Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008857.1 Hibiscus syriacus cultivar Beakdansim tig00112079_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: 530231
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:2520 original size:20 final size:20
Alignment explanation
Indices: 2495--2585 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
2485 TAAATTAAAT
*
2495 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
2515 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
2535 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
2547 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
2567 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2586 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2572 original size:52 final size:52
Alignment explanation
Indices: 2494--2641 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
2484 CTAAATTAAA
*
2494 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
2546 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
2599 TATTACATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
2642 ATGTTACTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.38
53 50 0.54
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:2628 original size:20 final size:20
Alignment explanation
Indices: 2600--2639 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2590 TCTATTAGTT
*
2600 ATTACATAGGATCATTTTTA
1 ATTACATAGAATCATTTTTA
*
2620 ATTAGATAGAATCATTTTTA
1 ATTACATAGAATCATTTTTA
2640 TTATGTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTACATAGAATCATTTTTA
Found at i:6487 original size:117 final size:117
Alignment explanation
Indices: 6363--6616 Score: 382
Period size: 117 Copynumber: 2.2 Consensus size: 117
6353 GAGTTGCCCA
6363 AACAAAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGA
1 AACAAAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGA
* * * *
6428 GCCATTGAAGTGTTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGTACC
66 GCCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
* ** * *
6480 AATAAAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGCGAGA
1 AACAAAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGA
* *
6545 GCCGTTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACC
66 GCCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
* * *
6597 ACCGAAGTAAAGCTCGGTGC
1 AACAAAGCAAAGCTCGGTGC
6617 GAAAGCCAAG
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 119 1.00
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.16
Consensus pattern (117 bp):
AACAAAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGA
GCCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
Found at i:6644 original size:117 final size:116
Alignment explanation
Indices: 6363--6677 Score: 330
Period size: 117 Copynumber: 2.7 Consensus size: 116
6353 GAGTTGCCCA
* * * * *
6363 AACAAAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGA
1 AACAAAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGA
* * * *
6428 GCCATTGAAGTGTTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGTACC
65 GCCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
* ** * * *
6480 AATAAAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGCGAGA
1 AACAAAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGA
* *
6545 GCCGTTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACC
65 GCCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
* * * * *
6597 ACCGAAGTAAAGCTCGGTG-CGAAAGCCAAG-GGCCAAGCTGAA-GAGCCGAGGGTAAATAAGCG
1 AACAAAGCAAAGCTCGGTGAC-AAAG-CAAGTGGCCAAGC--AACAAGCCGAGGGTAAAGAAGCG
* * *
6659 AGAGCAACTGGAGTGTTTC
62 AGAGCCATTGAAGTGTTTC
6678 TGGTGCAAAG
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
116 1 0.01
117 162 0.96
118 3 0.02
119 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.32, T:0.15
Consensus pattern (116 bp):
AACAAAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAACAAGCCGAGGGTAAAGAAGCGAGAG
CCATTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACC
Found at i:7304 original size:15 final size:15
Alignment explanation
Indices: 7284--7318 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7274 AGCAAGGCTC
7284 TTCGAGTGAAGCTTG
1 TTCGAGTGAAGCTTG
*
7299 TTCGAGTGAAGTTTG
1 TTCGAGTGAAGCTTG
7314 TTCGA
1 TTCGA
7319 ATGGTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (15 bp):
TTCGAGTGAAGCTTG
Found at i:12566 original size:20 final size:20
Alignment explanation
Indices: 12541--12631 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
12531 TAAATTAAAT
*
12541 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
12561 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
12581 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
12593 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
12613 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
12632 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:12618 original size:52 final size:52
Alignment explanation
Indices: 12540--12687 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
12530 CTAAATTAAA
*
12540 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
12592 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
12645 TATTACATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
12688 ATGTTGCTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.38
53 50 0.54
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:12674 original size:20 final size:20
Alignment explanation
Indices: 12646--12685 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12636 TCTATTAGTT
*
12646 ATTACATAGGATCATTTTTA
1 ATTACATAGAATCATTTTTA
*
12666 ATTAGATAGAATCATTTTTA
1 ATTACATAGAATCATTTTTA
12686 TTATGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTACATAGAATCATTTTTA
Found at i:17225 original size:35 final size:35
Alignment explanation
Indices: 17160--17232 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
17150 TCTTAATGTA
17160 TTTTTTTAAAAAAAAACAATACATAAATATTAATAT
1 TTTTTTTAAAAAAAAACAATACATAAATATT-ATAT
* * * *
17196 TTTTTTTAAAAAAATATAAT-CTTATATATTATAT
1 TTTTTTTAAAAAAAAACAATACATAAATATTATAT
17230 TTT
1 TTT
17233 CGAGCTGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 7 0.21
35 8 0.24
36 18 0.55
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (35 bp):
TTTTTTTAAAAAAAAACAATACATAAATATTATAT
Found at i:20652 original size:3 final size:3
Alignment explanation
Indices: 20646--20710 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
20636 ATTTTTGTTT
**
20646 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
20692 TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
20711 TACAAACAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:21475 original size:22 final size:20
Alignment explanation
Indices: 21435--21492 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 20
21425 AGAGGGAGGA
21435 AAAAAATATAATAATAATAG
1 AAAAAATATAATAATAATAG
*
21455 AAAAAATA-AATAAT-GTA-
1 AAAAAATATAATAATAATAG
*
21472 AATAAATATAATAATAA-AG
1 AAAAAATATAATAATAATAG
21491 AA
1 AA
21493 GTAAAGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 8 0.25
20 8 0.25
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAATATAATAATAATAG
Found at i:21510 original size:37 final size:37
Alignment explanation
Indices: 21438--21510 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
21428 GGGAGGAAAA
* *
21438 AAATATAATAATAATAGAAAAAATAAATAATGTAAAT
1 AAATATAATAATAATAGAAAAAAGAAATAAGGTAAAT
* *
21475 AAATATAATAATAA-AGAAGTAAAGAAATAGGGTAAA
1 AAATATAATAATAATAGAA-AAAAGAAATAAGGTAAA
21511 ATACAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (37 bp):
AAATATAATAATAATAGAAAAAAGAAATAAGGTAAAT
Found at i:22903 original size:26 final size:26
Alignment explanation
Indices: 22855--22909 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
22845 TATGTGTCGA
* *
22855 CAGTTACAAACAAAACTGGACCGACC
1 CAGTTACAAACAAAACAGAACCGACC
*
22881 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGACC
22907 CAG
1 CAG
22910 ACCAACCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.31, G:0.16, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGACC
Found at i:27811 original size:113 final size:114
Alignment explanation
Indices: 27540--27871 Score: 549
Period size: 113 Copynumber: 2.9 Consensus size: 114
27530 CATGTTCTCG
*
27540 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
27605 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
*
27654 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
27719 GGTATGAACCCCAAAA-CAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
* * * * *
27767 TGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * * *
27832 GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGA
27872 GCTGCATGAT
Statistics
Matches: 204, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 105 0.51
114 99 0.49
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
Found at i:30395 original size:22 final size:22
Alignment explanation
Indices: 30366--30420 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
30356 ATCTACACTC
30366 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
30388 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
30410 TTCAAAGATGA
1 TTCAAAGATGA
30421 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:31217 original size:165 final size:167
Alignment explanation
Indices: 30910--31238 Score: 520
Period size: 170 Copynumber: 2.0 Consensus size: 167
