706 AAAAACTA-TAAAAATATA
1 AAAAA-TATTAAAAATATA
38999724 AAAAA-ATTAAA
1 AAAAATATTAAA
38999735 TGAGTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 11 0.42
19 8 0.31
20 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATATTAAAAATATA
Found at i:39000043 original size:11 final size:10
Alignment explanation
Indices: 39000027--39000065 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
39000017 TTACATTTTA
39000027 AATTTTTATCT
1 AATTTTTAT-T
39000038 AATTTTTATT
1 AATTTTTATT
* *
39000048 AAATTTTATA
1 AATTTTTATT
39000058 AATTTTTA
1 AATTTTTA
39000066 ACTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTATT
Found at i:39005689 original size:44 final size:44
Alignment explanation
Indices: 39005640--39005774 Score: 145
Period size: 44 Copynumber: 3.1 Consensus size: 44
39005630 AGAATATGAG
39005640 AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
1 AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
* ** * ** * *
39005684 AAACTTCAATTAT-TCAATTATT-CAACAATGG-T-AAC-ATCTT
1 AAACTTAAACAATACCAAAAATTACAAC-ATGGATCGACTAGCTT
39005724 CAAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
1 -AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
39005769 AAACTT
1 AAACTT
39005775 CTAAGATTCC
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
40 4 0.06
41 12 0.18
42 15 0.22
43 15 0.22
44 18 0.26
45 4 0.06
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (44 bp):
AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
Found at i:39006035 original size:91 final size:91
Alignment explanation
Indices: 39005880--39006048 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 91
39005870 TAGCTTTTTC
* * *
39005880 TTGGTTTTCTTCCACTAACTTAATTATATTATTATAGTTATGTTTAGTTTTCTTTATTAATATAA
1 TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATGTTTAGTTTTCTTTATAAATATAA
*
39005945 TTTATAACATTTTGTTGTTAATTATT
66 TGTATAACATTTTGTTGTTAATTATT
* *
39005971 TTGGTTTTCTTCCACTAAATTTATTTTATTATTAAAGTTATGTTTTA-TTTTCTTTATAAATATA
1 TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATG-TTTAGTTTTCTTTATAAATATA
39006035 ATGTATAACATTTT
65 ATGTATAACATTTT
39006049 TTTAACAACA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 67 0.94
92 4 0.06
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (91 bp):
TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATGTTTAGTTTTCTTTATAAATATAA
TGTATAACATTTTGTTGTTAATTATT
Found at i:39006563 original size:21 final size:21
Alignment explanation
Indices: 39006539--39006578 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39006529 GTCATGTGAG
*
39006539 TGGGTCACATAGCCTTGTGGA
1 TGGGTCACATAGCCGTGTGGA
*
39006560 TGGGTCACATGGCCGTGTG
1 TGGGTCACATAGCCGTGTG
39006579 AACAAACCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.28
Consensus pattern (21 bp):
TGGGTCACATAGCCGTGTGGA
Found at i:39007511 original size:12 final size:12
Alignment explanation
Indices: 39007494--39007518 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39007484 ATGCACAAGT
39007494 TAACATAAATAA
1 TAACATAAATAA
39007506 TAACATAAATAA
1 TAACATAAATAA
39007518 T
1 T
39007519 GAGGTGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACATAAATAA
Found at i:39018581 original size:12 final size:13
Alignment explanation
Indices: 39018560--39018588 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39018550 ACTTCTATGA
39018560 AAAAATAAAATAT
1 AAAAATAAAATAT
39018573 AAAAA-AAAATAT
1 AAAAATAAAATAT
39018585 AAAA
