Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003163.1 Hibiscus syriacus cultivar Beakdansim tig00006657_pilon, whole genome shotgun sequence
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: 157297
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:1093 original size:23 final size:23
Alignment explanation
Indices: 1066--1114 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1056 GACATTATTA
*
1066 TGGCACTATGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
1089 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
1112 TGG
1 TGG
1115 TACTTCGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:1126 original size:23 final size:23
Alignment explanation
Indices: 1066--1126 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1056 GACATTATTA
* *
1066 TGGCACTATGGTGCAATTCTACG
1 TGGCACTACGATGCAATTCTACG
*
1089 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGATGCAATTCTACG
* *
1112 TGGTACTTCGATGCA
1 TGGCACTACGATGCA
1127 TTTATATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGATGCAATTCTACG
Found at i:2289 original size:18 final size:18
Alignment explanation
Indices: 2263--2298 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2253 AAATATCAAA
*
2263 ATAATTTATTAAATATAT
1 ATAAATTATTAAATATAT
*
2281 ATAAATTATTATATATAT
1 ATAAATTATTAAATATAT
2299 TTATAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATTATTAAATATAT
Found at i:3631 original size:3 final size:3
Alignment explanation
Indices: 3623--3713 Score: 94
Period size: 3 Copynumber: 29.7 Consensus size: 3
3613 GGCCCGTTTG
* * *
3623 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
3670 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3714 TTTAAATGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.03
3 64 0.88
4 7 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4553 original size:113 final size:113
Alignment explanation
Indices: 4259--5347 Score: 1516
Period size: 112 Copynumber: 9.7 Consensus size: 113
4249 CTTCTTCTTC
* * * * *
4259 TTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAAGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
4324 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * **
4372 -TCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGG
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATC-AAGTGATGAATTCAAGCAAAAGG
* *
4435 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
65 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * *
4484 TTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
4549 TGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *
4597 TTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
4662 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * * *
4709 TTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAA-TGATGAATTTAAGCAAAAAGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
4773 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * **
4821 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGG
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATC-AAGTGATGAATTCAAGCAAAAGG
* *
4885 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
65 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * *
4934 TTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
4999 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * *
5046 TTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAATGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
5111 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *** * * * *
5158 TTCTTCTCATTATGAACTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
5223 TGAACAAATTCTTCTCATTATGAA--T-TTCTTCCCTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* ** * * * ** * *
5268 TTCTTCTCATTATGAACTCTAACT-GACACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAG
1 TTCTTCTCATTATGAACTTTCTCTGGA-AATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGG
5332 TTGAACAAGTTCTTCT
65 TTGAACAAGTTCTTCT
5348 TCTTCAAATG
Statistics
Matches: 881, Mismatches: 87, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
109 9 0.01
110 70 0.08
111 52 0.06
112 402 0.46
113 348 0.40
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:4900 original size:337 final size:337
Alignment explanation
Indices: 4101--5347 Score: 1721
Period size: 337 Copynumber: 3.7 Consensus size: 337
4091 ATAGAATTAT
* *
4101 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAAGAGTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * *
4166 CTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGC-AAAGGTTGAA
63 CTCATTATGAACT-TTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAA
4229 CAAATTCTTCTCATTATGAA------CTT-CTTCTTC-------TTCTTCTCATTATGAACTTTC
127 CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * * * * * *
4280 TCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
192 TCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTAT
*
4345 GAACTTCTTCTTCCTTCTTCAGATGAG-TCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCC
257 GAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCC
*
4409 ATCGAATGATGGATTTGA
321 ATC-AATGATGAATTTGA
* * *
4427 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4492 ATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 ATTATGAACTTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
4557 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
4622 GAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
196 GAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
* *
4687 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAA
261 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
*
4752 TGATGAATTTAA
326 TGATGAATTTGA
4764 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * **
4829 ATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGGTTGAACAA
66 ATTATGAACTTTCTCTGGAAATGATAATCCATC-AAGTGATGAATTCAAGCAAAAGGTTGAACAA
*
4893 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
130 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
4958 GGCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAA
195 GGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAA
* *
5023 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCA
260 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCA
*
5088 AGTGATGAATTCGA
325 A-TGATGAATTTGA
* * *
5102 GCAAAATGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * * * *
5166 ATTATGAACTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGTTGAACAAA
66 ATTATGAACTTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
* **
5231 TTCTTCTCATTATGAATTTCTTC--CC-TCTTCAGATGAGTTCTTCTCATTATGAACTCTAACT-
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * ** * * *
5292 GACACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
196 GA-AATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCT
5348 TCTTCAAATG
Statistics
Matches: 826, Mismatches: 74, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
322 2 0.00
323 52 0.06
324 30 0.04
326 49 0.06
330 3 0.00
331 7 0.01
333 1 0.00
334 76 0.09
335 2 0.00
336 2 0.00
337 418 0.51
338 184 0.22
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (337 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
TGATGAATTTGA
Found at i:5839 original size:22 final size:22
Alignment explanation
Indices: 5814--5868 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
5804 CATAAAGTTT
*
5814 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
5836 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
5858 TCATCTTTGAA
1 TCATCTTTGAA
5869 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:8566 original size:83 final size:83
Alignment explanation
Indices: 8427--8899 Score: 743
Period size: 83 Copynumber: 5.7 Consensus size: 83
8417 GTAGTTCCTA
* * * * *
8427 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAA
*
8492 ATTCAATGATTGGTTTTG
66 ATTCAATGATTGGTTCTG
*
8510 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAA
*
8575 ATTCAATGATTGATTCTG
66 ATTCAATGATTGGTTCTG
*
8593 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCA
8657 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * *
8676 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCA
8740 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * *
8759 CTAAACCAGGTCAGATAACTCAAAGAACACTTTCAGAAGATGCTATTAACAAATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAA
8824 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
8842 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCAT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCAT
8900 TTTTCAGTTA
Statistics
Matches: 367, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
82 1 0.00
83 364 0.99
84 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:13042 original size:27 final size:27
Alignment explanation
Indices: 13012--13067 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
13002 GTAATAATGT
*
13012 AAAAATGAAAATGTAAATACAAACGTA
1 AAAAATGAAAATGCAAATACAAACGTA
* * *
13039 AAAAATGCAAATGCAAATTCAAATGTA
1 AAAAATGAAAATGCAAATACAAACGTA
13066 AA
1 AA
13068 TATGTGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAATGAAAATGCAAATACAAACGTA
Found at i:13140 original size:14 final size:15
Alignment explanation
Indices: 13106--13145 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
13096 TTGTGCAATA
* *
13106 CAAATGCAAAAATGC
1 CAAATGTAAATATGC
13121 CAAATGTAAATATG-
1 CAAATGTAAATATGC
13135 CAAATGTAAAT
1 CAAATGTAAAT
13146 GTAAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (15 bp):
CAAATGTAAATATGC
Found at i:14885 original size:30 final size:32
Alignment explanation
Indices: 14832--14890 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
14822 TGCAAATAAA
*
14832 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
14864 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
14891 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:15581 original size:20 final size:22
Alignment explanation
Indices: 15536--15581 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
15526 TTAAAAAAAA
15536 ATATCAAAATAATTTATTAAAT
1 ATATCAAAATAATTTATTAAAT
*
15558 ATAT-AAAATAA-TTATTATAT
1 ATATCAAAATAATTTATTAAAT
15578 ATAT
1 ATAT
15582 TATAACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 7 0.30
22 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATCAAAATAATTTATTAAAT
Found at i:16924 original size:3 final size:3
Alignment explanation
Indices: 16916--17002 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
16906 GGCCCGTTTG
* * * * *