30900 AAAATGAGCA
30910 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAACATAATGAGAAA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT----AAAAAACATAATGAGAAA
* **
30975 ACGATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGAT
62 ACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGAT
*
31040 TTTCTTAG-TTTTTTTACTTAGTAAACTATTTCCAACAACC
127 TTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
** *
31080 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAA-ATAATGGGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAACATAATGAGAAAACGA
*
31143 TTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
66 TTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTAAAAAGTAAGAAAACGATTTC
31208 CTTAGTTTTTTTTACTTAGTAAACTATTTCC
130 CTTAGTTTTTTTTACTTAGTAAACTATTTCC
31239 CACATCTGTA
Statistics
Matches: 149, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
164 40 0.27
165 41 0.28
166 25 0.17
170 43 0.29
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (167 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAACATAATGAGAAAACGA
TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
Found at i:31429 original size:181 final size:183
Alignment explanation
Indices: 31115--31481 Score: 623
Period size: 181 Copynumber: 2.0 Consensus size: 183
31105 CCAATCAACA
*
31115 TGTTATTTTGAAAATAATGGGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGA
1 TGTTATTTTGAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGA
31180 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATC
66 AATTGTTG-AAAG-AAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATC
*
31245 TGTAAGTCTTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
129 TGTAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
**
31300 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAATG
1 TGTTATTTTG-AAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
*
31364 AAATTGTTG-AA-AAGAAAGCGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATCT
65 AAATTGTTGAAAGAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATCT
**
31427 GTAAGTCCTGCAGTGCATGGTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 GTAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
31481 T
1 T
31482 TTCAAAGCCT
Statistics
Matches: 174, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
181 103 0.59
183 2 0.01
185 25 0.14
186 44 0.25
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (183 bp):
TGTTATTTTGAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGA
AATTGTTGAAAGAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATCTG
TAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:32396 original size:76 final size:76
Alignment explanation
Indices: 31422--32362 Score: 1740
Period size: 76 Copynumber: 12.4 Consensus size: 76
31412 CTATTTCCCA
*
31422 CATCTGTAAGTCCTGCAGTGCATGGTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31487 AGCCTTAGGGT
66 AGCCTTAGGGT
31498 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31563 AGCCTTAGGGT
66 AGCCTTAGGGT
31574 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31639 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
31650 CATCTGTGAGTCCTGCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31715 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
31726 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGGTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31791 AGCCTTAGGGT
66 AGCCTTAGGGT
31802 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31867 AGCCTTAGGGT
66 AGCCTTAGGGT
31878 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
31942 AGCCTTAGGGT
66 AGCCTTAGGGT
31953 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
**
32018 AATCTTAGGGT
66 AGCCTTAGGGT
* * *
32029 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCGTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
32094 AGCCTTAGGGT
66 AGCCTTAGGGT
32105 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
32170 AGCCTTAGGGT
66 AGCCTTAGGGT
32181 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
32246 AACCTTAGGGT
66 AGCCTTAGGGT
* *
32257 CATCTGTAAGCCCTGCAGTGCATGATGTTTCCGAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
32322 AACCTTAGGGT
66 AGCCTTAGGGT
32333 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
32363 TTAAGACCTC
Statistics
Matches: 841, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
75 75 0.09
76 766 0.91
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:32526 original size:3 final size:3
Alignment explanation
Indices: 32520--32597 Score: 86
Period size: 3 Copynumber: 25.7 Consensus size: 3
32510 ATTTTTGTTT
** *
32520 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* *
32566 TTAA ATA TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32598 TACAAAGTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.90
4 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:32563 original size:13 final size:13
Alignment explanation
Indices: 32524--32595 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
32514 TTGTTTTTAT
32524 TATTATTATTAAA
1 TATTATTATTAAA
32537 -ATTATTA-T---
1 TATTATTATTAAA
32545 TATTATTATTAAA
1 TATTATTATTAAA
32558 TATTATTATTAAA
1 TATTATTATTAAA
*
32571 TATTATTATTATAT
1 TATTATTATTA-AA
*
32585 TATAATTATTA
1 TATTATTATTA
32596 TTTACAAAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 1 0.02
12 7 0.14
13 24 0.47
14 11 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:32642 original size:26 final size:26
Alignment explanation
Indices: 32602--32653 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
32592 ATTATTTACA
* *
32602 AAGTTACAAACAAAACTGGACCGGCC
1 AAGTTACAAACAAAACAGAACCGGCC
*
32628 AAGTTACAAATAAAACAGAACCGGCC
1 AAGTTACAAACAAAACAGAACCGGCC
32654 CAGACCAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (26 bp):
AAGTTACAAACAAAACAGAACCGGCC
Found at i:36324 original size:19 final size:20
Alignment explanation
Indices: 36291--36336 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
36281 TTCAATGTAC
36291 TAATGATTAAAAACTTAATA
1 TAATGATTAAAAACTTAATA
36311 TAATGATT-AAAACTTAATA
1 TAATGATTAAAAACTTAATA
*
36330 AAATGAT
1 TAATGAT
36337 AACACAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (20 bp):
TAATGATTAAAAACTTAATA
Found at i:37068 original size:27 final size:27
Alignment explanation
Indices: 37018--37075 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
37008 GAAATAGCGT
* *
37018 TTTTAGGGTTTCTCCCTGTAATTTGTG
1 TTTTAGGGTTTCTCCCTATAATTTATG
** *
37045 TTTTAGGGTTTCTTTCTATTATTTATG
1 TTTTAGGGTTTCTCCCTATAATTTATG
37072 TTTT
1 TTTT
37076 CTTGTAGCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.60
Consensus pattern (27 bp):
TTTTAGGGTTTCTCCCTATAATTTATG
Found at i:43389 original size:19 final size:20
Alignment explanation
Indices: 43355--43397 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
43345 GATGGAAATA
*
43355 AAATAATATGTTAATCGATT
1 AAATAAAATGTTAATCGATT
43375 AAATAAAAT-TTAATCGATT
1 AAATAAAATGTTAATCGATT
43394 AAAT
1 AAAT
43398 GTTTGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
AAATAAAATGTTAATCGATT
Found at i:45523 original size:7 final size:7
Alignment explanation
Indices: 45513--45542 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
45503 ATTAATGATT
45513 ATATATA
1 ATATATA
45520 ATATATA
1 ATATATA
45527 ATATATA
1 ATATATA
45534 ATGATATA
1 AT-ATATA
45542 A
1 A
45543 AATGTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (7 bp):
ATATATA
Found at i:45532 original size:14 final size:15
Alignment explanation
Indices: 45505--45542 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
45495 AATTTAAAAT
45505 TAATGAT-T-ATATA
1 TAATGATATAATATA
45518 TAAT-ATATAATATA
1 TAATGATATAATATA
45532 TAATGATATAA
1 TAATGATATAA
45543 AATGTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 5 0.23
14 9 0.41
15 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TAATGATATAATATA
Found at i:46566 original size:22 final size:23
Alignment explanation
Indices: 46523--46567 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46513 ACTCATATTT
* *
46523 AAAAGCCATTTAACAGTTCTAAA
1 AAAACCCATTTAACAGTACTAAA
46546 AAAACCCATTTAACA-TACTAAA
1 AAAACCCATTTAACAGTACTAAA
46568 CTCAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAACCCATTTAACAGTACTAAA
Found at i:47127 original size:60 final size:59
Alignment explanation
Indices: 46953--47133 Score: 181
Period size: 60 Copynumber: 3.0 Consensus size: 59
46943 TAATATGTCA
* * * *
46953 CTAAACTATAACCCTCATTTTAAATTGGTCCTTAAAATTTTAAATATCCTAATTTAAT-C
1 CTAAACTATTACTCTC-TTTTAAATTGGTCCTTAAACTTTTAAATATTCTAATTTAATCC
* * * *
47012 CTCAAACTATGT-CTCT-TATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCC
1 CT-AAACTAT-TACTCTCT-TT-TAAATTGGTCCTTAAACTTTTAAATATTCTAATTTAATCC
* *
47073 CTAAACTATTACTCTCTTTATAAATTGGTCCCTAAACTTTTAAATATT-TCAATTTTATCC
1 CTAAACTATTACTCTCTTT-TAAATTGGTCCTTAAACTTTTAAATATTCT-AATTTAATCC
47133 C
1 C
47134 CAAATTCATC
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
58 1 0.01
59 6 0.06
60 89 0.89
61 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.43
Consensus pattern (59 bp):
CTAAACTATTACTCTCTTTTAAATTGGTCCTTAAACTTTTAAATATTCTAATTTAATCC
Found at i:51872 original size:167 final size:167
Alignment explanation
Indices: 51596--51926 Score: 626
Period size: 167 Copynumber: 2.0 Consensus size: 167
51586 TCATAGGTGC
*
51596 AACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGTATTTGGTGATTTAAGTAGAA
1 AACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGCATTTGGTGATTTAAGTAGAA
*
51661 TGATGGAAGAGTTTAATGACTTATTTGAGTTATTTTATGTAGGATTGAATTATAAAGAAGGAAGA
66 TGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTATGTAGGATTGAATTATAAAGAAGGAAGA
51726 TTAGAAGGACAAAATGGTCTTTTTATAGCAATATTGT
131 TTAGAAGGACAAAATGGTCTTTTTATAGCAATATTGT
51763 AACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGCATTTGGTGATTTAAGTAGAA
1 AACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGCATTTGGTGATTTAAGTAGAA
* *
51828 TGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTGTGTAGGATTGAATTATAAAGAATGAAGA
66 TGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTATGTAGGATTGAATTATAAAGAAGGAAGA
51893 TTAGAAGGACAAAATGGTCTTTTTATAGCAATAT
131 TTAGAAGGACAAAATGGTCTTTTTATAGCAATAT
51927 AATTATTGGG
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 160 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (167 bp):
AACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGCATTTGGTGATTTAAGTAGAA
TGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTATGTAGGATTGAATTATAAAGAAGGAAGA
TTAGAAGGACAAAATGGTCTTTTTATAGCAATATTGT
Found at i:52514 original size:21 final size:21
Alignment explanation
Indices: 52472--52514 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
52462 TTTCTGGGCT
* *
52472 AGGGGAATCGATACTCATTCA
1 AGGGGAATCGATACCCACTCA
*
52493 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
52514 A
1 A
52515 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:52567 original size:20 final size:20
Alignment explanation
Indices: 52542--52579 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52532 GAACGCTAGA
*
52542 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
52562 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
52580 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:53285 original size:103 final size:103
Alignment explanation
Indices: 53060--53277 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
53050 GTAGAGGGTC
* *
53060 TATGTGGTTATTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGCGAGACACCTAC
1 TATGTGGTTCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGCGAGACACATAC
* *
53125 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
* * *
53163 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTTCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGCGAGACACATAC
*
53228 TTGGTCCTTAGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
53266 TATGTGGTTCTT
1 TATGTGGTTCTT
53278 ATGGACATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTTCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGCGAGACACATAC
TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:53327 original size:23 final size:23
Alignment explanation
Indices: 53294--53361 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
53284 ATTATTATAT
*
53294 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
53317 GGCACTTCGGTGCAATTCTAAGT
1 GGCACTTCGGTGCAATTCTACGC
* * *
53340 GGCACTTAGGTACAATTATACG
1 GGCACTTCGGTGCAATTCTACG
53362 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:57038 original size:30 final size:30
Alignment explanation
Indices: 56979--57080 Score: 145
Period size: 30 Copynumber: 3.4 Consensus size: 30
56969 CCCGAAGGAC
* *
56979 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
57008 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
57038 CTGTCCAGAGGTCAT-AAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
*
57068 CTATCCATAGGTC
1 CTATCCAGAGGTC
57081 TCGAAGAACC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
29 31 0.47
30 35 0.53
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:57141 original size:59 final size:62
Alignment explanation
Indices: 57062--57190 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 62
57052 TAAGATCCTC
* *
57062 GGTAAACTATCCATAGGTCTCG-AAGAACCCA-GT-AAACTGTCCATA-TTCCTTAGAACATA
1 GGTAAACTATCCATAGGTCTCGAAAG-ACACAGGTAAAACTGTCCATAGTTCCGTAGAACATA
* * * *
57121 GGTATACTGTCCATATGTCTCGAAAGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTAAACTATCCATAGGTCTCGAAAGACACAGGTAAAACTGTCCATA-GTTCCGTAGAACATA
57184 GGTAAAC
1 GGTAAAC
57191 CCTCGACTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 22 0.38
60 5 0.09
61 12 0.21
63 19 0.33
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (62 bp):
GGTAAACTATCCATAGGTCTCGAAAGACACAGGTAAAACTGTCCATAGTTCCGTAGAACATA
Found at i:57183 original size:32 final size:32
Alignment explanation
Indices: 57095--57189 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
57085 AGAACCCAGT
*
57095 AAACTGTCCATA--TTCCTTAGAACATAGGT-
1 AAACTGTCCATATGTTCCGTAGAACATAGGTA
* *
57124 ATACTGTCCATATG-TCTCG-AAAGACATAGGTA
1 AAACTGTCCATATGTTC-CGTAGA-ACATAGGTA
57156 AAACTGTCCATATGTTCCGTAGAACATAGGTA
1 AAACTGTCCATATGTTCCGTAGAACATAGGTA
57188 AA
1 AA
57190 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
29 11 0.20
30 4 0.07
31 9 0.17
32 26 0.48
33 4 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (32 bp):
AAACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:58498 original size:21 final size:21
Alignment explanation
Indices: 58468--58512 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58458 ATTCTGTCGT
* *
58468 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
58489 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
58510 TTG
1 TTG
58513 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:61827 original size:166 final size:167
Alignment explanation
Indices: 61552--61885 Score: 625
Period size: 166 Copynumber: 2.0 Consensus size: 167
61542 GGAGGGAGAT
61552 TTGTAACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGTATTTGGTGATTTAAGT
1 TTGTAACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGTATTTGGTGATTTAAGT
*
61617 AGAATGATGGAAGAGTTTAATGACTTATTTGAGTTATTTTGTGTAGGATTGAATTATAAAGAAGG
66 AGAATGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTGTGTAGGATTGAATTATAAAGAAGG
*
61682 AAGATTAGAATGACAAAATGGTCTTTTTATAGCAATA
131 AAGATTAGAAGGACAAAATGGTCTTTTTATAGCAATA
*
61719 TTGTAACATCCTCCATGTCGGGTTAGTGATTAATTTGTAAAGTTTCAG-ATTTGGTGATTTAAGT
1 TTGTAACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGTATTTGGTGATTTAAGT
*
61783 AGAATGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTGTGTAGTATTGAATTATAAAGAAGG
66 AGAATGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTGTGTAGGATTGAATTATAAAGAAGG
61848 AAGATTAGAAGGACAAAATGGTCTTTTTATAGCAATA
131 AAGATTAGAAGGACAAAATGGTCTTTTTATAGCAATA
61885 T
1 T
61886 AATTATTGGG
Statistics
Matches: 163, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
166 116 0.71
167 47 0.29
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (167 bp):
TTGTAACATCCTCCATGCCGGGTTAGTGATTAATTTGTAAAGTTTCAGTATTTGGTGATTTAAGT
AGAATGATGGAAGAGTTCAATGACTTATTTGAGTTATTTTGTGTAGGATTGAATTATAAAGAAGG
AAGATTAGAAGGACAAAATGGTCTTTTTATAGCAATA
Found at i:62473 original size:21 final size:21
Alignment explanation
Indices: 62431--62473 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
62421 TTTCTGGGCT
*
62431 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
62452 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
62473 A
1 A
62474 ACGAATATGA
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:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:63245 original size:103 final size:103
Alignment explanation
Indices: 63020--63237 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
63010 GTAGAGGGTC
*
63020 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAAAATGTGTGAGGTCTGGTGAGACACCTAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAAAATGTGTGAGGTCTGGTGAGACACATAC
* *
63085 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
*
63123 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAAAATGTGTGAGGTCTGGTGAGACACATAC
63188 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
63226 TATGTGGTCCTT
1 TATGTGGTCCTT
63238 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAAAATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
Found at i:63281 original size:23 final size:22
Alignment explanation
Indices: 63254--63321 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
63244 ATTATTATAT
63254 GGCACTATGGTGCAATTCTACGC
1 GGCACT-TGGTGCAATTCTACGC
* * *
63277 GGCACTCCGGTGCAATTCTAAGT
1 GGCACT-TGGTGCAATTCTACGC
*
63300 GGCACTTAGGTGCAATTATACG
1 GGCACTT-GGTGCAATTCTACG
63322 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GGCACTTGGTGCAATTCTACGC
Found at i:74692 original size:435 final size:435
Alignment explanation
Indices: 73925--74797 Score: 1644
Period size: 435 Copynumber: 2.0 Consensus size: 435
73915 CTAAGTCCTC
73925 TCCCATAATTAAAAAAAAAAACCCCATTAAGCCTCTTATTTTTTAATTAAAAATTAGTTAGACCC
1 TCCCATAATTAAAAAAAAAAACCCCATTAAGCCTCTTATTTTTTAATTAAAAATTAGTTAGACCC
*
73990 TATTTTTTTTAAAAAAATATATAAATTAAACCTTTCAAAATTTTAATTTAAACCCTTGAATTTTT
66 TA--TTTTTTAAAAAAAAATATAAATTAAACCTTTCAAAATTTTAATTTAAACCCTTGAATTTTT
74055 AAAAGTTTTAAATTGACCTCACAAACTCTATCACTCAACTTATTATATTATTAGTAATTTAATTA
129 AAAAGTTTTAAATTGACCTCACAAACTCTATCACTCAACTTATTATATTATTAGTAATTTAATTA
74120 TTAACATATATTATTTTTTTAATAAATTAAAAGATGTTATAAAATAGTCACAAACGTTATCGATA
194 TTAACATATATTATTTTTTTAATAAATTAAAAGATGTTATAAAATAGTCACAAACGTTATCGATA
74185 TATAACACTATAAGATAAACCAATCATCTTCTAAGTAATAGTTGACTTCTCGAATCACGGATTTT
259 TATAACACTATAAGATAAACCAATCATCTTCTAAGTAATAGTTGACTTCTCGAATCACGGATTTT
*
74250 TCTCTCTCAATATAATTTAGGGATCAAAGTAGGGATGGCCACTCAACCCGAACCCGACCCGATCG
