Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 336 of 345
Found at i:100317310 original size:18 final size:17
Alignment explanation
Indices: 100317279--100317314 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
100317269 TGCAACTTTA
100317279 GGGAGATAAAATTCACC
1 GGGAGATAAAATTCACC
*
100317296 GGGATGATAAGATTCACC
1 GGGA-GATAAAATTCACC
100317314 G
1 G
100317315 TGATAACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (17 bp):
GGGAGATAAAATTCACC
Found at i:100317426 original size:43 final size:44
Alignment explanation
Indices: 100317361--100317456 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
100317351 GATAAGATTT
* *
100317361 GATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGAA
1 GATAAGATTTGTAGCTTCAATCTACTCCACCACAACTTCAGGAA
* * ** * *
100317405 GAT-AGATTTGTGGCTTTAATCTGTTCCACCGCAACTTCAGGGA
1 GATAAGATTTGTAGCTTCAATCTACTCCACCACAACTTCAGGAA
100317448 GATAAGATT
1 GATAAGATT
100317457 CACCGCGATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 35 0.81
44 8 0.19
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
GATAAGATTTGTAGCTTCAATCTACTCCACCACAACTTCAGGAA
Found at i:100317483 original size:50 final size:50
Alignment explanation
Indices: 100317419--100317556 Score: 204
Period size: 50 Copynumber: 2.8 Consensus size: 50
100317409 GATTTGTGGC
* *
100317419 TTTAATCTGTTCCACCGCAACTTCAGGGAGATAAGATTCACCGCGATAAT
1 TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTCACCGCAATAAT
* **
100317469 TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTCATCGCAATGGT
1 TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTCACCGCAATAAT
* * *
100317519 TTAAATTTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATT
100317557 AGTGGCTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (50 bp):
TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTCACCGCAATAAT
Found at i:100355236 original size:26 final size:26
Alignment explanation
Indices: 100355200--100355251 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
100355190 TGCAAGGGAG
*
100355200 ATGGAATCACTTTACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
100355226 ATGGAATCACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
100355252 CTGCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:100356884 original size:5 final size:5
Alignment explanation
Indices: 100356874--100356899 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
100356864 TTTTGTGTTC
100356874 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
100356900 ATTTCACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:100357133 original size:49 final size:49
Alignment explanation
Indices: 100357028--100357147 Score: 134
Period size: 49 Copynumber: 2.4 Consensus size: 49
100357018 ATCCGGATGA
* * * * *
100357028 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCATGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCATGCGG
* **
100357077 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGA-GCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATC-CCATGCGG
* *
100357126 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
100357148 CATTATTCGT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 59 0.98
50 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCATGCGG
Found at i:100358015 original size:20 final size:20
Alignment explanation
Indices: 100357972--100358011 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
100357962 GGTTAACATT
*
100357972 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
100357992 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
100358011 A
1 A
100358012 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:100364116 original size:11 final size:11
Alignment explanation
Indices: 100364100--100364142 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
100364090 TAGAATATAT
100364100 CCCATACCTTG
1 CCCATACCTTG
*
100364111 CCCATACCTTT
1 CCCATACCTTG
*
100364122 CCCATACC-TA
1 CCCATACCTTG
100364132 CCCATACCTTG
1 CCCATACCTTG
100364143 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:100364127 original size:22 final size:21
Alignment explanation
Indices: 100364099--100364141 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
100364089 TTAGAATATA
*
100364099 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
100364121 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
100364142 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:100368767 original size:11 final size:11
Alignment explanation
Indices: 100368751--100368793 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
100368741 TAGAATATAT
100368751 CCCATACCTTG
1 CCCATACCTTG
*
100368762 CCCATACCTTT
1 CCCATACCTTG
*
100368773 CCCATACC-TA
1 CCCATACCTTG
100368783 CCCATACCTTG
1 CCCATACCTTG
100368794 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:100368778 original size:22 final size:21
Alignment explanation
Indices: 100368750--100368792 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
100368740 TTAGAATATA
*
100368750 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
100368772 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
100368793 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:100371954 original size:38 final size:39
Alignment explanation
Indices: 100371895--100372009 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 39
100371885 TCAATCATGC
*
100371895 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
100371934 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCC----C-T-TTTCATATTTCATATTTCATAAT
100371979 ACTGGGCCGAAG-CCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATT
100372010 ACTGGGCCGA
Statistics
Matches: 69, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
38 16 0.23
39 14 0.20
40 1 0.01
43 1 0.01
44 2 0.03
45 35 0.51
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (39 bp):
ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
Found at i:100371975 original size:45 final size:45
Alignment explanation
Indices: 100371911--100372009 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
100371901 CCGTAGCCCT
*
100371911 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATG
1 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
100371956 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
1 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
100372001 TTTCATATT
1 TTTCATATT
100372010 ACTGGGCCGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (45 bp):
TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
Found at i:100372001 original size:31 final size:31
Alignment explanation
Indices: 100371963--100372026 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
100371953 ATGTTTCATA
100371963 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
100371994 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
100372025 TT
1 TT
100372027 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:100372264 original size:24 final size:24
Alignment explanation
Indices: 100372218--100372312 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
100372208 GCTTTATCAT
*
100372218 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
100372243 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
100372267 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
100372290 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
100372313 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:100372297 original size:47 final size:49
Alignment explanation
Indices: 100372218--100372311 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
100372208 GCTTTATCAT
*
100372218 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
100372267 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
100372312 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:100372388 original size:20 final size:20
Alignment explanation