16916 TAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA TTA TAA TTA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA TAA TAA TAA
*
16962 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17003 TTTAAATGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 64 0.91
4 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:17634 original size:13 final size:13
Alignment explanation
Indices: 17616--17640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17606 GAACCCTCCA
17616 ATTACATTTATTT
1 ATTACATTTATTT
17629 ATTACATTTATT
1 ATTACATTTATT
17641 ATAATATAAT
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:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTACATTTATTT
Found at i:17657 original size:20 final size:20
Alignment explanation
Indices: 17629--17682 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
17619 ACATTTATTT
*
17629 ATTACATTTATTATAATATA
1 ATTATATTTATTATAATATA
* *
17649 ATTATATTTAATATTTAATATT
1 ATTATATTT-AT-TATAATATA
*
17671 ATTATGTTTATT
1 ATTATATTTATT
17683 TATTATATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 15 0.54
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTATATTTATTATAATATA
Found at i:17674 original size:22 final size:23
Alignment explanation
Indices: 17637--17689 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
17627 TTATTACATT
17637 TATTATAATATAATTATATTTAA
1 TATTATAATATAATTATATTTAA
* * *
17660 TATT-TAATATTATTATGTTTATT
1 TATTATAATATAATTATATTTA-A
17683 TATTATA
1 TATTATA
17690 TTCATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 15 0.60
23 8 0.32
24 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATAATATAATTATATTTAA
Found at i:23180 original size:6 final size:6
Alignment explanation
Indices: 23169--23763 Score: 1123
Period size: 6 Copynumber: 100.2 Consensus size: 6
23159 TCACATCACT
23169 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23217 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23265 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23313 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23361 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA -TTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23408 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23456 TTTATA TTTATA TTTATA TTTATA TTTATA -TTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23503 TTTATA TTTATA TTTATA TTTAT- TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23550 -TT-TA TTTATA TTTATA TTTATA TTTATA -TTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23595 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
23643 TTTATA TTTATA TTTATA TTTATA TATT-TA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA T-TTATA TTTATA TTTATA TTTATA
23691 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
*
23739 TTTATA TTTTTA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
23764 CCCAAAGATG
Statistics
Matches: 579, Mismatches: 2, Indels: 16
0.97 0.00 0.03
Matches are distributed among these distances:
4 2 0.00
5 26 0.04
6 549 0.95
7 2 0.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:27666 original size:8 final size:8
Alignment explanation
Indices: 27608--27788 Score: 67
Period size: 8 Copynumber: 21.9 Consensus size: 8
27598 AAATAATAAC
27608 TAATATTAA
1 TAATATT-A
*
27617 TTATATTAA
1 TAATATT-A
27626 TAAT-TTA
1 TAATATTA
27633 TTATATATTA
1 -TA-ATATTA
27643 TTAA-ATTA
1 -TAATATTA
*
27651 -AA-AATA
1 TAATATTA
27657 TAATATTA
1 TAATATTA
27665 TATATATTA
1 TA-ATATTA
* *
27674 TTATAATA
1 TAATATTA
*
27682 TAACTGAGTA
1 TAA-T-ATTA
* *
27692 TATTAATA
1 TAATATTA
27700 TAATATTA
1 TAATATTA
27708 -AA-A-TA
1 TAATATTA
27713 TAATATTAA
1 TAATATT-A
27722 TAGA-ATTA
1 TA-ATATTA
27730 TAATATATA
1 TAATAT-TA
27739 TATATATATA
1 TA-ATAT-TA
27749 TATATATATA
1 TA-ATAT-TA
27759 TATATATTA
1 TA-ATATTA
*
27768 -AATATTT
1 TAATATTA
*
27775 TAATAAT-
1 TAATATTA
27782 TAATATT
1 TAATATT
27789 TTCATTAAAA
Statistics
Matches: 140, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
5 2 0.01
6 8 0.06
7 18 0.13
8 41 0.29
9 35 0.25
10 36 0.26
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (8 bp):
TAATATTA
Found at i:27681 original size:54 final size:56
Alignment explanation
Indices: 27526--27681 Score: 134
Period size: 54 Copynumber: 2.8 Consensus size: 56
27516 TAAAATATTG
* *
27526 TATTAATATTAAATATATAAAT-TAATATTATCATTATCATTATTAT--TAATTTAATAA
1 TATTATTATTAAAT-TAAAAATATAATATTAT-A-TAT-ATTATTATAATAATTTAATAA
* * *
27583 TATTATTTTTAAA--AAAAATAATAACTAATAT-TA-ATTA-TATTAATAATTT-ATTA
1 TATTATTATTAAATTAAAAAT-ATAA-TATTATATATATTATTA-TAATAATTTAATAA
27636 TA-TATTATTAAATTAAAAATATAATATTATATATATTATTATAATA
1 TATTATTATTAAATTAAAAATATAATATTATATATATTATTATAATA
27682 TAACTGAGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
51 2 0.02
52 19 0.23
53 11 0.14
54 28 0.35
55 2 0.02
56 3 0.04
57 16 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (56 bp):
TATTATTATTAAATTAAAAATATAATATTATATATATTATTATAATAATTTAATAA
Found at i:27714 original size:13 final size:13
Alignment explanation
Indices: 27651--27721 Score: 54
Period size: 13 Copynumber: 5.2 Consensus size: 13
27641 TATTAAATTA
27651 AAAATATAATATT
1 AAAATATAATATT
* *
27664 -ATATATATTATT
1 AAAATATAATATT
*
27676 ATAATATAACTGAGTAT
1 AAAATATAA-T-A-T-T
*
27693 ATTAATATAATATT
1 A-AAATATAATATT
27707 AAAATATAATATT
1 AAAATATAATATT
27720 AA
1 AA
27722 TAGAATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
12 10 0.22
13 18 0.39
14 3 0.07
15 2 0.04
16 2 0.04
17 3 0.07
18 8 0.17
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (13 bp):
AAAATATAATATT
Found at i:27739 original size:2 final size:2
Alignment explanation
Indices: 27728--27765 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27718 TTAATAGAAT
27728 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27766 TAAATATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28977 original size:17 final size:17
Alignment explanation
Indices: 28955--28990 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
28945 TAGTTTATTT
28955 TTTAAAAATTAAAAATA
1 TTTAAAAATTAAAAATA
*
28972 TTTAAAAATTATAAATA
1 TTTAAAAATTAAAAATA
28989 TT
1 TT
28991 CAAGAGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAATTAAAAATA
Found at i:30257 original size:22 final size:23
Alignment explanation
Indices: 30226--30269 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
30216 AGTCCTAGAT
30226 TTTTAGATTTTAAAT-AATTTAC
1 TTTTAGATTTTAAATAAATTTAC
* *
30248 TTTTATATTTTTAATAAATTTA
1 TTTTAGATTTTAAATAAATTTA
30270 TAATTATACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTAGATTTTAAATAAATTTAC
Found at i:32121 original size:20 final size:19
Alignment explanation
Indices: 32085--32122 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
32075 AAAATATGTG
32085 ATCATTTGAGTTGGATATT
1 ATCATTTGAGTTGGATATT
32104 ATCATATTGA-TTGTGATAT
1 ATCAT-TTGAGTTG-GATAT
32123 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (19 bp):
ATCATTTGAGTTGGATATT
Found at i:33222 original size:45 final size:45
Alignment explanation
Indices: 33124--33597 Score: 261
Period size: 43 Copynumber: 10.8 Consensus size: 45
33114 GAATTTTATG
* *
33124 GATTGA-AAAAAACTTAGAGG-C-C--TTATAAAGGTAGAAATTGA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTA-TAATTGA
** * *
33165 GATTGAATTAAAAAAAATAGGGATCTCAATTATAAAGGTATAATCGA
1 GATTG-A-TAAAAAACTTAGGGGTCTCAATTATAAAGGTATAATTGA
*
33212 GATTGAT--AAAACTTAGGGGTCTCGATTATAAAGGT-TGAAATTGA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTAT--AATTGA
* * * *
33256 GATTG-TAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTA-TAATTGA
* * * * * *
33301 GA-T--TAAAAAACTTAAGGGCCTTAATTATAAAGTTAAAAAAATG-
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGT--ATAATTGA
* *
33344 GA--GTTAAAAAA-TTAGGGG-CTTCAATTATAAAGGTATAATCGA
1 GATTGATAAAAAACTTAGGGGTC-TCAATTATAAAGGTATAATTGA
* *
33386 GATTGAT--AAAGCTTAGGGGTCTCGATTATAAAGGT-TGAAATTGA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTAT--AATTGA
* * * *
33430 GATTG-TAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTA-TAATTGA
* * * * ***
33475 GATT-A-AAAAAACTTAAGGGCCTTAGTTATAAA-GT-TAAAAAA
1 GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTATAATTGA
* * *
33516 AATGGAGTTAAAAAA-TTAGGGG-CTTCAATTATAAATGTATAAATTGA
1 GATTGA--TAAAAAACTTAGGGGTC-TCAATTATAAAGGTAT-AATTGA
*
33563 GATTG--AAAAAACTTAAGGGG-CTCAATTGTAAAGGT
1 GATTGATAAAAAACTT-AGGGGTCTCAATTATAAAGGT
33598 TGAAAAGGTA
Statistics
Matches: 337, Mismatches: 56, Indels: 77
0.72 0.12 0.16
Matches are distributed among these distances:
41 14 0.04
42 10 0.03
43 102 0.30
44 99 0.29
45 82 0.24
46 3 0.01
47 16 0.05
48 11 0.03
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (45 bp):
GATTGATAAAAAACTTAGGGGTCTCAATTATAAAGGTATAATTGA
Found at i:33281 original size:88 final size:87
Alignment explanation
Indices: 33146--33776 Score: 470
Period size: 88 Copynumber: 7.1 Consensus size: 87
33136 CTTAGAGGCC
* ** ** *
33146 TTATAAAGGTAGAAATTGAGATTGAATTAAAAAAAATAGGGATCTCAATTATAAAGGTATAATCG
1 TTATAAAGGTTGAAATTGAGATTG---TAAAAAACTTAGGGGCCTCAATTATAAAGGTAAAAT-G
* * *
33211 AGATTGATAAAACTTAGGGGTCTCGA
62 AGATTGAAAAAACTTAGGGGCCTCAA
*
33237 TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAG
1 TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGTA-AAA-TGAG
* *
33302 ATT-AAAAAACTTAAGGGCCTTAA
64 ATTGAAAAAACTTAGGGGCCTCAA
* * * * *
33325 TTATAAA-GTTAAAAAAATG-GAGT-TAAAAAA-TTAGGGGCTTCAATTATAAAGGTATAATCGA
1 TTATAAAGGTT--GAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGTAAAAT-GA
* * * *
33386 GATTGATAAAGCTTAGGGGTCTCGA
63 GATTGAAAAAACTTAGGGGCCTCAA
*
33411 TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAG
1 TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGTA-AAA-TGAG
* * * *
33476 ATTAAAAAAACTTAAGGGCCTTAG
64 ATTGAAAAAACTTAGGGGCCTCAA
* * * * *
33500 TTATAAA-GTTAAAAAAAATG-GAGT-TAAAAAA-TTAGGGGCTTCAATTATAAATGTATAAATT
1 TTATAAAGGTT---GAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGTA-AAA-T
33561 GAGATTGAAAAAACTTAAGGGG-CTCAA
61 GAGATTGAAAAAACTT-AGGGGCCTCAA
* * *
33588 TTGTAAAGGTTGAAAAGGTAGAAAATGAGATTG-AAAAAACTTAAGGGCCTCAATTATAAAGTTA
1 TTATAAAGGTTG-AAA--T------TGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGT-
* *
33652 AAAAAAGAGATT-AAAAAA-TTAGGGGACTCAA
56 -AAAATGAGATTGAAAAAACTTAGGGGCCTCAA
* * * ** * *
33683 TTATAAAGGTAGAAAATGAGATTG--GAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAGTGTG
1 TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGT-AAAA-TGAG
*
33746 ATT-AAAAAA--TAGGGGCTTCAA
64 ATTGAAAAAACTTAGGGGCCTCAA
33767 TTATAAAGGT
1 TTATAAAGGT
33777 AAAAAAGGGA
Statistics