324 TCTCTCTCAATATAATTTAGGGATCAAAGTAGGGATGACCACTCAACCCGAACCCGACCCGATCG
74315 GGTTAGATTTTTTTAAAAAATTTCAATTTCGGGTCAGGTCGGGTTTTT
389 GGTTAGATTTTTTT-AAAAATTTCAATTTCGGGTCAGGTCGGGTTTTT
74363 TCCCATAATT-AAAAAAAAAA-CCCATTAAGCCTCTTATTTTTTAATTAAAAATTAGTTAGACCC
1 TCCCATAATTAAAAAAAAAAACCCCATTAAGCCTCTTATTTTTTAATTAAAAATTAGTTAGACCC
74426 TA-TTTTTAAAAAAAAATATAAATTAAACCTTTCAAAATTTTAATTTAAACCCTTGAATTTTTAA
66 TATTTTTTAAAAAAAAATATAAATTAAACCTTTCAAAATTTTAATTTAAACCCTTGAATTTTTAA
74490 AAGTTTTAAATTGACCTCACAAACTCTATCACTCAACTTATTATATTATTAGTAATTTAATTATT
131 AAGTTTTAAATTGACCTCACAAACTCTATCACTCAACTTATTATATTATTAGTAATTTAATTATT
74555 AACATATATTTATTTTTGTTAATAAATTAAAAGATGTTATAAAATAGTCACAAACGTTATCGATA
196 AACATATA-TTATTTTT-TTAATAAATTAAAAGATGTTATAAAATAGTCACAAACGTTATCGATA
*
74620 TATAACATTATAAGATAAACCAATCATCTTCTAAGTAATAGTTGACTTCTCGAATCACGGATTTT
259 TATAACACTATAAGATAAACCAATCATCTTCTAAGTAATAGTTGACTTCTCGAATCACGGATTTT
*
74685 TCTCTCTCAATATAATTTAGGGATCAAAGTGGGGATGACCACTCAACCCGAACCCGACCCGATCG
324 TCTCTCTCAATATAATTTAGGGATCAAAGTAGGGATGACCACTCAACCCGAACCCGACCCGATCG
74750 GGTTAGATTTTTTTAAAAATTTCAATTTCGGGTCAGGTCGGGTTTTT
389 GGTTAGATTTTTTTAAAAATTTCAATTTCGGGTCAGGTCGGGTTTTT
74797 T
1 T
74798 TAAGTGTGAT
Statistics
Matches: 429, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
433 134 0.31
434 42 0.10
435 188 0.44
436 45 0.10
437 10 0.02
438 10 0.02
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (435 bp):
TCCCATAATTAAAAAAAAAAACCCCATTAAGCCTCTTATTTTTTAATTAAAAATTAGTTAGACCC
TATTTTTTAAAAAAAAATATAAATTAAACCTTTCAAAATTTTAATTTAAACCCTTGAATTTTTAA
AAGTTTTAAATTGACCTCACAAACTCTATCACTCAACTTATTATATTATTAGTAATTTAATTATT
AACATATATTATTTTTTTAATAAATTAAAAGATGTTATAAAATAGTCACAAACGTTATCGATATA
TAACACTATAAGATAAACCAATCATCTTCTAAGTAATAGTTGACTTCTCGAATCACGGATTTTTC
TCTCTCAATATAATTTAGGGATCAAAGTAGGGATGACCACTCAACCCGAACCCGACCCGATCGGG
TTAGATTTTTTTAAAAATTTCAATTTCGGGTCAGGTCGGGTTTTT
Found at i:81778 original size:23 final size:23
Alignment explanation
Indices: 81746--81806 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
81736 CTCATATAAA
81746 TGCACTGAAGTGCCACGTAGAAT
1 TGCACTGAAGTGCCACGTAGAAT
* * *
81769 TGCACCGAAGTCCCGCGTAGAAT
1 TGCACTGAAGTGCCACGTAGAAT
81792 TGCACTGAAGTGCCA
1 TGCACTGAAGTGCCA
81807 TATAAAATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACTGAAGTGCCACGTAGAAT
Found at i:83274 original size:20 final size:20
Alignment explanation
Indices: 83238--83275 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83228 TCCCCTTTGA
*
83238 AGTGCATCGATATATTCTAT
1 AGTGCATCGATACATTCTAT
*
83258 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
83276 TTAACATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAT
Found at i:88130 original size:92 final size:93
Alignment explanation
Indices: 87952--88137 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
87942 CTTTACAATC
87952 TCTTAAAAAATTATGAGCCAAAATATACGATGGTACCGATATTGGTCTTTCAGTATCGGTACTAT
1 TCTTAAAAAATTATGAGCCAAAATATACGATGGTACCGATATTGGTCTTTCAGTATCGGTACTAT
88017 TTCATCGGTATCGATAGCTATCTTTAGG
66 TTCATCGGTATCGATAGCTATCTTTAGG
88045 TCTTAAAAAATTATGAGCCAAAATATACGATGGTACCGATATTGGTCTTTCAGTAT-GGTACTAT
1 TCTTAAAAAATTATGAGCCAAAATATACGATGGTACCGATATTGGTCTTTCAGTATCGGTACTAT
88109 TTCATCGGTATCGATAGCTATCTTTAGG
66 TTCATCGGTATCGATAGCTATCTTTAGG
88137 T
1 T
88138 ATCAATACTT
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 37 0.40
93 56 0.60
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (93 bp):
TCTTAAAAAATTATGAGCCAAAATATACGATGGTACCGATATTGGTCTTTCAGTATCGGTACTAT
TTCATCGGTATCGATAGCTATCTTTAGG
Found at i:89837 original size:18 final size:18
Alignment explanation
Indices: 89816--89857 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
89806 TAGTCCTTTG
*
89816 GGACATAGTGATCCTTCA
1 GGACATAGTGATCATTCA
* *
89834 GGACATAGTGTTCATTCG
1 GGACATAGTGATCATTCA
89852 GGACAT
1 GGACAT
89858 TTCTACACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (18 bp):
GGACATAGTGATCATTCA
Found at i:90131 original size:296 final size:296
Alignment explanation
Indices: 89597--90188 Score: 1184
Period size: 296 Copynumber: 2.0 Consensus size: 296
89587 CTTAGGGAAA
89597 GCTTATACAAGCTTAAAACATCAAGAATGATGATATATAAAGGAAATTTTATTAAGGGTGTAGAA
1 GCTTATACAAGCTTAAAACATCAAGAATGATGATATATAAAGGAAATTTTATTAAGGGTGTAGAA
89662 ATGAATTATATATATGTGACTATGAGCTTATATGAATATGTGATATGAATGTGTATATGTGAAAT
66 ATGAATTATATATATGTGACTATGAGCTTATATGAATATGTGATATGAATGTGTATATGTGAAAT
89727 GACATAAGTGATAATGCCCATGTTATGTGTAATGAGAGCTAGAGGTATAGTTAACATGCCAATAG
131 GACATAAGTGATAATGCCCATGTTATGTGTAATGAGAGCTAGAGGTATAGTTAACATGCCAATAG
89792 TCGAGGGTTCTATGTAGTCCTTTGGGACATAGTGATCCTTCAGGACATAGTGTTCATTCGGGACA
196 TCGAGGGTTCTATGTAGTCCTTTGGGACATAGTGATCCTTCAGGACATAGTGTTCATTCGGGACA
89857 TTTCTACACGATCCTTCGGGACAAATTCATATGCCC
261 TTTCTACACGATCCTTCGGGACAAATTCATATGCCC
89893 GCTTATACAAGCTTAAAACATCAAGAATGATGATATATAAAGGAAATTTTATTAAGGGTGTAGAA
1 GCTTATACAAGCTTAAAACATCAAGAATGATGATATATAAAGGAAATTTTATTAAGGGTGTAGAA
89958 ATGAATTATATATATGTGACTATGAGCTTATATGAATATGTGATATGAATGTGTATATGTGAAAT
66 ATGAATTATATATATGTGACTATGAGCTTATATGAATATGTGATATGAATGTGTATATGTGAAAT
90023 GACATAAGTGATAATGCCCATGTTATGTGTAATGAGAGCTAGAGGTATAGTTAACATGCCAATAG
131 GACATAAGTGATAATGCCCATGTTATGTGTAATGAGAGCTAGAGGTATAGTTAACATGCCAATAG
90088 TCGAGGGTTCTATGTAGTCCTTTGGGACATAGTGATCCTTCAGGACATAGTGTTCATTCGGGACA
196 TCGAGGGTTCTATGTAGTCCTTTGGGACATAGTGATCCTTCAGGACATAGTGTTCATTCGGGACA
90153 TTTCTACACGATCCTTCGGGACAAATTCATATGCCC
261 TTTCTACACGATCCTTCGGGACAAATTCATATGCCC
90189 CTAGTGGGAC
Statistics
Matches: 296, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 296 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (296 bp):
GCTTATACAAGCTTAAAACATCAAGAATGATGATATATAAAGGAAATTTTATTAAGGGTGTAGAA
ATGAATTATATATATGTGACTATGAGCTTATATGAATATGTGATATGAATGTGTATATGTGAAAT
GACATAAGTGATAATGCCCATGTTATGTGTAATGAGAGCTAGAGGTATAGTTAACATGCCAATAG
TCGAGGGTTCTATGTAGTCCTTTGGGACATAGTGATCCTTCAGGACATAGTGTTCATTCGGGACA
TTTCTACACGATCCTTCGGGACAAATTCATATGCCC
Found at i:90133 original size:18 final size:18
Alignment explanation
Indices: 90112--90153 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
90102 TAGTCCTTTG
*
90112 GGACATAGTGATCCTTCA
1 GGACATAGTGATCATTCA
* *
90130 GGACATAGTGTTCATTCG
1 GGACATAGTGATCATTCA
90148 GGACAT
1 GGACAT
90154 TTCTACACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (18 bp):
GGACATAGTGATCATTCA
Found at i:93434 original size:21 final size:22
Alignment explanation
Indices: 93390--93442 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
93380 GTATGAACAT
93390 TATCGATACTCTATGGAGGAGG
1 TATCGATACTCTATGGAGGAGG
*
93412 TATCGATAC-CTAT-GTGGAGGG
1 TATCGATACTCTATGGAGGA-GG
93433 TATCGATACT
1 TATCGATACT
93443 AGGGAACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
TATCGATACTCTATGGAGGAGG
Found at i:94342 original size:19 final size:19
Alignment explanation
Indices: 94318--94363 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
94308 GCTTATATAA
94318 ATATGTGATATGAATGTGT
1 ATATGTGATATGAATGTGT
*
94337 ATATGTGATATGAATGTTT
1 ATATGTGATATGAATGTGT
94356 ATATGTGA
1 ATATGTGA
94364 AATGCCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (19 bp):
ATATGTGATATGAATGTGT
Found at i:94468 original size:18 final size:18
Alignment explanation
Indices: 94445--94479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94435 AGGGTTCTAT
*
94445 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGGACATA
94463 GTGGTCATTCGGGACAT
1 GTGGTCATTCGGGACAT
94480 TTCTACGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (18 bp):
GTGGTCATTCGGGACATA
Found at i:98452 original size:7 final size:7
Alignment explanation
Indices: 98440--98469 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
98430 ACCAAACCTG
98440 AACTGAT
1 AACTGAT
98447 AACTGAT
1 AACTGAT
*
98454 AATTGAT
1 AACTGAT
98461 AACTGAT
1 AACTGAT
98468 AA
1 AA
98470 GCACTCACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (7 bp):
AACTGAT
Found at i:98634 original size:35 final size:34
Alignment explanation
Indices: 98566--98721 Score: 163
Period size: 35 Copynumber: 4.4 Consensus size: 34
98556 TTAATCTACG
*
98566 TCTGATAACTGTAAAACATCTGATAACTGAAAATCA
1 TCTGATAACTGT-AAATATCT-ATAACTGAAAATCA
*
98602 TCTGATAATTGTAAATATCATATAACTGAAAATCA
1 TCTGATAACTGTAAATATC-TATAACTGAAAATCA
* * * *
98637 TTTGATAACTGTAAATATCGGAAAACTAAAAATCA
1 TCTGATAACTGTAAATATC-TATAACTGAAAATCA
* *
98672 TCTGATAACTGTAAATATTTAATAACCATG-AAAT-G
1 TCTGATAACTGTAAATATCT-ATAA-C-TGAAAATCA
98707 TCTGATAACTGTAAA
1 TCTGATAACTGTAAA
98722 CAATTAGAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
35 84 0.82
36 17 0.17
37 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (34 bp):
TCTGATAACTGTAAATATCTATAACTGAAAATCA
Found at i:98687 original size:18 final size:17
Alignment explanation
Indices: 98566--98721 Score: 127
Period size: 18 Copynumber: 8.9 Consensus size: 17
98556 TTAATCTACG
*
98566 TCTGATAACTGTAAAACA
1 TCTGATAACTGT-AAATA
*
98584 TCTGATAACTGAAAATCA
1 TCTGATAACTGTAAAT-A
*
98602 TCTGATAATTGTAAATA
1 TCTGATAACTGTAAATA
*
98619 TCAT-ATAACTGAAAATCA
1 TC-TGATAACTGTAAAT-A
*
98637 TTTGATAACTGTAAATA
1 TCTGATAACTGTAAATA
* * **
98654 TCGGAAAACTAAAAATCA
1 TCTGATAACTGTAAAT-A
98672 TCTGATAACTGTAAATA
1 TCTGATAACTGTAAATA
* * *
98689 TTTAATAACCATG-AAATG
1 TCTGATAA-C-TGTAAATA
98707 TCTGATAACTGTAAA
1 TCTGATAACTGTAAA
98722 CAATTAGAAT
Statistics
Matches: 108, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
16 2 0.02
17 40 0.37
18 64 0.59