1 AAAA
39018589 CCCCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAATAT
Found at i:39023146 original size:15 final size:16
Alignment explanation
Indices: 39023116--39023154 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
39023106 TAGTAAAAAT
39023116 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
39023133 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
39023148 ATAATTT
1 ATAATTT
39023155 TTAAAATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:39023591 original size:22 final size:22
Alignment explanation
Indices: 39023566--39023621 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
39023556 TGTTCAGATG
39023566 ATTATATATAAAATAAT-TAAAT
1 ATTATATA-AAAATAATATAAAT
*
39023588 ATTATATAAAAATAATATACAT
1 ATTATATAAAAATAATATAAAT
*
39023610 ATT-TTTAAAAAT
1 ATTATATAAAAAT
39023622 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTATATAAAAATAATATAAAT
Found at i:39038352 original size:15 final size:15
Alignment explanation
Indices: 39038332--39038376 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
39038322 TATATTTTAT
39038332 AATTAAATAATTAAA
1 AATTAAATAATTAAA
* *
39038347 AATTAATTAAATAAA
1 AATTAAATAATTAAA
39038362 ATATTAGAATAATTA
1 A-ATTA-AATAATTA
39038377 GATTTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 14 0.58
16 4 0.17
17 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTAAATAATTAAA
Found at i:39039902 original size:17 final size:17
Alignment explanation
Indices: 39039882--39039965 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 17
39039872 TTATGATGGA
39039882 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* **
39039899 GCATGAATTGTTATTCG
1 GCATGAACTGTTATTTT
* * *
39039916 GTATGAACTGATATTTC
1 GCATGAACTGTTATTTT
** * *
39039933 ATATGAATTATTATTTT
1 GCATGAACTGTTATTTT
* *
39039950 GCATGAGCTGTCATTT
1 GCATGAACTGTTATTT
39039966 GGTAAGAATT
Statistics
Matches: 48, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:39039982 original size:51 final size:51
Alignment explanation
Indices: 39039892--39039990 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
39039882 GCATGAACTG
* * * *
39039892 TTATTTTGCATGAATTGTTATTCGGTATGAACTGATATTTCATATGAATTA
1 TTATTTTGCATGAACTGTCATTCGGTAAGAACTGATATTTCAAATGAATTA
* * * *
39039943 TTATTTTGCATGAGCTGTCATTTGGTAAGAATTGTTATTTCAAATGAA
1 TTATTTTGCATGAACTGTCATTCGGTAAGAACTGATATTTCAAATGAA
39039991 AAGATGTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.45
Consensus pattern (51 bp):
TTATTTTGCATGAACTGTCATTCGGTAAGAACTGATATTTCAAATGAATTA
Found at i:39042847 original size:22 final size:22
Alignment explanation
Indices: 39042822--39042870 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
39042812 TTTATACCCA
39042822 TGTTTGTATTTGTAAAATAAAT
1 TGTTTGTATTTGTAAAATAAAT
39042844 TGTTTGTATTTGTAAAATAAAT
1 TGTTTGTATTTGTAAAATAAAT
39042866 TGTTT
1 TGTTT
39042871 AAGACATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TGTTTGTATTTGTAAAATAAAT
Found at i:39045275 original size:25 final size:27
Alignment explanation
Indices: 39045220--39045285 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
39045210 CAATATTATT
39045220 TTTAATAATTTTT-TGTTTTCTCATATC
1 TTTAATAATTTTTATGTTTTCTCATA-C
39045247 TTTAATAATTTTTAT-TATTT-TCATA-
1 TTTAATAATTTTTATGT-TTTCTCATAC
*
39045272 TTTAATTATTTTTA
1 TTTAATAATTTTTA
39045286 ACCTCACAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 13 0.36
27 19 0.53
28 4 0.11
