Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 139 of 310
Found at i:45177498 original size:32 final size:32
Alignment explanation
Indices: 45177462--45177524 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
45177452 AACTACAACT
**
45177462 GATACAGCATCTTTCTTTCTTGGTGACAACAG
1 GATACAGCATCTTTCTTTCTCAGTGACAACAG
*
45177494 GATACATCATCTTTCTTTCTCAGTGACAACA
1 GATACAGCATCTTTCTTTCTCAGTGACAACA
45177525 ACAATCCCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (32 bp):
GATACAGCATCTTTCTTTCTCAGTGACAACAG
Found at i:45179380 original size:28 final size:29
Alignment explanation
Indices: 45179349--45179404 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
45179339 ATTCATATAT
*
45179349 ATATGTCACATATTTTC-AATTCATTTGC
1 ATATATCACATATTTTCTAATTCATTTGC
** *
45179377 ATATATTGCATATTTTCTCATTCATTTG
1 ATATATCACATATTTTCTAATTCATTTG
45179405 TTACATATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (29 bp):
ATATATCACATATTTTCTAATTCATTTGC
Found at i:45179691 original size:42 final size:43
Alignment explanation
Indices: 45179583--45179711 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
45179573 AGCTCGTATA
* * * *
45179583 ATGCCAATGTCCCAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAAACGAAATCAAATATCG
* *
45179626 ATGCC-ACTATCCTAGACAG-GGTCTTAAACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTAAACGAAATCAAATATCG
* *
45179668 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAAACGA-AATCAAATATCG
45179711 A
1 A
45179712 ATCCTATGTC
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 31 0.44
43 37 0.53
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTAAACGAAATCAAATATCG
Found at i:45182638 original size:10 final size:10
Alignment explanation
Indices: 45182623--45182653 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
45182613 CGATTCTTTT
*
45182623 TATTTTATTA
1 TATTTTGTTA
45182633 TATTTTGTTA
1 TATTTTGTTA
45182643 TATTTTGTTA
1 TATTTTGTTA
45182653 T
1 T
45182654 CATATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TATTTTGTTA
Found at i:45182869 original size:49 final size:49
Alignment explanation
Indices: 45182801--45183041 Score: 286
Period size: 49 Copynumber: 4.9 Consensus size: 49
45182791 TCTATTGTGA
* *
45182801 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
45182850 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * **
45182900 GAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 G-GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
45182950 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACC-GAGTAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAATT
** *
45183000 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
45183042 AATAGCTTTG
Statistics
Matches: 162, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
49 79 0.49
50 45 0.28
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:45182937 original size:28 final size:27
Alignment explanation
Indices: 45182905--45182988 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
45182895 AACTTGAATC
45182905 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAG-ACTAAGTGCAGGCTACT
* * *
45182933 ACGTGTATCAGA-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGACTAAGTGCAGGCTACT
45182955 ACGTGTGTAGCACTAAGTGCAGGCTACT
1 ACGTGTGTAG-ACTAAGTGCAGGCTACT
45182983 ACGTGT
1 ACGTGT
45182989 ACCGAGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (27 bp):
ACGTGTGTAGACTAAGTGCAGGCTACT
Found at i:45186124 original size:16 final size:16
Alignment explanation
Indices: 45186105--45186135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45186095 CTTCTTCACT
45186105 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
45186121 TACTTACTTACTTAA
1 TACTCACTTACTTAA
45186136 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:45186141 original size:20 final size:20
Alignment explanation
Indices: 45186102--45186141 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45186092 AAACTTCTTC
* *
45186102 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
45186122 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
45186142 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:45186158 original size:20 final size:20
Alignment explanation
Indices: 45186135--45186174 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
45186125 TACTTACTTA
*
45186135 ATCAAATTTATTAATACATT
1 ATCAAATTTACTAATACATT
45186155 ATCAAATTTACTAATACATT
1 ATCAAATTTACTAATACATT
45186175 TTACTTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (20 bp):
ATCAAATTTACTAATACATT
Found at i:45186535 original size:55 final size:52
Alignment explanation
Indices: 45186405--45186599 Score: 194
Period size: 55 Copynumber: 3.6 Consensus size: 52
45186395 TTACCATTGT
* *
45186405 CATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAACTCACCAATGC
* * * * **
45186458 CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATTAATGC
1 CATGTCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-G-AACTCACCAATGC
* *
45186513 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTTC
1 CATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATG-AA-CTCACCAA-TGC
* *
45186568 CATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTA-CCTT
45186600 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 35 0.29
54 7 0.06
55 74 0.62
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (52 bp):
CATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATGAACTCACCAATGC
Found at i:45193504 original size:56 final size:56
Alignment explanation
Indices: 45193418--45193603 Score: 255
Period size: 56 Copynumber: 3.3 Consensus size: 56
45193408 CATGGCATCA
* * * * * * *
45193418 ATATATGTGTGTGGGTAAGACCACATTTAATACGTTGGCCTCAATATGTAACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGACTCCG
*
45193474 ATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGACTCCG
* * *
45193530 ATATATGTGTGCAAGTAAGACCACGTTTAATATGTTTGCATCGATATGTGACTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGACTCCG
* *
45193586 ATTTATGTGTACGAGTAA
1 ATATATGTGTGCGAGTAA
45193604 AACCCTATCT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 115 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGACTCCG
Found at i:45195697 original size:25 final size:24
Alignment explanation
Indices: 45195663--45195714 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
45195653 GAGATATTTT
* *
45195663 ATGCGTGTAAAGTGATAGAACATTA
1 ATGCGCGTAAAATGATAGAACA-TA
*
45195688 ATGCGCGTAAAATGATAGAGCATA
1 ATGCGCGTAAAATGATAGAACATA
45195712 ATG
1 ATG
45195715 GAAGTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (24 bp):
ATGCGCGTAAAATGATAGAACATA
Found at i:45196663 original size:43 final size:45
Alignment explanation
Indices: 45196538--45196741 Score: 210
Period size: 44 Copynumber: 4.7 Consensus size: 45
45196528 CGAAAATCTC
* * *
45196538 GTACAATGCCAACATCCCAGATGTGGTCTTACATGT-AATCA-AA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA
* ***
45196581 -TATCGATGCC-ACTGTCCCAGACAAAGTCTTACACG-AAATCA-AA
1 GTA-CAATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCATAA
* *
45196624 -TACAATGTCAACGTCCCAGACGTGGTCTTACACATAAATCATAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA
* * *
45196668 GT-CAATGCCAACGTCCTAGACATGGTTTTACACGTAAATCATAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA
*
45196712 GT-CGATGCCAACGTCCCAGACGTGGTCTTA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTA
45196742 TAGGATAACA
Statistics
Matches: 132, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.20
43 39 0.30
44 65 0.49
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA
Found at i:45208241 original size:40 final size:40
Alignment explanation
Indices: 45208182--45208319 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
45208172 CGGATGATAA
*
45208182 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
* * *
45208222 CCGGGCGAAGTCCCAAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
* *
45208262 CCGGGCTAAATCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTA-CTATAT
* *
45208302 CC-GGCTAATTCCCGAAGG
1 CCGGGCTAAGTCCCAAAGG
45208320 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.19
40 70 0.81
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
Found at i:45216050 original size:18 final size:18
Alignment explanation
Indices: 45216027--45216061 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45216017 TGGCCCATTA
45216027 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
*
45216045 CAGTAATAGTAAACAGT
1 CAGTAACAGTAAACAGT
45216062 ATGCAAGTCC
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:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:45216433 original size:27 final size:27
Alignment explanation
Indices: 45216386--45216503 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
45216376 AAACATATAT
*
45216386 CACAT-AGGGCCAAAACTGTCATTTTAC
1 CACATAAGGG-CAAAACAGTCATTTTAC
* * *