19 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (17 bp):
TCTGATAACTGTAAATA
Found at i:98713 original size:70 final size:70
Alignment explanation
Indices: 98564--98723 Score: 191
Period size: 70 Copynumber: 2.3 Consensus size: 70
98554 TATTAATCTA
* * * *
98564 CGTCTGATAACTGTAAAACATCTGATAACTGAAAATCATCTGATAATTGTAAATATCATATAACT
1 CGTCTGATAACTGT-AAACATCGGAAAACTAAAAATCATCTGATAACTGTAAATATCATATAACT
98629 GAAAAT
65 GAAAAT
* * * *
98635 CATTTGATAACTGTAAATATCGGAAAACTAAAAATCATCTGATAACTGTAAATAT-TTAATAACC
1 CGTCTGATAACTGTAAACATCGGAAAACTAAAAATCATCTGATAACTGTAAATATCAT-ATAA-C
98699 ATG-AAAT
64 -TGAAAAT
98706 -GTCTGATAACTGTAAACA
1 CGTCTGATAACTGTAAACA
98724 ATTAGAATCC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
69 1 0.01
70 55 0.73
71 17 0.23
72 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (70 bp):
CGTCTGATAACTGTAAACATCGGAAAACTAAAAATCATCTGATAACTGTAAATATCATATAACTG
AAAAT
Found at i:112019 original size:24 final size:24
Alignment explanation
Indices: 111992--112038 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
111982 CACAAACTTG
*
111992 AGGAACAGAAACTTGTTGAACAGT
1 AGGAACAGAAACTTGTGGAACAGT
*
112016 AGGAACAGAAGCTTGTGGAACAG
1 AGGAACAGAAACTTGTGGAACAG
112039 CAGATACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (24 bp):
AGGAACAGAAACTTGTGGAACAGT
Found at i:126182 original size:6 final size:6
Alignment explanation
Indices: 126171--126195 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
126161 TCGGATCGGC
126171 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
126196 AATATGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:126506 original size:22 final size:22
Alignment explanation
Indices: 126481--126522 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
126471 AAGAGTTATT
* *
126481 TGATTTAATTCCAGGGGTTACA
1 TGATATAATTCCAGGAGTTACA
*
126503 TGATATAATTTCAGGAGTTA
1 TGATATAATTCCAGGAGTTA
126523 TAACAGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TGATATAATTCCAGGAGTTACA
Found at i:131830 original size:26 final size:26
Alignment explanation
Indices: 131794--131984 Score: 355
Period size: 26 Copynumber: 7.3 Consensus size: 26
131784 GTAAATAAAT
131794 GAGAATGCAAGGTATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
131820 GAGAATGCAAGGTATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
*
131846 GAGAATGCAAGGAATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
131872 GAGAATGCAAGGTATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
131898 GAGAATGCAAGGTATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
131924 GAGAATGCAAGGTATGCGAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
*
131950 GAGAATGCAAGGTATGCAAGTGAGAC
1 GAGAATGCAAGGTATGCGAGTGAGAC
*
131976 GAGTATGCA
1 GAGAATGCA
131985 CAATTTAGAC
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 161 1.00
ACGTcount: A:0.36, C:0.12, G:0.38, T:0.15
Consensus pattern (26 bp):
GAGAATGCAAGGTATGCGAGTGAGAC
Found at i:133985 original size:23 final size:23
Alignment explanation
Indices: 133923--134017 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 23
133913 CCTCAAAAAC
*
133923 CCTAAAAATC-CTAAGAGATAATT
1 CCTAAAAATCAC-AAAAGATAATT
* **
133946 CTTAAAAAATTGC-AAAGATAATT
1 CCT-AAAAATCACAAAAGATAATT
133969 CCTAAAAATCACAAAAGATAATT
1 CCTAAAAATCACAAAAGATAATT
* * *
133992 ACTAATAAATTACAAAATATAATT
1 CCTAA-AAATCACAAAAGATAATT
134016 CC
1 CC
134018 CATAATTGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
22 7 0.12
23 27 0.47
24 23 0.40
25 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (23 bp):
CCTAAAAATCACAAAAGATAATT
Found at i:133990 original size:46 final size:47
Alignment explanation
Indices: 133923--134017 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 47
133913 CCTCAAAAAC
* *
133923 CCTAAAAATCCTAAGAGATAATT-CTTAAAAAATTGC-AAAGATAATT
1 CCTAAAAATCCTAAAAGATAATTAC-TAAAAAATTACAAAAGATAATT
* *
133969 CCTAAAAATCAC-AAAAGATAATTACTAATAAATTACAAAATATAATT
1 CCTAAAAATC-CTAAAAGATAATTACTAAAAAATTACAAAAGATAATT
134016 CC
1 CC
134018 CATAATTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 29 0.69
47 13 0.31
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (47 bp):
CCTAAAAATCCTAAAAGATAATTACTAAAAAATTACAAAAGATAATT
Found at i:138629 original size:26 final size:25
Alignment explanation
Indices: 138598--138647 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
138588 AAAACAACAA
**
138598 TAAACATAAATATACTTATCATCCAT
1 TAAACATAAA-ATAAGTATCATCCAT
138624 TAAACATAAAATAAGTATCATCCA
1 TAAACATAAAATAAGTATCATCCA
138648 AACAACTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (25 bp):
TAAACATAAAATAAGTATCATCCAT
Found at i:140351 original size:20 final size:20
Alignment explanation
Indices: 140326--140368 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
140316 TCTAAGAGCC
*
140326 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
140346 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
140366 CAT
1 CAT
140369 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:148074 original size:13 final size:13
Alignment explanation
Indices: 148053--148087 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
148043 CCCACTTACT
148053 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
148066 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
148079 TTTCACTTT
1 TTTCACTTT
148088 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:150715 original size:20 final size:20
Alignment explanation
Indices: 150690--150732 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
150680 TCTAAGAGCC
*
150690 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
150710 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
150730 CAT
1 CAT
150733 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:155139 original size:23 final size:24
Alignment explanation
Indices: 155120--155174 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
155110 TCTCGAATGA
*
155120 CCACATAGGTTT-GCACCGAAGTG
1 CCACATAAGTTTGGCACCGAAGTG
*
155143 TCACATAAGTTTGGCACCGAAGTG
1 CCACATAAGTTTGGCACCGAAGTG
155167 CCACATAA
1 CCACATAA
155175 TTGTCCCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (24 bp):
CCACATAAGTTTGGCACCGAAGTG
Found at i:157817 original size:179 final size:177
Alignment explanation
Indices: 157498--157857 Score: 654
Period size: 179 Copynumber: 2.0 Consensus size: 177
157488 CATCATCCTA
157498 TTCTGTTGCGGGGTATCTATATAGGAACTAATCTTGATTTATCCCTTTTTCTTTACATAAGAAAC
1 TTCTGTTGCGGGGTATCTATATAGGAACTAATCTTGATTTATCCCTTTTTCTTTACATAAGAAAC
157563 TAGAGCTTTGGTAAGTACTCCCCCCATTACATTATGAAGAAGTTTATTTTCACATTGAAATTGAT
66 TAGAGCTTTGGTAAGTACTCCCCCCATTACATTATGAAGAAGTTTATTTTCACATTGAAATTGAT
157628 TTTAAACCGTACTATGAAATATC-TAAATTTCTCTTCTATTTCAAAT
131 TTTAAACCGTACTATGAAATATCTTAAATTTCTCTTCTATTTCAAAT
157674 TTCTGTTGCGGGGTATCTATATAGGAACTAATCTTGATTTATCCCTTTTTCTTTACAATAAGAAA
1 TTCTGTTGCGGGGTATCTATATAGGAACTAATCTTGATTTATCCCTTTTTCTTTAC-ATAAGAAA
157739 CTAGAGCTTTGGGTAAAGTACT-CCCCCATTATCATTATGAAGAAGTTT-TATTTCACATTGAAA
65 CTAGAGCTTT-GGT-AAGTACTCCCCCCATTA-CATTATGAAGAAGTTTAT-TTTCACATTGAAA
157802 TTGATTTTAAACCGTACTATGAAATATCTTAAATTTCTCTTCTATTTCAAAT
126 TTGATTTTAAACCGTACTATGAAATATCTTAAATTTCTCTTCTATTTCAAAT
157854 TTCT
1 TTCT
157858 CTTTCTTTAA
Statistics
Matches: 178, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
176 56 0.31
177 18 0.10
178 13 0.07
179 64 0.36
180 27 0.15
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (177 bp):
TTCTGTTGCGGGGTATCTATATAGGAACTAATCTTGATTTATCCCTTTTTCTTTACATAAGAAAC
TAGAGCTTTGGTAAGTACTCCCCCCATTACATTATGAAGAAGTTTATTTTCACATTGAAATTGAT
TTTAAACCGTACTATGAAATATCTTAAATTTCTCTTCTATTTCAAAT
Found at i:164968 original size:32 final size:31
Alignment explanation
Indices: 164914--164991 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 31
164904 TCGTTAAAAA
*
164914 TAGGTATCTAACGTTTTCGACGTTACACTTT
1 TAGGTATCTAACATTTTCGACGTTACACTTT
* * *
164945 TAGGTGTCTTAACATTTTTGACGTTATACTTT
1 TAGGTATC-TAACATTTTCGACGTTACACTTT
164977 TAGGTATCTAACATT
1 TAGGTATCTAACATT
164992 ACACTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 14 0.34
32 27 0.66
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (31 bp):
TAGGTATCTAACATTTTCGACGTTACACTTT
Found at i:165031 original size:22 final size:21
Alignment explanation
Indices: 164965--165031 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
164955 AACATTTTTG
*
164965 ACGTTATACTTTTAGGTATCTA
1 ACGTTACAC-TTTAGGTATCTA
* * *
164987 ACATTACAC-TT--GTTTTTA
1 ACGTTACACTTTAGGTATCTA
165005 ACGTTACACTTTAAGGTATCTA
1 ACGTTACACTTT-AGGTATCTA
165027 ACGTT
1 ACGTT
165032 TTCAACTGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 2 0.06
22 17 0.50
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ACGTTACACTTTAGGTATCTA
Found at i:165726 original size:11 final size:11
Alignment explanation
Indices: 165710--165766 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
165700 AAAATAAATT
165710 TATTTTATTAA
1 TATTTTATTAA
165721 TATTTTATTAA
1 TATTTTATTAA
* ** *
165732 TAACTCAATT-T
1 T-ATTTTATTAA
165743 TATTTTATTAA
1 TATTTTATTAA
*
165754 TATTTTACTAA
1 TATTTTATTAA
165765 TA
1 TA
165767 GATGCGACGT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
10 5 0.14
11 25 0.71
12 5 0.14
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:166480 original size:21 final size:23
Alignment explanation
Indices: 166448--166489 Score: 54
Period size: 21 Copynumber: 1.9 Consensus size: 23
166438 TGGAAGAGAA
166448 TAATATTTTTAA-ATA-ATATTT
1 TAATATTTTTAATATATATATTT