Matches: 441, Mismatches: 66, Indels: 73
0.76 0.11 0.13
Matches are distributed among these distances:
84 26 0.06
85 51 0.12
86 54 0.12
87 23 0.05
88 128 0.29
89 55 0.12
90 5 0.01
91 28 0.06
94 8 0.02
95 19 0.04
96 15 0.03
97 25 0.06
98 3 0.01
99 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (87 bp):
TTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAAGGTAAAATGAGAT
TGAAAAAACTTAGGGGCCTCAA
Found at i:33353 original size:44 final size:43
Alignment explanation
Indices: 33189--33832 Score: 397
Period size: 43 Copynumber: 14.7 Consensus size: 43
33179 AAATAGGGAT
* * * * *
33189 CTCAATTATAAAGGT--ATAATCGAGATTGATAAAACTTAGGGGT
1 CTCAATTATAAAGTTAAAAAAT-GAGATT-AAAAAACTTAAGGGC
* * * *
33232 CTCGATTATAAAGGTT-GAAATTGAGATTGTAAAAAACTTAGGGGC
1 CTCAATTATAAA-GTTAAAAAATGAGA-T-TAAAAAACTTAAGGGC
* *
33277 CTCAATTATAAA-TGTAGAAAGTGAGATTAAAAAACTTAAGGGC
1 CTCAATTATAAAGT-TAAAAAATGAGATTAAAAAACTTAAGGGC
* *
33320 CTTAATTATAAAGTTAAAAAAATG-GAGTTAAAAAA-TTAGGGGC
1 CTCAATTATAAAGTT-AAAAAATGAGA-TTAAAAAACTTAAGGGC
* * * * * * *
33363 TTCAATTATAAAGGT--ATAATCGAGATTGATAAAGCTTAGGGGT
1 CTCAATTATAAAGTTAAAAAAT-GAGATT-AAAAAACTTAAGGGC
* * * *
33406 CTCGATTATAAAGGTT-GAAATTGAGATTGTAAAAAACTTAGGGGC
1 CTCAATTATAAA-GTTAAAAAATGAGA-T-TAAAAAACTTAAGGGC
* *
33451 CTCAATTATAAA-TGTAGAAAGTGAGATTAAAAAAACTTAAGGGC
1 CTCAATTATAAAGT-TAAAAAATGAGATT-AAAAAACTTAAGGGC
* * *
33495 CTTAGTTATAAAGTTAAAAAAAATG-GAGTTAAAAAA-TTAGGGGC
1 CTCAATTATAAAGTT--AAAAAATGAGA-TTAAAAAACTTAAGGGC
* * * *
33539 TTCAATTATAAA-TGTATAAATTGAGATTGAAAAAACTTAAGGGG
1 CTCAATTATAAAGT-TAAAAAATGAGATT-AAAAAACTTAAGGGC
*
33583 CTCAATTGTAAAGGTTGAAAAGGTAGAAAATGAGATTGAAAAAACTTAAGGGC
1 CTCAATTATAAA-GTT----A---A-AAAATGAGATT-AAAAAACTTAAGGGC
* * *
33636 CTCAATTATAAAGTTAAAAAAAGAGATTAAAAAA-TTAGGGGA
1 CTCAATTATAAAGTTAAAAAATGAGATTAAAAAACTTAAGGGC
* * ** *
33678 CTCAATTATAAAGGTAGAAAATGAGATTGGAAAACTTAAAGGC
1 CTCAATTATAAAGTTAAAAAATGAGATTAAAAAACTTAAGGGC
* * *
33721 CTCAATTATAAAGTTAAAAAGTGTGATTAAAAAA--TAGGGGC
1 CTCAATTATAAAGTTAAAAAATGAGATTAAAAAACTTAAGGGC
* * * * * * *
33762 TTCAATTATAAAGGTAAAAAA-GGGAATGAAAAAAATT-AGAGA
1 CTCAATTATAAAGTTAAAAAATGAG-ATTAAAAAACTTAAGGGC
*
33804 CTCCAATTATAAAGATAAAAAATGAGATT
1 CT-CAATTATAAAGTTAAAAAATGAGATT
33833 GAATAAAATT
Statistics
Matches: 477, Mismatches: 80, Indels: 88
0.74 0.12 0.14
Matches are distributed among these distances:
40 6 0.01
41 34 0.07
42 52 0.11
43 148 0.31
44 101 0.21
45 84 0.18
46 11 0.02
48 1 0.00
49 1 0.00
52 3 0.01
53 36 0.08
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (43 bp):
CTCAATTATAAAGTTAAAAAATGAGATTAAAAAACTTAAGGGC
Found at i:33421 original size:174 final size:175
Alignment explanation
Indices: 33190--33690 Score: 724
Period size: 174 Copynumber: 2.8 Consensus size: 175
33180 AATAGGGATC
33190 TCAATTATAAAGGTATAATCGAGATTGATAAAACTTAGGGGTCTCGATTATAAAGGTTGAAATTG
1 TCAATTATAAAGGTATAATCGAGATTGATAAAACTTAGGGGTCTCGATTATAAAGGTTGAAATTG
33255 AGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATTAAAAAACTTAAGGGC
66 AGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATTAAAAAACTTAAGGGC
33320 CTTAATTATAAAGTT-AAAAAAATGGAGTTAAAAAATTAGGGGCT
131 CTTAATTATAAAGTTAAAAAAAATGGAGTTAAAAAATTAGGGGCT
*
33364 TCAATTATAAAGGTATAATCGAGATTGATAAAGCTTAGGGGTCTCGATTATAAAGGTTGAAATTG
1 TCAATTATAAAGGTATAATCGAGATTGATAAAACTTAGGGGTCTCGATTATAAAGGTTGAAATTG
33429 AGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATTAAAAAAACTTAAGGG
66 AGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATT-AAAAAACTTAAGGG
*
33494 CCTTAGTTATAAAGTTAAAAAAAATGGAGTTAAAAAATTAGGGGCT
130 CCTTAATTATAAAGTTAAAAAAAATGGAGTTAAAAAATTAGGGGCT
* * * * *
33540 TCAATTATAAATGTATAAATTGAGATTGAAAAAACTTAAGGGG-CTCAATTGTAAAGGTTGAAAA
1 TCAATTATAAAGGTAT-AATCGAGATTGATAAAACTT-AGGGGTCTCGATTATAAAGGTTG-AAA
* * **
33604 GGTAGAAAATGAGATTG-AAAAAACTTAAGGGCCTCAATTATAAA-GTTAAAAAAAGAGATTAAA
63 --T------TGAGATTGTAAAAAACTTAGGGGCCTCAATTATAAATG-TAGAAAGTGAGATTAAA
* * *
33667 AAA-TTAGGGGACTCAATTATAAAG
119 AAACTTAAGGGCCTTAATTATAAAG
33691 GTAGAAAATG
Statistics
Matches: 297, Mismatches: 16, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
174 114 0.38
175 29 0.10
176 44 0.15
177 32 0.11
178 8 0.03
180 1 0.00
183 17 0.06
184 7 0.02
185 37 0.12
186 8 0.03
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (175 bp):
TCAATTATAAAGGTATAATCGAGATTGATAAAACTTAGGGGTCTCGATTATAAAGGTTGAAATTG
AGATTGTAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATTAAAAAACTTAAGGGC
CTTAATTATAAAGTTAAAAAAAATGGAGTTAAAAAATTAGGGGCT
Found at i:33645 original size:141 final size:137
Alignment explanation
Indices: 33261--33741 Score: 419
Period size: 141 Copynumber: 3.6 Consensus size: 137
33251 ATTGAGATTG
* * * * * *
33261 TAAAAAACTTAGGGGCCTCAATTATAAATGTAGAAAGTGAGATTAAAAAACTTAAGGGCCTTAAT
1 TAAAAAA-TTAGGGGACTCAATTATAAAGGTAGAAAATGAGATTGAAAAACTTAAAGGCCTCAAT
* * * *
33326 TATAAAGTT---AA---A-AAAATG-GAGTT-AAAAAA-TTAGGGGCTTCAATTATAAAGGT-AT
65 TATAAAGTTAAAAAGGTAGAAAATGAGA-TTAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAA
**
33380 AATCGAGAT
129 AAAAGAGAT
** * * * * **
33389 TGATAAAGCTTAGGGGTCTCGATTATAAAGGTTGAAATTGAGATTGTAAAAAACTTAGGGGCCTC
1 T-A-AAAAATTAGGGGACTCAATTATAAAGGTAGAAAATGAGATTG--AAAAACTTAAAGGCCTC
* * *
33454 AATTATAAA--T------GTAGAAAGTGAGATTAAAAAAACTTAAGGGCCTTAGTTATAAAGTTA
62 AATTATAAAGTTAAAAAGGTAGAAAATGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTTA
33511 AAAAAA-ATGGAGT
127 AAAAAAGA--GA-T
* * * * *
33524 TAAAAAATTAGGGG-CTTCAATTATAAATGTATAAATTGAGATTGAAAAAACTTAAGGGGCTCAA
1 TAAAAAATTAGGGGAC-TCAATTATAAAGGTAGAAAATGAGATTG-AAAAACTTAAAGGCCTCAA
* * *
33588 TTGTAAAGGTTGAAAAGGTAGAAAATGAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGTTAA
64 TTATAAA-GTTAAAAAGGTAGAAAATGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTTAA
33653 AAAAAGAGAT
128 AAAAAGAGAT
*
33663 TAAAAAATTAGGGGACTCAATTATAAAGGTAGAAAATGAGATTGGAAAACTTAAAGGCCTCAATT
1 TAAAAAATTAGGGGACTCAATTATAAAGGTAGAAAATGAGATTGAAAAACTTAAAGGCCTCAATT
33728 ATAAAGTTAAAAAG
66 ATAAAGTTAAAAAG
33742 TGTGATTAAA
Statistics
Matches: 287, Mismatches: 40, Indels: 43
0.78 0.11 0.12
Matches are distributed among these distances:
128 1 0.00
129 34 0.12
130 10 0.03
131 32 0.11
132 44 0.15
133 37 0.13
134 3 0.01
135 3 0.01
137 8 0.03
138 22 0.08
139 40 0.14
140 3 0.01
141 49 0.17
142 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (137 bp):
TAAAAAATTAGGGGACTCAATTATAAAGGTAGAAAATGAGATTGAAAAACTTAAAGGCCTCAATT
ATAAAGTTAAAAAGGTAGAAAATGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAA
AAGAGAT
Found at i:33811 original size:84 final size:85
Alignment explanation
Indices: 33601--33844 Score: 262
Period size: 84 Copynumber: 2.8 Consensus size: 85
33591 TAAAGGTTGA
* * * *
33601 AAAGGTAGAAAATGAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAAAAGAGATTAA
1 AAAGGTAGAAAAAGAGAATGAAAAAA-TTAAAGACCTCAATTATAAAGTTAAAAAAAGAGATTAA
33666 AAAATTAGGGGACTCAATTAT
65 AAAATTAGGGGACTCAATTAT
* * * * * ** *
33687 AAAGGTAGAAAATGAGATTGGAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAGTGTGATTAAA
1 AAAGGTAGAAAAAGAGAATGAAAAAATTAAAGACCTCAATTATAAAGTTAAAAAAAGAGATTAAA
33752 AAA-TAGGGG-CTTCAATTAT
66 AAATTAGGGGAC-TCAATTAT
* * * *
33771 AAAGGTA-AAAAAGGGAATGAAAAAAATTAGAGA-CTCCAATTATAAAGATAAAAAATGAGATTG
1 AAAGGTAGAAAAAGAGAATG-AAAAAATTAAAGACCT-CAATTATAAAGTTAAAAAAAGAGATT-
33834 AATAAAATTAG
63 AA-AAAATTAG
33845 AAGATAAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
83 12 0.09
84 53 0.39
85 40 0.29
86 28 0.21
87 3 0.02
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (85 bp):
AAAGGTAGAAAAAGAGAATGAAAAAATTAAAGACCTCAATTATAAAGTTAAAAAAAGAGATTAAA
AAATTAGGGGACTCAATTAT
Found at i:33853 original size:29 final size:29
Alignment explanation
Indices: 33815--33872 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
33805 TCCAATTATA
*
33815 AAGATAAAAAATGAGATTGAATAAAATTAG
1 AAGATAAAAAATAAGATTGAA-AAAATTAG
*
33845 AAGAT-AAAAATAAGATTTAAAAAATTAG
1 AAGATAAAAAATAAGATTGAAAAAATTAG
33873 GGACCTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (29 bp):
AAGATAAAAAATAAGATTGAAAAAATTAG
Found at i:33896 original size:28 final size:28
Alignment explanation
Indices: 33863--33926 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
33853 AATAAGATTT
*
33863 AAAAAATTAGGGACCTAATTATAAAGATG
1 AAAAAA-TAGGGACCTAATTACAAAGATG
* *
33892 GAAAAATAGGGCCCTAATTACAAAGATG
1 AAAAAATAGGGACCTAATTACAAAGATG
33920 AAAAAAT
1 AAAAAAT
33927 GTGGGATCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.20
Consensus pattern (28 bp):
AAAAAATAGGGACCTAATTACAAAGATG
Found at i:34410 original size:87 final size:86
Alignment explanation
Indices: 34161--34876 Score: 567
Period size: 87 Copynumber: 8.4 Consensus size: 86
34151 AGTAAAGTTT
* * * * *
34161 GATTGAAAAAATTATG-GGCCTCAATTATAAAGGTAAAAATTGAGATT-AAAACAATTTGAGGCT
1 GATTAAAAAAATTA-GAGGCTTCAATTATAAAGGTAAAAAGTGAGATTGAAAA-AATTAGAGGCC
*
34224 TCAATTATAAATGTAGAAAGTGA
64 TCAATTATAAATGTAAAAAGTGA
* * * * * *
34247 GGTTGAAAAAACTAGGAGTC-T-AAGTTATAAAGGTAAAAAGAGAGATTG-AAAAATTAGGGGCC
1 GATTAAAAAAATTA-GAGGCTTCAA-TTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGAGGCC
34309 TCAATTATAAATGTAAAAAGTGA
64 TCAATTATAAATGTAAAAAGTGA
*
34332 GATTAAAAAAAATAGAGGCTTCAATTATAAAGGTCAAAAA-TGAGATTGAAAAAAATTAGAGGCC
1 GATTAAAAAAATTAGAGGCTTCAATTATAAAGGT-AAAAAGTGAGATTG-AAAAAATTAGAGGCC
*
34396 TCAATTACAAATGTAAAAAGTGA
64 TCAATTATAAATGTAAAAAGTGA
* * * * *
34419 GATTAAAGGAAATTAGGGGC-TCAAATTATAAAGGTAGAAAGTGAGATTGTAAAAATTATGA-CC
1 GATTAAA-AAAATTAGAGGCTTC-AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTA-GAGGC
* * *
34482 CTCAATTTTAAAGGTAAAAAGTGG
63 CTCAATTATAAATGTAAAAAGTGA
* * * * * * * *
34506 GATTGAATAAAATTATAGGCCTCAATTATAAAGGTAAAATGTGATATTGGAAAAATTAGGGGCTT
1 GATT-AAAAAAATTAGAGGCTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGAGGCCT
*
34571 CAATTATAAA-GCTAGAAAGTGA
65 CAATTATAAATG-TAAAAAGTGA
* * * ** * * *
34593 TATTTAAAAAAAATTA-AGGGTCTCACTTATAAAGGTAAAAAGTTTGACTAAAAAAACTTAGGGG
1 GA-TT-AAAAAAATTAGAGGCT-TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA-TTAGAGG
* *
34657 CTTCAA-T-T--A--T-AAAATTGA
62 CCTCAATTATAAATGTAAAAAGTGA
* ** * *
34675 GATT-AAAAAATTAGGGGCTTCAATTATAAA-ACAAGAAAGTGAGATTG-AAAAATTAGGGGTCT
1 GATTAAAAAAATTAGAGGCTTCAATTATAAAGGTAA-AAAGTGAGATTGAAAAAATTAGAGGCCT
* *
34737 CAATTATAAATGTAAAATGTGT
65 CAATTATAAATGTAAAAAGTGA
* * * ** * * *
34759 GATTGAAAAATTTA-AGGGCCTCAATTATAAATATAAAATGTGTGATTGAAAAAGTTA-AGAGCC
1 GATTAAAAAAATTAGA-GGCTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGAG-GCC
* *
34822 TTAATTATAAAGGTAAAAAGTGA
64 TCAATTATAAATGTAAAAAGTGA
* * *
34845 AATTAAAAAAATTAGGGGCATCAATTATAAAG
