Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:1617134 original size:13 final size:13
Alignment explanation
Indices: 1617116--1617140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1617106 ACACAAAGTA
1617116 TGTATCGATACAT
1 TGTATCGATACAT
1617129 TGTATCGATACA
1 TGTATCGATACA
1617141 CCATAAAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1617137 original size:32 final size:33
Alignment explanation
Indices: 1617096--1617163 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1617086 ATAGCCAAAC
*
1617096 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
1617128 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1617161 TTG
1 TTG
1617164 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1625029 original size:68 final size:67
Alignment explanation
Indices: 1624884--1625091 Score: 193
Period size: 68 Copynumber: 3.1 Consensus size: 67
1624874 CACTTATGTT
* * * * * * * **
1624884 TACTCGCCACAATGGCATGATAGCAAATGAAACCATGTCAC-CTTGCTAAATAAAGGCCTCAAGG
1 TACTCACCATAATGGAATGATAGCAAGTGACACCAAGTCACATTTGCTAAATAAAAACCTCAAGG
1624948 TTC
66 -TC
* * ** * * *
1624951 TACTCACCATAATGGAATGATAGTAAGTGATATTAAGTTACCTTTGCTAAGTAAAAACCTCGAAG
1 TACTCACCATAATGGAATGATAGCAAGTGACACCAAGTCACATTTGCTAAATAAAAACCTC-AAG
1625016 GTC
65 GTC
** * * *
1625019 TACTGGCCATAATGGTATGATAGCAAGTTACACCAAGTCACATTTGCTAAATTAAAACCTCAAAG
1 TACTCACCATAATGGAATGATAGCAAGTGACACCAAGTCACATTTGCTAAATAAAAACCTC-AAG
1625084 GTC
65 GTC
1625087 TACTC
1 TACTC
1625092 TCTGCAATGG
Statistics
Matches: 111, Mismatches: 28, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
67 31 0.28
68 76 0.68
69 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (67 bp):
TACTCACCATAATGGAATGATAGCAAGTGACACCAAGTCACATTTGCTAAATAAAAACCTCAAGG
TC
Found at i:1625101 original size:68 final size:68
Alignment explanation
Indices: 1624884--1625181 Score: 165
Period size: 68 Copynumber: 4.4 Consensus size: 68
1624874 CACTTATGTT
* * * * * *
1624884 TACTCGCCACAATGGCATGATAGCAAATGAAACCATGTCA-CCTTGCTAAA-TAAAGGCCTC-AA
1 TACTCGCCACAATGGCATGAGAGCAAACGACACCAAGTCATCTTTGCTAAATTAAA-ACCTCAAA
1624946 GGTTC
65 GG-TC
* * * * * ** * ** * * * * *
1624951 TACTCACCATAATGGAATGATAGTAAGTGATATTAAGTTACCTTTGCTAAGTAAAAACCTCGAAG
1 TACTCGCCACAATGGCATGAGAGCAAACGACACCAAGTCATCTTTGCTAAATTAAAACCTCAAAG
1625016 GTC
66 GTC
* * * * ***
1625019 TACTGGCCATAATGGTATGATAGCAAGTTACACCAAGTCA-CATTTGCTAAATTAAAACCTCAAA
1 TACTCGCCACAATGGCATGAGAGCAAACGACACCAAGTCATC-TTTGCTAAATTAAAACCTCAAA
1625083 GGTC
65 GGTC
* ** * * *
1625087 TACTCTCTGCAATGGCATTAGAGCAAACGACACCAAGTCATCTTTGCT-AAGTAAAGACTTCAAA
1 TACTCGCCACAATGGCATGAGAGCAAACGACACCAAGTCATCTTTGCTAAATTAAA-ACCTCAAA
*
1625151 GGTT
65 GGTC
* * * * *
1625155 TACTTGCTATAATGGCATAACAGCAAA
1 TACTCGCCACAATGGCATGAGAGCAAA
1625182 TAACTTTAAG
Statistics
Matches: 179, Mismatches: 46, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
67 37 0.21
68 134 0.75
69 8 0.04
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (68 bp):
TACTCGCCACAATGGCATGAGAGCAAACGACACCAAGTCATCTTTGCTAAATTAAAACCTCAAAG
GTC
Found at i:1628510 original size:21 final size:21
Alignment explanation
Indices: 1628486--1628525 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1628476 GGAGAGCCAA
1628486 AACAAAAAAAAAAAGAAAAGC
1 AACAAAAAAAAAAAGAAAAGC
***
1628507 AACATTCAAAAAAAGAAAA
1 AACAAAAAAAAAAAGAAAA
1628526 AAGAGAAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (21 bp):
AACAAAAAAAAAAAGAAAAGC
Found at i:1628728 original size:23 final size:23
Alignment explanation
Indices: 1628698--1628765 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
1628688 ATAATCGAAG
* *
1628698 CAACCAAAATAACAGCAAAAGAA
1 CAACCAAAACAACAGCAAAACAA
*
1628721 CAACCAAAACAATAGCAAAACAA
1 CAACCAAAACAACAGCAAAACAA
* * **
1628744 CAATCAAAGCAGTAGCAAAACA
1 CAACCAAAACAACAGCAAAACA
1628766 GCAAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.62, C:0.24, G:0.09, T:0.06
Consensus pattern (23 bp):
CAACCAAAACAACAGCAAAACAA
Found at i:1634252 original size:30 final size:32
Alignment explanation
Indices: 1634204--1634262 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
1634194 AGGGAGATGA
1634204 AGAAAGAAGACAAAAAAAG-CAAAAAAAAAAG
1 AGAAAGAAGACAAAAAAAGACAAAAAAAAAAG
* * *
1634235 AGAAATAA-ACAAGAAAAGACCAAAAAAA
1 AGAAAGAAGACAAAAAAAGACAAAAAAAA
1634263 GGGCATATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.02
Consensus pattern (32 bp):
AGAAAGAAGACAAAAAAAGACAAAAAAAAAAG
Found at i:1635741 original size:47 final size:45
Alignment explanation
Indices: 1635689--1637414 Score: 925
Period size: 47 Copynumber: 37.2 Consensus size: 45
1635679 TCTTACCAAA
*
1635689 CAAACTCTTTCCCTTTTCATTTGACTGTATTGGCGTTAGGACCTGGT
1 CAAACTCTTT--CTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * *
1635736 CAAACTC-TTCTTATTCCTATTTGACTGTATTGGTGTTAGAACCTGGT
1 CAAACTCTTTCTT-TT-C-GTTTGACTGTATTGGCGTTAGGACCTGGT
** * *
1635783 CAAACTCTTT-TTATCCTTATTTGACTATATTGGTGTTAGGACCTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * **
1635830 CAAACTCTTCTCATTTCATTTGACTATATTGGCATTAGGACCTAAT
1 CAAACTCTT-TCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * **
1635876 CAAATGTTTTTCTGCTT-GTTTGACTGTATTGGTGTTAAAACCTGGT
1 CAAA-CTCTTTCT-TTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* ** * * * *
1635922 CAAATTCCATC-CTT-ATTTGAATGTATTGGTGTTAGGACCTGG-
1 CAAACTCTTTCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
** * * *
1635964 CAAACTCTTCTCACATTCGTTTGACTCTATTGGTGTTAGGACCCGGT
1 CAAACTCTT-TC-TTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * *
1636011 CAAACTC-TTCTTATCCTTGTTTGACTGTATTGACGTTAGGACCTAGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * **
1636058 CAAACTC-TTCTTATCCTAGTTTGACTGTATTGCCTTTAGGATTTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * **
1636105 CAAACTCTTATCATTCTT-GTATAACTGTATTGGCATTAAAACCTGGT
1 CAAACTCTT-TC-TT-TTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636152 CAAACT-TTTCTCACATTT-GTTTGACTATATTGGCATTAAGACCTAGT
1 CAAACTCTTTCT----TTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * *
1636199 AAAACTC-TTCTTATCCTCATTTAATTGTATTGGCATTAGGACCTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
** * * * * * *
1636246 CAAACTCTTCTCACTTCATTTAATTATATTGGCGTTAAGACCTAGT
1 CAAACTCTT-TCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * *
1636292 CAAACT-TTTCTCACCTT-GTTTGACTATATTAGCATTAGGACCTAGT
1 CAAACTCTTTCT---TTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636338 TAAACTCTTAT-TATCCTCATTTGACTGTATTAGCGTTAGGACCTGGT
1 CAAACTCTT-TCT-T-TTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * *
1636385 CAAACTC-ATCTTATCCTCATTTGACTATATTAGTGTTAGGACCTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* *
1636432 CAAACTCTCTTTCTTCTT-GCTTGACTGTATTGGCATTAGGACCTGGT
1 CAAA--CTCTTTCTT-TTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636479 CAAACTCTTCTCACATTT-GTTTAACTGTATTGGCATTAGGACCTAGT
1 CAAACTCTT-T--CTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* **
1636526 CAAACTC-TTCTTCTCCTTGTTTGACTGTATTGGTATTAGGACCTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
** *
1636573 CAAACTCTTGTCACATTCGTTTGACTGTATTGGCATTAGGACCTGGT
1 CAAACTCTT-TC-TTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * *
1636620 AAAACTC-TTCTTATCCTCGTTTAACTGTATTGGCATTAGTACTTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636667 CAAACT-TTTCTCACTTCATTTAATTGTATTGGCGTTAGGACCTGGT
1 CAAACTCTTTCT--TTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
** *
1636713 CAAACT-TTTCTCACCTCGTTTGACTGTATTAGCGTTAGGACCTGGT
1 CAAACTCTTTCT--TTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
*
1636759 CAAACTC-TTCTTTCCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
1 CAAACTCTTTCTTT---TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636806 CAAACTCTTTTTATTCTCGTTTGACTATATTAGCATTAGGACCTGGT