45216413 CATATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
45216440 CACATGAGGGCAAAACAATCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
45216467 CACAAAAGGGCAAAACAGTCATTCTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
45216494 CATATAAGGG
1 CACATAAGGG
45216504 GGTCTAGTGT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:45236470 original size:15 final size:15
Alignment explanation
Indices: 45236421--45236500 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
45236411 ATATCTTGGG
*
45236421 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
45236436 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
45236451 ATTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
* *
45236466 TTTCTCTA-TCTTTGA
1 TTTCTTTATTC-TGGA
*
45236481 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
45236495 TTTCTT
1 TTTCTT
45236501 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.79
16 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45238893 original size:28 final size:28
Alignment explanation
Indices: 45238861--45238988 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
45238851 ATAGTAAGTC
*
45238861 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
45238889 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
45238918 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** * *
45238946 TGCCCACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45238975 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45238989 CAATCTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45238954 original size:57 final size:57
Alignment explanation
Indices: 45238860--45238988 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
45238850 TATAGTAAGT
*
45238860 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * * *
45238917 TCGCACACTTAGTGCTATATAATCAAACTTGCCCACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
45238974 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45238989 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:45244879 original size:27 final size:27
Alignment explanation
Indices: 45244845--45244963 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
45244835 TGGATAAGTT
* *
45244845 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
45244872 GTAGAATTACCTAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
45244899 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
45244926 GTAAAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
45244953 GTAAAATTACC
1 GTAGAATTACC
45244964 ATTTTTCCCC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:45245731 original size:33 final size:32
Alignment explanation
Indices: 45245682--45245745 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
45245672 CTCGCTGCAA
* *
45245682 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
45245715 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
45245746 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:45245738 original size:73 final size:67
Alignment explanation
Indices: 45245596--45245739 Score: 171
Period size: 73 Copynumber: 2.1 Consensus size: 67
45245586 GAGGAAGTGT
* * * * *
45245596 TCTGGCAGCTTCGCTGCAATCTGGTGGCCTCACCATAAATATCTGTTCTGGTGACTTTGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCCCACCATAAATATCTGTTCTGGTGACCTAGCCACAA
45245661 TA
66 TA
* *
45245663 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATATCTGTTCTGGTGGCCTAG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGC--C-CCAC-CATA-A-ATATCTGTTCTGGTGACCTAG
45245728 CCACAATA
60 CCACAATA
45245736 TCTG
1 TCTG
45245740 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 27 0.42
69 1 0.02
70 3 0.05
71 3 0.05
72 1 0.02
73 29 0.45
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCCCACCATAAATATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:45245759 original size:27 final size:26
Alignment explanation
Indices: 45245707--45245766 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
45245697 ACATATATAT
*
45245707 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
45245733 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
45245760 ATATCTG
1 ATATCTG
45245767 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:45247120 original size:28 final size:26
Alignment explanation
Indices: 45247074--45247185 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
45247064 AGCATGGCTG
* *
45247074 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGAAAATGTGACAGAGCCA
45247100 CCAGATACAGAAAATCGTGACAGAGCCA
1 CCAGA-ACAGAAAAT-GTGACAGAGCCA
* *
45247128 CCAGAACAAAAATATGTGGCAGAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCA
* * * *
45247155 CCAGATCAGATAACTGTGGCATAGCCA
1 CCAGAACAGA-AAATGTGACAGAGCCA
45247182 CCAG
1 CCAG
45247186 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 49 0.66
28 20 0.27
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.13
Consensus pattern (26 bp):
CCAGAACAGAAAATGTGACAGAGCCA
Found at i:45248641 original size:24 final size:24
Alignment explanation
Indices: 45248614--45248684 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
45248604 CTAGATTTCC
**
45248614 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
45248638 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
45248662 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
45248685 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:45254984 original size:27 final size:27
Alignment explanation
Indices: 45254949--45255060 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
45254939 AGCATGGCTG
* *
45254949 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
45254975 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
45255003 CCAGA-ACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
45255030 CCAGAT-CAGATAACTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
45255057 CCAG
1 CCAG
45255061 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.14
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:45255040 original size:54 final size:54
Alignment explanation
Indices: 45254949--45255060 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
45254939 AGCATGGCTG
* *
45254949 CCAGAACAGATAATGTGACAGAGTCACCAAATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAAATACAGATAACT-GTGGCAGAGCCA
* * *
45255003 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAACTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAAATACAGATAACTGTGGCAGAGCCA
45255057 CCAG
1 CCAG
45255061 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.14
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAAATACAGATAACTGTGGCAGAGCCA
Found at i:45263303 original size:27 final size:27
Alignment explanation
Indices: 45263269--45263441 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
45263259 TGGATAAGTT
*
45263269 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
45263296 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* **
45263323 ATAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
45263350 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
45263377 GTAGAAGTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
45263404 GTAGAATTACCGAAATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
45263431 GTAAAATTACC
1 GTAGAATTACC
45263442 ATTTTGCCCC
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:45264208 original size:27 final size:26
Alignment explanation
Indices: 45264150--45264211 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
45264140 CCTCGCTGCA
* *
45264150 ATCTGGTGGCTTCGCCACATATATAT
1 ATCTGGTGGCCTAGCCACATATATAT
* *
45264176 ATTCTGGTGGCCTAGCCACAATATCTGT
1 A-TCTGGTGGCCTAGCCAC-ATATATAT
45264204 ATCTGGTG
1 ATCTGGTG
45264212 ACTTCGTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 22 0.73
28 7 0.23
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (26 bp):
ATCTGGTGGCCTAGCCACATATATAT
Found at i:45282400 original size:27 final size:27
Alignment explanation
Indices: 45282369--45282546 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45282359 TAAATTGTAC
45282369 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45282396 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45282422 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45282450 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45282478 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45282505 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45282532 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45282547 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45282483 original size:82 final size:81
Alignment explanation
Indices: 45282370--45282525 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45282360 AAATTGTACA
* *
45282370 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45282434 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45282451 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45282516 TGCGAGTTGA