Indices: 100372363--100372422 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
100372353 TATGATTACC
100372363 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
100372383 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
100372403 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
100372423 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:100372497 original size:25 final size:25
Alignment explanation
Indices: 100372465--100372512 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100372455 ATACATAAAC
* * *
100372465 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
100372490 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
100372513 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:100380273 original size:38 final size:39
Alignment explanation
Indices: 100380214--100380328 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 39
100380204 TCAATCATGC
*
100380214 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
100380253 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCC----C-T-TTTCATATTTCATATTTCATAAT
100380298 ACTGGGCCGAAG-CCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATT
100380329 ACTGGGCCGA
Statistics
Matches: 69, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
38 16 0.23
39 14 0.20
40 1 0.01
43 1 0.01
44 2 0.03
45 35 0.51
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (39 bp):
ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
Found at i:100380294 original size:45 final size:45
Alignment explanation
Indices: 100380230--100380328 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
100380220 CCGTAGCCCT
*
100380230 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATG
1 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
100380275 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
1 TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
100380320 TTTCATATT
1 TTTCATATT
100380329 ACTGGGCCGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (45 bp):
TTTCATATTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATA
Found at i:100380320 original size:31 final size:31
Alignment explanation
Indices: 100380282--100380345 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
100380272 ATGTTTCATA
100380282 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
100380313 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
100380344 TT
1 TT
100380346 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:100380583 original size:24 final size:24
Alignment explanation
Indices: 100380551--100380631 Score: 121
Period size: 23 Copynumber: 3.4 Consensus size: 24
100380541 CTAGAGGCCT
100380551 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTTAATAACTGGGG-CATA
*
100380576 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
100380600 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
100380623 AGCCCTTTT
1 AGCCCTTTT
100380632 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.47
24 24 0.45
25 4 0.08
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:100380707 original size:20 final size:20
Alignment explanation
Indices: 100380682--100380741 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
100380672 TATGATTACC
*
100380682 TCATGTGCATATCATACGTA
1 TCATGTGCATATCATACATA
* *
100380702 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
100380722 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
100380742 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:100380816 original size:25 final size:25
Alignment explanation
Indices: 100380784--100380831 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100380774 ATACATAAAC
* * *
100380784 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
100380809 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
100380832 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:100383800 original size:38 final size:38
Alignment explanation
Indices: 100383711--100383793 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
100383701 AACCCTAATC
* *
100383711 CCACCTACTCCACCACCTTTGTTGGTCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
100383749 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
100383787 CCACCTA
1 CCACCTA
100383794 AACCACCCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.17, C:0.48, G:0.12, T:0.23
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:100384219 original size:3 final size:3
Alignment explanation
Indices: 100384195--100384290 Score: 62
Period size: 3 Copynumber: 32.3 Consensus size: 3
100384185 GTTGAGAGCT
* * *
100384195 TTA TT- TTA TT- TTT TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
100384237 TTA TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA
100384282 TTA -TA TTA T
1 TTA TTA TTA T
100384291 ATATGCCATC
Statistics
Matches: 75, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
2 11 0.15
3 55 0.73
4 7 0.09
5 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100384265 original size:21 final size:18
Alignment explanation
Indices: 100384194--100384294 Score: 89
Period size: 18 Copynumber: 5.4 Consensus size: 18
100384184 AGTTGAGAGC
* *
100384194 TTTATTTTATT-TTTTTA
1 TTTATATTATTATTATTA
* *
100384211 TTTTATTATTTTTACTATTA
1 -TTTA-TATTATTATTATTA
100384231 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
100384249 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
100384270 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
100384287 TTATATAT
1 TT-TATAT
100384295 GCCATCTCCA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.06
18 30 0.43
19 14 0.20
20 9 0.13
21 12 0.17
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:100384370 original size:2 final size:2
Alignment explanation
Indices: 100384365--100384395 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
100384355 TTCTGACTAC
100384365 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100384396 GTATTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100395965 original size:68 final size:68
Alignment explanation
Indices: 100395881--100396150 Score: 459
Period size: 68 Copynumber: 4.0 Consensus size: 68
100395871 AAATCAAATA
* *
100395881 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCTTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
100395946 ATC
66 ATC
* * *
100395949 TCTTTTCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTACAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
100396014 ATC
66 ATC
* * *
100396017 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
100396082 ATC
66 ATC
*
100396085 TCTTCTCCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
100396150 A
66 A
100396151 ATTGATTGAA
Statistics
Matches: 187, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 187 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:100396612 original size:38 final size:38
Alignment explanation
Indices: 100396523--100396605 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
100396513 AACCCTAATC
*
100396523 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTAG
100396561 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTAG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTAG
100396599 CCACCTA
1 CCACCTA
100396606 AACCACCCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.18, C:0.51, G:0.11, T:0.20
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTAG
Found at i:100397027 original size:3 final size:3
Alignment explanation
Indices: 100397021--100397098 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
100397011 TTTTATTTTT
* *
100397021 TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA
100397068 TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
100397099 ATATGCCCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 47 0.77
4 7 0.11
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:100397031 original size:12 final size:12