1 CAAACTCTTTCT-TT-TCGTTTGACTGTATTGGCGTTAGGACCTGGT
** * * * * * **
1636853 CAAACTCTTCTCACATT-ATTTAACTGTATTAGCGTCAGGACTTAAT
1 CAAACTCTT-TC-TTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1636899 CAAACTC-TTCTTATCCTTGTTTGACTATATTGACGTTAGGACTTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
**
1636946 CAAACTCTTCTCACTTCGTTT-AGC-GTATTGGCGTTAGGACCTGGT
1 CAAACTCTT-TCTTTTCGTTTGA-CTGTATTGGCGTTAGGACCTGGT
** * *
1636991 CAAACT-TTTC-TCACGTTTGACTGTATTGGCATTAGAACCTGGT
1 CAAACTCTTTCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * * * *
1637034 TAAAATC-TTCTTATCCTAGTTTGACTATTTTGGCATTAGGACTTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * *
1637081 CAAACT-TTTCTTATCCTCATTTGACTGTGTTGGCATTAGGACCTGGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * * * * * *
1637128 CAAACTTTCTTATTCTCGTTTCATTATATTGCCATTAGGACTTGGT
1 CAAACTCT-TTCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * *
1637174 CAAACTC-TTCTAATATTCATTTGACTATATTGGCGTTAAGACCTAGT
1 CAAACTCTTTCT--T-TTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * *
1637221 TAAACTC-TTCTTATCCTCGTTTGACTGTATTTGCGTTAGGACCTAGT
1 CAAACTCTTTCTT-T--TCGTTTGACTGTATTGGCGTTAGGACCTGGT
** * * *
1637268 CAAACTCTTCTCACTTCGTTTGACTATATTGGCGTTAGGACTTGAT
1 CAAACTCTT-TCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
* * * * *
1637314 CAAACT-TTTCTTACCTCCTTTGACTTTATTGGCATT-GGAACTTGGT
1 CAAACTCTTTCTT--TTCGTTTGACTGTATTGGCGTTAGG-ACCTGGT
* * * * *
1637360 CTAATCCCTTTC-CTTCGTTTGACTGTATTGGCGTTAGGACTTGAT
1 C-AAACTCTTTCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
1637405 CAAACT-TTTC
1 CAAACTCTTTC
1637415 CACCCTTGCT
Statistics
Matches: 1335, Mismatches: 245, Indels: 202
0.75 0.14 0.11
Matches are distributed among these distances:
42 12 0.01
43 65 0.05
44 22 0.02
45 83 0.06
46 357 0.27
47 737 0.55
48 29 0.02
49 22 0.02
50 8 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (45 bp):
CAAACTCTTTCTTTTCGTTTGACTGTATTGGCGTTAGGACCTGGT
Found at i:1635989 original size:89 final size:92
Alignment explanation
Indices: 1635893--1636068 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 92
1635883 TTTTCTGCTT
* * **
1635893 GTTTGACTGTATTGGTGTTAAAACCTGGTCAAA-TTC-CATCCTTATTTGAATGTATTGGTGTTA
1 GTTTGACTCTATTGGTGTTAAAACCCGGTCAAACTTCTCATCCTTATTTGAATGTATTGACGTTA
1635956 GGACCT-GGCAAACTCTTCTCACATTC
66 GGACCTAGGCAAACTCTTCTCACATTC
** * * *
1635982 GTTTGACTCTATTGGTGTTAGGACCCGGTCAAACTCTTCTTATCCTTGTTTGACTGTATTGACGT
1 GTTTGACTCTATTGGTGTTAAAACCCGGTCAAA--CTTCTCATCCTTATTTGAATGTATTGACGT
*
1636047 TAGGACCTAGTCAAACTCTTCT
64 TAGGACCTAGGCAAACTCTTCT
1636069 TATCCTAGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
89 29 0.40
92 3 0.04
93 28 0.39
94 12 0.17
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (92 bp):
GTTTGACTCTATTGGTGTTAAAACCCGGTCAAACTTCTCATCCTTATTTGAATGTATTGACGTTA
GGACCTAGGCAAACTCTTCTCACATTC
Found at i:1636097 original size:94 final size:94
Alignment explanation
Indices: 1635708--1637632 Score: 1365
Period size: 94 Copynumber: 20.8 Consensus size: 94
1635698 TCCCTTTTCA
* * **
1635708 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTTATTCC-TATTTGACTGTATTGGTGT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCA-TCCTTGTTTGACTGTATTGGCAT
* *
1635772 TAGAACCTGGTCAAACTCTTTTTATCCTTA-
65 TAGGACCTGGTCAAACTCTTCTTATCC-TAG
* * * *
1635802 TTTGACTATATTGGTGTTAGGACCTGGTCAAACTCTTCTCAT--TTCATTTGACTATATTGGCAT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTT-GTTTGACTGTATTGGCAT
** * * * * *
1635865 TAGGACCTAATCAAA-TGTTTTTCTGCTTG
65 TAGGACCTGGTCAAACTCTTCTTATCCTAG
* ** * * **
1635894 TTTGACTGTATTGGTGTTAAAACCTGGTCAAA---TTC-CATCCTTATTTGAATGTATTGGTGTT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* * *
1635955 AGGACCTGG-CAAACTCTTCTCA-CATTCG
66 AGGACCTGGTCAAACTCTTCTTATC-CTAG
* * * * * *
1635983 TTTGACTCTATTGGTGTTAGGACCCGGTCAAACTCTTCTTATCCTTGTTTGACTGTATTGACGTT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
*
1636048 AGGACCTAGTCAAACTCTTCTTATCCTAG
66 AGGACCTGGTCAAACTCTTCTTATCCTAG
* * ** * * * *
1636077 TTTGACTGTATTGCCTTTAGGATTTGGTCAAACTCTTATCATTCTTGTATAACTGTATTGGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
** * * * *
1636142 AAAACCTGGTCAAACTTTTCTCA-CATTTG
66 AGGACCTGGTCAAACTCTTCTTATC-CTAG
* * * * * * ** * *
1636171 TTTGACTATATTGGCATTAAGACCTAGTAAAACTCTTCTTATCCTCATTTAATTGTATTGGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* *
1636236 AGGACCTGGTCAAACTCTTCTCA-CTTCA-
66 AGGACCTGGTCAAACTCTTCTTATCCT-AG
* * * * * * * *
1636264 TTTAATTATATTGGCGTTAAGACCTAGTCAAACTTTTCTCA-CCTTGTTTGACTATATTAGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* * *
1636328 AGGACCTAGTTAAACTCTTATTATCCTCA-
66 AGGACCTGGTCAAACTCTTCTTATCCT-AG
* * * ** * * **
1636357 TTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCATCTTATCCTCATTTGACTATATTAGTGTT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
*
1636422 AGGACCTGGTCAAACTC-TCTT-TCTTCTTG
66 AGGACCTGGTCAAACTCTTCTTATC--CTAG
* * * *
1636451 CTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCA-CATTTGTTTAACTGTATTGGCAT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATC-CTTGTTTGACTGTATTGGCAT
* * *
1636515 TAGGACCTAGTCAAACTCTTCTTCTCCTTG
65 TAGGACCTGGTCAAACTCTTCTTATCCTAG
** * *
1636545 TTTGACTGTATTGGTATTAGGACCTGGTCAAACTCTTGTCA-CATTCGTTTGACTGTATTGGCAT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTT-GTTTGACTGTATTGGCAT
* *
1636609 TAGGACCTGGTAAAACTCTTCTTATCCTCG
65 TAGGACCTGGTCAAACTCTTCTTATCCTAG
* * * * * * * * *
1636639 TTTAACTGTATTGGCATTAGTACTTGGTCAAACTTTTCTCA--CTTCATTTAATTGTATTGGCGT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTT-GTTTGACTGTATTGGCAT
* * *
1636702 TAGGACCTGGTCAAACTTTTCTCA-CCTCG
65 TAGGACCTGGTCAAACTCTTCTTATCCTAG
* * *
1636731 TTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT-TTCCCTCGTTTGACTGTATTGGCAT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCAT-CCTTGTTTGACTGTATTGGCAT
* * *
1636795 TAGGACCTGGTCAAACTCTTTTTATTCTCG
65 TAGGACCTGGTCAAACTCTTCTTATCCTAG
* * * * * * * * *
1636825 TTTGACTATATTAGCATTAGGACCTGGTCAAACTCTTCTCA-CATTATTTAACTGTATTAGCGTC
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* ** *
1636889 AGGACTTAATCAAACTCTTCTTATCCTTG
66 AGGACCTGGTCAAACTCTTCTTATCCTAG
* * * *
1636918 TTTGACTATATTGACGTTAGGACTTGGTCAAACTCTTCTCA--CTTCGTTT-AGC-GTATTGGCG
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTT-GTTTGA-CTGTATTGGCA
* *
1636979 TTAGGACCTGGTCAAACTTTTCTCA--C--G
64 TTAGGACCTGGTCAAACTCTTCTTATCCTAG
* * * * * * * *
1637006 TTTGACTGTATTGGCATTAGAACCTGGTTAAAATCTTCTTATCCTAGTTTGACTATTTTGGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* *
1637071 AGGACTTGGTCAAACTTTTCTTATCCTCA-
66 AGGACCTGGTCAAACTCTTCTTATCCT-AG
* * * * * * * * *
1637100 TTTGACTGTGTTGGCATTAGGACCTGGTCAAACT-TTCTTATTCTCGTTTCATTATATTGCCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* *
1637164 AGGACTTGGTCAAACTCTTCTAATATTC-A-
66 AGGACCTGGTCAAACTCTTCT--TATCCTAG
* * * * * * * *
1637193 TTTGACTATATTGGCGTTAAGACCTAGTTAAACTCTTCTTATCCTCGTTTGACTGTATTTGCGTT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* * * *
1637258 AGGACCTAGTCAAACTCTTCTCA-CTTCG
66 AGGACCTGGTCAAACTCTTCTTATCCTAG
* * * * * ** *
1637286 TTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTTA-CCTCCTTTGACTTTATTGGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* * * *
1637350 -GGAACTTGGTCTAA-TC-CCTT-TCCTTCG
66 AGG-ACCTGGTCAAACTCTTCTTATCC-TAG
* * * * * *
1637377 TTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTC-CACCCTTGCTTGATTGTATTGGCATT
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
* * * * * *
1637441 AGGACCTGATCTAACTTTTCTCAT-TTCAA
66 AGGACCTGGTCAAACTCTTCTTATCCT-AG
* ** * * * * * *
1637470 TTTGA-GGTA-T-G-GTTACCAACCTGGCCAGATTCTTTTCAT-TTTGATTTGAC-GTA-TAG--