1 GATTAAAAAAATTAGAGGCTTCAATTATAAAG
34877 AGAAAAAAAT
Statistics
Matches: 506, Mismatches: 90, Indels: 68
0.76 0.14 0.10
Matches are distributed among these distances:
77 11 0.02
78 8 0.02
79 28 0.06
80 3 0.01
81 3 0.01
82 7 0.01
83 2 0.00
84 13 0.03
85 95 0.19
86 103 0.20
87 147 0.29
88 73 0.14
89 13 0.03
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (86 bp):
GATTAAAAAAATTAGAGGCTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGAGGCCTC
AATTATAAATGTAAAAAGTGA
Found at i:34719 original size:42 final size:43
Alignment explanation
Indices: 34667--34875 Score: 194
Period size: 43 Copynumber: 4.9 Consensus size: 43
34657 CTTCAATTAT
* *
34667 AAAATTGAGATT-AAAAAATTAGGGGCTTCAATTATAAA-ACA
1 AAAAGTGAGATTGAAAAAATTAGGGGCTTCAATTATAAATATA
*
34708 AGAAAGTGAGATTG-AAAAATTAGGGG-TCTCAATTATAAATGTA
1 A-AAAGTGAGATTGAAAAAATTAGGGGCT-TCAATTATAAATATA
* * * * *
34751 AAATGTGTGATTGAAAAATTTAAGGGCCTCAATTATAAATATA
1 AAAAGTGAGATTGAAAAAATTAGGGGCTTCAATTATAAATATA
* * * * * **
34794 AAATGTGTGATTGAAAAAGTTAAGAGCCTT-AATTATAAAGGTA
1 AAAAGTGAGATTGAAAAAATT-AGGGGCTTCAATTATAAATATA
* * *
34837 AAAAGTGAAATTAAAAAAATTAGGGGCATCAATTATAAA
1 AAAAGTGAGATTGAAAAAATTAGGGGCTTCAATTATAAA
34876 GAGAAAAAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.01
42 48 0.35
43 82 0.60
44 4 0.03
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (43 bp):
AAAAGTGAGATTGAAAAAATTAGGGGCTTCAATTATAAATATA
Found at i:34786 original size:209 final size:208
Alignment explanation
Indices: 34283--34875 Score: 483
Period size: 218 Copynumber: 2.8 Consensus size: 208
34273 ATAAAGGTAA
* * * * * ** *
34283 AAAGAGAGATTG-A-AAAATTAGGGGCCTCAATTATAAATGTAAAAAGTGAGATTAAAAAAAAT-
1 AAAGTGAGATTGAATAAAATTAGAGGCCTCAATTATAAAGGTAAAATGTGATATTGGAAAAATTA
* * * * * *
34345 AGAGGCTTCAATTATAAAGGTCAAAA-ATGAGATTGAAAAAAATT-AGAGGCCTCAATTACAAAT
66 AG-GGCCTCAATTATAAAGAT-AAAATGTGTGATT-AAAAAAATTAAGA-GCCTCAATTATAAAG
* * * * *
34408 GTAAAAAGTGAGATTAAAGGAAATTAGGGGC-TCAAATTATAAAGGTAGAAAGTGAGATTGTAAA
127 GTAAAAAGTGAAACTAAA-AAAATTAGGGGCATC-AA-T-T--A--TA-AAATTGAGATT-AAAA
* ** * * **
34472 AATTATGACCCTCAATTTTAAAGGTAA-
182 AATTAGGGGCTTCAATTATAAA-ACAAG
* *
34499 AAAGTGGGATTGAATAAAATTATAGGCCTCAATTATAAAGGTAAAATGTGATATTGGAAAAATTA
1 AAAGTGAGATTGAATAAAATTAGAGGCCTCAATTATAAAGGTAAAATGTGATATTGGAAAAATTA
* * * * * *
34564 GGGGCTTCAATTATAAAGCTAGAAA-GTGAT-ATTTAAAAAAAATTAAGGGTCTCACTTATAAAG
66 AGGGCCTCAATTATAAAGATA-AAATGTG-TGA-TT-AAAAAAATTAAGAGCCTCAATTATAAAG
*** *
34627 GTAAAAAGTTTGACTAAAAAAACTTAGGGGCTTCAATTATAAAATTGAGATTAAAAAATTAGGGG
127 GTAAAAAGTGAAACTAAAAAAA-TTAGGGGCATCAATTATAAAATTGAGATTAAAAAATTAGGGG
34692 CTTCAATTATAAAACAAG
191 CTTCAATTATAAAACAAG
* * *
34710 AAAGTGAGATTG-A-AAAATTAGGGGTCTCAATTATAAATGTAAAATGTG-TGATT-GAAAAATT
1 AAAGTGAGATTGAATAAAATTAGAGGCCTCAATTATAAAGGTAAAATGTGAT-ATTGGAAAAA-T
* * * *
34771 TAAGGGCCTCAATTATAAATATAAAATGTGTGATTGAAAAAGTTAAGAGCCTTAATTATAAAGGT
64 TAAGGGCCTCAATTATAAAGATAAAATGTGTGATTAAAAAAATTAAGAGCCTCAATTATAAAGGT
*
34836 AAAAAGTGAAATTAAAAAAATTAGGGGCATCAATTATAAA
129 AAAAAGTGAAACTAAAAAAATTAGGGGCATCAATTATAAA
34876 GAGAAAAAAA
Statistics
Matches: 310, Mismatches: 53, Indels: 38
0.77 0.13 0.09
Matches are distributed among these distances:
206 19 0.06
207 40 0.13
208 13 0.04
209 58 0.19
210 3 0.01
211 31 0.10
212 10 0.03
213 2 0.01
215 1 0.00
216 10 0.03
217 3 0.01
218 68 0.22
219 48 0.15
220 4 0.01
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (208 bp):
AAAGTGAGATTGAATAAAATTAGAGGCCTCAATTATAAAGGTAAAATGTGATATTGGAAAAATTA
AGGGCCTCAATTATAAAGATAAAATGTGTGATTAAAAAAATTAAGAGCCTCAATTATAAAGGTAA
AAAGTGAAACTAAAAAAATTAGGGGCATCAATTATAAAATTGAGATTAAAAAATTAGGGGCTTCA
ATTATAAAACAAG
Found at i:34883 original size:43 final size:43
Alignment explanation
Indices: 34161--34669 Score: 459
Period size: 43 Copynumber: 11.7 Consensus size: 43
34151 AGTAAAGTTT
* * *
34161 GATTGAAAAAATTATGGGCCTCAATTATAAAGGTAAAAATTGA
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* * * * * *
34204 GATTAAAACAATTTGAGGCTTCAATTATAAATGTAGAAAGTGA
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* * * * * *
34247 GGTTGAAAAAACTAGGAGTCT-AAGTTATAAAGGTAAAAAGAGA
1 GATTAAAAAAATTAGGGGCCTCAA-TTATAAAGGTAAAAAGTGA
* *
34290 GATT-GAAAAATTAGGGGCCTCAATTATAAATGTAAAAAGTGA
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* * *
34332 GATTAAAAAAAATAGAGGCTTCAATTATAAAGGTCAAAAA-TGA
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGT-AAAAAGTGA
* * *
34375 GATTGAAAAAAATTAGAGGCCTCAATTACAAATGTAAAAAGTGA
1 GATT-AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* *
34419 GATTAAAGGAAATTAGGGG-CTCAAATTATAAAGGTAGAAAGTGA
1 GATTAAA-AAAATTAGGGGCCTC-AATTATAAAGGTAAAAAGTGA
** * ** * *
34463 GATTGTAAAAATTATGACCCTCAATTTTAAAGGTAAAAAGTGG
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* ** *
34506 GATTGAATAAAATTATAGGCCTCAATTATAAAGGTAAAATGTGA
1 GATT-AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* ** * * *
34550 TATTGGAAAAATTAGGGGCTTCAATTATAAAGCTAGAAAGTGA
1 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* * * * **
34593 TATTTAAAAAAAATTAAGGGTCTCACTTATAAAGGTAAAAAGTTT
1 GA-TT-AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
* *
34638 GACTAAAAAAACTTAGGGGCTTCAATTATAAA
1 GATTAAAAAAA-TTAGGGGCCTCAATTATAAA
34670 ATTGAGATTA
Statistics
Matches: 367, Mismatches: 86, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
42 35 0.10
43 177 0.48
44 125 0.34
45 30 0.08
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (43 bp):
GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
Found at i:35592 original size:44 final size:44
Alignment explanation
Indices: 35536--35634 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
35526 CTATATTATT
* **
35536 ATGATAATATGAGAATTTACAGTATTAATATTATTGTCTAAAGAC
1 ATGAT-ATATGAGAATTTACAATATTAATATTACAGTCTAAAGAC
*
35581 ATGATTTATGAGAATTTACAATATTAATATTACAGTCTAAAGAC
1 ATGATATATGAGAATTTACAATATTAATATTACAGTCTAAAGAC
*
35625 GTGATATATG
1 ATGATATATG
35635 TGATGAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.37
Consensus pattern (44 bp):
ATGATATATGAGAATTTACAATATTAATATTACAGTCTAAAGAC
Found at i:38273 original size:2 final size:2
Alignment explanation
Indices: 38266--38291 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38256 TTTCTATCTA
38266 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38292 TGAAGGTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39832 original size:21 final size:21
Alignment explanation
Indices: 39802--39844 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39792 GATTATGGGG
*
39802 TTATAGTTTAGGGTTTAAAGT
1 TTATAATTTAGGGTTTAAAGT
*
39823 TTATAATTTAGGGTTTTAAGT
1 TTATAATTTAGGGTTTAAAGT
39844 T
1 T
39845 AGGGGTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (21 bp):
TTATAATTTAGGGTTTAAAGT
Found at i:40253 original size:26 final size:26
Alignment explanation
Indices: 40222--40273 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
40212 GATGAACCTC
40222 AAATCCATGTTCATAAACACTTCAAT
1 AAATCCATGTTCATAAACACTTCAAT
40248 AAATCCATGTTCATAAACACTTCAAT
1 AAATCCATGTTCATAAACACTTCAAT
40274 TACATGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATCCATGTTCATAAACACTTCAAT
Found at i:40531 original size:82 final size:82
Alignment explanation
Indices: 40436--40597 Score: 270
Period size: 82 Copynumber: 2.0 Consensus size: 82
40426 CAAAAAGACC
* * * *
40436 CCCAAACAAACTACCTAAATCAATTGCTCAATCCTTCTTCCCCTTTCCATAGCTTTCTTCTTCTT
1 CCCAAACAAACTACCTAAATCAATTACTCAATCCTTCTTCCCCTCTCCATAGCTCTCATCTTCTT
40501 TAGCAAACCAACAATAA
66 TAGCAAACCAACAATAA
* *
40518 CCCAAACAAACTACCTAAATCACTTATTCAATCCTTCTTCCCCTCTCCATAGCTCTCATCTTCTT
1 CCCAAACAAACTACCTAAATCAATTACTCAATCCTTCTTCCCCTCTCCATAGCTCTCATCTTCTT
40583 TAGCAAACCAACAAT
66 TAGCAAACCAACAAT
40598 TACAGTGCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (82 bp):
CCCAAACAAACTACCTAAATCAATTACTCAATCCTTCTTCCCCTCTCCATAGCTCTCATCTTCTT
TAGCAAACCAACAATAA
Found at i:42650 original size:38 final size:39
Alignment explanation
Indices: 42599--42678 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
42589 ACTTAATGTT
*
42599 AAATTTTGAACGAA-AGTACTAAAATGAAATAAAAACTA
1 AAATTTTGAACGAAGAGTACTAAAATGAAACAAAAACTA
* *
42637 AAATTTTTAACGAATGGGTACTAAAATGAAACAAAAACTA
1 AAATTTTGAACGAA-GAGTACTAAAATGAAACAAAAACTA
42677 AA
1 AA
42679 CTTTAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 13 0.35
40 24 0.65
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (39 bp):
AAATTTTGAACGAAGAGTACTAAAATGAAACAAAAACTA
Found at i:44435 original size:137 final size:137
Alignment explanation
Indices: 44158--44439 Score: 349
Period size: 137 Copynumber: 2.1 Consensus size: 137
44148 CTAGATTATC
* * * *
44158 TTTAGTCCTTAAATTAGGAGAATTTTTGATTTGGTCCTCTCTTATGCTCGAGGTTCCAAATTAAT
1 TTTAGTCCTTAAATTAGGAGAATTCTTAATTTGGTCATCACTTATGCTCGAGGTTCCAAATTAAT
* ** * * * *
44223 TTTTTGAATCAATAATTGATTAAAGTCGATTAGGATTAATATTAGAGCCTCCATCTTAGGCTTAA
66 TATTCAAATCAATAATTGATTAAAATCAATTAAGATTAATATTAGAGCCTCCATCTTAGGATTAA
44288 TTTCACA
131 TTTCACA
* *
44295 TTTAGTCCTTAAATTAGGAGAATTCTTAATTTGGTCATCACTTTTGCTCGAGGTTCCAATTTAAT
1 TTTAGTCCTTAAATTAGGAGAATTCTTAATTTGGTCATCACTTATGCTCGAGGTTCCAAATTAAT
* *
44360 TATTCAAATTGCAAT-ATTGATTAAAATTAATTTAAG-TTGATATTAGAGCCTCCA-CTTTA-GA
66 TATTCAAA-T-CAATAATTGATTAAAATCAA-TTAAGATTAATATTAGAGCCTCCATC-TTAGGA
44421 TTAGATTTCA-A
127 TTA-ATTTCACA
44432 TTTAGTCC
1 TTTAGTCC
44440 CTTTAATTTA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
137 78 0.62
138 39 0.31
139 8 0.06
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (137 bp):
TTTAGTCCTTAAATTAGGAGAATTCTTAATTTGGTCATCACTTATGCTCGAGGTTCCAAATTAAT
TATTCAAATCAATAATTGATTAAAATCAATTAAGATTAATATTAGAGCCTCCATCTTAGGATTAA
TTTCACA
Found at i:46914 original size:30 final size:32
Alignment explanation
Indices: 46879--46944 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
46869 TTCCTTAATG
* *
46879 TTATTAAAG-TTTA-ATTTTTTCTAATATTTA
1 TTATTAAAGACTTATATTTTTTATAATATTTA
* *
46909 TTATTAGAGACTTATTTTTTTTATAATATTTA
1 TTATTAAAGACTTATATTTTTTATAATATTTA
46941 TTAT
1 TTAT
46945 AGGGACCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 8 0.27
31 3 0.10
32 19 0.63
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (32 bp):
TTATTAAAGACTTATATTTTTTATAATATTTA
Found at i:47061 original size:32 final size:34
Alignment explanation
Indices: 47010--47079 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
47000 TTTGTCAATA
* * *
47010 TTTTTTTTCTAATATTTATTGTTAAAGGTCT-AG
1 TTTTTTTTCTAATACTTATTATCAAAGGTCTAAG
*
47043 TTTTTTTTC-AATACTTATTATCATAGGTCTAAG
1 TTTTTTTTCTAATACTTATTATCAAAGGTCTAAG
47076 TTTT
1 TTTT
47080 CGATATTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (34 bp):