Alignment explanation
Indices: 100397013--100397091 Score: 63
Period size: 12 Copynumber: 6.4 Consensus size: 12
100397003 GTTTTATTTT
100397013 TTATTTTT-TTA
1 TTATTTTTATTA
*
100397024 TTATTTTTACTA
1 TTATTTTTATTA
*
100397036 TTATTTATATTA
1 TTATTTTTATTA
*
100397048 TTATTATTATT-
1 TTATTTTTATTA
*
100397059 TCTCATGTATATATTA
1 T-T-AT-T-TTTATTA
*
100397075 TTATTTATATTA
1 TTATTTTTATTA
100397087 TTATT
1 TTATT
100397092 ATATTATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
11 9 0.16
12 34 0.62
13 3 0.05
14 3 0.05
15 5 0.09
16 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:100397468 original size:2 final size:2
Alignment explanation
Indices: 100397463--100397496 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
100397453 GTATTTCTAT
*
100397463 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100397497 GTATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:100402569 original size:26 final size:26
Alignment explanation
Indices: 100402533--100402584 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
100402523 GCAAGAGGAG
* *
100402533 ATGGAATCACTTTACAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
100402559 ATGGAATCACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
100402585 CTGCATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:100404419 original size:49 final size:48
Alignment explanation
Indices: 100404343--100404450 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 48
100404333 GAACTTGTAC
* * * *
100404343 ATTCAACCATCCGGATGACCCAACAATGATGACTTTTACTATTTGCAT
1 ATTCTACCATCCCGATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
100404391 ATTCTACCATCCCGAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCGA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
100404440 ATTCTATCATC
1 ATTCTACCATC
100404451 TTAAGCGGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 13 0.25
49 39 0.75
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCGATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:100404466 original size:49 final size:49
Alignment explanation
Indices: 100404361--100404480 Score: 150
Period size: 49 Copynumber: 2.4 Consensus size: 49
100404351 ATCCGGATGA
* * * * *
100404361 CCCAACAATGATGACTTTTACTATTTGCATATTCTACCATCCCGAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* **
100404410 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTAAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
100404459 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
100404481 CATTATATCG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:100405350 original size:20 final size:20
Alignment explanation
Indices: 100405307--100405346 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
100405297 GGTTAACATT
*
100405307 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
100405327 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
100405346 A
1 A
100405347 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:100418137 original size:41 final size:41
Alignment explanation
Indices: 100418092--100418209 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
100418082 TGAAAGATAA
100418092 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
100418133 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100418163 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100418204 ATGTAG
1 ATGTAG
100418210 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:100418148 original size:71 final size:71
Alignment explanation
Indices: 100418060--100418223 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100418050 GAGATGTATC
100418060 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100418125 AGGACA
66 AGGACA
100418131 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100418196 AGGACA
66 AGGACA
100418202 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
100418224 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:100425709 original size:41 final size:41
Alignment explanation
Indices: 100425664--100425781 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
100425654 TGAAAGATAA
100425664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
100425705 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100425735 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100425776 ATGTAG
1 ATGTAG
100425782 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:100425720 original size:71 final size:71
Alignment explanation
Indices: 100425632--100425795 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100425622 GAGATGTATC
100425632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100425697 AGGACA
66 AGGACA
100425703 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100425768 AGGACA
66 AGGACA
100425774 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
100425796 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:100429962 original size:51 final size:51
Alignment explanation
Indices: 100429900--100430035 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
100429890 TGGAAACATG
* *
100429900 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
* * ** * * *
100429951 ATCTTATAAGATATTATTTTATAAGATTATATATCTTAGATAAGATAGGTC
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
* * *
100430002 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGAT
100430036 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
Found at i:100430761 original size:21 final size:21
Alignment explanation
Indices: 100430716--100430754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100430706 AACTTGTAAG
*
100430716 AATT-TTAAAAATTAGTAAAA
1 AATTATTAAAAAGTAGTAAAA
100430736 AATTATTAAAAAGTA-TAAA
1 AATTATTAAAAAGTAGTAAA
100430755 TATATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTATTAAAAAGTAGTAAAA
Found at i:100435846 original size:10 final size:8
Alignment explanation
Indices: 100435811--100435845 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
100435801 AAGAAAAGGC
100435811 AAATTTTT
1 AAATTTTT
100435819 AAATTTTT
1 AAATTTTT
100435827 AAATTTTT
1 AAATTTTT
100435835 ATTAATTTTT
1 A--AATTTTT
100435845 A
1 A
100435846 TGTATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AAATTTTT
Found at i:100440577 original size:26 final size:26
Alignment explanation
Indices: 100440518--100440577 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
100440508 AACTCATTTA
* *
100440518 AAAATATATTAAATTAAAATTTAGAT
1 AAAATATTTTAAATTAAAATATAGAT
*
100440544 AAAATATTTTAAATTAATATATAGAT
1 AAAATATTTTAAATTAAAATATAGAT
100440570 AAAATATT
1 AAAATATT
100440578 GAATTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
AAAATATTTTAAATTAAAATATAGAT
Found at i:100441532 original size:2 final size:2
Alignment explanation
Indices: 100441525--100441559 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
100441515 AAATAAGATT
*
100441525 TA TA TA TA TA TA TA TA TA TA TA TT TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100441560 ACATTATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100441567 original size:19 final size:21
Alignment explanation
Indices: 100441530--100441568 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100441520 AGATTTATAT
*
100441530 ATATATATATATATATATTTA
1 ATATATATATACATATATTTA
100441551 ATATATATA-ACAT-TATTT
1 ATATATATATACATATATTT
100441569 CTTTCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATATATACATATATTTA
Found at i:100442066 original size:17 final size:17
Alignment explanation
Indices: 100442044--100442089 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
100442034 TAAGTTGTCT
100442044 TTCTTACAATGTAAACA
1 TTCTTACAATGTAAACA
100442061 TTCTTACAATGTAAACA
1 TTCTTACAATGTAAACA
100442078 TTCTTACAATGT
1 TTCTTACAATGT
100442090 CACTTATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (17 bp):
TTCTTACAATGTAAACA