166469 TAAT-TTTCTTAATATATATAT
1 TAATATTT-TTAATATATATAT
166490 AAACGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.17
21 8 0.44
22 3 0.17
23 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATATTTTTAATATATATATTT
Found at i:167240 original size:40 final size:39
Alignment explanation
Indices: 167196--167342 Score: 109
Period size: 40 Copynumber: 3.7 Consensus size: 39
167186 AATTTCTTTA
* *
167196 TCGCAACGCAAATTTCTTTCTCGCAACGCAATTTCAAAAT
1 TCGCAACGCGAATTTCTTT-TCGCAACACAATTTCAAAAT
** * * **
167236 TCGCAAACG-GAATTTCAAATTCGCAACTCGATTTCTGAAT
1 TCGC-AACGCGAATTTC-TTTTCGCAACACAATTTCAAAAT
***
167276 TCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCCTTA-
1 TCGCAACGCGAATTTC-TTTTCGCAACACAA-TTTCAAAAT
* *
167316 TCGCAACACGAATTTTGTTTTCGCAAC
1 TCGCAACGCGAA-TTTCTTTTCGCAAC
167343 TCGGTTTTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
39 4 0.05
40 68 0.80
41 13 0.15
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (39 bp):
TCGCAACGCGAATTTCTTTTCGCAACACAATTTCAAAAT
Found at i:167292 original size:21 final size:21
Alignment explanation
Indices: 167091--167292 Score: 111
Period size: 20 Copynumber: 10.0 Consensus size: 21
167081 AATGACCAAC
* *
167091 AAATTCGCAACGCGAA-CTCC
1 AAATTCGCAACGCGAATTTCT
* * * *
167111 AATTTCGCAACAC-AGTTTCC
1 AAATTCGCAACGCGAATTTCT
* * * *
167131 AAATTCGTAATGCGATTTTCC
1 AAATTCGCAACGCGAATTTCT
* *
167152 AAATTCGCAACTC-AGTTTCT
1 AAATTCGCAACGCGAATTTCT
* *
167172 ACAA-TCGCAATGCAAATTTCT
1 A-AATTCGCAACGCGAATTTCT
** *
167193 TTA-TCGCAACGCAAATTTCT
1 AAATTCGCAACGCGAATTTCT
* *
167213 --TTCTCGCAACGC-AATTTCA
1 AAAT-TCGCAACGCGAATTTCT
167232 AAATTCGCAAACG-GAATTTC-
1 AAATTCGC-AACGCGAATTTCT
*
167252 AAATTCGCAACTCG-ATTTCT
1 AAATTCGCAACGCGAATTTCT
*
167272 GAATTCGCAACGCGAATTTCT
1 AAATTCGCAACGCGAATTTCT
167293 TTTTCGCAAC
Statistics
Matches: 143, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
19 15 0.10
20 87 0.61
21 41 0.29
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (21 bp):
AAATTCGCAACGCGAATTTCT
Found at i:167298 original size:20 final size:20
Alignment explanation
Indices: 167176--167342 Score: 92
Period size: 20 Copynumber: 8.3 Consensus size: 20
167166 GTTTCTACAA
* * *
167176 TCGCAATGCAAATTTCTTTA
1 TCGCAACGCGAATTTCTTTT
* *
167196 TCGCAACGCAAATTTCTTTC
1 TCGCAACGCGAATTTCTTTT
***
167216 TCGCAACGC-AATTTCAAAAT
1 TCGCAACGCGAATTTC-TTTT
***
167236 TCGCAAACG-GAATTTCAAAT
1 TCGC-AACGCGAATTTCTTTT
* **
167256 TCGCAACTCG-ATTTCTGAAT
1 TCGCAACGCGAATTTCT-TTT
167276 TCGCAACGCGAATTTCTTTT
1 TCGCAACGCGAATTTCTTTT
* * *
167296 TCGCAACAC-AAGTTTCCTTA
1 TCGCAACGCGAA-TTTCTTTT
*
167316 TCGCAACACGAATTT-TGTTT
1 TCGCAACGCGAATTTCT-TTT
167336 TCGCAAC
1 TCGCAAC
167343 TCGGTTTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
19 16 0.13
20 88 0.72
21 18 0.15
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (20 bp):
TCGCAACGCGAATTTCTTTT
Found at i:167320 original size:80 final size:80
Alignment explanation
Indices: 167196--167383 Score: 202
Period size: 80 Copynumber: 2.4 Consensus size: 80
167186 AATTTCTTTA
* * *
167196 TCGCAACGCAAATTTCTTTCTCGCAACGCAATTTCAAAATTCGCAA-ACGGAATTTCAAATTCGC
1 TCGCAACGCGAATTTCTTTTTCGCAACACAATTTCAAAATTCGCAACAC-GAATTTCAAATTCGC
167260 AACTCGATTTCTGAAT
65 AACTCGATTTCTGAAT
*** ****
167276 TCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCCTTA-TCGCAACACGAATTTTGTTTTCGC
1 TCGCAACGCGAATTTCTTTTTCGCAACACAA-TTTCAAAATTCGCAACACGAATTTCAAATTCGC
* *
167340 AACTCGGTTTTTGAAT
65 AACTCGATTTCTGAAT
* *
167356 TCGCAACACGAATTT-TAATTTCGCAACA
1 TCGCAACGCGAATTTCT-TTTTCGCAACA
167384 GCTTTTATTT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 83 0.91
81 7 0.08
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (80 bp):
TCGCAACGCGAATTTCTTTTTCGCAACACAATTTCAAAATTCGCAACACGAATTTCAAATTCGCA
ACTCGATTTCTGAAT
Found at i:167360 original size:40 final size:39
Alignment explanation
Indices: 167255--167382 Score: 127
Period size: 40 Copynumber: 3.2 Consensus size: 39
167245 GAATTTCAAA
* * *
167255 TTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTT
1 TTCGCAACTCGGTTTTTGAATTCGCAACACGAATTT-TTT
* *
167295 TTCGCAACACAAGTTTCCTT--A-TCGCAACACGAATTTTGTT
1 TTCGCAACTC-GGTTT--TTGAATTCGCAACACGAATTTT-TT
*
167335 TTCGCAACTCGGTTTTTGAATTCGCAACACGAATTTTAAT
1 TTCGCAACTCGGTTTTTGAATTCGCAACACGAATTTT-TT
167375 TTCGCAAC
1 TTCGCAAC
167383 AGCTTTTATT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
37 2 0.03
39 6 0.08
40 59 0.82
41 4 0.06
43 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (39 bp):
TTCGCAACTCGGTTTTTGAATTCGCAACACGAATTTTTT
Found at i:167371 original size:20 final size:20
Alignment explanation
Indices: 167233--167383 Score: 87
Period size: 20 Copynumber: 7.5 Consensus size: 20
167223 GCAATTTCAA
**
167233 AATTCGCAA-ACGGAATTTCA
1 AATTCGCAACAC-GAATTTTG
*
167253 AATTCGCAACTCG-ATTTCTG
1 AATTCGCAACACGAATTT-TG
*
167273 AATTCGCAACGCGAATTTCT-
1 AATTCGCAACACGAATTT-TG
** * *
167293 TTTTCGCAACAC-AAGTTTC
1 AATTCGCAACACGAATTTTG
**
167312 CTTATCGCAACACGAATTTTG
1 AAT-TCGCAACACGAATTTTG
** * **
167333 TTTTCGCAACTCGGTTTTTG
1 AATTCGCAACACGAATTTTG
167353 AATTCGCAACACGAATTTT-
1 AATTCGCAACACGAATTTTG
167372 AATTTCGCAACA
1 AA-TTCGCAACA
167384 GCTTTTATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
18 1 0.01
19 12 0.12
20 77 0.74
21 14 0.13
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (20 bp):
AATTCGCAACACGAATTTTG
Found at i:167412 original size:80 final size:78
Alignment explanation
Indices: 167255--167406 Score: 173
Period size: 80 Copynumber: 1.9 Consensus size: 78
167245 GAATTTCAAA
* * *
167255 TTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCCTTATCGC
1 TTCGCAACTCGATTTCTGAATTCGCAACACGAATTTCTATTTCGCAACAC-A-TTTCATTATCGC
*
167320 AACACGAATTTTGTT
64 AACACAAATTTTGTT
* * * *
167335 TTCGCAACTCGGTTTTTGAATTCGCAACACGAATTT-TAATTTCGCAACAGC-TTTTATTTTCGC
1 TTCGCAACTCGATTTCTGAATTCGCAACACGAATTTCT-ATTTCGCAACA-CATTTCATTATCGC
*
167398 TACACAAAT
64 AACACAAAT
167407 GTTTTGGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
78 16 0.26
79 1 0.02
80 43 0.70
81 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (78 bp):
TTCGCAACTCGATTTCTGAATTCGCAACACGAATTTCTATTTCGCAACACATTTCATTATCGCAA
CACAAATTTTGTT
Found at i:167566 original size:15 final size:14
Alignment explanation
Indices: 167540--167576 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
167530 TCCCCATCTC
167540 TAATTTTTTTTACA
1 TAATTTTTTTTACA
*
167554 TAATTTATTTTTATA
1 TAATTT-TTTTTACA
167569 TAATTTTT
1 TAATTTTT
167577 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATTTTTTTTACA
Found at i:168209 original size:14 final size:12
Alignment explanation
Indices: 168169--168202 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
168159 ACCACAATTC
*
168169 CAATACCAAACA
1 CAATATCAAACA
168181 CAATATCAAACA
1 CAATATCAAACA
*
168193 CAATCTCAAA
1 CAATATCAAA
168203 AACACAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:168381 original size:24 final size:24
Alignment explanation
Indices: 168330--168383 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
168320 GTATTCAAAA
*
168330 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
168354 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
168378 TTTGAT
1 TTTGAT
168384 GATGTTTCAG
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:170642 original size:18 final size:18
Alignment explanation
Indices: 170619--170654 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
170609 CAAACAAAGG
* *
170619 AAATCAAATTCGCAATCA
1 AAATCAAAATCCCAATCA
170637 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
170655 CAACCGGCTT
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:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:170908 original size:29 final size:29
Alignment explanation
Indices: 170866--170926 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
170856 AATTCGCAAC
170866 GCGAAAGTCAAATTCACGTTGCGATTGTT
1 GCGAAAGTCAAATTCACGTTGCGATTGTT
* * *
170895 GCGAAAGTTAAATTCGCGTTGCGATTTTT
1 GCGAAAGTCAAATTCACGTTGCGATTGTT
170924 GCG
1 GCG
170927 TTGCGATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (29 bp):
GCGAAAGTCAAATTCACGTTGCGATTGTT
Found at i:170929 original size:14 final size:14
Alignment explanation
Indices: 170910--170940 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
170900 AGTTAAATTC
*
170910 GCGTTGCGATTTTT
1 GCGTTGCGATTGTT
170924 GCGTTGCGATTGTT
1 GCGTTGCGATTGTT
170938 GCG
1 GCG
170941 AAAGAGTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.16, G:0.35, T:0.42
Consensus pattern (14 bp):
GCGTTGCGATTGTT
Found at i:172413 original size:21 final size:21
Alignment explanation
Indices: 172387--172483 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
172377 GTGAATCAAG
* *
172387 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
172408 CTCTTGAACAATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
172429 CTCTTGAACGATGAGAGAGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
172450 CTCTTAAACGA-CATGAGGGTC
1 CTCTTGAACGATGA-GAGGGGC
*
172471 CTCTTAAACGATG
1 CTCTTGAACGATG
172484 GCAGATGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.98
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:172649 original size:4 final size:4
Alignment explanation
Indices: 172628--172665 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
172618 GGGCTGCTAA
* *
172628 AAAT AAAT TAAT ACAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