TTTTTTTTCTAATACTTATTATCAAAGGTCTAAG
Found at i:48600 original size:23 final size:23
Alignment explanation
Indices: 48573--48635 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
48563 AGCTCGTATA
*
48573 AAATGCACCAAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAG
48596 AAATGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAG
48619 AAATGCACCGAAGTGCC
1 AAATGCACCGAAGTGCC
48636 ATATAAAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.13
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCGCGTAG
Found at i:48702 original size:21 final size:21
Alignment explanation
Indices: 48651--48751 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
48641 AAATGTCCCG
* *
48651 AAGGACCACATAGATATCTCCTT
1 AAGGACCACATATATAT-TCC-A
* *
48674 AAGAACCATATATATATTCCA
1 AAGGACCACATATATATTCCA
* * *
48695 AAGGACCAAATATGTGTTCCA
1 AAGGACCACATATATATTCCA
* * *
48716 AAGAACCACATATATGTTCCC
1 AAGGACCACATATATATTCCA
**
48737 AAGGATTACATATAT
1 AAGGACCACATATAT
48752 GTCCCGAAGG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
21 46 0.73
22 3 0.05
23 14 0.22
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (21 bp):
AAGGACCACATATATATTCCA
Found at i:48752 original size:21 final size:21
Alignment explanation
Indices: 48723--48762 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48713 CCAAAGAACC
48723 ACATATATGTTCCC-AAGGATT
1 ACATATATG-TCCCGAAGGATT
48744 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCGAAGGA
48763 CTACGTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCGAAGGATT
Found at i:55632 original size:23 final size:23
Alignment explanation
Indices: 55605--55678 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
55595 AGCTCGTATA
* *
55605 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACTGAAGTGCCACATAG
* *
55628 AAATGCATTGAAGTGCCGCATAG
1 AAATGCACTGAAGTGCCACATAG
* * *
55651 AAATACACTGAAGTGCCATATAA
1 AAATGCACTGAAGTGCCACATAG
55674 AAATG
1 AAATG
55679 TCCCGAAAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (23 bp):
AAATGCACTGAAGTGCCACATAG
Found at i:58815 original size:24 final size:25
Alignment explanation
Indices: 58773--58821 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
58763 GTTTTAAATA
58773 AAATTATCAAATTAATTTAAAACTT
1 AAATTATCAAATTAATTTAAAACTT
*
58798 AAATTAT-AAATTAGTTTAAAACTT
1 AAATTATCAAATTAATTTAAAACTT
58822 GCGCTCGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
AAATTATCAAATTAATTTAAAACTT
Found at i:65357 original size:83 final size:83
Alignment explanation
Indices: 65218--65380 Score: 272
Period size: 83 Copynumber: 2.0 Consensus size: 83
65208 ATATAAACAA
* * *
65218 CTCCATAAACCGCCACAAAGCCCCTTGTAAACTTTGGGTGAATTGATGGCTTAGCCGAGGGAGGT
1 CTCCAAAAACCGACACAAAGCCCCTTGTAAACTTTGGGTAAATTGATGGCTTAGCCGAGGGAGGT
65283 GATAGTGGTAAGTAGCTG
66 GATAGTGGTAAGTAGCTG
* *
65301 CTCCAAAAACCGACACAAAGCCCTTTGTAAACTTTGGGTAAATTGGTGGCTTAGCCGAGGGAGGT
1 CTCCAAAAACCGACACAAAGCCCCTTGTAAACTTTGGGTAAATTGATGGCTTAGCCGAGGGAGGT
*
65366 GATAGTGGTGAGTAG
66 GATAGTGGTAAGTAG
65381 TTGGGTGTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (83 bp):
CTCCAAAAACCGACACAAAGCCCCTTGTAAACTTTGGGTAAATTGATGGCTTAGCCGAGGGAGGT
GATAGTGGTAAGTAGCTG
Found at i:66474 original size:21 final size:21
Alignment explanation
Indices: 66445--66581 Score: 93
Period size: 21 Copynumber: 6.6 Consensus size: 21
66435 GCGCTGCATT
66445 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
66466 TCGCATTGCGAT-TTTCTATT
1 TCGCGTTGCGATAGTTGAAAA
66486 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * *
66507 TCGCGTTACGTTAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
* ** **
66528 T-GTCGTTGCGAT-TTTCCATT
1 TCG-CGTTGCGATAGTTGAAAA
66548 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
66569 TCGCGTTGCGATA
1 TCGCGTTGCGATA
66582 ATTTTCTCTA
Statistics
Matches: 82, Mismatches: 28, Indels: 12
0.67 0.23 0.10
Matches are distributed among these distances:
19 1 0.01
20 26 0.32
21 54 0.66
22 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:66643 original size:6 final size:6
Alignment explanation
Indices: 66632--66682 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
66622 GACACGTATT
66632 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
66680 ACC
1 ACC
66683 CGAGACGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:67189 original size:21 final size:21
Alignment explanation
Indices: 67163--67213 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
67153 GAAATGGAAA
67163 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
67184 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
67205 ATCGCAACG
1 ATCGCAACG
67214 CGATTTTCAA
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:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:67245 original size:21 final size:21
Alignment explanation
Indices: 67119--67245 Score: 66
Period size: 21 Copynumber: 6.1 Consensus size: 21
67109 CCACATGTAC
** *
67119 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
67140 TCTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
67161 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
* *
67180 GACTATCGCAA--CGACACTGTA
1 -ACTATCGCAACGCGA-AATGCA
** *
67201 GACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
67223 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
67244 AC
1 AC
67246 GCGAATTTGC
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 8 0.10
21 64 0.76
22 2 0.02
23 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:68933 original size:15 final size:15
Alignment explanation
Indices: 68913--68953 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
68903 TGTTACACTT
*
68913 CTTTTATTTGCATTA
1 CTTTTATTTACATTA
68928 CTTTTATTTACATTA
1 CTTTTATTTACATTA
68943 CTTTTATTTAC
1 CTTTTATTTAC
68954 TTTATATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (15 bp):
CTTTTATTTACATTA
Found at i:70364 original size:11 final size:11
Alignment explanation
Indices: 70348--70374 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
70338 TTTGTCATTT
70348 TTAATAAAAAA
1 TTAATAAAAAA
70359 TTAATAAAAAA
1 TTAATAAAAAA
70370 TTAAT
1 TTAAT
70375 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAATAAAAAA
Found at i:71504 original size:11 final size:11
Alignment explanation
Indices: 71488--71512 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71478 ACTCTAAACT
71488 AAATTAATATA
1 AAATTAATATA
71499 AAATTAATATA
1 AAATTAATATA
71510 AAA
1 AAA
71513 AATACTTAAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAATATA
Found at i:72988 original size:36 final size:36
Alignment explanation
Indices: 72903--73185 Score: 351
Period size: 36 Copynumber: 7.9 Consensus size: 36
72893 GACCCGATCT
* **
72903 TGATTTTCTTCACTACTCTTCCGTGAAGGCTTGGGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
72939 TTGATTTGATTCACTACTCTTCCGTGAAGACTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* * *
72976 TGATTCGCTTCACTACTCTTCCGTGAAGGCTTGATA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
73012 TTGATTTGCTT--C-A--CTTCCGTGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
73044 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTGAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
73080 TTGATTTGCTTCACTACTCTTCCTTGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* * * *
73117 TGATCTGTTTCACTACTTTTTCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* * *
73153 TGGTTTGCTTCACTATTCTTCTGTGAAGGCTTA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA
73186 CAAATTACCC
Statistics
Matches: 211, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
31 10 0.05
32 17 0.08
33 1 0.00
34 2 0.01
35 1 0.00
36 106 0.50
37 74 0.35
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
Found at i:72997 original size:73 final size:73
Alignment explanation
Indices: 72910--73185 Score: 377
Period size: 73 Copynumber: 3.9 Consensus size: 73
72900 TCTTGATTTT
* * *
72910 CTTCACTACTCTTCCGTGAAGGCTTGGGATTGATTTGATTCACTACTCTTCCGTGAAGACTTAAG
1 CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
72975 ATGATTCG
66 ATGATTCG
*
72983 CTTCACTACTCTTCCGTGAAGGCTTGATATTGATTTGCTT--C-A--CTTCCGTGAAGGCTTAAG
1 CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
*
73043 ATGATTTG
66 ATGATTCG
*
73051 CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCTTGAAGGCTTAAG
1 CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
73116 ATGA-TCTG
66 ATGATTC-G
* * * * * * *
73124 TTTCACTACTTTTTCGTGAAGGCTTAAGA-TGGTTTGCTTCACTATTCTTCTGTGAAGGCTTA
1 CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTA
73186 CAAATTACCC
Statistics
Matches: 181, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
68 63 0.35
70 2 0.01
71 2 0.01
72 30 0.17
73 84 0.46
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (73 bp):
CTTCACTACTCTTCCGTGAAGGCTTGAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
ATGATTCG
Found at i:73244 original size:42 final size:42
Alignment explanation
Indices: 73197--73277 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
73187 AAATTACCCA
*
73197 AAGGATTTAATCATCATGGTCGAAAGACTTACTGATGGCCCG
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
* * *
73239 AAGGATTTCATCATTATGCTTGAAAGACTTACTGATGGC
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
73278 ACTTACTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
Found at i:73932 original size:216 final size:215
Alignment explanation
Indices: 73332--74031 Score: 1044
Period size: 216 Copynumber: 3.2 Consensus size: 215
73322 AAATTACCTG
73332 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATAAAGTGCGAAATT
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTAT-AAGTGCGAAATT
* * * * *
73397 TTGGAAATCGCCTTCTTACTTCTCAAAAATTTCATTTTCTTAAAATATTAATTTCTCATTTTTCA
65 TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATCACTTTCTTATTTTTCA
* * * *
73462 AATTCACT-CGAAAACATCCCACCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCT
130 AATTCA-TGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCT
*
73526 CTAAAGACTTACAGATGACCCA
194 CTAAAGGCTTACAGATGACCCA
* * * *
73548 AAGGGTTTACTCATCATGCTCGAAAGACTTAATGATGGCTCGAATGACTTATATAGTGCGAAATT
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATA-AGTGCGAAATT
* * *
73613 TTGGAAA-GGCCTTCTTACTTCTCAAAGATTTTATTTTCTTAAAACATCACTTTCTTATTTCTCA
65 TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATCACTTTCTTATTTTTCA
73677 AATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTC
130 AATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTC
*
73742 TAAAGGCTTACAGATGACCCG
195 TAAAGGCTTACAGATGACCCA