Found at i:100442200 original size:4 final size:4
Alignment explanation
Indices: 100442193--100442220 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
100442183 TGAAATTAAT
100442193 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
100442221 CCGTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:100445941 original size:90 final size:90
Alignment explanation
Indices: 100445784--100445956 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 90
100445774 AATCGTAAAT
* * * *
100445784 TTGCAGGTTAATACGCTGTCAAATGGTTGTGAATACACAACATAAATGCAAATAAAAGTTGCCAG
1 TTGCAGGTTAATACACTGTCAAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCAG
100445849 ATAAT-TGGTGGACGAACCACCGGTG
66 ATAATAT-GTGGACGAACCACCGGTG
* * * ** *
100445874 TTGCAGGTTAATACACTG-CTAGATGGTTATGAATACACAACTTAATTGCGGATAAAAGCTACTA
1 TTGCAGGTTAATACACTGTC-AAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCA
*
100445938 GATAATATGTGGATGAACC
65 GATAATATGTGGACGAACC
100445957 TCCAGAATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.01
90 68 0.97
91 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (90 bp):
TTGCAGGTTAATACACTGTCAAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCAG
ATAATATGTGGACGAACCACCGGTG
Found at i:100445968 original size:90 final size:90
Alignment explanation
Indices: 100445784--100445976 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 90
100445774 AATCGTAAAT
* * * *
100445784 TTGCAGGTTAATACGCTGTCAAATGGTTGTGAATACACAACATAAATGCAAATAAAAGTTGCCAG
1 TTGCAGGTTAATACACTGTCAAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCAG
* **
100445849 ATAATTGGTGGACGAACCACCGGTG
66 ATAATTGGTGGACGAACCACCAGAA
* * * ** *
100445874 TTGCAGGTTAATACACTG-CTAGATGGTTATGAATACACAACTTAATTGCGGATAAAAGCTACTA
1 TTGCAGGTTAATACACTGTC-AAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCA
* *
100445938 GATAATAT-GTGGATGAACCTCCAGAA
65 GATAAT-TGGTGGACGAACCACCAGAA
*
100445964 TTGCAGATTAATA
1 TTGCAGGTTAATA
100445977 TTCTGCCAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
89 1 0.01
90 83 0.98
91 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (90 bp):
TTGCAGGTTAATACACTGTCAAATGGTTATGAATACACAACATAAATGCAAATAAAAGCTACCAG
ATAATTGGTGGACGAACCACCAGAA
Found at i:100448019 original size:71 final size:71
Alignment explanation
Indices: 100447938--100448075 Score: 163
Period size: 72 Copynumber: 1.9 Consensus size: 71
100447928 AAAAATTTTG
* * * * **
100447938 GAAGGACCAAATGTAAA-TTATATTACTTTTAAATAGTGATAGAAGGATAGGTTTAA-AATATTA
1 GAAGGACCAAAT-CAAATTTACATTACTTTTAAATAATGATACAAGGATA-AATTAACAATATTA
100448001 AAAGATTT
64 AAAGATTT
* *
100448009 GAAGGGCCAAATCAAATTTTACATTATTTTTAAATAATGATACAAGGATAAATTAACAATATTAA
1 GAAGGACCAAATCAAA-TTTACATTACTTTTAAATAATGATACAAGGATAAATTAACAATATTAA
100448074 AA
65 AA
100448076 ACTTTGGGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
70 3 0.05
71 15 0.27
72 38 0.68
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (71 bp):
GAAGGACCAAATCAAATTTACATTACTTTTAAATAATGATACAAGGATAAATTAACAATATTAAA
AGATTT
Found at i:100448106 original size:72 final size:71
Alignment explanation
Indices: 100447959--100448109 Score: 166
Period size: 72 Copynumber: 2.1 Consensus size: 71
100447949 TGTAAATTAT
* * * ** *
100447959 ATTACTTTTAAATAGTGATAGAAGGATAGGTTTAAAATATTAAAAGATTTGAAGGGCCAAATCAA
1 ATTATTTTTAAATAATGATACAAGGATAGAATTAAAATATTAAAAGATTTG-AGGGCCAAATAAA
100448024 ATTTTAC
65 ATTTTAC
100448031 ATTATTTTTAAATAATGATACAAGGATA-AATTAACAATATTAAAA-ACTTTG-GGGACCAAA-A
1 ATTATTTTTAAATAATGATACAAGGATAGAATTAA-AATATTAAAAGA-TTTGAGGG-CCAAATA
100448092 ATAATTTTACC
63 A-AATTTTA-C
100448103 ATTATTT
1 ATTATTT
100448110 AACCCAAATG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
70 4 0.06
71 17 0.25
72 47 0.69
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (71 bp):
ATTATTTTTAAATAATGATACAAGGATAGAATTAAAATATTAAAAGATTTGAGGGCCAAATAAAA
TTTTAC
Found at i:100448296 original size:2 final size:2
Alignment explanation
Indices: 100448281--100448324 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
100448271 TGTATTTATG
* * *
100448281 AT AT AT A- AT CT AT AT AC CT 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 AT AT AT AT AT AT
100448322 AT A
1 AT A
100448325 AGTCCAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:100451303 original size:13 final size:13
Alignment explanation
Indices: 100451283--100451350 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 13
100451273 TTTTTTCAAC
100451283 GCACTTCTCAAAA
1 GCACTTCTCAAAA
*
100451296 GTACTTCTCAAAA
1 GCACTTCTCAAAA
* *
100451309 GCACTTCTCCACA
1 GCACTTCTCAAAA
* *
100451322 GTACTTTTCAAAA
1 GCACTTCTCAAAA
*
100451335 GCACTTTTCAAAA
1 GCACTTCTCAAAA
100451348 GCA
1 GCA
100451351 ATGAAGAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (13 bp):
GCACTTCTCAAAA
Found at i:100451312 original size:26 final size:26
Alignment explanation
Indices: 100451283--100451348 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
100451273 TTTTTTCAAC
100451283 GCACTTCTCAAAAGTACTTCTCAAAA
1 GCACTTCTCAAAAGTACTTCTCAAAA
* * *
100451309 GCACTTCTCCACAGTACTTTTCAAAA
1 GCACTTCTCAAAAGTACTTCTCAAAA
*
100451335 GCACTTTTCAAAAG
1 GCACTTCTCAAAAG
100451349 CAATGAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (26 bp):
GCACTTCTCAAAAGTACTTCTCAAAA
Found at i:100465018 original size:78 final size:78
Alignment explanation
Indices: 100464889--100465044 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
100464879 TAACCCTAGT
100464889 TAATTATACTAAGGTTTGTCTCCCCTAACATTATCATGAGGATCTTTTGGGTCTCTCCCGTATTG
1 TAATTATACTAAGGTTTGTCTCCCCTAACATTATCATGAGGATCTTTTGGGTCTCTCCCGTATTG
*
100464954 GGTTCAATTATAA
66 GGTCCAATTATAA
* * * * **
100464967 TAATTATACTAAGGTTTGTCAT-CCTTAGCATTATCATTAGGATCTTTTGGGTTTCTCTTGTATT
1 TAATTATACTAAGGTTTGTC-TCCCCTAACATTATCATGAGGATCTTTTGGGTCTCTCCCGTATT
*
100465031 TGGTCCAATTATAA
65 GGGTCCAATTATAA
100465045 GTACTTTTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 68 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (78 bp):
TAATTATACTAAGGTTTGTCTCCCCTAACATTATCATGAGGATCTTTTGGGTCTCTCCCGTATTG
GGTCCAATTATAA
Found at i:100469269 original size:29 final size:29
Alignment explanation
Indices: 100469233--100469290 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
100469223 AAAAAACTCA
*
100469233 AGAGAATGTAGCCATATTTATCGTCAATT
1 AGAGAATGTAGCCATATCTATCGTCAATT
100469262 AGAGAATGTAGCCATATCTATCGTCAATT
1 AGAGAATGTAGCCATATCTATCGTCAATT
100469291 GCAACTAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (29 bp):
AGAGAATGTAGCCATATCTATCGTCAATT
Found at i:100470503 original size:20 final size:20
Alignment explanation
Indices: 100470450--100470506 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
100470440 ATAATTATAC
*
100470450 TATTTTAATTATTAATTTATG
1 TATTTT-ATTTTTAATTTATG
* * * *
100470471 TATTTTCTATTTAGTTTATT
1 TATTTTATTTTTAATTTATG
100470491 TATTTTATTTTTAATT
1 TATTTTATTTTTAATT
100470507 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TATTTTATTTTTAATTTATG
Found at i:100476800 original size:71 final size:71
Alignment explanation
Indices: 100476669--100476801 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 71
100476659 TGAACATTGA
* * * * *
100476669 ATGCTCCCTTTCTTGGTTTGAAGTTGGATATCGCGACATGGAGTGGTGGTTGTTGCGACATCACT
1 ATGCTCCCCTTCTAGGTTCGAAGTTGGATATCGCGACATGGAGTGGTGGTTCTCGCGACATCACT
100476734 AGTTGT
66 AGTTGT
* * * *
100476740 ATGCTCCCCTTCTAGGTTCGAAGTTGGGTGTTGCGACATGG-GATGGTGGTTCTCGTGACATC
1 ATGCTCCCCTTCTAGGTTCGAAGTTGGATATCGCGACATGGAG-TGGTGGTTCTCGCGACATC
100476802 GATGGTTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 1 0.02
71 51 0.98
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.35
Consensus pattern (71 bp):
ATGCTCCCCTTCTAGGTTCGAAGTTGGATATCGCGACATGGAGTGGTGGTTCTCGCGACATCACT
AGTTGT
Found at i:100479448 original size:21 final size:21
Alignment explanation
Indices: 100479385--100479454 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