65 TGCGAATTGA
45282526 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45282537 original size:82 final size:81
Alignment explanation
Indices: 45282366--45282546 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45282356 GATTAAATTG
* *
45282366 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45282431 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45282447 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45282511 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45282529 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45282547 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45287941 original size:47 final size:45
Alignment explanation
Indices: 45287868--45287987 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
45287858 TTAATTGTGT
* * *
45287868 GCCAGTGTAAGACATGTCTAGTACAT-GCATTGGCCACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCA-T--CCACATTGACGAGA
* *
45287914 GCTAGTGTAAGACAATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCCACATT--GACGAGA
45287962 GCCAGTGTAAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCTGGGACAT
45287988 ACATCAGCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
45 6 0.10
46 12 0.19
47 25 0.40
48 20 0.32
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCCACATTGACGAGA
Found at i:45289406 original size:20 final size:21
Alignment explanation
Indices: 45289368--45289406 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45289358 TTATAATGAC
45289368 CACACAGGCGTGTTGCCCTTA
1 CACACAGGCGTGTTGCCCTTA
*
45289389 CACACGGGCGTG-TGCCCT
1 CACACAGGCGTGTTGCCCT
45289407 ATTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACAGGCGTGTTGCCCTTA
Found at i:45291484 original size:43 final size:43
Alignment explanation
Indices: 45291389--45291490 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
45291379 ACCGAGATGT
* * *
45291389 GATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGAACATTGGCATCGTAATCA
* *
45291432 GGTTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGAACATTGGCATCG-TAATCA
*
45291476 -ATTTCATGTAAGACC
1 GATTACATGTAAGACC
45291491 CTATCTAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGAACATTGGCATCGTAATCA
Found at i:45292008 original size:75 final size:75
Alignment explanation
Indices: 45291880--45292049 Score: 252
Period size: 75 Copynumber: 2.3 Consensus size: 75
45291870 GACATAGGGG
* * * *
45291880 CACGCCTGTGTCCTCAGGCCGCGTAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACCT
1 CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
45291945 AGCCAGGCTA
66 AGCCAGGCTA
* * *
45291955 CACGCCCGTGTCCTCAGGCTATATAACTCTCTGTTTATGACGTCAGCATACAAATTGAACCACAT
1 CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
*
45292020 GGCCAGGCTA
66 AGCCAGGCTA
45292030 CACGCCCGTGT-CTCTAGGCC
1 CACGCCCGTGTCCTC-AGGCC
45292050 GTATCCCTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 3 0.04
75 82 0.96
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (75 bp):
CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
AGCCAGGCTA
Found at i:45293784 original size:49 final size:49
Alignment explanation
Indices: 45293729--45293827 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
45293719 TGGGGCTACT
*
45293729 CAAAAGCACCCGGACCCTAGCATGTATCACAT-ATCCACATGCCTCTCAA
1 CAAAAGCACCCAGACCCTAGCATGTATCACATAAT-CACATGCCTCTCAA
45293778 CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
1 CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
45293827 C
1 C
45293828 GGGGCTACTC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 46 0.96
50 2 0.04
ACGTcount: A:0.34, C:0.36, G:0.11, T:0.18
Consensus pattern (49 bp):
CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
Found at i:45299281 original size:36 final size:35
Alignment explanation
Indices: 45299241--45299420 Score: 130
Period size: 35 Copynumber: 5.1 Consensus size: 35
45299231 TAAATACTTG
* *
45299241 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCGAATA-TACAA-GTACAATATATCATCACA
* **
45299277 TATGGCCAAATATACAAGTACAATATATCATCGTA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * *
45299312 TATGACCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * * * ** *
45299347 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * *
45299382 TGTGGCCAAATATAAAAGTTA-AATATTTCATCACA
1 TATGGCCGAATATACAAG-TACAATATATCATCACA
45299417 TATG
1 TATG
45299421 TACATACATA
Statistics
Matches: 114, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
35 99 0.87
36 15 0.13
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (35 bp):
TATGGCCGAATATACAAGTACAATATATCATCACA
Found at i:45299306 original size:35 final size:35
Alignment explanation
Indices: 45299265--45299420 Score: 143
Period size: 35 Copynumber: 4.5 Consensus size: 35
45299255 CAAGGTTCAT
45299265 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
** * * *
45299300 TATATCATCGTATATGACCGAATATACAAGTTCAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
* * * * * * **
45299335 TAAAACATCACATGTAGTCAAATATTCAAGTTTAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
* * *
45299370 TATAACATCACATGTGGCCAAATATAAAAGTTA-AA
1 TATATCATCACATATGGCCAAATATACAAG-TACAA
*
45299405 TATTTCATCACATATG
1 TATATCATCACATATG
45299421 TACATACATA
Statistics
Matches: 95, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
35 94 0.99
36 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGTACAA
Found at i:45314759 original size:28 final size:28
Alignment explanation
Indices: 45314716--45314779 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
45314706 TGGGAAGTAG
*
45314716 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
*
45314744 TTGGGCCTGATGGGCCATATGAATGAGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
45314772 TTGGGCCT
1 TTGGGCCT
45314780 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGAGA
Found at i:45315135 original size:27 final size:27
Alignment explanation
Indices: 45315103--45315541 Score: 410
Period size: 27 Copynumber: 16.4 Consensus size: 27
45315093 GAGAACTTAT
45315103 TGAAATACCCTCGATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
45315130 TAAAATACCCTCGATTATG--AAATGAC
1 TGAAATACCCTCGATT-TGTAAAATTAC
*
45315156 TGAAATACCCTCAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * * *
45315183 CGAAATAACCGCGA-TTGTGAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
*
45315209 TGAAATACCCTCTATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
45315236 TAAAATACCTTCGA-TTATAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
45315262 TGAAATACCCTCAATTTTTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
45315289 CGAAATACCC-CTGATTTGTGAAATTAC
1 TGAAATACCCTC-GATTTGTAAAATTAC
* * **
45315316 CGAAACACCCTTAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
45315343 TGAAACACCCTCAATTTGTAAAATTA-
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
45315369 TCGAAACACCCTCAATTTGTAAAATTAC
1 T-GAAATACCCTCGATTTGTAAAATTAC
* *
45315397 CGAAATACCCTCAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
45315424 TAAAATAACCTCGATTTGTAAAATTCC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
45315451 TAAAACACCCCCGATTTGTAAAATTA-
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
45315477 TCGAAATACCCTTG-TAGTGTAGAATTAC
1 T-GAAATACCCTCGAT-TTGTAAAATTAC
* * * *
45315505 TAAAATACCCTTG-TAGTGTAAAATAAC
1 TGAAATACCCTCGAT-TTGTAAAATTAC
*
45315532 TGACATACCC
1 TGAAATACCC
45315542 CTCTAGGGTA
Statistics
Matches: 345, Mismatches: 55, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 67 0.19
27 273 0.79
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TGAAATACCCTCGATTTGTAAAATTAC
Found at i:45316079 original size:27 final size:27
Alignment explanation
Indices: 45316043--45316110 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
45316033 TATTGCGATG
45316043 TGGGCTTTGGCCCAACTAAGGCTAAGA
1 TGGGCTTTGGCCCAACTAAGGCTAAGA
45316070 TGGGCTTTGGCCCAACTAAGGCTAAGA
1 TGGGCTTTGGCCCAACTAAGGCTAAGA
*
45316097 TGGGC-TAGGCCCAA
1 TGGGCTTTGGCCCAA
45316111 TTGATTCTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.20
27 32 0.80
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.21
Consensus pattern (27 bp):
TGGGCTTTGGCCCAACTAAGGCTAAGA
Found at i:45317487 original size:35 final size:35
Alignment explanation
Indices: 45317422--45317601 Score: 164
Period size: 35 Copynumber: 5.1 Consensus size: 35
45317412 TACTTACTTG
* *
45317422 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* * *
45317458 TATGGCCCAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
**** * * *
45317493 TATGATGGAATATACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * *
45317528 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
45317563 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
45317598 TATG
1 TATG
45317602 TACATACCTA
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
35 101 0.88
36 14 0.12