* * * *
73763 AAGGATTTAAGCATCATGCTTGAAAGACTTATTGATGGCCCGAAGGACTTACTAAGTGTGAAATT
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTA-TAAGTGCGAAATT
* * * * *
73828 TTGGAAATCGCCTTCTTAGTTTTCAAAGATTTCATCTTCTTAAAACATCGCTTTCTTATTTTTTA
65 TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATCACTTTCTTATTTTTCA
* *
73893 AATTCATGTGAAAACATCTTACCCGAAGGTCTTATGGATGGACTGAAGGACTTATCATCTTGCTC
130 AATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTC
73958 TAAAGGCTTACAGATGACCCA
195 TAAAGGCTTACAGATGACCCA
* * *
73979 AAGGATTTTTAATCATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTA
1 AAGGA--TTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTA
74032 AATTGTTTAC
Statistics
Matches: 437, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
214 1 0.00
215 189 0.43
216 205 0.47
218 42 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (215 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATAAGTGCGAAATTT
TGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATCACTTTCTTATTTTTCAA
ATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCT
AAAGGCTTACAGATGACCCA
Found at i:78244 original size:6 final size:6
Alignment explanation
Indices: 78233--78266 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
78223 TAAATGCATG
*
78233 AAATGC AAATGC AAATGCC AAATGC AAATAC AAA
1 AAATGC AAATGC AAATG-C AAATGC AAATGC AAA
78267 AGGTGTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.15
Consensus pattern (6 bp):
AAATGC
Found at i:78254 original size:13 final size:12
Alignment explanation
Indices: 78233--78266 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
78223 TAAATGCATG
78233 AAATGCAAATGC
1 AAATGCAAATGC
78245 AAATGCCAAATGC
1 AAATG-CAAATGC
*
78258 AAATACAAA
1 AAATGCAAA
78267 AGGTGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.15
Consensus pattern (12 bp):
AAATGCAAATGC
Found at i:80030 original size:4 final size:4
Alignment explanation
Indices: 80021--80054 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
80011 AACAATAGCA
80021 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
80055 GCCAATGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:82832 original size:11 final size:11
Alignment explanation
Indices: 82816--82840 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
82806 ACTCTAAACT
82816 AAATTAATATA
1 AAATTAATATA
82827 AAATTAATATA
1 AAATTAATATA
82838 AAA
1 AAA
82841 CATACTTAAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAATATA
Found at i:92980 original size:28 final size:29
Alignment explanation
Indices: 92920--92980 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
92910 TATATCTAAC
*
92920 GTTAAAATAGGTATTTAAAGATTTTTTTT
1 GTTAAAATAGGTATTTAAAGATTTTTTCT
*
92949 GTTAAAATAGGTATTT-AATATTTTTTCT
1 GTTAAAATAGGTATTTAAAGATTTTTTCT
92977 GTTA
1 GTTA
92981 CACTTTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (29 bp):
GTTAAAATAGGTATTTAAAGATTTTTTCT
Found at i:93312 original size:20 final size:21
Alignment explanation
Indices: 93287--93338 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
93277 TTTTCCCAAT
*
93287 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
93307 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
93328 TCGCAATGCGA
1 TCGCAATGCGA
93339 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:93352 original size:20 final size:20
Alignment explanation
Indices: 93327--93440 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
93317 AATTGGGAAA
*
93327 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
93347 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
93367 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
93388 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
93408 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
93428 TTCGCAACGCGAT
1 ATCGCAACGCGAT
93441 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:93371 original size:61 final size:61
Alignment explanation
Indices: 93324--93440 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
93314 GCGAATTGGG
* * * * *
93324 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
93385 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
93441 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:94008 original size:18 final size:19
Alignment explanation
Indices: 93956--94021 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
93946 TTCGAGAATG
*
93956 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAAAA
**
93976 ACTATCGCAACGCGAAAAA
1 AAAATCGCAACGCGAAAAA
**
93995 AAAATCGC-ACGCGAAACC
1 AAAATCGCAACGCGAAAAA
94013 AAAATCGCA
1 AAAATCGCA
94022 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 16 0.42
19 11 0.29
20 11 0.29
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAAAA
Found at i:94039 original size:19 final size:19
Alignment explanation
Indices: 94017--94181 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
94007 GAAACCAAAA
*
94017 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94036 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94055 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94074 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* ** **
94088 TCTCGTCACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
94107 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
94121 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
94140 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
94160 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
94180 TC
1 TC
94182 AACCAAAAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
14 18 0.15
16 4 0.03
17 5 0.04
19 59 0.50
20 31 0.26
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:94073 original size:38 final size:33
Alignment explanation
Indices: 94022--94156 Score: 153
Period size: 33 Copynumber: 3.9 Consensus size: 33
94012 CAAAATCGCA
*
94022 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA--TTC---TCTCG
94060 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** **
94093 TCACGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
94126 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATTTTCATTT-CGCGTTGCGATTCTC
94157 ATTATCTCGT
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 46 0.52
34 15 0.17
36 3 0.03
38 25 0.28
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:94158 original size:20 final size:20
Alignment explanation
Indices: 94124--94181 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
94114 GCGATTCTCT
**
94124 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
94144 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
94164 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
94182 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:96349 original size:21 final size:21
Alignment explanation
Indices: 96325--96475 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
96315 TCATTCCTCG
96325 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
96346 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
96367 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** *
96388 AGAGGCCCCTATCATTCC--TCG
1 AGAGTCCCCTCCCA--CCGTTCA
96409 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
96430 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
96451 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
96472 AGAG
1 AGAG
96476 CCCGATTCAC
Statistics
Matches: 86, Mismatches: 37, Indels: 15
0.62 0.27 0.11
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 78 0.91
22 3 0.03
23 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:96349 original size:42 final size:42
Alignment explanation
Indices: 96273--96475 Score: 203
Period size: 42 Copynumber: 4.8 Consensus size: 42
96263 GACTCGCCTG
* * * * * * *
96273 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
96315 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * *
96357 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
96399 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
96441 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
96476 CCCGATTCAC
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 4 0.03
42 126 0.95
43 2 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:96454 original size:84 final size:84
Alignment explanation
Indices: 96270--96445 Score: 352
Period size: 84 Copynumber: 2.1 Consensus size: 84
96260 CCCGACTCGC
96270 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
96335 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
96354 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
96419 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
96438 CTGTCATC
1 CTGTCATC
96446 GTTGAAGAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:96475 original size:84 final size:84
Alignment explanation
Indices: 96270--96475 Score: 297
Period size: 84 Copynumber: 2.5 Consensus size: 84
96260 CCCGACTCGC
* * * *
96270 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
96335 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
96354 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
96419 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
96438 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
96476 CCCGATTCAC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
84 110 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:97850 original size:14 final size:14
Alignment explanation
Indices: 97831--97866 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
97821 ATTGTTTAAT
*
97831 TGATTTTTAAAAGG
1 TGATTTGTAAAAGG
*
97845 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
97859 TGATTTGT
1 TGATTTGT
97867 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:98010 original size:14 final size:14
Alignment explanation
Indices: 97991--98047 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
97981 GCGAAATGAA
97991 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
98005 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
98024 AATCGCAACGAGAG
1 AATCGCAACGAGAG
98038 AATCGCAACG
1 AATCGCAACG
98048 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:98018 original size:33 final size:33
Alignment explanation
Indices: 97973--98063 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
97963 AAAAAGTACT
*
97973 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
98006 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
98039 ATCGCAACGCGAAATTAAATTCGCA
1 ATCGCAACGCGAAATGAAAATCGCA
98064 TTGCGATTCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:98032 original size:19 final size:19