100479375 CTACACGGTC
* *
100479385 GTGTGACTGAGACACACGCC-
1 GTGTGACTAAGACACAAGCCT
* *
100479405 GTGTAACGAAGGGACACAA--CT
1 GTGTGACTAA--GACACAAGCCT
100479426 GTGTGACTAAGACACAAGCCT
1 GTGTGACTAAGACACAAGCCT
100479447 GTGTGACT
1 GTGTGACT
100479455 GAGATACATG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 7 0.18
20 8 0.21
21 18 0.46
22 6 0.15
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.19
Consensus pattern (21 bp):
GTGTGACTAAGACACAAGCCT
Found at i:100481298 original size:25 final size:25
Alignment explanation
Indices: 100481255--100481302 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100481245 ACGAGTTATA
**
100481255 AACGGGAAGCTCCTCTGAGCTGAGT
1 AACGGGAAGCTCAACTGAGCTGAGT
*
100481280 AACGGGAAGCTCAAGTGAGCTGA
1 AACGGGAAGCTCAACTGAGCTGA
100481303 ATATCGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (25 bp):
AACGGGAAGCTCAACTGAGCTGAGT
Found at i:100482182 original size:138 final size:138
Alignment explanation
Indices: 100481934--100482212 Score: 531
Period size: 138 Copynumber: 2.0 Consensus size: 138
100481924 ATTTTCTATC
*
100481934 ATAAAACTTCAAAATTCAAGCATACTCATCAATGGAAAAACCTTAATATTTTAACAATTTTGCAA
1 ATAAAACTTCAAAATTCAAGCATACTCATCAATGGAAAAACCTTAATACTTTAACAATTTTGCAA
*
100481999 ATTAATCCCCGAGCTAGCTAGATTAAGTTACTACGATCTCAGAAACATAGAAATCATTAAAAACG
66 ATTAATCCCCGAGCTAGCTAGATTAAGCTACTACGATCTCAGAAACATAGAAATCATTAAAAACG
100482064 GGACAAAA
131 GGACAAAA
*
100482072 ATAAAACTTCAAAATTCAAGCATACTCATCAATGGAAAAACCTTAATACTTTAACAGTTTTGCAA
1 ATAAAACTTCAAAATTCAAGCATACTCATCAATGGAAAAACCTTAATACTTTAACAATTTTGCAA
100482137 ATTAATCCCCGAGCTAGCTAGATTAAGCTACTACGATCTCAGAAACATAGAAATCATTAAAAACG
66 ATTAATCCCCGAGCTAGCTAGATTAAGCTACTACGATCTCAGAAACATAGAAATCATTAAAAACG
100482202 GGACAAAA
131 GGACAAAA
100482210 ATA
1 ATA
100482213 CATACCTAAT
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (138 bp):
ATAAAACTTCAAAATTCAAGCATACTCATCAATGGAAAAACCTTAATACTTTAACAATTTTGCAA
ATTAATCCCCGAGCTAGCTAGATTAAGCTACTACGATCTCAGAAACATAGAAATCATTAAAAACG
GGACAAAA
Found at i:100486873 original size:20 final size:21
Alignment explanation
Indices: 100486850--100486888 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
100486840 TGTATATTAT
*
100486850 TTTTCATAATAT-AATATTTA
1 TTTTAATAATATAAATATTTA
*
100486870 TTTTAATTATATAAATATT
1 TTTTAATAATATAAATATT
100486889 AATTGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATAATATAAATATTTA
Found at i:100488692 original size:2 final size:2
Alignment explanation
Indices: 100488685--100488713 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100488675 TTAATTAGCA
100488685 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
100488714 AAGAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100496894 original size:18 final size:18
Alignment explanation
Indices: 100496857--100496948 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
100496847 CCCAACTACT
*
100496857 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
100496875 GTATTCGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
100496893 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
100496911 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
100496929 GTATACGT-AATAGTACC
1 GTATACGTGAATAGTACC
100496946 GTA
1 GTA
100496949 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
17 10 0.16
18 53 0.84
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:100496909 original size:36 final size:36
Alignment explanation
Indices: 100496857--100496948 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
100496847 CCCAACTACT
* *
100496857 GTATACGTGAACAGTACCGTATTCGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* * *
100496893 GTATACGTGAATAGTACTGTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
100496929 GTATACGT-AATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
100496949 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 11 0.22
36 39 0.78
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:100500727 original size:25 final size:23
Alignment explanation
Indices: 100500685--100500737 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
100500675 AAATTTATTT
*
100500685 TTATTATTAATTCTATTATTACTA
1 TTATTATTAATTCCATTATT-CTA
100500709 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
100500733 TTATT
1 TTATT
100500738 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:100500777 original size:21 final size:22
Alignment explanation
Indices: 100500746--100500786 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
100500736 TTTCTTATAT
100500746 TTTATCATCATTGTTGTTACTA
1 TTTATCATCATTGTTGTTACTA
*
100500768 TTTAT-ATCATTGTTTTTAC
1 TTTATCATCATTGTTGTTAC
100500787 ATTATAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTATCATCATTGTTGTTACTA
Found at i:100501623 original size:2 final size:2
Alignment explanation
Indices: 100501616--100501663 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
100501606 CACTTTGAAT
100501616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100501658 TA TA TA
1 TA TA TA
100501664 CATGTATATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100501690 original size:16 final size:16
Alignment explanation
Indices: 100501671--100501707 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
100501661 ATACATGTAT
100501671 ATTCCTTTTGTTCCAA
1 ATTCCTTTTGTTCCAA
100501687 ATTCCTTTTGTTCCAA
1 ATTCCTTTTGTTCCAA
100501703 ATTCC
1 ATTCC
100501708 ATTGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTCCTTTTGTTCCAA
Found at i:100502350 original size:26 final size:26
Alignment explanation
Indices: 100502314--100502365 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
100502304 TAAACTTGCG
100502314 CTCGGAAGTTCAAGGTATCGCGTCCT
1 CTCGGAAGTTCAAGGTATCGCGTCCT
100502340 CTCGGAAGTTCAAGGTATCGCGTCCT
1 CTCGGAAGTTCAAGGTATCGCGTCCT
100502366 AACTTACGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (26 bp):
CTCGGAAGTTCAAGGTATCGCGTCCT
Found at i:100503323 original size:20 final size:21
Alignment explanation
Indices: 100503289--100503329 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
100503279 CTAGCTGACT
*
100503289 TTAACAAACTGCTAACTAACA
1 TTAACAAACTACTAACTAACA
100503310 TTAAC-AACTACTAACTAACA
1 TTAACAAACTACTAACTAACA
100503330 AATAACTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
TTAACAAACTACTAACTAACA
Found at i:100508582 original size:18 final size:19
Alignment explanation
Indices: 100508559--100508595 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100508549 ATGGAAGAAC
100508559 CATGGGAA-CAGAAGCTAT
1 CATGGGAAGCAGAAGCTAT
*
100508577 CATGGGAAGGAGAAGCTAT
1 CATGGGAAGCAGAAGCTAT
100508596 AGTGTCGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (19 bp):
CATGGGAAGCAGAAGCTAT
Found at i:100508752 original size:2 final size:2
Alignment explanation
Indices: 100508740--100508773 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
100508730 AATTAATACA
*
100508740 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
100508774 AAAGACTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:100510156 original size:78 final size:78
Alignment explanation
Indices: 100510067--100510225 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
100510057 ATTCAGTTTC
*
100510067 ATTTCATGCAACCGTTGGCCTACAAGAAGAAGAAATCACAATACATACAAGGTAGAAAACATCAA
1 ATTTCATGCAACCGTTGGCCTACAAGAAGAAGAAATCACAATACATACAAGGCAGAAAACATCAA
100510132 CATTCACAAGAGT
66 CATTCACAAGAGT
100510145 ATTTCATGCAACCGTTGGCCTACAAGAAGAAGAAATCACAATACATACAAGGCAGAAAACATCAA
1 ATTTCATGCAACCGTTGGCCTACAAGAAGAAGAAATCACAATACATACAAGGCAGAAAACATCAA
100510210 CATTCACAAGAGT
66 CATTCACAAGAGT
100510223 ATT
1 ATT
100510226 GAACACCTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (78 bp):
ATTTCATGCAACCGTTGGCCTACAAGAAGAAGAAATCACAATACATACAAGGCAGAAAACATCAA
CATTCACAAGAGT
Found at i:100513678 original size:28 final size:28
Alignment explanation