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTAATAATTTTTATGTTTTCTCATAC
Found at i:39047248 original size:18 final size:20
Alignment explanation
Indices: 39047220--39047256 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
39047210 AACATTTTCC
39047220 TTCTCTTCTT-CTTATTTTT
1 TTCTCTTCTTCCTTATTTTT
39047239 TTCT-TTCTTCCTTATTTT
1 TTCTCTTCTTCCTTATTTT
39047257 CCCTCCCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTCTTCTTCCTTATTTTT
Found at i:39047785 original size:12 final size:12
Alignment explanation
Indices: 39047765--39047803 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
39047755 CACACAACCG
*
39047765 TGTGGTAGGTCA
1 TGTGGTAGGCCA
*
39047777 TGTGTTAGGCCA
1 TGTGGTAGGCCA
39047789 TGTGGTAGGCCA
1 TGTGGTAGGCCA
39047801 TGT
1 TGT
39047804 AACTCACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.38, T:0.33
Consensus pattern (12 bp):
TGTGGTAGGCCA
Found at i:39047907 original size:63 final size:63
Alignment explanation
Indices: 39047798--39047943 Score: 186
Period size: 63 Copynumber: 2.3 Consensus size: 63
39047788 ATGTGGTAGG
* * * * * *
39047798 CCATGTAACTCACTATTTTGGAATTAGAGACATATAGGCTAGAGACACAGGCGTCTGTGCAGG
1 CCATGTAACTCACTATTTTGGAATTAGAGACACAGAGGCTACAGACACAAGCGTCTGTCCAGA
* * * *
39047861 TCGTGTAACTCACTATTTTGGAATTAGGGACACACGA-GCTACAGACACAAGCGTGTGTCCAGA
1 CCATGTAACTCACTATTTTGGAATTAGAGACACA-GAGGCTACAGACACAAGCGTCTGTCCAGA
39047924 CCATGTAACTCACTATTTTG
1 CCATGTAACTCACTATTTTG
39047944 AGCCACACTA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
63 69 0.99
64 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (63 bp):
CCATGTAACTCACTATTTTGGAATTAGAGACACAGAGGCTACAGACACAAGCGTCTGTCCAGA
Found at i:39051219 original size:13 final size:13
Alignment explanation
Indices: 39051201--39051245 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
39051191 TTTAAATAAA
39051201 CAGTTAATAGAAT
1 CAGTTAATAGAAT
*
39051214 CAGTTAATCA-AGT
1 CAGTTAAT-AGAAT
39051227 CAGTTAATAGAAT
1 CAGTTAATAGAAT
39051240 CAGTTA
1 CAGTTA
39051246 GTCAAACCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:39051230 original size:26 final size:26
Alignment explanation
Indices: 39051201--39051250 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
39051191 TTTAAATAAA
39051201 CAGTTAATAGAATCAGTTAATCAAGT
1 CAGTTAATAGAATCAGTTAATCAAGT
*
39051227 CAGTTAATAGAATCAGTTAGTCAA
1 CAGTTAATAGAATCAGTTAATCAA
39051251 ACCAGTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
CAGTTAATAGAATCAGTTAATCAAGT
Found at i:39051256 original size:26 final size:26
Alignment explanation
Indices: 39051201--39051256 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
39051191 TTTAAATAAA
**
39051201 CAGTTAATAGAATCAGTTAATCAAGT
1 CAGTTAATAGAATCAGTTAATCAAAC
*
39051227 CAGTTAATAGAATCAGTTAGTCAAAC
1 CAGTTAATAGAATCAGTTAATCAAAC
39051253 CAGT
1 CAGT
39051257 CATTGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (26 bp):
CAGTTAATAGAATCAGTTAATCAAAC
Found at i:39051857 original size:57 final size:57
Alignment explanation
Indices: 39051796--39051915 Score: 197
Period size: 57 Copynumber: 2.1 Consensus size: 57
39051786 GTGTTATGAT
* *
39051796 ACTGATGGTCGACACCCCCTTATCTGATTAAAAAA-AGTTTTTTTGGGGTGTTGGGAC
1 ACTGATGGCCGACACCCCCTTATCTGATTAAAAAAGA-TTTTTTTGGGGTGCTGGGAC
*
39051853 ACTGATGGCCGACACCCCTTTATCTGATTAAAAAAGATTTTTTTGGGGTGCTGGGAC
1 ACTGATGGCCGACACCCCCTTATCTGATTAAAAAAGATTTTTTTGGGGTGCTGGGAC
39051910 ACTGAT
1 ACTGAT
39051916 AGCTGTCACA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 58 0.98