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:45334211 original size:27 final size:26
Alignment explanation
Indices: 45334173--45334290 Score: 166
Period size: 27 Copynumber: 4.5 Consensus size: 26
45334163 AAGACCTCAG
45334173 TTTGTAAAATTACTGAAATACCCCTGA
1 TTTGTAAAATTACTGAAATACCCC-GA
*
45334200 TTTGTAAAATTACTGAAATACCCCCAA
1 TTTGTAAAATTACTGAAATA-CCCCGA
* *
45334227 TTTGTAAAATTACTAAAATACCTC-A
1 TTTGTAAAATTACTGAAATACCCCGA
*
45334252 GTTTGTAAAATTACCGAAATACCCCGA
1 -TTTGTAAAATTACTGAAATACCCCGA
45334279 TTTGTAAAATTA
1 TTTGTAAAATTA
45334291 TCAAAATACC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
25 1 0.01
26 36 0.44
27 41 0.50
28 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (26 bp):
TTTGTAAAATTACTGAAATACCCCGA
Found at i:45334263 original size:26 final size:25
Alignment explanation
Indices: 45334170--45334317 Score: 145
Period size: 26 Copynumber: 5.6 Consensus size: 25
45334160 GTTAAGACCT
45334170 CAGTTTGTAAAATTACTGAAATACCC
1 CAGTTTGTAAAATTACTGAAATA-CC
*
45334196 CTGATTTGTAAAATTACTGAAATACCCC
1 CAG-TTTGTAAAATTACTGAAATA--CC
* *
45334224 CAATTTGTAAAATTACTAAAATACC
1 CAGTTTGTAAAATTACTGAAATACC
*
45334249 TCAGTTTGTAAAATTACCGAAATACC
1 -CAGTTTGTAAAATTACTGAAATACC
* *
45334275 CCGATTTGTAAAATTA-TCAAAATACC
1 CAG-TTTGTAAAATTACT-GAAATACC
* *
45334301 CTGTAATGTAAAATTAC
1 CAGT-TTGTAAAATTAC
45334318 CGTAATGCCC
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
25 5 0.05
26 55 0.53
27 39 0.38
28 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (25 bp):
CAGTTTGTAAAATTACTGAAATACC
Found at i:45334311 original size:52 final size:53
Alignment explanation
Indices: 45334173--45334319 Score: 174
Period size: 52 Copynumber: 2.8 Consensus size: 53
45334163 AAGACCTCAG
* * * * *
45334173 TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCCCAA
1 TTTGTAAAATTACTAAAATACCTCAG-TATGTAAAATTACCGAAATACCCCCAA
* *
45334227 TTTGTAAAATTACTAAAATACCTCAGTTTGTAAAATTACCGAAATA-CCCCGA
1 TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCCAA
*
45334279 TTTGTAAAATTA-TCAAAATACC-CTGTAATGTAAAATTACCG
1 TTTGTAAAATTACT-AAAATACCTCAGT-ATGTAAAATTACCG
45334320 TAATGCCCTT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.05
52 38 0.45
53 19 0.23
54 23 0.27
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCCAA
Found at i:45334346 original size:27 final size:27
Alignment explanation
Indices: 45334299--45334559 Score: 326
Period size: 27 Copynumber: 9.7 Consensus size: 27
45334289 TATCAAAATA
** *
45334299 CCCTGTAATGTAAAATTACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * *
45334326 CCTTGTAGTGTAGAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
45334353 CCCTGTAGGGTAAAATGATCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
45334380 CCCTGTAGGGTAAAATGACTGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* *
45334407 CCCTGTAGGGTAAAATGACCATACTGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
**
45334434 CCCTGTA-GGTAAAATGACTATAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * * * *
45334460 CCTTATAGGGTAAAATGATCATAATGT
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * *
45334487 CCCTGTAAGGTAAAATGACTGTAATGT
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
45334514 CCCTGTAGAGTAAAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
45334541 CCCTGTAGGGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
45334560 GATTATGCCC
Statistics
Matches: 202, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.11
27 180 0.89
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCGTAATGC
Found at i:45334817 original size:26 final size:27
Alignment explanation
Indices: 45334766--45334824 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
45334756 CTGGTGGCTT
*
45334766 TGCTGCATTTACTATTTCTGGCAGCTA
1 TGCTGCATTTACTATTACTGGCAGCTA
*
45334793 TGCTGCA-TTA-TGATTACTGGCAGCTT
1 TGCTGCATTTACT-ATTACTGGCAGCTA
45334819 TGCTGC
1 TGCTGC
45334825 GATATTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 21 0.72
27 7 0.24
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
TGCTGCATTTACTATTACTGGCAGCTA
Found at i:45340587 original size:47 final size:47
Alignment explanation
Indices: 45340518--45340637 Score: 240
Period size: 47 Copynumber: 2.6 Consensus size: 47
45340508 GCAAATGTCT
45340518 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
45340565 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
45340612 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
45340638 ACTCATGGAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
Found at i:45341680 original size:37 final size:37
Alignment explanation
Indices: 45341621--45341729 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
45341611 AGCTCAGACG
* *
45341621 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
45341658 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
45341695 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
45341730 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:45342014 original size:50 final size:50
Alignment explanation
Indices: 45341879--45342025 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
45341869 CATCGCCTAC
* * *
45341879 ATATTTCACACT-AGCCATTCAGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
45341929 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
45341979 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
45342026 TCACCACATT
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
49 6 0.07
50 85 0.92
51 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:45342075 original size:47 final size:47
Alignment explanation
Indices: 45341984--45342175 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
45341974 TATATATATT
* * * *
45341984 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
45342029 CCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
45342076 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
45342123 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
45342170 TCACAT
1 TCACAT
45342176 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 18 0.14
46 1 0.01
47 112 0.85
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:45346718 original size:15 final size:15
Alignment explanation
Indices: 45346680--45346723 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
45346670 CATAGTATCG
* *
45346680 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
45346695 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
45346710 TATCTTGGATTTCT
1 TATCTTGGATTTCT
45346724 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:45349239 original size:47 final size:47
Alignment explanation
Indices: 45349120--45349292 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
45349110 AGGATATTTG
* * *
45349120 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
*
45349168 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
45349213 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
*
45349260 GGCATCCGAACTCGTTGAGTTGAGTACGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45349293 ATTCATGGAT
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
43 6 0.05
45 4 0.03
46 29 0.25
47 75 0.65
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:45354155 original size:48 final size:48
Alignment explanation
Indices: 45354043--45354266 Score: 317
Period size: 48 Copynumber: 4.7 Consensus size: 48
45354033 GTGCTAAATA
* *
45354043 TGCCTATGTAAGACCATGTTTGGGACATGGCATCGGTGATGA-ATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
45354090 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* * * *
45354138 TGTCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* *
45354186 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
** * *
45354234 -GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
45354267 TGGTACTTTA
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 41 0.26
48 119 0.74
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
Found at i:45361885 original size:48 final size:48
Alignment explanation
Indices: 45361829--45362107 Score: 364
Period size: 48 Copynumber: 5.8 Consensus size: 48
45361819 ATGCCTGTGT
*
45361829 TATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * *
45361877 TATATGTGCCTATGTAAGACCATGTCTGGGACATGGCATTAGCAATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * *
45361925 TATATGTGCCTATGTGAGACCATGTCTGTGACATGGCATC-GATGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
* * *
45361973 TATATGTGTCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * * *
45362021 TATGTGTGCCAGTGTAAGACCGTTTCTGGGACATGGCTTCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* *
45362069 TATGTGTGCCAGTGTAAGACCATGT-TAGGGACATGGCAT
1 TATATGTGCCTGTGTAAGACCATGTCT-GGGACATGGCAT
45362108 TGGTACTTTA
Statistics
Matches: 202, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.01
48 199 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:45369737 original size:42 final size:43