Indices: 100513615--100513689 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
100513605 TTAGTTTGTT
* * * *
100513615 AATAAATTATTTATTAT-TTTGCTGAAA
1 AATAAATTATATATTATATATACAGAAA
100513642 AATAAATTATATATTATATATACAGAAA
1 AATAAATTATATATTATATATACAGAAA
100513670 AATAAATTATATATTATATA
1 AATAAATTATATATTATATA
100513690 ACATTTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 16 0.37
28 27 0.63
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
AATAAATTATATATTATATATACAGAAA
Found at i:100514727 original size:3 final size:3
Alignment explanation
Indices: 100514719--100514759 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
100514709 TAAAACTCAA
100514719 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
100514760 CTTCTCTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100515026 original size:31 final size:30
Alignment explanation
Indices: 100514970--100515027 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100514960 CAATAATTAT
* *
100514970 ATAAGAAAAAATTATGAACATTTAATTTTC
1 ATAAGAAAAAAATATGAACAATTAATTTTC
*
100515000 ATAAGAAAAAAATATGAAAGAATTAATT
1 ATAAGAAAAAAATATG-AACAATTAATT
100515028 GAATTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (30 bp):
ATAAGAAAAAAATATGAACAATTAATTTTC
Found at i:100517841 original size:18 final size:18
Alignment explanation
Indices: 100517814--100517849 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100517804 AAGCATTAAT
*
100517814 AAAATCATTAATAAAATA
1 AAAATAATTAATAAAATA
100517832 AAAATAATTAATAAAATA
1 AAAATAATTAATAAAATA
100517850 TTTTTTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATAATTAATAAAATA
Found at i:100519843 original size:46 final size:47
Alignment explanation
Indices: 100519783--100520010 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
100519773 TTTGACATGA
* * * * * *
100519783 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
100519829 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100519875 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100519921 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100519967 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
100520011 AGAGCACACT
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 7 0.04
46 158 0.94
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:100522164 original size:11 final size:11
Alignment explanation
Indices: 100522148--100522199 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
100522138 TATACTAAAT
100522148 AAATAATAATA
1 AAATAATAATA
*
100522159 AAATAAT-ATT
1 AAATAATAATA
* *
100522169 AAATATCTCATA
1 AAATA-ATAATA
*
100522181 AAATATTAATA
1 AAATAATAATA
100522192 AAATAATA
1 AAATAATA
100522200 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:100525100 original size:46 final size:47
Alignment explanation
Indices: 100525040--100525267 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
100525030 TTTGACATGA
* * * * * *
100525040 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
100525086 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100525132 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100525178 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100525224 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
100525268 AGAGCACACT
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 7 0.04
46 158 0.94
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:100527421 original size:11 final size:11
Alignment explanation
Indices: 100527405--100527456 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
100527395 TATACTAAAT
100527405 AAATAATAATA
1 AAATAATAATA
*
100527416 AAATAAT-ATT
1 AAATAATAATA
* *
100527426 AAATATCTCATA
1 AAATA-ATAATA
*
100527438 AAATATTAATA
1 AAATAATAATA
100527449 AAATAATA
1 AAATAATA
100527457 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:100530357 original size:46 final size:47
Alignment explanation
Indices: 100530297--100530524 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
100530287 TTTGACATGA
* * * * * *
100530297 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
100530343 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100530389 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100530435 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
100530481 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
100530525 AGAGCACACT
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 7 0.04
46 158 0.94
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:100532678 original size:11 final size:11
Alignment explanation
Indices: 100532662--100532713 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
100532652 TATACTAAAT
100532662 AAATAATAATA
1 AAATAATAATA
*
100532673 AAATAAT-ATT
1 AAATAATAATA
* *
100532683 AAATATCTCATA
1 AAATA-ATAATA
*
100532695 AAATATTAATA
1 AAATAATAATA
100532706 AAATAATA
1 AAATAATA
100532714 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:100533412 original size:42 final size:43
Alignment explanation
Indices: 100533339--100533421 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
100533329 GAATTGAATA
* **
100533339 CTTCGTTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
100533382 CTTCATTTA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACAC
100533422 GAATCACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (43 bp):
CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:100533568 original size:31 final size:31
Alignment explanation
Indices: 100533533--100533711 Score: 225
Period size: 31 Copynumber: 5.8 Consensus size: 31
100533523 CTTGTCACTT
*
100533533 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
100533564 GTAGCTGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
100533595 GTAGTCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100533626 GTAGCAGAAGCTACCACTTTTCACTGATCTG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
100533657 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
100533688 GTAGCCGAAACTACCAC-TTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
100533712 TGTCATTTGT
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 7 0.05
31 123 0.95
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100533775 original size:50 final size:51
Alignment explanation
Indices: 100533688--100533815 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
100533678 CACTGATCAG
* * * *
100533688 GTAGCCGAAACTACCACTT-TCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
100533738 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
100533788 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
100533816 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
50 63 0.90
51 7 0.10
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:100536004 original size:25 final size:26
Alignment explanation
Indices: 100535969--100536017 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
100535959 TCACCATTTT
100535969 TATAAAAAT-AATT-TTTAATATATAA
1 TATAAAAATAAATTATTTAA-ATATAA
*
100535994 TATAAATATAAATTATTTAAATAT
1 TATAAAAATAAATTATTTAAATAT
100536018 GTATAACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 8 0.38
27 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TATAAAAATAAATTATTTAAATATAA
Found at i:100543370 original size:2 final size:2
Alignment explanation
Indices: 100543363--100543400 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100543353 TTATTAATAG
100543363 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100543401 GTATCTTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100544363 original size:29 final size:31
Alignment explanation
Indices: 100544314--100544380 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 31
100544304 TGAAAATTTG
*
100544314 GAATTTAGTCCTCGTACTTTT-AT-TTCTAA
1 GAATTTAGTCCTCATACTTTTCATATTCTAA
* *
100544343 GAATTTAGTCC-CTATATTTTTCATATTTTAA
1 GAATTTAGTCCTC-ATACTTTTCATATTCTAA
100544374 -AATTTAG
1 GAATTTAG