58 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (57 bp):
ACTGATGGCCGACACCCCCTTATCTGATTAAAAAAGATTTTTTTGGGGTGCTGGGAC
Found at i:39051932 original size:57 final size:57
Alignment explanation
Indices: 39051796--39051976 Score: 167
Period size: 57 Copynumber: 3.3 Consensus size: 57
39051786 GTGTTATGAT
* * * * *
39051796 ACTGATGGTCGACACCCCCTTATCTGATTAAAAAAAGTTTTTTTGGGGTGTTGGGAC
1 ACTGATAGCCGACACACCTTTATCTGATTAAAAAAAGTTTTTTTGGGGTGCTGGGAC
* *
39051853 ACTGATGGCCGACACCCCTTTATCTGATT-AAAAAAGATTTTTTTGGGGTGCTGGGAC
1 ACTGATAGCCGACACACCTTTATCTGATTAAAAAAAG-TTTTTTTGGGGTGCTGGGAC
* * ** * * *
39051910 ACTGATAGCTGTCACATTTTTATTTGATT-----AATTTTTTTTTGGGTGCTGGGAC
1 ACTGATAGCCGACACACCTTTATCTGATTAAAAAAAGTTTTTTTGGGGTGCTGGGAC
* *
39051962 AGTGATGGCCGACAC
1 ACTGATAGCCGACAC
39051977 CTTCTTTCCA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
52 30 0.28
53 2 0.02
56 7 0.07
57 68 0.64
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (57 bp):
ACTGATAGCCGACACACCTTTATCTGATTAAAAAAAGTTTTTTTGGGGTGCTGGGAC
Found at i:39052082 original size:52 final size:54
Alignment explanation
Indices: 39051950--39052089 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 54
39051940 ATTTTTTTTT
* * *
39051950 GGGTGCTGGGACAGTGATGGCCGACA-CCTTCTTTCCAGAATTAAAAAAAAATTA
1 GGGTGCTAGGACACTGATGACCGACACCCTT-TTTCCAGAATTAAAAAAAAATTA
* * * * *
39052004 GGGTG-TTGGAACACTGATAACTGACACCCCTTTTCCA-AATT-AAAAAAAATTG
1 GGGTGCTAGG-ACACTGATGACCGACACCCTTTTTCCAGAATTAAAAAAAAATTA
* *
39052056 GGGTGCTAAGACATTGATGACCGACACCCTTTTT
1 GGGTGCTAGGACACTGATGACCGACACCCTTTTT
39052090 ATTAGTTCAA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
52 35 0.50
53 9 0.13
54 23 0.33
55 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (54 bp):
GGGTGCTAGGACACTGATGACCGACACCCTTTTTCCAGAATTAAAAAAAAATTA
Found at i:39056127 original size:19 final size:19
Alignment explanation
Indices: 39056103--39056140 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
39056093 ATCTAAAGTT
39056103 TTATTTAATTTAC-ATTTTA
1 TTATTT-ATTTACTATTTTA
39056122 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
39056141 CCCTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:39060001 original size:131 final size:130
Alignment explanation
Indices: 39059577--39059968 Score: 579
Period size: 130 Copynumber: 3.0 Consensus size: 130
39059567 TTTGATCCGC
* * * * *
39059577 TCCACTGC-AACTTCAGGGAAATAGGATTAGTGGCTTAAATCTGTTTGCTTACTACCTGGGGAAG
1 TCCACTGCTAAC--CAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACT-CCT-GGGAAG
* * *
39059641 ATAAGATTCGTCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAATTTTCAAC
62 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
39059706 CTAT
127 CTAT
* * *
39059710 TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTAAGTCTACTTTCCTACTCCTGGGAAGATAA
1 TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGAAGATAA
* * *
39059775 GATTCGCCGTCTTCGATCTGCTCCATTACTGCTTAGAGAGATAAGATCTGTAATTTCCAACCTAT
66 GATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAT
*
39059840 TCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGAAAGATA
1 TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGG-AAGATA
* *
39059905 AGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
65 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
39059969 GCTCTGCTGC
Statistics
Matches: 235, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