1 TTTGACTGTATTGGCGTTA-GGACCTGGTCAAACTCTTCTCATCCTTG-TTTGACTGTATTGGCA
** * *
1637526 TTACCACCTTGGTCAAA-TC-CCTT-TCCTCG
64 TTAGGACC-TGGTCAAACTCTTCTTATCCTAG
* * * *
1637555 TTTAACTGTATTGGCGTTAGGACCTGATCAAACTTTTTTCCA-CCTTCGTTTGACTGTATTGGCA
1 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCT-CATCCTT-GTTTGACTGTATTGGCA
1637619 TTAGGACCTGGTCA
64 TTAGGACCTGGTCA
1637633 GACTTTTTTC
Statistics
Matches: 1449, Mismatches: 312, Indels: 142
0.76 0.16 0.07
Matches are distributed among these distances:
85 5 0.00
86 6 0.00
87 8 0.01
88 61 0.04
89 84 0.06
90 60 0.04
91 81 0.06
92 189 0.13
93 411 0.28
94 533 0.37
95 9 0.01
96 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (94 bp):
TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCATCCTTGTTTGACTGTATTGGCATT
AGGACCTGGTCAAACTCTTCTTATCCTAG
Found at i:1636555 original size:421 final size:418
Alignment explanation
Indices: 1635708--1637448 Score: 1713
Period size: 421 Copynumber: 4.2 Consensus size: 418
1635698 TCCCTTTTCA
* * * **
1635708 TTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCT--TATTCCTATTTGACTGTATTGGTG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATT--TGTTTGACTGTATTGGCA
* * * * **
1635771 TTAGAACCTGGTCAAACTCTTTTTATCCTTATTTGACTATATTGGTGTTAGGACCTGGTCAAACT
64 TTAGAACCTGGTAAAACTCTTCTTATCCTCATTTAACTATATTGGCATTAGGACCTGGTCAAACT
* * * * ** *
1635836 CTTCTCATTTCATTTGACTATATTGGCATTAGGACCTAATCAAA-TGTTTTTCTGCTTGTTTGAC
129 CTTCTCACTTCATTTAACTATATTGGCATTAGGACCTAGTCAAACT-TTTCTCACCTCGTTTGAC
* * ** ** * * * *
1635900 TGTATTGGTGTTAAAACCTGGTCAAA---TTC-CATCCTTATTTGAATGTATTGGTGTTAGGACC
193 TATATTAGCATTAGGACCTGGTCAAACTCTTCTTATCCTCATTTGACTGTATTGGCGTTAGGACC
* * * * * * *
1635961 TGG-CAAACTCTTCTCA-CATTCGTTTGACTCTATTGGTGTTAGGACCCGGTCAAACTCTTCTTA
258 TGGTCAAACTCTTCTTATC-CTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCTTCTCA
* * *
1636024 TCCTTGTTTGACTGTATTGACGTTAGGACCTAGTCAAACTCTTCTTATCCTAGTTTGACTGTATT
322 --CTTGTTTGACTGTATTGGCGTTAGGACCTAATCAAACTCTTCTTATCCTTGTTTGACTGTATT
* * * * *
1636089 GCCTTTAGGATTTGGTCAAACTCTTATCATTCTTG
385 GACATTAGGACTTGGTCAAACTCTTCTC-TACTTG
* * ** * *
1636124 TATAACTGTATTGGCATTAAAACCTGGTCAAACTTTTCTCACATTTGTTTGACTATATTGGCATT
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGCATT
* * *
1636189 A-AGACCTAGTAAAACTCTTCTTATCCTCATTTAATTGTATTGGCATTAGGACCTGGTCAAACTC
66 AGA-ACCTGGTAAAACTCTTCTTATCCTCATTTAACTATATTGGCATTAGGACCTGGTCAAACTC
* * * *
1636253 TTCTCACTTCATTTAATTATATTGGCGTTAAGACCTAGTCAAACTTTTCTCACCTTGTTTGACTA
130 TTCTCACTTCATTTAACTATATTGGCATTAGGACCTAGTCAAACTTTTCTCACCTCGTTTGACTA
* * * *
1636318 TATTAGCATTAGGACCTAGTTAAACTCTTATTATCCTCATTTGACTGTATTAGCGTTAGGACCTG
195 TATTAGCATTAGGACCTGGTCAAACTCTTCTTATCCTCATTTGACTGTATTGGCGTTAGGACCTG
* * * * *
1636383 GTCAAACTCATCTTATCCTCATTTGACTATATTAGTGTTAGGACCTGGTCAAACTCTCTTTCTTC
260 GTCAAACTCTTCTTATCCTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCT-TCTC-AC
* * ** * * * *
1636448 TTGCTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCA-CATTTGTTTAACTGTATTGG
323 TTGTTTGACTGTATTGGCGTTAGGACCTAATCAAACTCTTCTTATC-CTTGTTTGACTGTATTGA
* * *
1636512 CATTAGGACCTAGTCAAACTCTTCTTCTCCTTG
387 CATTAGGACTTGGTCAAACTCTTC-TCTACTTG
* * *
1636545 TTTGACTGTATTGGTATTAGGACCTGGTCAAACTCTTGTCACATTCGTTTGACTGTATTGGCATT
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGCATT
* * * * * *
1636610 AGGACCTGGTAAAACTCTTCTTATCCTCGTTTAACTGTATTGGCATTAGTACTTGGTCAAACTTT
66 AGAACCTGGTAAAACTCTTCTTATCCTCATTTAACTATATTGGCATTAGGACCTGGTCAAACTCT
* * * * *
1636675 TCTCACTTCATTTAATTGTATTGGCGTTAGGACCTGGTCAAACTTTTCTCACCTCGTTTGACTGT
131 TCTCACTTCATTTAACTATATTGGCATTAGGACCTAGTCAAACTTTTCTCACCTCGTTTGACTAT
* * *
1636740 ATTAGCGTTAGGACCTGGTCAAACTCTTCTT-TCCCTCGTTTGACTGTATTGGCATTAGGACCTG
196 ATTAGCATTAGGACCTGGTCAAACTCTTCTTAT-CCTCATTTGACTGTATTGGCGTTAGGACCTG
* * *
1636804 GTCAAACTCTTTTTATTCTCGTTTGACTATATTAGCATTAGGACCTGGTCAAACTCTTCTCACAT
260 GTCAAACTCTTCTTATCCTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCTTCTCAC-T
* * * * * * *
1636869 TATTTAACTGTATTAGCGTCAGGACTTAATCAAACTCTTCTTATCCTTGTTTGACTATATTGACG
324 TGTTTGACTGTATTGGCGTTAGGACCTAATCAAACTCTTCTTATCCTTGTTTGACTGTATTGACA
1636934 TTAGGACTTGGTCAAACTCTTCTC-ACTTCG
389 TTAGGACTTGGTCAAACTCTTCTCTACTT-G
* *
1636964 TTT-AGC-GTATTGGCGTTAGGACCTGGTCAAACTTTTCTCAC----GTTTGACTGTATTGGCAT
1 TTTGA-CTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGCAT
* * *
1637023 TAGAACCTGGTTAAAA-TCTTCTTATCCT-AGTTTGACTATTTTGGCATTAGGACTTGGTCAAAC
65 TAGAACCTGG-TAAAACTCTTCTTATCCTCA-TTTAACTATATTGGCATTAGGACCTGGTCAAAC
* * * * * * * * * *
1637086 TTTTCTTATCCTCATTTGACTGTGTTGGCATTAGGACCTGGTCAAAC-TTTCTTATTCTCGTTTC
128 TCTTCTCA-CTTCATTTAACTATATTGGCATTAGGACCTAGTCAAACTTTTCTCA-CCTCGTTTG
* * * ** * *
1637150 ATTATATT-GCCATTAGGACTTGGTCAAACTCTTCTAATATTCATTTGACTATATTGGCGTTAAG
191 ACTATATTAG-CATTAGGACCTGGTCAAACTCTTCTTATCCTCATTTGACTGTATTGGCGTTAGG
* * * * *
1637214 ACCTAGTTAAACTCTTCTTATCCTCGTTTGACTGTATTTGCGTTAGGACCTAGTCAAACTCTTCT
255 ACCTGGTCAAACTCTTCTTATCCTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * * * ** *
1637279 CACTTCGTTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTTA-CCTCCTTTGACTTTAT
320 CACTT-GTTTGACTGTATTGGCGTTAGGACCTAATCAAACTCTTCTTATCCTTGTTTGACTGTAT
* * *
1637343 TGGCATT-GGAACTTGGTCTAATCCCTT-TC--CTTCG
384 TGACATTAGG-ACTTGGTC-AAACTCTTCTCTACTT-G
* * * * ** * *
1637377 TTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTC-CACCCTTGCTTGATTGTATTGGCATT
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGCATT
*
1637441 AGGACCTG
66 AGAACCTG
1637449 ATCTAACTTT
Statistics
Matches: 1111, Mismatches: 179, Indels: 69
0.82 0.13 0.05
Matches are distributed among these distances:
413 14 0.01
414 142 0.13
415 196 0.18
416 173 0.16
417 25 0.02
418 38 0.03
419 10 0.01
420 104 0.09
421 404 0.36
422 5 0.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (418 bp):
TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGCATT
AGAACCTGGTAAAACTCTTCTTATCCTCATTTAACTATATTGGCATTAGGACCTGGTCAAACTCT
TCTCACTTCATTTAACTATATTGGCATTAGGACCTAGTCAAACTTTTCTCACCTCGTTTGACTAT
ATTAGCATTAGGACCTGGTCAAACTCTTCTTATCCTCATTTGACTGTATTGGCGTTAGGACCTGG
TCAAACTCTTCTTATCCTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCTTCTCACTTG
TTTGACTGTATTGGCGTTAGGACCTAATCAAACTCTTCTTATCCTTGTTTGACTGTATTGACATT
AGGACTTGGTCAAACTCTTCTCTACTTG
Found at i:1637454 original size:91 final size:91
Alignment explanation
Indices: 1637281--1637454 Score: 239
Period size: 91 Copynumber: 1.9 Consensus size: 91
1637271 ACTCTTCTCA
*
1637281 CTTCGTTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTTACCTCCTTTGACTTTATTGG
1 CTTCGTTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTCACCTCCTTTGACTTTATTGG
* *
1637346 CATTGGAACTTGGTCTAATCCCTTTC
66 CATTGGAACCTGATCTAATCCCTTTC
* *
1637372 CTTCGTTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTC-CACC-CTTGCTTGA-TTGTAT
1 CTTCGTTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTCACCTCCT--TTGACTT-TAT
1637434 TGGCATTAGG-ACCTGATCTAA
63 TGGCATT-GGAACCTGATCTAA
1637455 CTTTTCTCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
89 2 0.03
90 5 0.07
91 65 0.88
92 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (91 bp):
CTTCGTTTGACTATATTGGCGTTAGGACTTGATCAAACTTTTCTCACCTCCTTTGACTTTATTGG
CATTGGAACCTGATCTAATCCCTTTC
Found at i:1637667 original size:180 final size:177
Alignment explanation
Indices: 1637354--1637890 Score: 627
Period size: 180 Copynumber: 3.0 Consensus size: 177
1637344 GGCATTGGAA
*
1637354 CTTGGTCTAATCCCTTTCCTTCGTTTGACTGTATTGGCGTTAGGACTTGATCAAAC-TTTTCCAC
1 CTTGGTCAAATCCCTTTCC-TCGTTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTTCCA-
* * * *
1637418 CCTT-GCTTGATTGTATTGGCATTAGGACCTGATCTAACTTTTCTCATTTCAATTTGAGGTATGG
64 CCTTCGTTTGACTGTATTGGCATTAGGACCTGATC-AACTTTTTTCATTTCAATTT-AAGTATGG