172666 TGTCGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:173100 original size:42 final size:42
Alignment explanation
Indices: 173025--173123 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
173015 GTGATGGAAT
* * * *
173025 AGGTGATGGCTCTCGTTGTGGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
*
173067 AGGTGATGGCTCTGGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
*
173109 AGGTGATGACTCTCG
1 AGGTGATGGCTCTCG
173124 AAGTGGGGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
Found at i:174644 original size:19 final size:19
Alignment explanation
Indices: 174593--174650 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
174583 AGTAGTTTTT
*
174593 GAAACTTAAATTCGCAACAC
1 GAAAC-TAAAATCGCAACAC
* *
174613 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACAC
174633 GAAACTAAAATCGCAACA
1 GAAACTAAAATCGCAACA
174651 TTTTCGCGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.50, C:0.22, G:0.14, T:0.14
Consensus pattern (19 bp):
GAAACTAAAATCGCAACAC
Found at i:174674 original size:20 final size:20
Alignment explanation
Indices: 174649--174688 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
174639 AAAATCGCAA
174649 CATTTTCGCGTTGCAAATTT
1 CATTTTCGCGTTGCAAATTT
* *
174669 CATTTTCGTGTTGCGAATTT
1 CATTTTCGCGTTGCAAATTT
174689 AAGTTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.47
Consensus pattern (20 bp):
CATTTTCGCGTTGCAAATTT
Found at i:174695 original size:20 final size:20
Alignment explanation
Indices: 174652--174695 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
174642 ATCGCAACAT
* *
174652 TTTCGCGTTGCAAATTTCAT
1 TTTCGCGTTGCAAATTTAAG
* *
174672 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCAAATTTAAG
174692 TTTC
1 TTTC
174696 AAAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTAAG
Found at i:175045 original size:22 final size:22
Alignment explanation
Indices: 175017--175067 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
175007 ATAGAGGGGG
* *
175017 GTCGCCGAATATGGGGACGGAT
1 GTCGCCGAAGATGGAGACGGAT
*
175039 GTCGCCGGAGATGGAGACGGAT
1 GTCGCCGAAGATGGAGACGGAT
*
175061 ATCGCCG
1 GTCGCCG
175068 TAGAGAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.16
Consensus pattern (22 bp):
GTCGCCGAAGATGGAGACGGAT
Found at i:175234 original size:18 final size:20
Alignment explanation
Indices: 175210--175256 Score: 80
Period size: 18 Copynumber: 2.5 Consensus size: 20
175200 TAAACACGCT
175210 TTGCGAATTTGACTT-TGTG
1 TTGCGAATTTGACTTCTGTG
175229 -TGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
175248 TTGCGAATT
1 TTGCGAATT
175257 ACAAATTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.54
19 4 0.15
20 8 0.31
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:177724 original size:228 final size:228
Alignment explanation
Indices: 177325--177783 Score: 877
Period size: 228 Copynumber: 2.0 Consensus size: 228
177315 ATCTTGATTA
177325 ATGGATGCAGAAGACATGAAAATCAAACTGCATATCTAAATCTAGCCTCAACTGAGATGGAAAAG
1 ATGGATGCAGAAGACATGAAAATCAAACTGCATATCTAAATCTAGCCTCAACTGAGATGGAAAAG
177390 GGTCACAATTCACTATTTCCAGATATATTTTCATACTACATGAAAAAAGATTGACAATCTGATTG
66 GGTCACAATTCACTATTTCCAGATATATTTTCATACTACATG-AAAAAGATTGACAATCTGATTG
177455 CCGTGTAGTTCATAACTGATGTGTATTTGAAGAAAAGCTAAGTTGGGCAGTGCGCCTAAATGCTT
130 CCGTGTAGTTCATAACTGATGTGTATTTGAAGAAAAGCTAAGTTGGGCAGTGCGCCT-AATGCTT
177520 GAGGTGGAGTAAAGATGACATC-AAAACCAGAGCT
194 GAGGTGGAGTAAAGATGACATCAAAAACCAGAGCT
177554 ATGGATGCAGAAGACATGAAAATCAAACTGCATATCTAAATCTAGCCTCAACTGAGATGGAAACA
1 ATGGATGCAGAAGACATGAAAATCAAACTGCATATCTAAATCTAGCCTCAACTGAGATGGAAA-A
177619 GGGTCACAATTCACTATTTCCAGATATATTTTCATACTACATG-AAAAGATTGACAATCTGATTG
65 GGGTCACAATTCACTATTTCCAGATATATTTTCATACTACATGAAAAAGATTGACAATCTGATTG
177683 CCGTGTAGTTCATAACTGATGTGTATTTGAAGAAAAGCTAAGTTGGGCAGTGCGCCTAATGCTTG
130 CCGTGTAGTTCATAACTGATGTGTATTTGAAGAAAAGCTAAGTTGGGCAGTGCGCCTAATGCTTG
177748 AGGTGGAGTAAAGATGACATCAAAAACCAGAGCT
195 AGGTGGAGTAAAGATGACATCAAAAACCAGAGCT
177782 AT
1 AT
177784 CGAAAGGGGT
Statistics
Matches: 228, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
227 29 0.13
228 92 0.40
229 63 0.28
230 44 0.19
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (228 bp):
ATGGATGCAGAAGACATGAAAATCAAACTGCATATCTAAATCTAGCCTCAACTGAGATGGAAAAG
GGTCACAATTCACTATTTCCAGATATATTTTCATACTACATGAAAAAGATTGACAATCTGATTGC
CGTGTAGTTCATAACTGATGTGTATTTGAAGAAAAGCTAAGTTGGGCAGTGCGCCTAATGCTTGA
GGTGGAGTAAAGATGACATCAAAAACCAGAGCT
Found at i:180908 original size:112 final size:108
Alignment explanation
Indices: 180774--180994 Score: 388
Period size: 112 Copynumber: 2.0 Consensus size: 108
180764 TAATTTTTTT
*
180774 TTTTTTTATTTTATGCATTTCTCTTCCACCTCCTCCCTCATCTCTCTCCAAATCACGCCATTTAC
1 TTTTTTAATTTTATGCATTTCTCTTCCACCTCCTCCCTCATCTCTCTCCAAATCACGCCATTTA-
*
180839 TATTTTGTCTTCAACATGAACCACCCTAAATCTTGATTATCACGCCG
65 -ATTTTGTCTT-AACATGAACCACCCCAAATC-TGATTATCACGCCG
180886 TTTTTTAATTTTATGCATTTCTCTTCCACCTCCTCCCTCATCTCTCTCCAAATCACGCCATTTAA
1 TTTTTTAATTTTATGCATTTCTCTTCCACCTCCTCCCTCATCTCTCTCCAAATCACGCCATTTAA
180951 TTTTGTCTTAACATGAACCACCCCAAATCTGATTATCACGCCG
66 TTTTGTCTTAACATGAACCACCCCAAATCTGATTATCACGCCG
180994 T
1 T
180995 CGTCTCTTCA
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
108 15 0.14
109 19 0.18
110 10 0.09
112 63 0.59
ACGTcount: A:0.22, C:0.32, G:0.06, T:0.39
Consensus pattern (108 bp):
TTTTTTAATTTTATGCATTTCTCTTCCACCTCCTCCCTCATCTCTCTCCAAATCACGCCATTTAA
TTTTGTCTTAACATGAACCACCCCAAATCTGATTATCACGCCG
Found at i:182548 original size:19 final size:19
Alignment explanation
Indices: 182524--182560 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
182514 ATCACCAACA
*
182524 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
182543 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
182561 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:182609 original size:20 final size:20
Alignment explanation
Indices: 182586--182693 Score: 78
Period size: 20 Copynumber: 5.3 Consensus size: 20
182576 GTTTCTAGAT
*
182586 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
182606 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
*
182626 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
*
182647 TCGCAACGCGATTCTGAC-A
1 TCGCAACGCGATTATGACTA
* * *
182666 GTCGCAACGTGATTCTGACTG
1 -TCGCAACGCGATTATGACTA
182687 TCGCAAC
1 TCGCAAC
182694 ACTGAATTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 50 0.72
21 15 0.22
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:183542 original size:24 final size:24
Alignment explanation
Indices: 183510--183563 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
183500 GTATTCGAAA
183510 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
183534 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
183558 TTTGAT
1 TTTGAT
183564 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:186138 original size:140 final size:140
Alignment explanation
Indices: 185886--186164 Score: 506
Period size: 140 Copynumber: 2.0 Consensus size: 140
185876 GCAAACGTTG
* * *
185886 TATTATGTTTATTTTATGTGTAAACTTTTAATATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
*
185951 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATA-TCGCAAC
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATACT-GCAAC
186015 GCGAATTTGAC
130 GCGAATTTGAC
186026 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
186091 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATACTGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATACTGCAACG
186156 CGAATTTGA
131 CGAATTTGA
186165 TTATCGCAAC
Statistics
Matches: 134, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
140 133 0.99
141 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATACTGCAACG
CGAATTTGAC
Found at i:186224 original size:54 final size:54
Alignment explanation
Indices: 186150--186283 Score: 223
Period size: 54 Copynumber: 2.5 Consensus size: 54
186140 TTTGAATACT
* * *
186150 GCAACGCGAATTTGATTATCGCAACTAAAAAATCGCAATGTGAATTTGACTATC
1 GCAACGCGAATTTGACTATCGCAACGAAAAAATCGCAATGCGAATTTGACTATC
*
186204 GCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAATGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATCGCAACGAAAAAATCGCAATGCGAATTTGACTATC
*
186258 GCAACGCGAATTTGACTGTCGCAACG
1 GCAACGCGAATTTGACTATCGCAACG
186284 TGAATTTGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (54 bp):
GCAACGCGAATTTGACTATCGCAACGAAAAAATCGCAATGCGAATTTGACTATC
Found at i:186316 original size:94 final size:93
Alignment explanation
Indices: 186182--186367 Score: 248
Period size: 94 Copynumber: 2.0 Consensus size: 93
186172 AACTAAAAAA
* * * *
186182 TCGCAATGTGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCA-AAAATCGCAATGCG
1 TCGCAACGTGAATTTGACTATCGCAACGCGAATTTAACTATCACAACG-AGAAAATCGCAAAGCG
*
186246 AATTTGACTATCGCAACGCGAATTTGACTG
65 AATTAGACTATCGCAACGCGAA-TTGACTG
* * * * * *
186276 TCGCAACGTGAATTTGATTATCGCAATGGGTATTTAACTATCACAACGAGAAAATTGCAAAGCGT
1 TCGCAACGTGAATTTGACTATCGCAACGCGAATTTAACTATCACAACGAGAAAATCGCAAAGCGA
186341 ATTAGACTATCGCAACGCGAATTGACT
66 ATTAGACTATCGCAACGCGAATTGACT
186368 TTCGTGTTGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 7 0.09
94 73 0.91
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (93 bp):
TCGCAACGTGAATTTGACTATCGCAACGCGAATTTAACTATCACAACGAGAAAATCGCAAAGCGA
ATTAGACTATCGCAACGCGAATTGACTG
Found at i:186317 original size:20 final size:20
Alignment explanation
Indices: 186181--186301 Score: 137