100544381 GTCAAACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 17 0.53
30 9 0.28
31 5 0.16
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (31 bp):
GAATTTAGTCCTCATACTTTTCATATTCTAA
Found at i:100545272 original size:15 final size:15
Alignment explanation
Indices: 100545253--100545285 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
100545243 TTAGTACCTG
*
100545253 TAAAAATTTAA-TAT
1 TAAAAATTCAACTAT
100545267 TAAAAATTCAACTAT
1 TAAAAATTCAACTAT
100545282 TAAA
1 TAAA
100545286 TTTTTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAATTCAACTAT
Found at i:100546571 original size:77 final size:77
Alignment explanation
Indices: 100546440--100546763 Score: 425
Period size: 77 Copynumber: 4.2 Consensus size: 77
100546430 CATTTAATAG
* *
100546440 ATTTTGATTTTATTTCCAAACGAAGATTTAATTAAATAATTTTGTTTAGGGATTTATTCCCGCTG
1 ATTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCGCTG
100546505 TTTAACAGATTTT
65 TTTAACAGATTTT
* * * * * *
100546518 ATTTTGATTTTGTTTCCAAACAATATTTAATCAAATAATTTTGTTTTGTGATTTATTCCCACCGT
1 ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCGCTGT
*
100546583 TTAACATATTTT
66 TTAACAGATTTT
* * *
100546595 ATTTTGATTTTGTTTCCAAACAAGATTTAGTTAAATAATTCTGTTTCGGGATTTATTCCC-TTCG
1 ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCGCT-G
100546659 TTTAACAGATTTT
65 TTTAACAGATTTT
* * * * * *
100546672 ATTTTGATTTTGTTTCCAAATAAGATTTAATTAAATAAATTTGTTTCGGGTTTTAATCCTGATGT
1 ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCGCTGT
* *
100546737 TTAACAGAATTG
66 TTAACAGATTTT
* *
100546749 ATCTTAATTTTGTTT
1 ATTTTGATTTTGTTT
100546764 TAGAATTTTA
Statistics
Matches: 215, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
77 194 0.90
78 21 0.10
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (77 bp):
ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCGCTGT
TTAACAGATTTT
Found at i:100550294 original size:19 final size:17
Alignment explanation
Indices: 100550257--100550299 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
100550247 GTGGTATTAT
* *
100550257 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
100550274 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
100550293 CATAAAT
1 CATAAAT
100550300 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:100552160 original size:4 final size:4
Alignment explanation
Indices: 100552151--100552200 Score: 75
Period size: 4 Copynumber: 12.2 Consensus size: 4
100552141 ATTTTTCCTT
100552151 TTTC TTTC TTTC TTTCC TTTC TTT- TTTC TTTC TTTC TTTCC TTTC TTTC
1 TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC
100552200 T
1 T
100552201 CTGTTTCGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.07
4 32 0.74
5 8 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:100552172 original size:13 final size:13
Alignment explanation
Indices: 100552154--100552200 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
100552144 TTTCCTTTTT
100552154 CTTTCTTTCTTTC
1 CTTTCTTTCTTTC
100552167 CTTTCTTT-TTT-
1 CTTTCTTTCTTTC
100552178 CTTTCTTTCTTTC
1 CTTTCTTTCTTTC
100552191 CTTTCTTTCT
1 CTTTCTTTCT
100552201 CTGTTTCGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.25
12 6 0.19
13 18 0.56
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTCTTTCTTTC
Found at i:100552196 original size:24 final size:24
Alignment explanation
Indices: 100552144--100552198 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
100552134 TTCTCCAATT
*
100552144 TTTCCTTTTTCTTTCTTTCTTTCC
1 TTTCTTTTTTCTTTCTTTCTTTCC
100552168 TTTCTTTTTTCTTTCTTTCTTTCC
1 TTTCTTTTTTCTTTCTTTCTTTCC
100552192 TTTCTTT
1 TTTCTTT
100552199 CTCTGTTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTCTTTTTTCTTTCTTTCTTTCC
Found at i:100552207 original size:17 final size:17
Alignment explanation
Indices: 100552153--100552207 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
100552143 TTTTCCTTTT
*
100552153 TCTTT-CTTTCTTTCCTT
1 TCTTTCCTTTCTTT-CTC
*
100552170 TCTTT--TTTCTTTCTT
1 TCTTTCCTTTCTTTCTC
100552185 TCTTTCCTTTCTTTCTC
1 TCTTTCCTTTCTTTCTC
*
100552202 TGTTTC
1 TCTTTC
100552208 GTGAGCTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 8 0.24
16 7 0.21
17 19 0.56
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (17 bp):
TCTTTCCTTTCTTTCTC
Found at i:100557977 original size:20 final size:20
Alignment explanation
Indices: 100557929--100557977 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
100557919 ATAAATATAA
100557929 ATATTTA-TTTATATTATTT
1 ATATTTATTTTATATTATTT
**
100557948 AT-TCAAATTTTATATTATTT
1 ATAT-TTATTTTATATTATTT
100557968 ATATTTATTT
1 ATATTTATTT
100557978 GCTAACATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.04
19 3 0.13
20 18 0.78
21 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATTTATTTTATATTATTT
Found at i:100558194 original size:21 final size:20
Alignment explanation
Indices: 100558166--100558210 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
100558156 GTTTTAACAG
100558166 AACTGCTGATGTGGAAAGTT
1 AACTGCTGATGTGGAAAGTT
**
100558186 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGAAAGTT
100558207 AACT
1 AACT
100558211 TGCCACGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGAAAGTT
Found at i:100564959 original size:2 final size:2
Alignment explanation
Indices: 100564952--100564984 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
100564942 TGCTATGACC
*
100564952 CA CA CA CA CA CC CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
100564985 CCACCTTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.55, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:100564964 original size:12 final size:12
Alignment explanation
Indices: 100564949--100564988 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
100564939 CTATGCTATG
100564949 ACCCACACACAC
1 ACCCACACACAC
100564961 ACCCACACACAC
1 ACCCACACACAC
100564973 A--CACACACAC
1 ACCCACACACAC
100564983 ACCCAC
1 ACCCAC
100564989 CTTCACATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
12 16 0.62
ACGTcount: A:0.42, C:0.57, G:0.00, T:0.00
Consensus pattern (12 bp):
ACCCACACACAC
Found at i:100590059 original size:2 final size:2
Alignment explanation
Indices: 100590052--100590087 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
100590042 CTGACTCATC
*
100590052 CA CA CA CA CC CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
100590088 AAAGTAGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:100605234 original size:15 final size:15
Alignment explanation
Indices: 100605214--100605245 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100605204 CATTTCACTA
*
100605214 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
100605229 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
100605244 TT
1 TT
100605246 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:100606899 original size:55 final size:55
Alignment explanation
Indices: 100606839--100606961 Score: 237
Period size: 55 Copynumber: 2.2 Consensus size: 55
100606829 TCAAAATTAA
100606839 TATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATTTTAATAGTATT
1 TATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATTTTAATAGTATT
100606894 TATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATTTTAATAGTATT
1 TATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATTTTAATAGTATT
*
100606949 TATTAATTTAATA
1 TATTATTTTAATA
100606962 TTAAAGTTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (55 bp):
TATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATTTTAATAGTATT
Found at i:100606901 original size:18 final size:18
Alignment explanation
Indices: 100606878--100606961 Score: 75
Period size: 18 Copynumber: 4.6 Consensus size: 18
100606868 AATTTAATAC
100606878 TTATTTTAATAGTATTTA
1 TTATTTTAATAGTATTTA
100606896 TTATTTTAATAGT-TTAATA
1 TTATTTTAATAGTATT--TA
* * *
100606915 TTAAATTTAAT-TTA-ATA
1 TT-ATTTTAATAGTATTTA