*
1637482 TTACCAACCTGGCCAGATTCTTTTCATTTTGATTTGACGTATAGTTACCAC
127 TTACCAACCTGGTCAGATTCTTTTCATTTTGATTTGACGTATAGTTACCAC
* *
1637533 CTTGGTCAAATCCCTTTCCTCGTTTAACTGTATTGGCGTTAGGACCTGATCAAACTTTTTTCCAC
1 CTTGGTCAAATCCCTTTCCTCGTTTGACTGTATTGGCGTTAGGACTTGATCAAAC-TTTTTCCAC
* * * * *
1637598 CTTCGTTTGACTGTATTGGCATTAGGACCTGGTCAGACTTTTTTCATTTCAGTCTAACATATAGT
65 CTTCGTTTGACTGTATTGGCATTAGGACCTGATCA-ACTTTTTTCATTTCAATTTAA-GTATGGT
* * * * *
1637663 TACCACCCTAGTTAGATTCTTCTT-ATTTTGATTTGACATATAGTGACCAC
128 TACCAACCTGGTCAGATTCTT-TTCATTTTGATTTGACGTATAGTTACCAC
* * * * * ** * * *
1637713 CCTAGTCAAATCCCTTTACTCATTTGACTATATTGATGTTAAGACTTGGTCAAACTCTTTCCACC
1 CTTGGTCAAATCCCTTTCCTCGTTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTTCCACC
* *
1637778 CTCCTTTGACTGTATTGGCATTAGGACCTGATCAAACTTTTCTT-A-TTCAATTTGAAGTATGGT
66 TTCGTTTGACTGTATTGGCATTAGGACCTGATC-AACTTTT-TTCATTTCAATTT-AAGTATGGT
* * *
1637841 TACC-ACCTTGGTCAGATTCTTCTCATTTTGATTTAACGTATGGTTACCAC
128 TACCAACC-TGGTCAGATTCTTTTCATTTTGATTTGACGTATAGTTACCAC
1637891 GATGGTTTAA
Statistics
Matches: 302, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
177 3 0.01
178 82 0.27
179 72 0.24
180 143 0.47
181 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (177 bp):
CTTGGTCAAATCCCTTTCCTCGTTTGACTGTATTGGCGTTAGGACTTGATCAAACTTTTTCCACC
TTCGTTTGACTGTATTGGCATTAGGACCTGATCAACTTTTTTCATTTCAATTTAAGTATGGTTAC
CAACCTGGTCAGATTCTTTTCATTTTGATTTGACGTATAGTTACCAC
Found at i:1637884 original size:44 final size:44
Alignment explanation
Indices: 1637835--1638604 Score: 353
Period size: 44 Copynumber: 17.5 Consensus size: 44
1637825 CAATTTGAAG
* * *
1637835 TATGGTTACCACCTTGGTCAGATTCTTCTCATTTTGATTTAACG
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
** ** * * * * *
1637879 TATGGTTACCACGATGGTTTAATCCTTTTCCTATCTG-TTTAACG
1 TATGGTTACCACCCTGGTCAAATTCTTCTCAT-TTTGATTTAACA
* * * *
1637923 TATGGTTACCACCATGATCAAATTTTTCTCATTTT-AGTCTAACA
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGA-TTTAACA
* *
1637967 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACA
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
* * * * *
1638011 TATGGTTACCACCTTGGTCAAATCCCTT-TCCTTTCTG-TTTGACG
1 TATGGTTACCACCCTGGTCAAAT-TCTTCTCATTT-TGATTTAACA
* * * *
1638055 TGTGGTTACCACCCTAGTCAAACTT-TTCTCATTTT-AGTCTAATA
1 TATGGTTACCACCCTGGTCAAA-TTCTTCTCATTTTGA-TTTAACA
* * * * *
1638099 TATGGTTACCACCCTAGTCAAATGCTTTTTATTTTGATTTGACA
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
* * * * *
1638143 TATAGTTACCACCCTGGTCAAATCCCTT-TCCTTTCTG-TTTGACG
1 TATGGTTACCACCCTGGTCAAAT-TCTTCTCATTT-TGATTTAACA
* * * *
1638187 TATGGTTACCACCCTAGTCAAACTT-TTCTCA-TTTCAGTATGACA
1 TATGGTTACCACCCTGGTCAAA-TTCTTCTCATTTTGA-TTTAACA
* * * * *
1638231 TATGATTACCACCCTAGTGAGATTCTTTTCATTTTGATTTAACA
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
* * * * *
1638275 TATGGTTACTACCCTGGTCAAATCCCTT-TCCTTTTTG-TTTGACG
1 TATGGTTACCACCCTGGTCAAAT-TCTTCT-CATTTTGATTTAACA
** * * * * * **
1638319 TATGGTTACCAAGCTAGTTAAACTT-TTCTCA-TTTCAGTCAGATG
1 TATGGTTACCACCCTGGTCAAA-TTCTTCTCATTTTGATTTA-ACA
* * * **
1638363 TATGGTTACCACCCTAGTCAGATTCTTCTCATTTAGATTTGTCA
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
* * * * * * * **
1638407 TATGGTTACTAACTTGGTTAAATCCCTT-TCCTTTCTG-TTTGATG
1 TATGGTTACCACCCTGGTCAAAT-TCTTCTCATTT-TGATTTAACA
* * * * **
1638451 TATGGTTACCACCCTAGTCAAA-TCTTTTTCCTTTATG-TTTGATG
1 TATGGTTACCACCCTGGTCAAATTC-TTCTCATTT-TGATTTAACA
* * * * * **
1638495 TATGGTTACCACCCTAGTCAAATCCTTTTCCTTTCTG-TTTGATG
1 TATGGTTACCACCCTGGTCAAATTCTTCTCATTT-TGATTTAACA
* * *
1638539 TATAGG-TACCTCCCTGGTCAAATCCTCTTC-C-TTTCT-ATTTGACG
1 TAT-GGTTACCACCCTGGTCAAAT--TCTTCTCATTT-TGATTTAACA
*
1638583 TATGGTTACCACCCTAGTCAAA
1 TATGGTTACCACCCTGGTCAAA
1638605 CCCTTCTAAC
Statistics
Matches: 558, Mismatches: 130, Indels: 76
0.73 0.17 0.10
Matches are distributed among these distances:
42 5 0.01
43 22 0.04
44 485 0.87
45 43 0.08
46 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (44 bp):
TATGGTTACCACCCTGGTCAAATTCTTCTCATTTTGATTTAACA
Found at i:1638001 original size:132 final size:132
Alignment explanation
Indices: 1637835--1638605 Score: 894
Period size: 132 Copynumber: 5.8 Consensus size: 132
1637825 CAATTTGAAG
* * * * * ** **
1637835 TATGGTTACCACCTTGGTCAGATTCTTCTCATTTTGATTTAACGTATGGTTACCACGATGGTTTA
1 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCCTGGTCAA
* * * * *
1637900 ATCCTTTTCCTATCTGTTTAACGTATGGTTACCACCAT-GATCAAATTTTTCTCATTTTAGTCTA
66 ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAG-TCAAACTTTTCTCATTTTAGTCTA
*
1637964 ACA
130 ATA
*
1637967 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCTTGGTCAA
1 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCCTGGTCAA
*
1638032 ATCCCTTTCCTTTCTGTTTGACGTGTGGTTACCACCCTAGTCAAACTTTTCTCATTTTAGTCTAA
66 ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTCATTTTAGTCTAA
1638097 TA
131 TA
* * * *
1638099 TATGGTTACCACCCTAGTCAAATGCTTTTTATTTTGATTTGACATATAGTTACCACCCTGGTCAA
1 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCCTGGTCAA
* * *
1638164 ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTCATTTCAGTATGA
66 ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTCATTTTAGTCTAA
*
1638229 CA
131 TA
* * * *
1638231 TATGATTACCACCCTAGTGAGATTCTT-TTCATTTTGATTTAACATATGGTTACTACCCTGGTCA
1 TATGGTTACCACCCTAGTCAAATTCTTCTT-ATTTTGATTTAACATATGGTTACCACCCTGGTCA
* ** * *
1638295 AATCCCTTTCCTTTTTGTTTGACGTATGGTTACCAAGCTAGTTAAACTTTTCTCATTTCAGTC-A
65 AATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTCATTTTAGTCTA
*
1638359 GATG
130 -ATA
* * * ** * * * *
1638363 TATGGTTACCACCCTAGTCAGATTCTTCTCATTTAGATTTGTCATATGGTTACTAACTTGGTTAA
1 TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCCTGGTCAA
* * *
1638428 ATCCCTTTCCTTTCTGTTTGATGTATGGTTACCACCCTAGTCAAATCTTTT-TC-CTTTATGTTT
66 ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAA-CTTTTCTCATTTTA-GTCT
* *
1638491 GATG
129 AATA
* * * ** *
1638495 TATGGTTACCACCCTAGTCAAATCCTT-TTCCTTTCTG-TTTGATGTATAGG-TACCTCCCTGGT
1 TATGGTTACCACCCTAGTCAAATTCTTCTT-ATTT-TGATTTAACATAT-GGTTACCACCCTGGT
*
1638557 CAAAT-CCTCTTCCTTTCTATTTGACGTATGGTTACCACCCTAGTCAAAC
63 CAAATCCCT-TTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAAC
1638606 CCTTCTAACC
Statistics
Matches: 554, Mismatches: 74, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
131 10 0.02
132 534 0.96
133 10 0.02
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (132 bp):
TATGGTTACCACCCTAGTCAAATTCTTCTTATTTTGATTTAACATATGGTTACCACCCTGGTCAA
ATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTCATTTTAGTCTAA
TA
Found at i:1638774 original size:42 final size:42
Alignment explanation
Indices: 1638717--1638989 Score: 201
Period size: 42 Copynumber: 6.5 Consensus size: 42
1638707 ACCAACCGGT
* * * *
1638717 TTTGACCTTAAAGACTTTTTCATCTTTAGTCTGGTTGTCGGT
1 TTTGACCTTAGAGACTTTTTCACCTTTAGTCTGCTTGTCGGC
* * ** * * * **
1638759 TTTGACCTTGGAGACTTCCTT-ATGTTTAGTCTACCTATCATC
1 TTTGACCTTAGAGACTT-TTTCACCTTTAGTCTGCTTGTCGGC
* * * *
1638801 TTTGACCTTAGAGACCTTCTCACCTTTAGTTTGCTTGTCAGC
1 TTTGACCTTAGAGACTTTTTCACCTTTAGTCTGCTTGTCGGC
* * * *
1638843 TTTGACCTTGGAGACTTTCTCACCTTTAGTCTGCCTATCGGC
1 TTTGACCTTAGAGACTTTTTCACCTTTAGTCTGCTTGTCGGC
* * **
1638885 TTTGACCTTAGAGA-TTTCCTT-ACATTTAGTCTACTTGTCAAC
1 TTTGACCTTAGAGACTTT--TTCACCTTTAGTCTGCTTGTCGGC
* * * * *
1638927 TTTGACTTTGGAGACTTTTTCACCTTTTGTCTACTTGTCGAC
1 TTTGACCTTAGAGACTTTTTCACCTTTAGTCTGCTTGTCGGC
**
1638969 TTTGACCCGAGAGACTATTTT
1 TTTGACCTTAGAGACT-TTTT
1638990 TTCTTTTGTT
Statistics
Matches: 179, Mismatches: 45, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
41 6 0.03
42 163 0.91
43 10 0.06
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTGACCTTAGAGACTTTTTCACCTTTAGTCTGCTTGTCGGC