Alignment explanation
Indices: 97973--98033 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
97963 AAAAAGTACT
*
97973 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
97992 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
98006 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
98025 ATCGCAACG
1 ATCGCAACG
98034 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:98095 original size:33 final size:32
Alignment explanation
Indices: 98058--98169 Score: 163
Period size: 33 Copynumber: 3.4 Consensus size: 32
98048 CGAAATTAAA
98058 TTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATT-CCTCGTTGCGATTTTCAT
**
98091 TTCGCATTGCGAAATT-AGCGTTGCGATTTTCAT
1 TTCGCATTGCG--ATTCCTCGTTGCGATTTTCAT
98124 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTC-CTCGTTGCGATTTTCAT
98157 TTCGCATTGCGAT
1 TTCGCATTGCGAT
98170 AGTAATTTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
31 3 0.04
33 65 0.92
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (32 bp):
TTCGCATTGCGATTCCTCGTTGCGATTTTCAT
Found at i:98096 original size:66 final size:66
Alignment explanation
Indices: 98026--98162 Score: 150
Period size: 66 Copynumber: 2.1 Consensus size: 66
98016 GAAATGAAAA
*
98026 TCGCAACGAGAGAA-TCGCAACGCGAAATTAAATTCGCATTGCGATTCCCTCGTTGCGATTTTCA
1 TCGCAACGAGA-AATTAGCAACGCGAAATTAAATTCGCATTGCGATTCCCTCGTTGCGATTTTCA
98090 TT
65 TT
** * *** ** * * *
98092 TCGCATTGCGAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TCGCAACGAGAAATTAGCAACGCGAAATTAAATTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
98157 T
66 T
98158 TCGCA
1 TCGCA
98163 TTGCGATAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
65 2 0.03
66 56 0.97
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (66 bp):
TCGCAACGAGAAATTAGCAACGCGAAATTAAATTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
T
Found at i:98102 original size:19 final size:19
Alignment explanation
Indices: 98078--98169 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
98068 GATTCCCTCG
98078 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
98097 TTGCGA-----AATTAGCG
1 TTGCGATTTTCATTTCGCA
98111 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
98130 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
98144 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
98163 TTGCGAT
1 TTGCGAT
98170 AGTAATTTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 17 0.31
16 7 0.13
17 7 0.13
19 24 0.44
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:100474 original size:3 final size:3
Alignment explanation
Indices: 100466--100495 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
100456 CGGGGACTTT
*
100466 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
100496 AGGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:100479 original size:12 final size:12
Alignment explanation
Indices: 100462--100495 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
100452 TCTTCGGGGA
100462 CTTTTTCTTCTT
1 CTTTTTCTTCTT
100474 CTTTTTCTTCTT
1 CTTTTTCTTCTT
*
100486 CTTCTTCTTC
1 CTTTTTCTTC
100496 AGGATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:100704 original size:24 final size:24
Alignment explanation
Indices: 100670--100723 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
100660 CTGAAACATC
*
100670 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
100694 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
100718 ATCAAA
1 ATCAAA
100724 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:101532 original size:21 final size:21
Alignment explanation
Indices: 101508--101560 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
101498 TTTTCCTAAT
*
101508 TCGCAATGCGAAATAAGTAAA
1 TCGCAATGCGAAATAAGAAAA
* **
101529 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAAATAAGAAAA
101550 TCGCAATGCGA
1 TCGCAATGCGA
101561 TACTGACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAAATAAGAAAA
Found at i:101634 original size:20 final size:20
Alignment explanation
Indices: 101545--101636 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
101535 TGCGAATTTG
* *
101545 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
101565 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
101585 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
101606 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
101626 GAAAATCGCAA
1 GAAAATCGCAA
101637 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:101945 original size:19 final size:19
Alignment explanation
Indices: 101904--101971 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
101894 GAAATGAAAA
101904 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
101920 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
101937 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
101956 TCGCATTGTGATTTTC
1 TCGCATTGCGATTTTC
101972 TCGTTGCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 29 0.63
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:102127 original size:14 final size:14
Alignment explanation
Indices: 102108--102144 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
102098 CATCAATTAA
102108 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
102122 ACAAATCATCTTTT
1 ACAAATCAACATTT
102136 ACAAATCAA
1 ACAAATCAA
102145 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:104027 original size:20 final size:20
Alignment explanation
Indices: 104004--104050 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
103994 GAAACTTAAA
104004 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCAAAAATGACT
** *
104024 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCAAAAATGACT
104044 ATCGCAA
1 ATCGCAA
104051 TACGAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCAAAAATGACT
Found at i:104059 original size:19 final size:20
Alignment explanation
Indices: 104016--104070 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
104006 CGCAACGCAA
*
104016 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACACGG
* *
104036 AAATGGCTATCGCAATAC-G
1 AAATGACTATCGCAACACGG
**
104055 AAATGAAAATCGCAAC
1 AAATGACTATCGCAAC
104071 GACAAAATCG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACACGG
Found at i:104079 original size:14 final size:14
Alignment explanation
Indices: 104060--104150 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
104050 ATACGAAATG
104060 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
104074 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
104093 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
104107 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
104123 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
104139 AAAATCGCAACG
1 AAAATCGCAACG
104151 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:104135 original size:32 final size:33
Alignment explanation
Indices: 104044--104155 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
104034 GGAAATGGCT
**
104044 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
104077 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
104110 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
104142 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
104156 CACAAATCGC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 30 0.39
33 47 0.61
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:104163 original size:65 final size:66
Alignment explanation
Indices: 104044--104166 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
104034 GGAAATGGCT
* * *
104044 ATCGCAATACGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAACACGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
104109 A
66 A
*
104110 ATCGCAACGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAACACGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
104167 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.71
66 14 0.27
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (66 bp):
ATCGCAACACGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:104745 original size:18 final size:18
Alignment explanation
Indices: 104719--104763 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
104709 GTCGATCAGA
*
104719 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
104737 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
104755 TGATGGCTC
1 TGATGGCTC
104764 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:106113 original size:20 final size:20
Alignment explanation
Indices: 106090--106137 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
106080 AAAAATGAAA
106090 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
** **
106110 ATCGCAATGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
106130 ATCGCAAC
1 ATCGCAAC
106138 GAGAAACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:106414 original size:22 final size:22
Alignment explanation
Indices: 106387--106430 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
106377 GATGGAGATA
106387 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
106409 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
106431 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:106662 original size:41 final size:41
Alignment explanation
Indices: 106599--106736 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
106589 CGCTTTGAAA
* * *
106599 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
* * * *
106640 ATCTCGTTGCGATTTTGTATTATCGCATTGCGCTAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
* *
106681 ATCGCATTGCGA--TAGTCAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGT-ATTATCGCATTGCGATAGTCAGT
106721 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
106737 CCCAATTTGC
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 44 0.55
42 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
Found at i:106685 original size:20 final size:20
Alignment explanation
Indices: 106599--106733 Score: 139
Period size: 20 Copynumber: 6.7 Consensus size: 20
106589 CGCTTTGAAA
*
106599 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
106620 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
106640 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
* *
106661 ATCGCATTGCGCTAGTAAGT
1 ATCGCATTGCGATAGTCAGT
106681 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
106701 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
106721 ATCGCATTGCGAT
1 ATCGCATTGCGAT
106734 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 67 0.70
21 22 0.23
22 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:109453 original size:156 final size:156