130 123 0.52
131 68 0.29
132 33 0.14
133 8 0.03
134 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (130 bp):
TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGAAGATAA
GATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAT
Found at i:39060011 original size:131 final size:130
Alignment explanation
Indices: 39059577--39060016 Score: 555
Period size: 130 Copynumber: 3.4 Consensus size: 130
39059567 TTTGATCCGC
* * * * * *
39059577 TCCACTGC-AACTTCAGGGAAATAGGATTAGTGGCTTAAATCTGTTTGCTTACTACCTGGGGAAG
1 TCCACTGCTAAC--CAGGGAGATAGGACTAGTGGCTTTAATCTGCTTCCCTACT-CCT-GGGAAG
* * *
39059641 ATAAGATTCGTCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAATTTTCAAC
62 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
39059706 CTAT
127 CTAT
* *
39059710 TCCACTGCTAACCAGGGAGATAGGACTAGTGGC-TTAAGTCTACTTTCCTACTCCTGGGAAGATA
1 TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTTAA-TCTGCTTCCCTACTCCTGGGAAGATA
* * *
39059774 AGATTCGCCGTCTTCGATCTGCTCCATTACTGCTTAGAGAGATAAGATCTGTAATTTCCAACCTA
65 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
39059839 T
130 T
* *
39059840 TCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGAAAGATA
1 TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTTAATCTGCTTCCCTACTCCTGGG-AAGATA
* * *
39059905 AGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTG
65 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
*
39059970 C
130 T
** * * *
39059971 TCTGCTGC-AATCCAGGAAGGCTA-GACTAGTGTCTTTAATCTGCTTC
1 TCCACTGCTAA-CCAGGGA-GATAGGACTAGTGGCTTTAATCTGCTTC
39060017 ACTATCAGTA
Statistics
Matches: 270, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
130 120 0.44
131 107 0.40
132 32 0.12
133 8 0.03
134 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (130 bp):
TCCACTGCTAACCAGGGAGATAGGACTAGTGGCTTTAATCTGCTTCCCTACTCCTGGGAAGATAA
GATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAT
Found at i:39060198 original size:44 final size:43
Alignment explanation
Indices: 39060076--39060203 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 43
39060066 CAACCCAAGG
* * *
39060076 AGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTATAGGA
1 AGGCAAGACTAGTGTCTTC-ATCTGCTTCGCTGTCAGTATAGGA
* * *
39060120 AAGCAAGATCT-GCTATCTTCAGTCTGCTCCGCTGTCAGT-TGAGGA
1 AGGCAAGA-CTAG-TGTCTTCA-TCTGCTTCGCTGTCAGTAT-AGGA
*
39060165 AGGCAAGACTAGTGTCTTCGATTTGCTTCGCTGTCAGTA
1 AGGCAAGACTAGTGTCTTC-ATCTGCTTCGCTGTCAGTA
39060204 CAAAAAGGCA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
44 32 0.48
45 35 0.52
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (43 bp):
AGGCAAGACTAGTGTCTTCATCTGCTTCGCTGTCAGTATAGGA
Found at i:39060305 original size:177 final size:177
Alignment explanation
Indices: 39059961--39060330 Score: 427
Period size: 177 Copynumber: 2.1 Consensus size: 177
39059951 ATCTGTAATT
* * ** * *
39059961 TTCAACCTGCTCTGCTG-CAATCCAGGAAGGCTAGACTAGTGTCTTTAATCTGCTTCACTATCAG
1 TTCAACCTGCTCCGCTGTCAGTTGAGGAAGGCAAGACTAGTGTCTTCAATCTGCTTCACTATCAG
* ** * * * *
39060025 TATAGGAAGGCAAGATCTGCTATCTTTAACCTATTCCGCTGCAACCCAAGGAGGCAAGGCTAGTG
66 TACAAAAAGGCAAGATCTGCCATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGGCTAGTG
* * * **
39060090 TCTTCAATCTGCTTCACTGTTAGTATAGGAAAGCAAGATCTGCTATC
131 TCTTCAATCTACTTCACTGTCAGTACAGGAAAGCAAGATCCACTATC
** * * * *
39060137 TTCAGTCTGCTCCGCTGTCAGTTGAGGAAGGCAAGACTAGTGTCTTCGATTTGCTTCGCTGTCAG
1 TTCAACCTGCTCCGCTGTCAGTTGAGGAAGGCAAGACTAGTGTCTTCAATCTGCTTCACTATCAG