Alignment explanation
Indices: 45369637--45369775 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 43
45369627 CATCCATTAC
* * * * * *
45369637 GAACTTGGACCACTCAACGAGCTCAGATGCTCGCATCTATAAT
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
* * * *
45369680 GAACTCAGATCACTCAACGAGTTTGGATGC-CACATAAATCAT
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
* * * *
45369722 GAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
45369765 GAACTCGGACC
1 GAACTCGGACC
45369776 GCTAAATGAG
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 32 0.42
43 44 0.58
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
Found at i:45371351 original size:43 final size:44
Alignment explanation
Indices: 45371209--45371352 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 44
45371199 TGTGTTCTCG
* * * *
45371209 TGTAAGACCACGTCTGGGAC-GTGGGCATTGATATGTGATTACT
1 TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
* * * * **
45371252 TGTAAGACCATGTC-TGAAACA-TCAGCATCG-TATTTGATT-TG
1 TGTAAGACCACGTCTTG-GACAGTCGGCATCGATATGTGATTACA
*
45371293 TGCAAGACC-CTGTCTTGGACAGT-GGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTTGGACAGTCGGCATCGATATGTGATTACA
45371336 TGTAAGACCACGTCTTG
1 TGTAAGACCACGTCTTG
45371353 TATGTTGACA
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
41 20 0.26
42 20 0.26
43 35 0.46
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
Found at i:45371557 original size:19 final size:18
Alignment explanation
Indices: 45371533--45371576 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
45371523 GATACTAATT
45371533 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
45371552 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
45371570 AGTATAT
1 A-TATAT
45371577 AGGTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:45373775 original size:30 final size:30
Alignment explanation
Indices: 45373741--45373801 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
45373731 TTCCTGAGCC
45373741 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
45373771 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
45373801 T
1 T
45373802 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:45389562 original size:24 final size:24
Alignment explanation
Indices: 45389530--45389575 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
45389520 CACTTTGGAA
45389530 AGTGCCGAATGAAGAGCGGTGCAG
1 AGTGCCGAATGAAGAGCGGTGCAG
45389554 AGTGCCGAATGAAGAGCGGTGC
1 AGTGCCGAATGAAGAGCGGTGC
45389576 GTGTTTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.41, T:0.13
Consensus pattern (24 bp):
AGTGCCGAATGAAGAGCGGTGCAG
Found at i:45392398 original size:13 final size:13
Alignment explanation
Indices: 45392376--45392408 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45392366 AAGGGTTTGT
45392376 TTAT-TAAACTAA
1 TTATCTAAACTAA
45392388 TTATCTAAACTAA
1 TTATCTAAACTAA
*
45392401 TTAACTAA
1 TTATCTAA
45392409 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:45422178 original size:47 final size:47
Alignment explanation
Indices: 45422127--45423084 Score: 1799
Period size: 47 Copynumber: 20.4 Consensus size: 47
45422117 GATGTACAAG
* *
45422127 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
* * *
45422174 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422221 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422268 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422315 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422362 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422409 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422456 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422503 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422550 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422597 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422644 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422691 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422738 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422785 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422832 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422879 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
45422926 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
* * *
45422973 GTGTGTATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
* * * *
45423020 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
*
45423067 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
45423085 TCTCGAAGGG
Statistics
Matches: 899, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 899 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
Found at i:45424298 original size:17 final size:18
Alignment explanation
Indices: 45424276--45424309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45424266 CAGATTGAAG
45424276 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
45424293 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
45424310 CTTCCTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:45427193 original size:93 final size:93
Alignment explanation
Indices: 45427034--45427205 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45427024 CGCCCATAAG
* * * *
45427034 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
45427099 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
45427127 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
45427192 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45427206 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45427202 original size:46 final size:46
Alignment explanation
Indices: 45427027--45427202 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
45427017 TGTAACCCGC
* * *
45427027 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
45427073 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
45427123 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45427166 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45427203 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45427221 original size:46 final size:45
Alignment explanation
Indices: 45427035--45427221 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
45427025 GCCCATAAGC
* ** * *
45427035 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TA-GT
*
45427081 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
45427128 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
*
45427174 GAACTCGGAATCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
45427220 GA
1 GA
45427222 CATGTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 60 0.53
47 31 0.27
48 1 0.01
49 6 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:45429349 original size:8 final size:8
Alignment explanation
Indices: 45429336--45429363 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
45429326 ATTTCAACAA
45429336 TAATGGGT
1 TAATGGGT
45429344 TAATGGGT
1 TAATGGGT
45429352 TAATGGGT
1 TAATGGGT
45429360 TAAT
1 TAAT
45429364 ACGAGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (8 bp):
TAATGGGT
Found at i:45430328 original size:6 final size:6
Alignment explanation
Indices: 45430309--45430349 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
45430299 CTTTATAACA
* * *
45430309 AAAAAT AAACAT AAAAAT AAAAAT AGAAAT AGAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
45430350 AACAGGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:45437772 original size:40 final size:40
Alignment explanation
Indices: 45437533--45437758 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
45437523 TTGAATGATG
* * * * * *
45437533 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
45437573 TCCGGACTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
45437613 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
45437653 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45437693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
45437734 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGGCCCGAAGGCATTTG
45437759 AACGAGTAGC
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 164 0.95
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45445779 original size:40 final size:40
Alignment explanation
Indices: 45445540--45445765 Score: 307
Period size: 40 Copynumber: 5.7 Consensus size: 40
45445530 TTGAATGATG
* * * *
45445540 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
45445580 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45445620 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45445660 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45445700 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45445741 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45445766 AACGAGTAGC
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 162 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45457383 original size:40 final size:40
Alignment explanation