Alignment explanation
Indices: 109192--109644 Score: 640
Period size: 156 Copynumber: 2.9 Consensus size: 156
109182 TATGGTACAT
* **
109192 GAGCATGTGGTTCAAATTTGGGAGAAAATTGACTTAAAATAAAGGATGAATTGAAGAAATAAGAA
1 GAGCATGTGGTTCAAATTTGGTA-AAAAAAGACTTAAAATAAAGGATGAATTGAAGAAATAAGAA
* * *
109257 AATTATAAAAAATTGAGGGACTAAATTGAAAAATAGAAATTTGGTATCAAAAAGAGAAATTGAAA
65 AATTATGAAAAATTGAGGGACTAAATTGAAAAATATAAATTTGTTATCAAAAAGAGAAATTGAAA
* *
109322 TTACATATGTATTATGTGATGGTTTAG
130 GTACATATGTATTATATGATGGTTTAG
** * * *
109349 GAGCATGTTATTCAAATTTGGTAAAAAAAGACTTGAAATAAAGGATGAATTGAATAAATAAGGAA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAAGACTTAAAATAAAGGATGAATTGAAGAAATAAGAAA
*
109414 ATTATGAAAAATTGA-GGACTAAATTGAAAAATATAAAATTTGTTATTAAAAAGAGAAATTGAAA
66 ATTATGAAAAATTGAGGGACTAAATTGAAAAATAT-AAATTTGTTATCAAAAAGAGAAATTGAAA
* *
109478 GTACATATGTATTCTATGATGGTTTAT
130 GTACATATGTATTATATGATGGTTTAG
* * *
109505 GAGGATGTGGTTCAAATTTGGTAAAAAATAAGAGTTAAAACAAAGGATGAATTGAAGAAATAAGA
1 GAGCATGTGGTTCAAATTTGGT-AAAAA-AAGACTTAAAATAAAGGATGAATTGAAGAAATAAGA
** *
109570 AAATTATGAAAAATCAAGGGACTAAATTGAAAAATATAAGTCTT-TTATCAAAAAGAGAAATTTG
64 AAATTATGAAAAATTGAGGGACTAAATTGAAAAATATAAAT-TTGTTATCAAAAAGAGAAA-TTG
109634 AAAGTACATAT
127 AAAGTACATAT
109645 ACATTTTTTT
Statistics
Matches: 262, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
155 18 0.07
156 120 0.46
157 25 0.10
158 64 0.24
159 35 0.13
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (156 bp):
GAGCATGTGGTTCAAATTTGGTAAAAAAAGACTTAAAATAAAGGATGAATTGAAGAAATAAGAAA
ATTATGAAAAATTGAGGGACTAAATTGAAAAATATAAATTTGTTATCAAAAAGAGAAATTGAAAG
TACATATGTATTATATGATGGTTTAG
Found at i:116603 original size:30 final size:30
Alignment explanation
Indices: 116568--116624 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
116558 TAATTTTACC
*
116568 CCTAAACTTTAGATAGAATAGTAATTTGAT
1 CCTAAACTTTAGATAAAATAGTAATTTGAT
*
116598 CCTAAACTTTAGATAAAATATTAATTT
1 CCTAAACTTTAGATAAAATAGTAATTT
116625 AACCATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (30 bp):
CCTAAACTTTAGATAAAATAGTAATTTGAT
Found at i:117636 original size:29 final size:29
Alignment explanation
Indices: 117604--117687 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 29
117594 GCTTCATTGT
117604 AAATCAAATAGTGAAAATTATTATTGCAC
1 AAATCAAATAGTGAAAATTATTATTGCAC
* * * *
117633 AAAT-AAA-A--AAAAATCAATCATTG--T
1 AAATCAAATAGTGAAAAT-TATTATTGCAC
*
117657 AAATCAAATTGTGAAAATTATTATTGCAC
1 AAATCAAATAGTGAAAATTATTATTGCAC
117686 AA
1 AA
117688 TTAAAAAGTT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 4 0.10
25 8 0.21
26 6 0.15
27 7 0.18
28 8 0.21
29 6 0.15
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (29 bp):
AAATCAAATAGTGAAAATTATTATTGCAC
Found at i:118006 original size:132 final size:132
Alignment explanation
Indices: 117768--118030 Score: 438
Period size: 132 Copynumber: 2.0 Consensus size: 132
117758 ATTTTTTTCT
117768 CCTCTTACAATAGGGGGTTAAACAAAGTGGTATGGAGCAGTAGAAGACTTGCACTCTGGTAGAAA
1 CCTCTTACAATAGGGGGTTAAACAAAGTGGTATGGAGCAGTAGAAGACTTGCACTCTGGTAGAAA
* * * * *
117833 TTGAGCTCTACCATTAATCAGTCCATATATTTTCTTCCCTTATAAGTTAATTAATATTGTTGTTT
66 TTGAACTCTACCATTAACCAGTCCATATATTTTCTTACCTTATAACTTAATTAATATTGATGTTT
117898 TA
131 TA
* *
117900 CCTCTTACAATAGGGGGTTAAACAAAGTGGTATGGAGTAGTAGAGGACTTGCA-TCTTGGTAGAA
1 CCTCTTACAATAGGGGGTTAAACAAAGTGGTATGGAGCAGTAGAAGACTTGCACTC-TGGTAGAA
*
117964 ATTGAACTCTACCATTAACCAGTCCATATATTTTCTTACCTTATAACTTTATTAATATTGATGTT
65 ATTGAACTCTACCATTAACCAGTCCATATATTTTCTTACCTTATAACTTAATTAATATTGATGTT
118029 TT
130 TT
118031 GGGTATCATA
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
131 2 0.02
132 120 0.98
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (132 bp):
CCTCTTACAATAGGGGGTTAAACAAAGTGGTATGGAGCAGTAGAAGACTTGCACTCTGGTAGAAA
TTGAACTCTACCATTAACCAGTCCATATATTTTCTTACCTTATAACTTAATTAATATTGATGTTT
TA
Found at i:122995 original size:2 final size:2
Alignment explanation
Indices: 122988--123021 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
122978 TCCTTTTATC
122988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123022 ATGAGTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:132737 original size:8 final size:8
Alignment explanation
Indices: 132724--132777 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 8
132714 AACCCGATCG
132724 GACCCGTT
1 GACCCGTT
132732 GACCCGTT
1 GACCCGTT
132740 GA-CCGTT
1 GACCCGTT
132747 GA-CCGTT
1 GACCCGTT
132754 GACCGGCGTT
1 GACC--CGTT
132764 GACCACTGTT
1 GACC-C-GTT
132774 GACC
1 GACC
132778 AAAACTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
7 14 0.34
8 11 0.27
9 1 0.02
10 15 0.37
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:132747 original size:7 final size:7
Alignment explanation
Indices: 132727--132758 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
132717 CCGATCGGAC
132727 CCGTTGA
1 CCGTTGA
132734 CCCGTTGA
1 -CCGTTGA
132742 CCGTTGA
1 CCGTTGA
132749 CCGTTGA
1 CCGTTGA
132756 CCG
1 CCG
132759 GCGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:135281 original size:12 final size:12
Alignment explanation
Indices: 135260--135326 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 12
135250 ATTACTTGAA
*
135260 TTCTGTTCTGAT
1 TTCTGATCTGAT
135272 TTCTGATCTGGA-
1 TTCTGATCT-GAT
*
135284 TTCTGTTCTGAT
1 TTCTGATCTGAT
* *
135296 ATCTGATCTGAA
1 TTCTGATCTGAT
* *
135308 TTCTGTTTTGAT
1 TTCTGATCTGAT
135320 TTCTGAT
1 TTCTGAT
135327 ATCTTCGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (12 bp):
TTCTGATCTGAT
Found at i:135286 original size:24 final size:24
Alignment explanation
Indices: 135218--135326 Score: 116
Period size: 24 Copynumber: 4.5 Consensus size: 24
135208 AAATATTTTA
*
135218 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
* *
135242 TCTGA-TACATTA-CTTGAATTCTGT
1 TCTGATTTC-TGATC-TGAATTCTGT
*
135266 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
135290 TCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
135314 TTTGATTTCTGAT
1 TCTGATTTCTGAT
135327 ATCTTCGTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.03
24 67 0.93
25 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:135323 original size:48 final size:48
Alignment explanation
Indices: 135218--135326 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
135208 AAATATTTTA
* * *
135218 TCTGATTTCCGA-CTTGAATTCTGTTCTGATACATTACTTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATACATGACTTGAATTCTGT
135266 TCTGATTTCTGATCTGGATTCTGTTCTGATATC-TGA-TCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATA-CATGACT-TGAATTCTGT
*
135314 TTTGATTTCTGAT
1 TCTGATTTCTGAT
135327 ATCTTCGTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
47 1 0.02
48 51 0.94
49 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.49
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATACATGACTTGAATTCTGT
Found at i:137389 original size:23 final size:23
Alignment explanation
Indices: 137359--137404 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
137349 ACCGGTCACA
137359 ACCCGACCCAA-CTCGTTGACCCG
1 ACCCGACCCAACCT-GTTGACCCG
*
137382 ACCCGACCCGACCTGTTGACCCG
1 ACCCGACCCAACCTGTTGACCCG
137405 TTGACCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.20, C:0.48, G:0.20, T:0.13
Consensus pattern (23 bp):
ACCCGACCCAACCTGTTGACCCG
Found at i:137417 original size:15 final size:15
Alignment explanation
Indices: 137397--137443 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
137387 ACCCGACCTG
137397 TTGACCCGTTGACCA
1 TTGACCCGTTGACCA
* *
137412 TTGACCCGTTGAGCG
1 TTGACCCGTTGACCA
137427 TTGACCGACGTTGACCA
1 TTGACC--CGTTGACCA
137444 CTGTTGACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 19 0.73
17 7 0.27
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (15 bp):
TTGACCCGTTGACCA
Found at i:140136 original size:13 final size:13
Alignment explanation
Indices: 140118--140151 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
140108 CACTTTTCAG
*
140118 ATATTTTAATATA
1 ATATTTTAATAAA
*
140131 ATATTTTGATAAA
1 ATATTTTAATAAA
140144 ATATTTTA
1 ATATTTTA
140152 TTATTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATATTTTAATAAA
Found at i:140823 original size:4 final size:4
Alignment explanation
Indices: 140814--140843 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
140804 GTTGATGAAC
140814 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
1 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
140844 TGTAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (4 bp):
ACCT
Found at i:142582 original size:96 final size:97
Alignment explanation
Indices: 142415--142610 Score: 297
Period size: 96 Copynumber: 2.0 Consensus size: 97
142405 TTCATGTAGG
* * * *
142415 AACCATTAGATTCCATGATCCATAAATCAGGAACGATTATTATTTTTCAGTGAAAACAGGAAACC
1 AACCAATAGATTACATAATCCATAAATCAGGAACGATTATTATTTTTCAGTGAAAACAAGAAACC
*
142480 AAATAACACATTTCA-TTAACCATAGTTCATA
66 AAATAACACATTTCAGGTAACCATAGTTCATA
*
142511 AACCAATAGATTACATAATCCATAAATCAGGAACGATTA-TATTTTTCCAGTGAAAACAAGACAC
1 AACCAATAGATTACATAATCCATAAATCAGGAACGATTATTATTTTT-CAGTGAAAACAAGAAAC
* *
142575 CAGATAACACATTTTAGGTAACCATAGTTCATA
65 CAAATAACACATTTCAGGTAACCATAGTTCATA
142608 AAC
1 AAC
142611 TTGTAGATCA
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 7 0.08
96 65 0.72
97 18 0.20
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (97 bp):
AACCAATAGATTACATAATCCATAAATCAGGAACGATTATTATTTTTCAGTGAAAACAAGAAACC
AAATAACACATTTCAGGTAACCATAGTTCATA
Found at i:146501 original size:18 final size:19
Alignment explanation
Indices: 146466--146502 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
146456 CACGAAATGT
146466 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
146486 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
146503 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:147357 original size:17 final size:19
Alignment explanation
Indices: 147332--147370 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
147322 AGATACTCAG
*
147332 TTAATATTTAT-TT-TATT
1 TTAAAATTTATATTATATT
147349 TTAAAATTTATATTATATT
1 TTAAAATTTATATTATATT
147368 TTA
1 TTA
147371 GAAAAATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAAAATTTATATTATATT
Found at i:147501 original size:13 final size:13
Alignment explanation
Indices: 147485--147531 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
147475 TTTTAAAAAT
147485 ATAAAAATATAAA
1 ATAAAAATATAAA
*
147498 ATAAAATTATAAA
1 ATAAAAATATAAA
* *
147511 ATTACAAT-TAAA
1 ATAAAAATATAAA
*
147523 ATCAAAATA
1 ATAAAAATA
147532 ATTTAAGATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAAAAATATAAA
Done.