* * * * *
39060202 TACAAAAAGGCAAGATCTGCCATCTTCAACCTGCTCCATTGTAACCTAGGGAGGCAAGGCTAGTG
66 TACAAAAAGGCAAGATCTGCCATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGGCTAGTG
* * * * *
39060267 TCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCCACTATC
131 TCTTCAATCTACTTCACTGTCAGTACAGGAAAGCAAGATCCACTATC
39060314 TTCAACCTGCTCCGCTG
1 TTCAACCTGCTCCGCTG
39060331 CAACCCGGGG
Statistics
Matches: 157, Mismatches: 36, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
176 14 0.09
177 143 0.91
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (177 bp):
TTCAACCTGCTCCGCTGTCAGTTGAGGAAGGCAAGACTAGTGTCTTCAATCTGCTTCACTATCAG
TACAAAAAGGCAAGATCTGCCATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGGCTAGTG
TCTTCAATCTACTTCACTGTCAGTACAGGAAAGCAAGATCCACTATC
Found at i:39060342 original size:88 final size:88
Alignment explanation
Indices: 39059948--39060367 Score: 410
Period size: 88 Copynumber: 4.8 Consensus size: 88
39059938 TTAGGGAGAT
* * * * * * **
39059948 AAGATCTG-TAATTTTCAACCTGCTCTGCTGCAATCCAGGAAGGCTAGACTAGTGTCTTTAATCT
1 AAGATCTGCT-ATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
* *
39060012 GCTTCACTATCAGTATAGGAAGGC
65 GCTTCACTGTCAGTACAGGAAGGC
* ** * *
39060036 AAGATCTGCTATCTTTAACCTATTCCGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCAATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* * *
39060101 CTTCACTGTTAGTATAGGAAAGC
66 CTTCACTGTCAGTACAGGAAGGC
** **** * * *
39060124 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTTGAGGAAGGCAAGACTAGTGTCTTCGATTT
1 AAGATCTGCTATCTTCAACCTGCTCCGCTG-CAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
* **
39060189 GCTTCGCTGTCAGTACAAAAAGGC
65 GCTTCACTGTCAGTACAGGAAGGC
* ** * * *
39060213 AAGATCTGCCATCTTCAACCTGCTCCATTGTAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTA
1 AAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* * *
39060278 CTTCGCTGTCGGTGCAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
** * * * *
39060301 AAGATCCACTATCTTCAACCTGCTCCGCTGCAACCCGGGGAGGTAAGGTTGGTGTCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
39060366 CT
66 CT
39060368 ATTTTCAACC
Statistics
Matches: 266, Mismatches: 64, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
88 197 0.74
89 69 0.26
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (88 bp):
AAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
CTTCACTGTCAGTACAGGAAGGC
Found at i:39060411 original size:57 final size:57
Alignment explanation
Indices: 39060309--39060416 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 57
39060299 GCAAGATCCA
* * * * *
39060309 CTATCTTCAACCTGCTCCGCTGCAACCCGGGGAGGTAAGGTTGGTGTCTTCGATCTG
1 CTATCTTCAACCTGCTCCGCTGCAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTG
*
39060366 CTATTTTCAACCTGCTCCGCTGCAACACAGGGAAGCAAGGCTGGTGTCTTC
1 CTATCTTCAACCTGCTCCGCTGCAACACAGGGAAGCAAGGCTGGTGTCTTC
39060417 AATTTGCTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.27
Consensus pattern (57 bp):
CTATCTTCAACCTGCTCCGCTGCAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTG
Found at i:39060478 original size:145 final size:145
Alignment explanation
Indices: 39060215--39060512 Score: 402
Period size: 145 Copynumber: 2.1 Consensus size: 145
39060205 AAAAAGGCAA
* * * * *
39060215 GATCTGCCATCTTCAACCTGCTCCATTGTAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTACT
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACCTAGGGAAGCAAGGCTAGTGTCTTCAATCTACT