Indices: 45457321--45457458 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
45457311 AAGCTAAGTA
* *
45457321 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
*
45457360 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
* *
45457400 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGT-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGC-TCAAATG
45457440 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45457459 TTATCATCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.16
40 75 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:45459389 original size:43 final size:42
Alignment explanation
Indices: 45459342--45459423 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
45459332 TCTATTCTCA
* *
45459342 TGTAAGACCACATCTGGGACATTGTCATCGATATATGATTACG
1 TGTAAGACCACATCTGGGACATCGACATCG-TATATGATTACG
** *
45459385 TGTAAGACCATGTCTGGGACATCGACATCGTATTTGATT
1 TGTAAGACCACATCTGGGACATCGACATCGTATATGATT
45459424 TGTGAAAGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATCGACATCGTATATGATTACG
Found at i:45460874 original size:13 final size:13
Alignment explanation
Indices: 45460856--45460881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45460846 AAGTAATCAA
45460856 ACACGGGCGTGTC
1 ACACGGGCGTGTC
45460869 ACACGGGCGTGTC
1 ACACGGGCGTGTC
45460882 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:45462004 original size:21 final size:19
Alignment explanation
Indices: 45461980--45462036 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 19
45461970 TACTTTAGCC
45461980 ATTTATTTTTCTTGTAATTTA
1 ATTTATTTTTCTT-TAA-TTA
* *
45462001 ATTTAATTTTACTATTTATTA
1 ATTT-ATTTTTCT-TTAATTA
45462022 ATTTACTTTTTCTTT
1 ATTTA-TTTTTCTTT
45462037 CTATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 9 0.30
23 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTTCTTTAATTA
Found at i:45465057 original size:55 final size:55
Alignment explanation
Indices: 45464953--45465059 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 55
45464943 CGAGCCTGCC
* **
45464953 AAAACAACATGGGCGTACGACACACCCGTGTGGAGGAACCATGGACGAACCTATT
1 AAAACAACACGGGCGTACGACACACCCGTGTGGAACAACCATGGACGAACCTATT
* * * * *
45465008 AAAACAACACGGGCGTGCGACACGCCCGTG-GCGAACACCCGTGGTCGAACCT
1 AAAACAACACGGGCGTACGACACACCCGTGTG-GAACAACCATGGACGAACCT
45465060 GTCAAATGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 42 0.98
ACGTcount: A:0.31, C:0.30, G:0.27, T:0.12
Consensus pattern (55 bp):
AAAACAACACGGGCGTACGACACACCCGTGTGGAACAACCATGGACGAACCTATT
Found at i:45467085 original size:9 final size:9
Alignment explanation
Indices: 45467073--45467106 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
45467063 TTTAGAAAGT
45467073 TTATTTTTA
1 TTATTTTTA
45467082 TTATTTTTA
1 TTATTTTTA
45467091 TTA-TTTTA
1 TTATTTTTA
45467099 TTAATTTT
1 TT-ATTTT
45467107 GGTTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 13 0.57
10 3 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:45472771 original size:29 final size:27
Alignment explanation
Indices: 45472753--45472822 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
45472743 ATATTAAGTC
45472753 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
45472780 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
45472808 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45472823 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45472816 original size:28 final size:28
Alignment explanation
Indices: 45472753--45472850 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
45472743 ATATTAAGTC
*
45472753 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45472780 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45472808 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45472837 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45472851 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45474568 original size:43 final size:43
Alignment explanation
Indices: 45474507--45474659 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
45474497 GGGCTGTCAC
* * *
45474507 AAGACCATTTCTGTGACATTGGCATTGTATTGTGATTACGTGT
1 AAGACCATGTCTGGGACATTGGCATCGTATTGTGATTACGTGT
* *
45474550 AAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATTACGTGT
1 AAGACCATGTCTGGGACATTGGCATCG-TATTGTGATTACGTGT
* * * * * *
45474593 AAGACCCTGTCTAGGACAGTGGCATCG-ATATGTGATAACATAT
1 AAGACCATGTCTGGGACATTGGCATCGTAT-TGTGATTACGTGT
* *
45474636 AAGACCATATCTGGGATA-TGGCAT
1 AAGACCATGTCTGGGACATTGGCAT
45474660 TATACGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.08
43 79 0.88
44 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATTGGCATCGTATTGTGATTACGTGT
Found at i:45478546 original size:24 final size:23
Alignment explanation
Indices: 45478510--45478556 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
45478500 GAGTTCAAGC
*
45478510 GAGCCATCTCAGGAAGCTCATAA
1 GAGCCATATCAGGAAGCTCATAA
*
45478533 GAGCCTATATCAGGACGCTCATAA
1 GAGCC-ATATCAGGAAGCTCATAA
45478557 AGAGTTGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (23 bp):
GAGCCATATCAGGAAGCTCATAA
Found at i:45493487 original size:40 final size:40
Alignment explanation
Indices: 45493432--45493649 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
45493422 TGGATGATAA
** * *
45493432 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
45493472 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45493512 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45493552 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45493592 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45493632 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45493650 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45501555 original size:28 final size:28
Alignment explanation
Indices: 45501515--45501569 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
45501505 AGGCATTTAC
*
45501515 GCTAGTGACTAGTTTCGGGCTAAGTCCT
1 GCTAGTGACTAGTTCCGGGCTAAGTCCT
45501543 GCTAGTGACTAGTTCCGGGCTAAGTCC
1 GCTAGTGACTAGTTCCGGGCTAAGTCC
45501570 CGAAGGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (28 bp):
GCTAGTGACTAGTTCCGGGCTAAGTCCT
Found at i:45501611 original size:40 final size:40
Alignment explanation
Indices: 45501556--45502374 Score: 1588
Period size: 40 Copynumber: 20.5 Consensus size: 40
45501546 AGTGACTAGT
45501556 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501596 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501636 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501676 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501716 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501756 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501796 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501836 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501876 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501916 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501956 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45501996 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502036 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502076 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502116 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502156 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502196 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502236 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
45502276 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
45502316 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
45502356 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
45502375 TACTTGGCTT
Statistics
Matches: 775, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
39 16 0.02
40 759 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:45508207 original size:12 final size:13
Alignment explanation
Indices: 45508179--45508211 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45508169 TTATTTCTTT
45508179 TTCTCCATCTACC
1 TTCTCCATCTACC
*
45508192 TTCTCC-TCTTCC
1 TTCTCCATCTACC
45508204 TTCTCCAT
1 TTCTCCAT
45508212 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:45509117 original size:28 final size:28
Alignment explanation
Indices: 45509085--45509149 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
45509075 ATTTACTAGA
*
45509085 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
45509113 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
45509141 ATACCCCTA
1 ATACCCCTA
45509150 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:45509296 original size:28 final size:28
Alignment explanation
Indices: 45509256--45509344 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
45509246 GGAAGCGTCT
* *
45509256 TGGTGGCTATGCCACAAATTACCTGTTC
1 TGGTGGCAATGCCACAAATTATCTGTTC
** *
45509284 TGGTGGCCCTGCCACAAATTATCTATTC
1 TGGTGGCAATGCCACAAATTATCTGTTC
* *
45509312 TGGTGGCATTGCCACAAAATATCTGTATC