Found at i:1638828 original size:84 final size:84
Alignment explanation
Indices: 1638717--1638960 Score: 256
Period size: 84 Copynumber: 2.9 Consensus size: 84
1638707 ACCAACCGGT
* * * * * * * * *
1638717 TTTGACCTTAAAGACTTTTTCATCTTTAGTCTGGTTGTCGGTTTTGACCTTGGAGACTTCCTTAT
1 TTTGACCTTAGAGACCTTCTCACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTCCTCAC
* *
1638782 GTTTAGTCTACCTATCATC
66 CTTTAGTCTACCTATCAGC
* *
1638801 TTTGACCTTAGAGACCTTCTCACCTTTAGTTTGCTTGTCAGCTTTGACCTTGGAGACTTTCTCAC
1 TTTGACCTTAGAGACCTTCTCACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTCCTCAC
* *
1638866 CTTTAGTCTGCCTATCGGC
66 CTTTAGTCTACCTATCAGC
* * * * * * **
1638885 TTTGACCTTAGAGA-TTTCCTTACATTTAGTCTACTTGTCAACTTTGACTTTGGAGACTTTTTCA
1 TTTGACCTTAGAGACCTT-CTCACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTCCTCA
*
1638949 CCTTTTGTCTAC
65 CCTTTAGTCTAC
1638961 TTGTCGACTT
Statistics
Matches: 134, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
83 2 0.01
84 132 0.99
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (84 bp):
TTTGACCTTAGAGACCTTCTCACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTCCTCAC
CTTTAGTCTACCTATCAGC
Found at i:1638904 original size:126 final size:126
Alignment explanation
Indices: 1638717--1638975 Score: 304
Period size: 126 Copynumber: 2.1 Consensus size: 126
1638707 ACCAACCGGT
* * ** * * * *
1638717 TTTGACCTTAAAGACTTTTTCATCTTTAGTCTGGTTGTCGGTTTTGACCTTGGAGACTTCCTTAT
1 TTTGACCTTAAAGACTTTCTCACCTTTAGTCTGCCTATCGGCTTTGACCTTAGAGACTTCCTTAC
* * * *
1638782 GTTTAGTCTACCTATCATCTTTGACCTTAGAGACCTTCTCACCTTTAGTTTGCTTGTC-AGC
66 ATTTAGTCTACCTATCAACTTTGACCTTAGAGACCTTCTCACCTTTAGTCTACTTGTCGA-C
** *
1638843 TTTGACCTTGGAGACTTTCTCACCTTTAGTCTGCCTATCGGCTTTGACCTTAGAGATTTCCTTAC
1 TTTGACCTTAAAGACTTTCTCACCTTTAGTCTGCCTATCGGCTTTGACCTTAGAGACTTCCTTAC
* * * * * * *
1638908 ATTTAGTCTACTTGTCAACTTTGACTTTGGAGACTTTTTCACCTTTTGTCTACTTGTCGAC
66 ATTTAGTCTACCTATCAACTTTGACCTTAGAGACCTTCTCACCTTTAGTCTACTTGTCGAC
1638969 TTTGACC
1 TTTGACC
1638976 CGAGAGACTA
Statistics
Matches: 110, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
126 109 0.99
127 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (126 bp):
TTTGACCTTAAAGACTTTCTCACCTTTAGTCTGCCTATCGGCTTTGACCTTAGAGACTTCCTTAC
ATTTAGTCTACCTATCAACTTTGACCTTAGAGACCTTCTCACCTTTAGTCTACTTGTCGAC
Found at i:1639978 original size:12 final size:12
Alignment explanation
Indices: 1639961--1640002 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
1639951 CTATTGAGAT
1639961 GCAATGAAGAAA
1 GCAATGAAGAAA
1639973 GCAATGAAGCAAA
1 GCAATGAAG-AAA
*
1639986 TGCAATGAAGAAG
1 -GCAATGAAGAAA
1639999 GCAA
1 GCAA
1640003 CAGTAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 5 0.19
14 9 0.33
ACGTcount: A:0.52, C:0.12, G:0.26, T:0.10
Consensus pattern (12 bp):
GCAATGAAGAAA
Found at i:1639992 original size:14 final size:13
Alignment explanation
Indices: 1639959--1639997 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
1639949 AACTATTGAG
1639959 ATGCAATGAAGAA
1 ATGCAATGAAGAA
1639972 A-GCAATGAAGCAA
1 ATGCAATGAAG-AA
1639985 ATGCAATGAAGAA
1 ATGCAATGAAGAA
1639998 GGCAACAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.38
13 6 0.25
14 9 0.38
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.13
Consensus pattern (13 bp):
ATGCAATGAAGAA
Found at i:1640085 original size:13 final size:13
Alignment explanation
Indices: 1640054--1640093 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
1640044 CAACATGAAA
*
1640054 GAAA-CAACAACT
1 GAAAGCAACAAAT
1640066 G-AAGCAACAAAT
1 GAAAGCAACAAAT
1640078 GAAAGCAAC-AAT
1 GAAAGCAACAAAT
1640090 GAAA
1 GAAA
1640094 CTACTACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 2 0.08
12 16 0.64
13 7 0.28
ACGTcount: A:0.60, C:0.17, G:0.15, T:0.07
Consensus pattern (13 bp):
GAAAGCAACAAAT
Found at i:1640502 original size:24 final size:23
Alignment explanation
Indices: 1640440--1640529 Score: 90
Period size: 23 Copynumber: 3.9 Consensus size: 23
1640430 TAATCGAAGT
*
1640440 AACCAAAATAGCAGCAAAAGAAC
1 AACCAAAATAGCAGCAAAAAAAC
*
1640463 AACCAAAACAGCAGCAAAACAAAC
1 AACCAAAATAGCAGCAAAA-AAAC
* * * *
1640487 AACCAAAGTAGTAGCAAAATAGC
1 AACCAAAATAGCAGCAAAAAAAC
** *
1640510 AAAAAAAATAACAGCAAAAA
1 AACCAAAATAGCAGCAAAAA
1640530 CAGTAAGCTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 34 0.64
24 19 0.36
ACGTcount: A:0.63, C:0.20, G:0.11, T:0.06
Consensus pattern (23 bp):
AACCAAAATAGCAGCAAAAAAAC
Found at i:1641245 original size:13 final size:13
Alignment explanation
Indices: 1641227--1641254 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1641217 TTCGTAAGGG
1641227 AATAAAATTTTTT
1 AATAAAATTTTTT
1641240 AATAAAATTTTTT
1 AATAAAATTTTTT
1641253 AA
1 AA
1641255 AACCTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATAAAATTTTTT
Found at i:1643982 original size:51 final size:51
Alignment explanation
Indices: 1643887--1644006 Score: 127
Period size: 51 Copynumber: 2.4 Consensus size: 51
1643877 TTTTCATCTT
* **
1643887 GGGGATACTCCAATCCCGATTTCATTTCCAAAACCTCAATTTTTCTTAATC
1 GGGGATACTCCAATCCCGATTTCATTTCCAAAACCTCAACTTTTCACAATC
* * * *
1643938 GGGGATACTCTAA-CTCCGATTTTATTTCTAAAACAC-CGACTTTTCACAATC
1 GGGGATACTCCAATC-CCGATTTCATTTCCAAAAC-CTCAACTTTTCACAATC
* *
1643989 GAGGATACTCCAACCCCG
1 GGGGATACTCCAATCCCG
1644007 TTATTTTTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
50 1 0.02
51 54 0.95
52 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAATCCCGATTTCATTTCCAAAACCTCAACTTTTCACAATC
Found at i:1644168 original size:79 final size:79
Alignment explanation
Indices: 1644085--1644349 Score: 270
Period size: 79 Copynumber: 3.3 Consensus size: 79
1644075 CAACCCCGAC
* *
1644085 TTTATTTCTAAAATATTAATTTCTCATAATTGGGGATACTCTAACCCCGTTATTTCCGAGGGGAT
1 TTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
1644150 ACTTCAACCTCGGT
66 ACTTCAACCTCGGT
* ** * *
1644164 TTTATTTCTAAAACACCAAATTT-TCATAATCGGGGATAATCCAACCCCATTATTTCCGAGGGGA
1 TTTATTTCTAAAATA-TTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
1644228 TACTCCAATCCT-GAT
65 TACTTCAA-CCTCGGT
* * * * * * *
1644243 TTTATTTCT-AAATCATTGATTTTTAACAATCGGGGATACTCCAATCCTGTTATTTTCGAGGGGA
1 TTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
*
1644307 TAC-TCTAACC-CCGT
65 TACTTC-AACCTCGGT
* *
1644321 TATTATCTCCAAAATATTAAATTTCTCAT
1 T-TTATTTCTAAAATATT-AATTTCTCAT
1644350 CGGGAGATGT
Statistics
Matches: 148, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
78 12 0.08
79 118 0.80
80 18 0.12
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
ACTTCAACCTCGGT
Found at i:1644217 original size:127 final size:126
Alignment explanation
Indices: 1643991--1644219 Score: 318
Period size: 127 Copynumber: 1.8 Consensus size: 126
1643981 TCACAATCGA
** *
1643991 GGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCAA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACACCAA
* *
1644056 TTTTTCATCAGGGATACCCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATTGG
66 TTTTTAATCAGGGATAACCCAACCCCGAC-TTATTTCTAAAATATTAATTTCTCATAATTGG
* * *
1644118 GGATACTCTAACCCCGTTATTTCCGAGGGGATACTTCAACCTCGGTTTTATTTCTAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACACC-A
* *
1644183 ATTTTCATAATCGGGGATAATCCAACCCC-A-TTATTTC
65 ATTTT--TAATCAGGGATAACCCAACCCCGACTTATTTC
1644220 CGAGGGGATA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
127 64 0.72
128 6 0.07
129 1 0.01
130 18 0.20
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (126 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACACCAA
TTTTTAATCAGGGATAACCCAACCCCGACTTATTTCTAAAATATTAATTTCTCATAATTGG
Found at i:1648115 original size:23 final size:23
Alignment explanation
Indices: 1648085--1648136 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