* * *
39060280 TCGCTGTCGGTGCAGGAAGGCAAGATCCACTATCTTCAACCTGCTCCGCTGCAACCCG-GGGAGG
66 TCGCTGTCAGTGCAAGAAGGCAAGATCCACTATCTTCAACCTGCTCCACTGCAA-CCGAGGGAGG
*
39060344 TAAGGTTGGTGTCTTC
130 CAAGGTTGGTGTCTTC
* * * * *
39060360 GATCTGCTATTTTCAACCTGCTCCGCTGCAACAC-AGGGAAGCAAGGCTGGTGTCTTCAATTTGC
1 GATCTGCTATCTTCAACCTGCTCCACTGCAAC-CTAGGGAAGCAAGGCTAGTGTCTTCAATCTAC
** *
39060424 TTCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCGAGGGAGG
65 TTCGCTGTCAGTGCAAGAAGGCAAGATCCACTATCTTCAACCTGCTCCACTGCAACCGAGGGAGG
39060489 CAAGGTTGGTGTCTTC
130 CAAGGTTGGTGTCTTC
*
39060505 AATCTGCT
1 GATCTGCT
39060513 TCACTGTCGG
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
144 3 0.02
145 129 0.97
146 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.27
Consensus pattern (145 bp):
GATCTGCTATCTTCAACCTGCTCCACTGCAACCTAGGGAAGCAAGGCTAGTGTCTTCAATCTACT
TCGCTGTCAGTGCAAGAAGGCAAGATCCACTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGC
AAGGTTGGTGTCTTC
Found at i:39060513 original size:88 final size:88
Alignment explanation
Indices: 39060360--39060550 Score: 276
Period size: 88 Copynumber: 2.2 Consensus size: 88
39060350 TGGTGTCTTC
* *
39060360 GATCTGCTATTTTCAACCTGCTCCGCTGCAACACAGGGAAGCAAGGCTGGTGTCTTCAATTTGCT
1 GATCTGCTATTTTCAACCTGCTCCACTGCAACACAGGGAAGCAAGGCTGGTGTCTTCAATCTGCT
*
39060425 TCGCTGTCAGTGCAAGAAGGCAA
66 TCACTGTCAGTGCAAGAAGGCAA
* *
39060448 GATCTGCTATTTTCAACCTGCTCCACTGCAAC-CGAGGGAGGCAAGGTTGGTGTCTTCAATCTGC
1 GATCTGCTATTTTCAACCTGCTCCACTGCAACAC-AGGGAAGCAAGGCTGGTGTCTTCAATCTGC
* * * *
39060512 TTCACTGTCGGTGTAGGAAGGGAA
65 TTCACTGTCAGTGCAAGAAGGCAA
*
39060536 GATCTGCTATCTTCA
1 GATCTGCTATTTTCA
39060551 CTTATCTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 91 0.99
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (88 bp):
GATCTGCTATTTTCAACCTGCTCCACTGCAACACAGGGAAGCAAGGCTGGTGTCTTCAATCTGCT
TCACTGTCAGTGCAAGAAGGCAA
Found at i:39067111 original size:8 final size:8
Alignment explanation
Indices: 39067096--39067125 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
39067086 ATGCCAATAA
39067096 TAAT-AAT
1 TAATAAAT
39067103 TAATAAAT
1 TAATAAAT
39067111 TAATAAAT
1 TAATAAAT
39067119 TAATAAA
1 TAATAAA
39067126 AAACAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATAAAT
Found at i:39070812 original size:22 final size:23
Alignment explanation
Indices: 39070777--39070841 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
39070767 AAAAACTATC
* *
39070777 TACAAATTAAATCTCTAAGATTA
1 TACAAATCATATCTCTAAGATTA
39070800 TA-AAATCATATCTTCTAAGA--A
1 TACAAATCATATC-TCTAAGATTA
*
39070821 TACATATCATATCT-TAAGATT
1 TACAAATCATATCTCTAAGATT
39070842 GAATATCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 5 0.14
21 4 0.11
22 17 0.49
23 9 0.26
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.37
Consensus pattern (23 bp):
TACAAATCATATCTCTAAGATTA
Found at i:39072283 original size:28 final size:29
Alignment explanation
Indices: 39072213--39072284 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
39072203 AAAAATCAAT
*
39072213 AAAAATTATTAAATTATTAAATTTTAATAA
1 AAAAATTA-GAAATTATTAAATTTTAATAA
* *
39072243 AAAAATATAAGAAA-TATTTAATTTTTATAA
1 AAAAAT-T-AGAAATTATTAAATTTTAATAA
39072273 AAAAATTAGAAA
1 AAAAATTAGAAA
39072285 AGGATTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 5 0.14
29 1 0.03
30 26 0.70
31 4 0.11
32 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAAATTAGAAATTATTAAATTTTAATAA
Done.