1 TGGTGGCAATGCCACAAATTATCTGT-TC
45509341 TGGT
1 TGGT
45509345 AACTCTGTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 46 0.88
29 6 0.12
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (28 bp):
TGGTGGCAATGCCACAAATTATCTGTTC
Found at i:45515804 original size:12 final size:13
Alignment explanation
Indices: 45515776--45515808 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45515766 TTATTTCTTT
45515776 TTCTCCATCTACC
1 TTCTCCATCTACC
*
45515789 TTCTCC-TCTTCC
1 TTCTCCATCTACC
45515801 TTCTCCAT
1 TTCTCCAT
45515809 AGTCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:45516672 original size:28 final size:28
Alignment explanation
Indices: 45516640--45516704 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
45516630 ATTTACTAGA
*
45516640 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
45516668 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
45516696 ATACCCCTA
1 ATACCCCTA
45516705 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:45516772 original size:40 final size:40
Alignment explanation
Indices: 45516717--45516795 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
45516707 GTTAATTTTA
*
45516717 TCTGAAAAGTATGATGAATTAAATCTGTATGATGTATGCG
1 TCTGAAAAGCATGATGAATTAAATCTGTATGATGTATGCG
45516757 TCTGAAAAGCATGATGAATTAAATCTGTATGATGTATGC
1 TCTGAAAAGCATGATGAATTAAATCTGTATGATGTATGC
45516796 CATGAATGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (40 bp):
TCTGAAAAGCATGATGAATTAAATCTGTATGATGTATGCG
Found at i:45516891 original size:28 final size:28
Alignment explanation
Indices: 45516850--45516937 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 28
45516840 AGGAAGCGTC
45516850 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
45516878 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
45516906 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
45516935 CTG
1 CTG
45516938 ATAACTCTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 51 0.93
29 4 0.07
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:45556573 original size:47 final size:47
Alignment explanation
Indices: 45556501--45556633 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 47
45556491 NNNNNNNNNN
* * *
45556501 GCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATG
1 GCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGACCGAATG
* *
45556548 GCCAATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGACCGAATG
*
45556595 GCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAG
45556634 TCCCGAAGGA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGACCGAATG
Found at i:45557854 original size:17 final size:18
Alignment explanation
Indices: 45557832--45557865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45557822 CAGATTGAAG
45557832 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
45557849 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
45557866 CTTAGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:45559050 original size:29 final size:29
Alignment explanation
Indices: 45558984--45559077 Score: 129
Period size: 28 Copynumber: 3.3 Consensus size: 29
45558974 AAGTCTACAT
* * *
45558984 ACATGCATATAGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
45559012 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
45559041 ACATTCATATGGCCTATTAGG-CCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
45559069 ACATTCATA
1 ACATTCATA
45559078 GTCATGCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 36 0.61
29 23 0.39
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:45562142 original size:43 final size:43
Alignment explanation
Indices: 45562092--45562257 Score: 228
Period size: 43 Copynumber: 3.9 Consensus size: 43
45562082 GTTACTGAGA
*
45562092 TGTGATTACATGTAAGACCATGTCTTGGACATTAGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
* **
45562135 TGTGATTA-GTGTAAGACCATGT-TTGGGACACGGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTT-GGACATTGGCATTGTAT
** *
45562177 TGTGATTACATAAAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
* *
45562220 TATGATTACATGTAAGACCATGTGTTGGACATTGGCAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCAT
45562258 CGTTATTCGA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 35 0.33
43 67 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
Found at i:45562328 original size:131 final size:127
Alignment explanation
Indices: 45562094--45562345 Score: 292
Period size: 131 Copynumber: 2.0 Consensus size: 127
45562084 TACTGAGATG
* *
45562094 TGATTACATGTAAGACCATGTCTTGGACATTAGCATTGTATTGTGATTAGTGTAAGACCATGTTT
1 TGATTACATGTAAGACCATGTCTTGGACATTAGCATCGTATTGTGATTAGTGTAAGACCATGTCT
* * * *
45562159 GGGACACGGGCATTGTATTGTGATTACATAAAAGACCATGTCTAGGACATTGGCATTGTATTA
66 GGGACACGGGCATCGTATTATGATAACATAAAAGACCATATCTAGGACA-TGGCATTGTATTA
* * ** * *
45562222 TGATTACATGTAAGACCATGTGTTGGACATTGGCATCGTTATTCGATTTTTTGTGTAAGACCCTG
1 TGATTACATGTAAGACCATGTCTTGGACATTAGCATCG-TATT-G-TGATTAGTGTAAGACCATG
** * *
45562287 TCTGGGACA-GTGGCATCG-ATATATGATAACATGTAAGACCATATCTGGGATATGGCATT
63 TCTGGGACACG-GGCATCGTAT-TATGATAACATAAAAGACCATATCTAGGACATGGCATT
45562346 ATATGAGCTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 35 0.34
129 4 0.04
130 11 0.11
131 53 0.51
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (127 bp):
TGATTACATGTAAGACCATGTCTTGGACATTAGCATCGTATTGTGATTAGTGTAAGACCATGTCT
GGGACACGGGCATCGTATTATGATAACATAAAAGACCATATCTAGGACATGGCATTGTATTA
Found at i:45565222 original size:23 final size:19
Alignment explanation
Indices: 45565180--45565217 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45565170 AAATTCGAGA
45565180 TAGAAATAATTATTTTATG
1 TAGAAATAATTATTTTATG
45565199 TAGAAATAATTATTTTATG
1 TAGAAATAATTATTTTATG
45565218 GATGTTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TAGAAATAATTATTTTATG
Found at i:45566434 original size:48 final size:48
Alignment explanation
Indices: 45566361--45566532 Score: 236
Period size: 48 Copynumber: 3.6 Consensus size: 48
45566351 ATGAGACTCT
* ** * * * *
45566361 GTGTAAGACCATTTCTAAGAAATGGCATCGGCGAGGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
45566409 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
45566457 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGACATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
*
45566505 ATGTAAGACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
45566533 TGGTACTTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
Found at i:45577257 original size:43 final size:43
Alignment explanation
Indices: 45577209--45577375 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
45577199 CCGAGATGTG
*
45577209 ATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGTC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
* * *
45577252 ATTACATGTAAGACCGTTTCTGGTACATTGGCATTGCTA-T-TC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTC
*** * * *
45577294 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTG-ATCTGTG
1 -ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTC
* * * *
45577338 ATAACATGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
45577376 GAGCTTTATG
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 84 0.86
44 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
Found at i:45582399 original size:20 final size:20
Alignment explanation
Indices: 45582371--45582408 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45582361 CAATGTTAAA
45582371 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
45582391 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
45582409 GAGTTGCAAG
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:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:45582414 original size:20 final size:19
Alignment explanation
Indices: 45582370--45582414 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
45582360 GCAATGTTAA
45582370 AGTTGGGAAAGACTATGGT
1 AGTTGGGAAAGACTATGGT
* *
45582389 ATGTTGTGAAAGATTATGGT
1 A-GTTGGGAAAGACTATGGT
45582409 GAGTTG
1 -AGTTG
45582415 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (19 bp):
AGTTGGGAAAGACTATGGT
Found at i:45588520 original size:53 final size:53
Alignment explanation
Indices: 45588340--45588546 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
45588330 ATTAGGGTTT
* * * * * *
45588340 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
45588394 AAGAAAATCATATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
45588449 AAAGAT-CCAATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
45588502 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
45588547 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 31, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
53 43 0.36
54 39 0.33
55 36 0.31
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:45594149 original size:55 final size:54
Alignment explanation
Indices: 45594014--45594151 Score: 132