1648075 ACAACAACAT
1648085 GAAGAAGAAGCCAAGGTCAGTAA
1 GAAGAAGAAGCCAAGGTCAGTAA
1648108 GAAGAAGAAGCCAAGGTCAGTAA
1 GAAGAAGAAGCCAAGGTCAGTAA
1648131 GAAGAA
1 GAAGAA
1648137 ACTTGTTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.31, T:0.08
Consensus pattern (23 bp):
GAAGAAGAAGCCAAGGTCAGTAA
Found at i:1654004 original size:20 final size:20
Alignment explanation
Indices: 1653979--1654033 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1653969 TTTACCTAGA
*
1653979 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
1653999 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
1654019 TGTATTGATACATTG
1 TGTATCGATACATTG
1654034 TATCGATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:1654038 original size:33 final size:33
Alignment explanation
Indices: 1653996--1654065 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1653986 ATACATTTTG
* * * *
1653996 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATAAATTGCTCACTATATAGATA
1654029 CATTGTATCGATAAATTGCTCACTATATAGATA
1 CATTGTATCGATAAATTGCTCACTATATAGATA
1654062 CATT
1 CATT
1654066 TTACAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATAAATTGCTCACTATATAGATA
Found at i:1656062 original size:36 final size:36
Alignment explanation
Indices: 1656015--1656086 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1656005 GAGTCCGGGG
1656015 TGATTTTTTAAAGTTCAATATACCGTTTTTCTCATA
1 TGATTTTTTAAAGTTCAATATACCGTTTTTCTCATA
1656051 TGATTTTTTAAAGTTCAATATACCGTTTTTCTCATA
1 TGATTTTTTAAAGTTCAATATACCGTTTTTCTCATA
1656087 AGCTCTGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (36 bp):
TGATTTTTTAAAGTTCAATATACCGTTTTTCTCATA
Found at i:1656573 original size:79 final size:77
Alignment explanation
Indices: 1656472--1656878 Score: 390
Period size: 79 Copynumber: 5.2 Consensus size: 77
1656462 TTCTTAATCA
* * *
1656472 GGGATACTCCAACTCTGATTTTATTTCTAAAACACTGACTTTTAACAATCGGGGATACTCCAACC
1 GGGATACTCCAAC-CCGATTTTATTTCTAAAACA-TGAATTTTCACAATCGGGGATACTCCAACC
*
1656537 CTGTT-TTTTCTTAG
64 CTGTTATTTTC-GAG
* * * * *
1656551 GGGACACTCCAACCTC-AGTTTTATTTTTAAAACATCAATTTT-TC-ATCGGGGATACTCTAACC
1 GGGATACTCCAACC-CGA-TTTTATTTCTAAAACATGAATTTTCACAATCGGGGATACTCCAACC
** *
1656613 CCATTATTTTTGAG
64 CTGTTATTTTCGAG
* * * ** * * * * *
1656627 GAGATACCCCATCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATTGGGAATACTCCAACC
1 GGGATACTCCA-ACCCGATTTTATTTCTAAAACATGAATTT-TCACAATCGGGGATACTCCAACC
* *
1656692 CCGTTATTTCCGAG
64 CTGTTATTTTCGAG
* * ** *
1656706 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAAATTTTCATAATCAAGGATAATCCAACC
1 GGGATACTCCAA-CCCGATTTTATTTCTAAAACAT-GAATTTTCACAATCGGGGATACTCCAACC
*
1656771 TTGTTATTTTCGAG
64 CTGTTATTTTCGAG
* *
1656785 GGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAA-CCCGATTTTATTTCTAAAACAT-GAATTTTCACAATCGGGGATACTCCAACC
*
1656850 CTGTTATTTTCAAG
64 CTGTTATTTTCGAG
1656864 GGGATACTCCAACCC
1 GGGATACTCCAACCC
1656879 CGTTATTATC
Statistics
Matches: 265, Mismatches: 53, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
76 50 0.19
77 8 0.03
78 11 0.04
79 191 0.72
80 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (77 bp):
GGGATACTCCAACCCGATTTTATTTCTAAAACATGAATTTTCACAATCGGGGATACTCCAACCCT
GTTATTTTCGAG
Found at i:1673599 original size:20 final size:18
Alignment explanation
Indices: 1673574--1673647 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
1673564 TCATACCCAA
1673574 AAAAAAAACAGAAGAAAACC
1 AAAAAAAACAGAA-AAAA-C
*
1673594 AAAAAAAACA-AAAAAAT
1 AAAAAAAACAGAAAAAAC
*
1673611 AAAAAAACCAATGAAAAAATAAC
1 AAAAAAAAC-A-G--AAAA-AAC
1673634 AAAAAAAACAGAAA
1 AAAAAAAACAGAAA
1673648 GAGGTCCAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
17 8 0.18
18 5 0.11
19 5 0.11
20 10 0.23
21 1 0.02
22 5 0.11
23 10 0.23
ACGTcount: A:0.80, C:0.11, G:0.05, T:0.04
Consensus pattern (18 bp):
AAAAAAAACAGAAAAAAC
Found at i:1673601 original size:10 final size:9
Alignment explanation
Indices: 1673574--1673643 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 9
1673564 TCATACCCAA
1673574 AAAAAAAAC
1 AAAAAAAAC
*
1673583 AGAAGAAAACC
1 A-AA-AAAAAC
1673594 AAAAAAAAC
1 AAAAAAAAC
1673603 AAAAAAATA-
1 AAAAAAA-AC
*
1673612 AAAAAACCAATG
1 AAAAAA--AA-C
1673624 AAAAAATAAC
1 AAAAAA-AAC
1673634 AAAAAAAAC
1 AAAAAAAAC
1673643 A
1 A
1673644 GAAAGAGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
9 23 0.46
10 12 0.24
11 9 0.18
12 6 0.12
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1673607 original size:26 final size:25
Alignment explanation
Indices: 1673572--1673621 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
1673562 CTTCATACCC
* *
1673572 AAAAAAAAAACAGAAGAAAACCAAA
1 AAAAAAAAAAAAGAAAAAAACCAAA
*
1673597 AAAAACAAAAAAATAAAAAAACCAA
1 AAAAA-AAAAAAAGAAAAAAACCAA
1673622 TGAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAAGAAAAAAACCAAA
Found at i:1674902 original size:28 final size:28
Alignment explanation
Indices: 1674862--1675414 Score: 530
Period size: 28 Copynumber: 19.1 Consensus size: 28
1674852 CGTTCATCTC
* * *
1674862 TTCAAAGCCCACAAGTTAGTTGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1674890 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1674919 TTCAAAGCCCACACGAGTCAATGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
1674951 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * * *
1674979 TTCAAATCCCGTAAGTTAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1675007 TTCAAATCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1675035 TTCAAAGCGCACAAGTAAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
1675064 TTCAATGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* * *
1675096 TTCAACGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1675124 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
1675154 TTCAAAGCTCGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1675182 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1675210 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1675238 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1675266 TTCAAAGCTCACAAGTCTGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1675294 TTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1675322 TTCACAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
** *
1675351 TTCAAAGCCCACACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
1675383 TTCAAAGCCCACACAAGTTAGTGACACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
1675413 TT
1 TT
1675415 TTTTAAAAAA
Statistics
Matches: 440, Mismatches: 68, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
28 263 0.60
29 42 0.10
30 47 0.11
31 32 0.07
32 50 0.11
33 2 0.00
34 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1675383 original size:287 final size:291
Alignment explanation
Indices: 1674862--1675395 Score: 765
Period size: 287 Copynumber: 1.8 Consensus size: 291
1674852 CGTTCATCTC
* * * * *
1674862 TTCAAAGCCCACAAGTTAGTTGTACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAAGC
* * * * * **
1674927 CCACACGAGTCAATGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAATCCCGTA
66 CCACAC-AGTCAATGGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACA
* *
1674992 AGTTAATGGCATCCTTTCAAATCCCACAAGTCAGTGGCACCCTTTCAAAGCGCACAAGTAAGTGG
130 AGTTAATGGCATCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGG
* * *
1675057 CATTCTTTTCAATGCCCACACAAGTCGGTGGCAACTCTTTTCAACGCCCACAAGTCAGTGGCATC
195 CACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATC
1675122 ATTTCAAAGCCCACGAGTCGGTGGCAACTCTT
260 ATTTCAAAGCCCACGAGTCGGTGGCAACTCTT
* *
1675154 TTCAAAGCTCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC-CCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAAGC
* * *
1675218 CCACA-AGTTAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCTCACAA
66 CCACACAGTCAATGGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAA
* *
1675280 GTCT-GTGGCATCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCACAGCCCACAAGTCAA-TG
131 GT-TAATGGCATCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT-AAGTG
* *
1675343 GCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGCCCACA
194 GCACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1675396 CAAGTTAGTG
Statistics
Matches: 214, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
287 139 0.65
288 5 0.02
289 8 0.04
291 15 0.07
292 47 0.22
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (291 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAAGC
CCACACAGTCAATGGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAA
GTTAATGGCATCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGC
ACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCA
TTTCAAAGCCCACGAGTCGGTGGCAACTCTT
Found at i:1679362 original size:20 final size:21
Alignment explanation
Indices: 1679320--1679366 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
1679310 TTCTACAATT
*
1679320 TGTATCGATACAACAAGTTAA
1 TGTATCGATACAACAAGTGAA
* *
1679341 TGTATTGATAC-ATAAGTGAA
1 TGTATCGATACAACAAGTGAA
1679361 TGTATC
1 TGTATC
1679367 AATGCATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAACAAGTGAA
Found at i:1681938 original size:79 final size:79
Alignment explanation
Indices: 1681848--1682055 Score: 276
Period size: 80 Copynumber: 2.6 Consensus size: 79
1681838 CCAGCCTCAC
* *
1681848 TTTTACTTTTAAAACACTGAATTTTTCATCT-TGGAGATACTCCAACCCCACCATCTCTGAAGAG
1 TTTTACTTTTAAAACACCGTATTTTTCATCTATGG-GATACTCCAACCCCACCATCTCTGAAGAG
*
1681912 ATACTTTAA-TCCCAT
65 ATACTCTAACT-CCAT
* * *
1681927 TTTTACTTTTAAAACACCGTATTTTTCATCTCTAGGGATACTCCAACCCCACCATCTTTGAAGGG
1 TTTTACTTTTAAAACACCGTATTTTTCATCTAT-GGGATACTCCAACCCCACCATCTCTGAAGAG
*
1681992 ATACTCTAACTCTAT
65 ATACTCTAACTCCAT
* * *
1682007 TTTTACTTCTAAAACACCCTATTTTTCATCTATGGGGATATTCCAACCC
1 TTTTACTTTTAAAACACCGTATTTTTCATCTAT-GGGATACTCCAACCC
1682056 TACTATCTTC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 29 0.25
80 83 0.72
81 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (79 bp):
TTTTACTTTTAAAACACCGTATTTTTCATCTATGGGATACTCCAACCCCACCATCTCTGAAGAGA
TACTCTAACTCCAT
Found at i:1682077 original size:80 final size:80
Alignment explanation
Indices: 1681834--1682096 Score: 248
Period size: 80 Copynumber: 3.3 Consensus size: 80
1681824 TCTGAGGGGT
* * * * ***
1681834 TACTCCAGCCTCACTTTTACTTTTAAAACACTGAATTTTTCATCT-T-GGAGATACTCCAACCCC
1 TACTCCAACCTAATTTTTACTTCTAAAACACCCTATTTTTCATCTATAGG-GATACTCCAACCCC
*
1681897 ACCATC-TCTGAAGAGA
65 ACCATCTTC-GAAGGGA
** * * * *
1681913 TACTTTAATCC-CATTTTTACTTTTAAAACACCGTATTTTTCATCTCTAGGGATACTCCAACCCC
1 TACTCCAA-CCTAATTTTTACTTCTAAAACACCCTATTTTTCATCTATAGGGATACTCCAACCCC
*
1681977 ACCATCTTTGAAGGGA
65 ACCATCTTCGAAGGGA
* * * *
1681993 TACTCTAACTCT-ATTTTTACTTCTAAAACACCCTATTTTTCATCTATGGGGATATTCCAACCCT
1 TACTCCAAC-CTAATTTTTACTTCTAAAACACCCTATTTTTCATCTATAGGGATACTCCAACCCC
* * *
1682057 ACTATCTTCGAGGGGT
65 ACCATCTTCGAAGGGA
1682073 TACTCCAACCTAATTTTTTACTTC
1 TACTCCAACCTAA-TTTTTACTTC
1682097 CATAATATCG
Statistics
Matches: 156, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
79 39 0.25
80 104 0.67
81 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (80 bp):
TACTCCAACCTAATTTTTACTTCTAAAACACCCTATTTTTCATCTATAGGGATACTCCAACCCCA
CCATCTTCGAAGGGA
Found at i:1687324 original size:16 final size:17
Alignment explanation
Indices: 1687299--1687331 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1687289 ACACAACCTA
*
1687299 TTACTGTTTTA-CTTTT
1 TTACTCTTTTACCTTTT
1687315 TTACTCTTTTACCTTTT
1 TTACTCTTTTACCTTTT
1687332 CAAATTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.67
Consensus pattern (17 bp):
TTACTCTTTTACCTTTT
Found at i:1692704 original size:3 final size:3
Alignment explanation
Indices: 1692689--1692719 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1692679 AACCATCAAA
*
1692689 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1692720 TTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1699773 original size:13 final size:13
Alignment explanation
Indices: 1699755--1699781 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1699745 ACATTACGCT
1699755 TTGTATCGATACA
1 TTGTATCGATACA
1699768 TTGTATCGATACA
1 TTGTATCGATACA
1699781 T
1 T
1699782 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1699811 original size:20 final size:19
Alignment explanation
Indices: 1699765--1699821 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1699755 TTGTATCGAT
*
1699765 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
1699784 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
1699803 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1699822 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1699895 original size:33 final size:33
Alignment explanation
Indices: 1699853--1699915 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
1699843 CCACTGTTTG
* * *
1699853 TATCGATACATGGCACATTGTATCAATACAATC
1 TATCAATACATGACAAATTGTATCAATACAATC
* *
1699886 TATCAATACATGATAAATTGTATCGATACA
1 TATCAATACATGACAAATTGTATCAATACA
1699916 TTGCTTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (33 bp):
TATCAATACATGACAAATTGTATCAATACAATC
Found at i:1701168 original size:198 final size:196
Alignment explanation
Indices: 1700811--1701237 Score: 465
Period size: 198 Copynumber: 2.2 Consensus size: 196
1700801 ACGAAGAAGA
** * * *
1700811 AGGGTTGGAGTTTTTCTAAAGTCAAAAA-TTATGAAAATATTTAGAAACAAAGAGATAATTTAAG
1 AGGGTTGGAGTTTCCCTAAAGTCAAAAATTTTTGAAAATATTTAGAAACAAAAAGATAATTTAAA
* *
1700875 TTTTCTTATGAAGATCGAGGTCAAAGTATCCTTCAGAGTAATAGGGTTGGAGTTTTCCTAAAAAT
66 TTTTCTTATGAAGATAGAGGTCAAAGTATCCTTCAGAGTAATAGGGTTAGAGTTTTCCTAAAAAT
* * * *
1700940 TAAATTATACAAAGAAATTTAACCTTTTTTATCAAGAACGGGATTAAAATATCCCCTCAGAGTAG
131 TAAATTATACAAAAAAATTTAACATTTTTTATCAAGAACGGGATTAAAATATCCCCTCAGAGGAC
1701005 T
196 T
* *
1701006 GGGGTTTGAGTTTCCCTAAAGTCAAAAATTTTTGAAAATATTTA-AAGACAAAAAGA-AATTTTA
1 AGGGTTGGAGTTTCCCTAAAGTCAAAAATTTTTGAAAATATTTAGAA-ACAAAAAGATAA-TTTA
* * * * *
1701069 AATTTTTTGTATGAAGAATAG-GGTTAGAA-TATCTTCTCAGAGTAGTGGGGTTAGAG-TTTCCT
64 AATTTTCT-TATGAAG-ATAGAGGTCA-AAGTATCCT-TCAGAGTAATAGGGTTAGAGTTTTCCT
** ** * * **
1701131 CAAGGA-TAAATTATACAAAAAAAATTTAGTATTTTTTATGAAGGACGGGATTGGAATATCCCCT
125 -AAAAATTAAATTATAC-AAAAAAATTTAACATTTTTTATCAAGAACGGGATTAAAATATCCCCT
*
1701195 TAGAGGACT
188 CAGAGGACT
*
1701204 AGGATTGGAGTTTGCCC-AAAGTCAAAAATTTTTG
1 AGGGTTGGAGTTT-CCCTAAAGTCAAAAATTTTTG
1701238 TTGTTTTAAA
Statistics
Matches: 192, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
195 28 0.15
196 32 0.17
197 32 0.17
198 97 0.51
199 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (196 bp):
AGGGTTGGAGTTTCCCTAAAGTCAAAAATTTTTGAAAATATTTAGAAACAAAAAGATAATTTAAA
TTTTCTTATGAAGATAGAGGTCAAAGTATCCTTCAGAGTAATAGGGTTAGAGTTTTCCTAAAAAT
TAAATTATACAAAAAAATTTAACATTTTTTATCAAGAACGGGATTAAAATATCCCCTCAGAGGAC
T
Found at i:1705734 original size:27 final size:27
Alignment explanation
Indices: 1705704--1705759 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
1705694 GATATTATTC
1705704 ATTATGTTTACAATTACAATAAATGCG
1 ATTATGTTTACAATTACAATAAATGCG
* * *
1705731 ATTATGTTTATAGTTATAATAAATGCG
1 ATTATGTTTACAATTACAATAAATGCG
1705758 AT
1 AT
1705760 GTAATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (27 bp):
ATTATGTTTACAATTACAATAAATGCG
Found at i:1706261 original size:14 final size:13
Alignment explanation
Indices: 1706201--1706250 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
1706191 ATTTTTATCC
* *
1706201 ATTTTAAAATATT
1 ATTTTTAAATAGT
1706214 ATTTTTAAATAGT
1 ATTTTTAAATAGT
1706227 ATTTTTAAATAGT
1 ATTTTTAAATAGT