Period size: 20 Copynumber: 6.3 Consensus size: 20
186171 CAACTAAAAA
* *
186181 ATCGCAATGTGAATTTGACT
1 ATCGCAACGCGAATTTGACT
186201 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
186221 ATCGCAACGC-AA----A-A
1 ATCGCAACGCGAATTTGACT
*
186235 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
186255 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* * *
186275 GTCGCAACGTGAATTTGATT
1 ATCGCAACGCGAATTTGACT
186295 ATCGCAA
1 ATCGCAA
186302 TGGGTATTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
14 9 0.11
15 3 0.04
19 3 0.04
20 70 0.82
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:186323 original size:40 final size:40
Alignment explanation
Indices: 186181--186323 Score: 109
Period size: 40 Copynumber: 3.7 Consensus size: 40
186171 CAACTAAAAA
* * * * *
186181 ATCGCAATGTGAATTTGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTAACTATCACAACGTGAATTTGACT
* * *
186221 ATCGCAACGC-AA---AA--ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTAACTATCACAACGTGAATTTGACT
* * * *
186255 ATCGCAACGCGAATTTGACTGTCGCAACGTGAATTTGATT
1 ATCGCAACGCGAATTTAACTATCACAACGTGAATTTGACT
* * *
186295 ATCGCAATGGGTATTTAACTATCACAACG
1 ATCGCAACGCGAATTTAACTATCACAACG
186324 AGAAAATTGC
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
34 29 0.35
35 2 0.02
36 1 0.01
38 1 0.01
39 2 0.02
40 47 0.57
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (40 bp):
ATCGCAACGCGAATTTAACTATCACAACGTGAATTTGACT
Found at i:186417 original size:20 final size:20
Alignment explanation
Indices: 186373--186419 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
186363 TGACTTTCGT
*
186373 GTTGCGATTTTGGCTTTCGC
1 GTTGCGATTTTGGCTTTAGC
*
186393 ATTGCGATTTTGAG-TTTAGC
1 GTTGCGATTTTG-GCTTTAGC
186413 GTTGCGA
1 GTTGCGA
186420 AAGTGTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.30, T:0.43
Consensus pattern (20 bp):
GTTGCGATTTTGGCTTTAGC
Found at i:186557 original size:29 final size:28
Alignment explanation
Indices: 186523--186577 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
186513 ATAAGAATTA
*
186523 TTTACACATCAATATTAAACAAATCAACT
1 TTTACAAATCAAT-TTAAACAAATCAACT
**
186552 TTTACAAATCAATTTTTACAAATCAA
1 TTTACAAATCAATTTAAACAAATCAA
186578 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTACAAATCAATTTAAACAAATCAACT
Found at i:186578 original size:14 final size:14
Alignment explanation
Indices: 186518--186579 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
186508 CACAAATAAG
*
186518 AATTATTTACACATC
1 AATT-TTTACAAATC
**
186533 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
186548 AACTTTTACAAATC
1 AATTTTTACAAATC
186562 AATTTTTACAAATC
1 AATTTTTACAAATC
186576 AATT
1 AATT
186580 AAACAAGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 12 0.31
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:188025 original size:21 final size:21
Alignment explanation
Indices: 187965--188056 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 21
187955 ATGAATCGGG
* * *
187965 CTCTTGAATGGTGGGAGAGAC
1 CTCTTGAATGGTGAGAGGGGC
* * * * *
187986 CTCTTCAACGATAACAGGGGC
1 CTCTTGAATGGTGAGAGGGGC
* *
188007 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGGTGAGAGGGGC
* *
188028 CTCTT-AAGGGATGATAGGGGC
1 CTCTTGAATGG-TGAGAGGGGC
188049 CTCTTGAA
1 CTCTTGAA
188057 CGATAGGAGA
Statistics
Matches: 50, Mismatches: 19, Indels: 3
0.69 0.26 0.04
Matches are distributed among these distances:
20 4 0.08
21 44 0.88
22 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (21 bp):
CTCTTGAATGGTGAGAGGGGC
Found at i:188032 original size:42 final size:42
Alignment explanation
Indices: 187965--188056 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
187955 ATGAATCGGG
187965 CTCTTGAATGGTGGGAGAGACCTCTTCAA-CGATAACAGGGGC
1 CTCTTGAATGGTGGGAGAGACCTCTT-AAGCGATAACAGGGGC
* * * *
188007 CTCTTGAATGGTGGGAGGGGA-CTCTTAAGGGATGATAGGGGC
1 CTCTTGAATGGTGGGA-GAGACCTCTTAAGCGATAACAGGGGC
188049 CTCTTGAA
1 CTCTTGAA
188057 CGATAGGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.05
42 39 0.89
43 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGAGACCTCTTAAGCGATAACAGGGGC
Found at i:188595 original size:19 final size:20
Alignment explanation
Indices: 188563--188605 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
188553 AATAGTTTCT
188563 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
188583 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
188602 GAAA
1 GAAA
188606 ATGACTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:188669 original size:19 final size:19
Alignment explanation
Indices: 188645--188688 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
188635 ACAACGGGAT
* *
188645 AATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAACAAA
188664 AATCGCAACGCGAAACAAA
1 AATCGCAACGCGAAACAAA
*
188683 ATTCGC
1 AATCGC
188689 GTTGCGATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:188784 original size:20 final size:20
Alignment explanation
Indices: 188755--188823 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
188745 GTGAATATCC
* *
188755 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
*
188775 CGTTGCGATAGTC-ATTTCCA
1 CGTTGCGATAGTCAATTT-CG
*
188795 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
188815 CGTTGCGAT
1 CGTTGCGAT
188824 TTAAGTTTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:190872 original size:20 final size:20
Alignment explanation
Indices: 190738--190863 Score: 122
Period size: 20 Copynumber: 6.7 Consensus size: 20
190728 GAAACTTAAA
*
190738 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
190758 ATCACAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
190778 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
190798 ATCGCAA--CG-AGAT-A--
1 ATCGCAACGCGAAAATGACT
**
190812 ATCGCAACGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
*
190831 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
190851 ATCGCAACGCGAA
1 ATCGCAACGCGAA
190864 TTTGACTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
17 3 0.03
18 2 0.02
19 10 0.11
20 60 0.68
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:191501 original size:19 final size:19
Alignment explanation
Indices: 191477--191513 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
191467 TACGATACTG
*
191477 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
191496 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
191514 TGTTGGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:192955 original size:25 final size:27
Alignment explanation
Indices: 192927--192979 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
192917 AATAATATGA
*
192927 TTATTTA-TCTA-ATTTTAATATATTT
1 TTATTTATTCTATAATTTAATATATTT
*
192952 TTATTTATTTTATAATTTAATATATTT
1 TTATTTATTCTATAATTTAATATATTT
192979 T
1 T
192980 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 3 0.12
27 14 0.58
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TTATTTATTCTATAATTTAATATATTT
Found at i:192963 original size:20 final size:23
Alignment explanation
Indices: 192919--192963 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
192909 CAAAAAAAAA
192919 TAATATGATTATTTATCTAATTT
1 TAATATGATTATTTATCTAATTT
*
192942 TAATAT-ATT-TTTAT-TTATTT
1 TAATATGATTATTTATCTAATTT
192962 TA
1 TA
192964 TAATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 3 0.14
23 6 0.29
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TAATATGATTATTTATCTAATTT
Found at i:194395 original size:21 final size:21
Alignment explanation
Indices: 194369--194413 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
194359 GTGAGACATA
194369 ATAATTAGTAATGAATGAAAG
1 ATAATTAGTAATGAATGAAAG
194390 ATAATTAGTAATGAATGAAAG
1 ATAATTAGTAATGAATGAAAG
194411 ATA
1 ATA
194414 TGTGATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (21 bp):
ATAATTAGTAATGAATGAAAG
Found at i:195104 original size:23 final size:21
Alignment explanation
Indices: 195078--195126 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
195068 TTTATAACGC
* *
195078 GTTTATCTCTGTCTTTGTGGTA
1 GTTTATCGCTATCTTT-TGGTA
*
195100 TGTTTTTCGCTATCTTTTGGTA
1 -GTTTATCGCTATCTTTTGGTA
195122 GTTTA
1 GTTTA
195127 CGATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 5 0.23
23 13 0.59
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.57
Consensus pattern (21 bp):
GTTTATCGCTATCTTTTGGTA
Found at i:196104 original size:2 final size:2
Alignment explanation
Indices: 196099--196128 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
196089 AAAAGTATTA
196099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196129 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197925 original size:27 final size:26
Alignment explanation
Indices: 197895--197962 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 26
197885 AAATATCTTT
197895 ATTTATATATTTTTTAAAAAATTATAA
1 ATTTATAT-TTTTTTAAAAAATTATAA
*
197922 ATTTATATTTTTTAAAAAAAATTATAA
1 ATTTATATTTTTT-TAAAAAATTATAA
197949 ATTTATATTTTTTT
1 ATTTATATTTTTTT
197963 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTATATTTTTTTAAAAAATTATAA
Found at i:198241 original size:22 final size:23
Alignment explanation
Indices: 198206--198250 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
198196 GTTCAGGACT
198206 AATATTTTATATTT-TGATTATA
1 AATATTTTATATTTATGATTATA
*
198228 AATATTTCTA-ATTTATGTTTATA
1 AATATTT-TATATTTATGATTATA
198251 CTTACTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
AATATTTTATATTTATGATTATA
Done.