Period size: 55 Copynumber: 2.5 Consensus size: 54
45594004 GTTTAAGGAT
* * * ** * *
45594014 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAATGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
* * * * * * *
45594068 ATCATATAAGTCCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAA
*
45594123 CCCATGTAAGACCATGCCAAGGCATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
45594152 ATGGTGAGTT
Statistics
Matches: 63, Mismatches: 20, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
54 27 0.43
55 36 0.57
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
Found at i:45594185 original size:53 final size:53
Alignment explanation
Indices: 45594008--45594214 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
45593998 ATTAGGGTTT
* * * * * *
45594008 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
45594062 AAGGAAATCATATAAGTCCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
45594117 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
45594170 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
45594215 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 45 0.38
54 36 0.31
55 37 0.31
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:45601174 original size:25 final size:26
Alignment explanation
Indices: 45601125--45601174 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
45601115 TTATTTTTTT
*
45601125 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
45601151 TTATTAAAATTTA-ATAACAATAAT
1 TTATTAAAATATATATAACAATAAT
45601175 TATCTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:45601317 original size:44 final size:45
Alignment explanation
Indices: 45601248--45601340 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 45
45601238 TACAACATCT
* * *
45601248 ATTCCATTAAACCAAACACGAGAATT-TTATTATAGCTCTATTCC
1 ATTCCATTAAACCAAACAAGAGAATTATGATTACAGCTCTATTCC
* **
45601292 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTAAACCAAACAAGAGAATTA-TGATTACAGCTCTATTCC
45601338 ATT
1 ATT
45601341 ACAACTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.54
46 19 0.46
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (45 bp):
ATTCCATTAAACCAAACAAGAGAATTATGATTACAGCTCTATTCC
Found at i:45601343 original size:16 final size:16
Alignment explanation
Indices: 45601322--45601392 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
45601312 TGAATTACTG
45601322 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
45601338 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
45601354 GTTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
45601370 ATTACAG-TCCTATTCT
1 ATTACAGCT-CTATTCC
45601386 ATTACAG
1 ATTACAG
45601393 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 1 0.02
16 47 0.98
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:45602418 original size:17 final size:17
Alignment explanation
Indices: 45602396--45602428 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45602386 ACGATTAGTA
45602396 GCATAGGGAGCTTCGTT
1 GCATAGGGAGCTTCGTT
45602413 GCATAGGGAGCTTCGT
1 GCATAGGGAGCTTCGT
45602429 CGCAATGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (17 bp):
GCATAGGGAGCTTCGTT
Found at i:45610727 original size:30 final size:31
Alignment explanation
Indices: 45610685--45610756 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 31
45610675 AAAAGAAAAC
*
45610685 AGTTTAGTGACTTAAATAAAAACTTTTGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
45610716 AGTTTA-TGACTTAAATGAAAACTTTCGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
45610746 AATTTAGTGAC
1 AGTTTAGTGAC
45610757 AATTTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (31 bp):
AGTTTAGTGACTTAAATAAAAACTTTCGAAT
Found at i:45613451 original size:32 final size:33
Alignment explanation
Indices: 45613405--45613468 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
45613395 AACAGCGGGT
45613405 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
45613437 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
45613469 TGGCCCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:45621535 original size:43 final size:43
Alignment explanation
Indices: 45621487--45621586 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
45621477 TTCAATGATC
* *
45621487 TCGCACACTTAGTGCCAATTAATTAG-TCGAAGTTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCT-GAAGCTATAATTGTA
45621530 TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
*
45621573 TCACACACTTAGTG
1 TCGCACACTTAGTG
45621587 TCATTTACTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
Found at i:45628033 original size:29 final size:29
Alignment explanation
Indices: 45627983--45628051 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
45627973 TAGGAATAGA
*
45627983 AAATTCCATTAGGATATCTTAAATTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
* * * *
45628012 AAATTTCATTAGGTTCTTTTAAGTTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
*
45628041 -AATTTAATTAG
1 AAATTTCATTAG
45628052 TTTATTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAAATTAATT
Found at i:45631167 original size:42 final size:42
Alignment explanation
Indices: 45631056--45631177 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
45631046 TACTGTACCA
* *
45631056 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
45631098 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
45631141 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
45631178 ATAATCTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:45633224 original size:42 final size:42
Alignment explanation
Indices: 45633113--45633234 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
45633103 TACTGTACCA
* *
45633113 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
45633155 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
45633198 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
45633235 ATAATCTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:45635060 original size:83 final size:83
Alignment explanation
Indices: 45634948--45635118 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 83
45634938 ATGCCAAGCC
* * *
45634948 GTGTGAAAAATCCTGAGCATTCTGTTTTGAAATTTTAAGATGCAAGAGACACATGGCCAAGACAG
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
45635013 ACGCCCATGTGCTAGGCT
66 ACGCCCATGTGCTAGGCT
* * *
45635031 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGGGACACAAGGCCAAGATAC
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
45635096 ACGCCCATGTGCTAGGCT
66 ACGCCCATGTGCTAGGCT
45635114 GTGTG
1 GTGTG
45635119 TCACAGACGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (83 bp):
GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
ACGCCCATGTGCTAGGCT
Found at i:45636096 original size:25 final size:25
Alignment explanation
Indices: 45636066--45636162 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
45636056 CCCTCTCTCA
45636066 AGCCATATAACAGGAAGCTCATATG
1 AGCCATATAACAGGAAGCTCATATG
* * *
45636091 AGCCATGTAACGGGAAGCTTAT-TCG
1 AGCCATATAACAGGAAGCTCATAT-G
* ** * *
45636116 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATATG
* * *
45636141 AGCCACA-ATCAGGAAGTTCATA
1 AGCCATATAACAGGAAGCTCATA
45636163 CAAGCCAATA
Statistics
Matches: 54, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
24 13 0.24
25 41 0.76
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATATG
Found at i:45636738 original size:5 final size:5
Alignment explanation
Indices: 45636709--45636747 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
45636699 TAAATTTAGC
* *
45636709 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
45636748 CATCTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:45642366 original size:29 final size:29
Alignment explanation
Indices: 45642310--45642365 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
45642300 GGCCCCAAAT
*
45642310 TTTTATTTTATTACTAGTATATATTTTTA
1 TTTTATTGTATTACTAGTATATATTTTTA
* *
45642339 TTTTATTGTATTAC-ATTTTATATTTTT
1 TTTTATTGTATTACTAGTATATATTTTT
45642366 TTTAAAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTATTGTATTACTAGTATATATTTTTA
Found at i:45645345 original size:16 final size:16
Alignment explanation
Indices: 45645313--45645346 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45645303 GTTGATCGTT
*
45645313 AATTAAATTGTACGTC
1 AATTAAATTGCACGTC
*
45645329 AATTAAATTGCAGGTC
1 AATTAAATTGCACGTC
45645345 AA
1 AA
45645347 CATAGGAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (16 bp):
AATTAAATTGCACGTC
Found at i:45648717 original size:24 final size:24
Alignment explanation
Indices: 45648689--45648736 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
45648679 AGATAAAGGA
45648689 AAGCTAAAGAGAGAGGCTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
* *
45648713 AAGCTAAAGAGGGAGGTTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
45648737 CTTGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (24 bp):
AAGCTAAAGAGAGAGGCTTTAAAG
Done.