100606932 CTTATTTTAATAGTATTTA
1 -TTATTTTAATAGTATTTA
*
100606951 TTAATTTAATA
1 TTATTTTAATA
100606962 TTAAAGTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
17 11 0.21
18 27 0.52
19 7 0.13
20 7 0.13
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (18 bp):
TTATTTTAATAGTATTTA
Found at i:100606945 original size:37 final size:37
Alignment explanation
Indices: 100606896--100606997 Score: 105
Period size: 37 Copynumber: 2.9 Consensus size: 37
100606886 ATAGTATTTA
100606896 TTATTTTAATAGTTTAATATTAAATTTAATTTAATAC
1 TTATTTTAATAGTTTAATATTAAATTTAATTTAATAC
*
100606933 TTATTTTAATAGTATT--TATT-AATTTAATATTAA-AG
1 TTATTTTAATAGT-TTAATATTAAATTTAAT-TTAATAC
*
100606968 TTA--TT-AT--CTTAATATTAAATTTAATTTAAT
1 TTATTTTAATAGTTTAATATTAAATTTAATTTAAT
100606998 GTTTATCTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
29 2 0.04
31 8 0.14
32 10 0.18
33 2 0.04
35 12 0.21
36 8 0.14
37 13 0.23
38 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (37 bp):
TTATTTTAATAGTTTAATATTAAATTTAATTTAATAC
Found at i:100606963 original size:11 final size:12
Alignment explanation
Indices: 100606835--100607002 Score: 68
Period size: 12 Copynumber: 13.8 Consensus size: 12
100606825 TATTTCAAAA
*
100606835 TTAATA-TTATT
1 TTAATATTTAAT
100606846 TTAATAGTTTAAT
1 TTAATA-TTTAAT
100606859 ATTAA-ATTTAAT
1 -TTAATATTTAAT
* *
100606871 TTAATACTTATT
1 TTAATATTTAAT
100606883 TTAATAGTATTTATTATT
1 TT-A-A-TATTTA--A-T
100606901 TTAATAGTTTAAT
1 TTAATA-TTTAAT
100606914 ATTAA-ATTTAAT
1 -TTAATATTTAAT
* *
100606926 TTAATACTTATT
1 TTAATATTTAAT
*
100606938 TTAATA-GT-A-
1 TTAATATTTAAT
100606947 TT--TA-TTAAT
1 TTAATATTTAAT
* *
100606956 TTAATATTAAAG
1 TTAATATTTAAT
*
100606968 TTATTATCTTAAT
1 TTAATAT-TTAAT
100606981 ATTAA-ATTTAAT
1 -TTAATATTTAAT
*
100606993 TTAATGTTTA
1 TTAATATTTA
100607003 TCTTGTAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 41
0.67 0.10 0.23
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 4 0.03
11 21 0.18
12 48 0.40
13 13 0.11
14 13 0.11
15 7 0.06
16 5 0.04
17 1 0.01
18 3 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (12 bp):
TTAATATTTAAT
Found at i:100606973 original size:20 final size:19
Alignment explanation
Indices: 100606839--100606997 Score: 65
Period size: 18 Copynumber: 8.6 Consensus size: 19
100606829 TCAAAATTAA
* *
100606839 TATTATTTTAATAGTTTAA-
1 TATTAATTTAATA-TTAAAT
100606858 TATTAAATTTAAT-TT-AA-
1 TATT-AATTTAATATTAAAT
* * *
100606875 TACTTATTTTAATAGT-ATT
1 TA-TTAATTTAATATTAAAT
* *
100606894 TATTATTTTAATAGTTTAA-
1 TATTAATTTAATA-TTAAAT
100606913 TATTAAATTTAAT-TT-AA-
1 TATT-AATTTAATATTAAAT
* * *
100606930 TACTTATTTTAATAGT-ATT
1 TA-TTAATTTAATATTAAAT
100606949 TATTAATTTAATATTAAAGT
1 TATTAATTTAATATTAAA-T
100606969 TATT-ATCTTAATATTAAA-
1 TATTAAT-TTAATATTAAAT
100606987 T-TTAATTTAAT
1 TATTAATTTAAT
100606998 GTTTATCTTG
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
17 29 0.26
18 37 0.33
19 16 0.14
20 31 0.27
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTAATTTAATATTAAAT
Found at i:100609305 original size:46 final size:46
Alignment explanation
Indices: 100609255--100609430 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
100609245 TGGTTGAGCA
100609255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100609301 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
100609346 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100609394 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100609431 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100609411 original size:93 final size:93
Alignment explanation
Indices: 100609252--100609423 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
100609242 GGATGGTTGA
* *
100609252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100609317 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
100609345 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100609410 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
100609424 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100616025 original size:16 final size:16
Alignment explanation
Indices: 100616004--100616037 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
100615994 GTTGTTTTCA
100616004 AGCTTCCAAGCTCCAT
1 AGCTTCCAAGCTCCAT
100616020 AGCTTCCAAGCTCCAT
1 AGCTTCCAAGCTCCAT
100616036 AG
1 AG
100616038 TAAGTGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (16 bp):
AGCTTCCAAGCTCCAT
Found at i:100616915 original size:46 final size:46
Alignment explanation
Indices: 100616865--100617040 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
100616855 TGGTTGAGCA
100616865 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100616911 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
100616956 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100617004 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100617041 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100617021 original size:93 final size:93
Alignment explanation
Indices: 100616862--100617033 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
100616852 GGATGGTTGA
* *
100616862 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100616927 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
100616955 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100617020 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
100617034 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100619804 original size:25 final size:25
Alignment explanation
Indices: 100619775--100619824 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100619765 ATGATATAAG
100619775 TAGAAGAATTAACTTTATTCATATC
1 TAGAAGAATTAACTTTATTCATATC
100619800 TAGAAGAATTAACTTTATTCATATC
1 TAGAAGAATTAACTTTATTCATATC
100619825 AATGCTCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (25 bp):
TAGAAGAATTAACTTTATTCATATC
Found at i:100620830 original size:46 final size:46
Alignment explanation
Indices: 100620770--100621089 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
100620760 TTTGACATGA
* * * * * *
100620770 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
100620816 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100620862 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
100620908 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100620954 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100621000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100621046 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
100621090 AGAGCACACT
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 251 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:100627646 original size:13 final size:13
Alignment explanation
Indices: 100627628--100627652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100627618 AATCCATCCA
100627628 TCCCCACAAATCT
1 TCCCCACAAATCT
100627641 TCCCCACAAATC
1 TCCCCACAAATC
100627653 ATTAATCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (13 bp):
TCCCCACAAATCT
Found at i:100627654 original size:38 final size:38
Alignment explanation
Indices: 100627603--100627679 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
100627593 TATCCATCCA
100627603 TCCCCACAAATCATTAATCCATCCATCCCCACAAATCT
1 TCCCCACAAATCATTAATCCATCCATCCCCACAAATCT
100627641 TCCCCACAAATCATTAATCCATCCATCCCCACAAATCT
1 TCCCCACAAATCATTAATCCATCCATCCCCACAAATCT
100627679 T
1 T
100627680 AGGTAAAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (38 bp):
TCCCCACAAATCATTAATCCATCCATCCCCACAAATCT
Found at i:100630537 original size:7 final size:7
Alignment explanation
Indices: 100630527--100630557 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
100630517 GTTAAAAATA
100630527 AAAATTT
1 AAAATTT
100630534 AAAATTT
1 AAAATTT
100630541 AAAATTT
1 AAAATTT
100630548 AAAATTT
1 AAAATTT
100630555 AAA
1 AAA
100630558 CATAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Done.