1706240 ATTTTTAAATA
1 ATTTTTAAATA
1706251 TAGTTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (13 bp):
ATTTTTAAATAGT
Found at i:1706289 original size:14 final size:14
Alignment explanation
Indices: 1706202--1706298 Score: 67
Period size: 13 Copynumber: 7.0 Consensus size: 14
1706192 TTTTTATCCA
* *
1706202 TTTTAAAATATTAT
1 TTTTAATATAATAT
*
1706216 TTTTAA-ATAGTAT
1 TTTTAATATAATAT
*
1706229 TTTTAA-ATAGTAT
1 TTTTAATATAATAT
1706242 TTTTAA-AT-ATAGT
1 TTTTAATATAATA-T
**
1706255 TTATTAATTATTTTAT
1 TT-TTAA-TATAATAT
* *
1706271 GTTTATTATAATAT
1 TTTTAATATAATAT
1706285 TTTTAATATAATAT
1 TTTTAATATAATAT
1706299 ATGTATGTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
12 2 0.03
13 30 0.43
14 28 0.41
15 3 0.04
16 4 0.06
17 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
TTTTAATATAATAT
Found at i:1710452 original size:165 final size:166
Alignment explanation
Indices: 1710162--1710589 Score: 573
Period size: 165 Copynumber: 2.6 Consensus size: 166
1710152 TTAATTCATA
* * * *
1710162 GTAAATTAATTTTCAAAAATTCATTTATTTTCATAAG-TTTTC-GTTTTTTCTCTAAAATTCTTT
1 GTAAATTAATTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCT-TGAAATTCTTG
* * * *
1710225 TGTTTCCCAAAAACTGAGTTTTCTATTCCACAAATGTTTTCAGGAGATTTTTTTCAATTTAAAAT
65 TGTTTTCCAAAAACTGAGTTTTCTATTCCATAAATATTTTCAGGAGATTTTTCTCAATTTAAAAT
1710290 TTTAAAAATTCATCTAACATTGTCATTAGACT-CTTT
130 TTTAAAAATTCATCTAACATTGTCATTAGACTCCTTT
* * * *
1710326 GTAAATTAGTTTTGAAAATTTTATTTATTTCCATAAGTTTTTCATTTTTTTCTTGAAATT-TTCG
1 GTAAATTAATTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTTGAAATTCTT-G
* * * **
1710390 TGTTTTCGAAAAATTGAGTTTTCTATTCCATAAATATTTTCAGGGGATTTTTCTGGATTTAAAAT
65 TGTTTTCCAAAAACTGAGTTTTCTATTCCATAAATATTTTCAGGAGATTTTTCTCAATTTAAAAT
*
1710455 TTTTAAAATTCATCTAACATTGTCATTAGACTCCTTT
130 TTTAAAAATTCATCTAACATTGTCATTAGACTCCTTT
1710492 -TAAA-TAATTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTTGAAATTCTT-
1 GTAAATTAA-TTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTTGAAATTCTTG
* * * *
1710554 TGGTTTTCTAAAAACCGAGTTTTCTGTTTCATAAAT
65 T-GTTTTCCAAAAACTGAGTTTTCTATTCCATAAAT
1710590 GTTATCTAAA
Statistics
Matches: 230, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
164 37 0.16
165 179 0.78
166 14 0.06
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (166 bp):
GTAAATTAATTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTTGAAATTCTTGT
GTTTTCCAAAAACTGAGTTTTCTATTCCATAAATATTTTCAGGAGATTTTTCTCAATTTAAAATT
TTAAAAATTCATCTAACATTGTCATTAGACTCCTTT
Found at i:1712391 original size:3 final size:3
Alignment explanation
Indices: 1712385--1712441 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
1712375 CAAGAACTTA
1712385 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1712433 ATT ATT ATT
1 ATT ATT ATT
1712442 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1712609 original size:30 final size:29
Alignment explanation
Indices: 1712530--1712668 Score: 106
Period size: 29 Copynumber: 4.8 Consensus size: 29
1712520 TTTCAAGCAA
* *
1712530 TTTT-AAAGTTCAGGGGTCAATGTGTAA-
1 TTTTAAAAGTTTAGGGGTTAATGTGTAAT
* * *
1712557 TTTTAAGAACTTTAGAGATTAATGTGTAAT
1 TTTTAA-AAGTTTAGGGGTTAATGTGTAAT
1712587 TTTTAAAATGTTTAGGGGTTAATGTG-AGAT
1 TTTTAAAA-GTTTAGGGGTTAATGTGTA-AT
* * * *
1712617 TTTGAGAAGCTTAGGGGTTAAAGTGT-AT
1 TTTTAAAAGTTTAGGGGTTAATGTGTAAT
* * *
1712645 TTTAAAAAAGTTTAAGGGTCAATG
1 TTT-TAAAAGTTTAGGGGTTAATG
1712669 CACAGTTTTG
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
27 4 0.05
28 6 0.07
29 49 0.56
30 28 0.32
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (29 bp):
TTTTAAAAGTTTAGGGGTTAATGTGTAAT
Found at i:1712619 original size:59 final size:58
Alignment explanation
Indices: 1712534--1712668 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 58
1712524 AAGCAATTTT
* * *
1712534 AAAGTTCAGGGGTCAATGTGTAATTTTAAGAA-CTTTAGAGATTAATGTGTAATTTTTAA
1 AAAGTTTAGGGGTCAATGTGTAATTTTAAGAAGC-TTAGAGATTAAAGTGT-ATTTTAAA
* * * * *
1712593 AATGTTTAGGGGTTAATGTG-AGATTTTGAGAAGCTTAGGGGTTAAAGTGTATTTTAAA
1 AAAGTTTAGGGGTCAATGTGTA-ATTTTAAGAAGCTTAGAGATTAAAGTGTATTTTAAA
*
1712651 AAAGTTTAAGGGTCAATG
1 AAAGTTTAGGGGTCAATG
1712669 CACAGTTTTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 23 0.37
59 39 0.62
60 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (58 bp):
AAAGTTTAGGGGTCAATGTGTAATTTTAAGAAGCTTAGAGATTAAAGTGTATTTTAAA
Found at i:1713310 original size:153 final size:153
Alignment explanation
Indices: 1712771--1713321 Score: 558
Period size: 153 Copynumber: 3.6 Consensus size: 153
1712761 TTCATAGTGG
* * ** *
1712771 TTTCATGTCTTTTAAGGTCACC-AGATACTTTCATGTCGAAGGTATACCTCAAGGGCATTTTGAT
1 TTTCGTGTCTTTTAAGGTTACCGAGATACTTTCACATCGAAGGTATACC-CAAGGGCATTTTGGT
* * * * * * * *
1712835 AATTTTTCTTAGAATAGGGTCCTAGATAGTTACTAAATCACTTTTATGCCAAAGGTCTACGCTTA
65 AATTTTTCCTAAAATCGAGTCCTAGGTAGTCA-TAGATCGCTTTTATGCCAAAGGTCTACGCTTA
*
1712900 GGATAGG-TTCACCTTTTTACGATCT
129 GGATAGGTTTGACC-TTTTACGATCT
** * * * * * *
1712925 TTTCGTGTCCATTAGGGTTA-CGAGATACTTTCACGTTGAAGATATATCC-AGGTGCATTTTAGT
1 TTTCGTGTCTTTTAAGGTTACCGAGATACTTTCACATCGAAGGTATACCCAAGG-GCATTTTGGT
* * * *
1712988 AATTTTT-CTAAAATCAAGTCCTATGTAGTCAATGGGTCGCTTTTATGCCAAAGGTCTACGCTTA
65 AATTTTTCCTAAAATCGAGTCCTAGGTAGTC-ATAGATCGCTTTTATGCCAAAGGTCTACGCTTA
*
1713052 GGATAGGTTTGCCCTTTTACGATCT
129 GGATAGGTTTGACCTTTTACGATCT
* * * * *
1713077 TTTCATGTCTTTTAGGGTTATCGAGATACTTTCATATCGAAGGTATA-TCAAGGGGCATTTTGGT
1 TTTCGTGTCTTTTAAGGTTACCGAGATACTTTCACATCGAAGGTATACCCAA-GGGCATTTTGGT
* * * * * ** *
1713141 AATTTTTTCTAGAATCGAGT-CTAAGGTAGTCATCGATCGCTTTTATGCCAAGGGTTTACATTTG
65 AATTTTTCCTAAAATCGAGTCCT-AGGTAGTCATAGATCGCTTTTATGCCAAAGGTCTACGCTTA
* *
1713205 GGATAGGTTTGACCGTTTATGATCT
129 GGATAGGTTTGACCTTTTACGATCT
* * *
1713230 TTTCGTTTCTTTTAAGGTTACCGAGATATTTTCACATTGAAGGTATACCCAAGGGCATTTTGGTA
1 TTTCGTGTCTTTTAAGGTTACCGAGATACTTTCACATCGAAGGTATACCCAAGGGCATTTTGGTA
* * *
1713295 ATTTTACCCAAAATCGAGTCTTAGGTA
66 ATTTTTCCTAAAATCGAGTCCTAGGTA
1713322 ATTACTAGGT
Statistics
Matches: 326, Mismatches: 60, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
152 82 0.25
153 184 0.56
154 60 0.18
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (153 bp):
TTTCGTGTCTTTTAAGGTTACCGAGATACTTTCACATCGAAGGTATACCCAAGGGCATTTTGGTA
ATTTTTCCTAAAATCGAGTCCTAGGTAGTCATAGATCGCTTTTATGCCAAAGGTCTACGCTTAGG
ATAGGTTTGACCTTTTACGATCT
Found at i:1715126 original size:63 final size:63
Alignment explanation
Indices: 1715027--1715155 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
1715017 CCTCCCCAAG
* *
1715027 TTCTTGCTTGATCATCATACTCTCTTTGTCAAAAATGCATGCTTGTTAACCTTAAAACAAATT
1 TTCTTGCATGATCATCATACTCTCCTTGTCAAAAATGCATGCTTGTTAACCTTAAAACAAATT
** * *
1715090 TTCTTGCATGATCATCATACTCTCCTTGTCAAAAATGCATGCTTGTTTGCCTTAAAATAGATT
1 TTCTTGCATGATCATCATACTCTCCTTGTCAAAAATGCATGCTTGTTAACCTTAAAACAAATT
1715153 TTC
1 TTC
1715156 AAACACCTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (63 bp):
TTCTTGCATGATCATCATACTCTCCTTGTCAAAAATGCATGCTTGTTAACCTTAAAACAAATT
Found at i:1721626 original size:2 final size:2
Alignment explanation
Indices: 1721621--1721653 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1721611 GAATTTTTTC
1721621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1721654 CGATTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1721978 original size:14 final size:14
Alignment explanation
Indices: 1721952--1721985 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1721942 AAAAGACGAG
*
1721952 AGAAAAAAGAGGAA
1 AGAAAAAAAAGGAA
1721966 AGAAAAAAAAGGAA
1 AGAAAAAAAAGGAA
1721980 A-AAAAA
1 AGAAAAA
1721986 GAGAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGGAA
Found at i:1723143 original size:163 final size:164
Alignment explanation
Indices: 1722956--1723538 Score: 825
Period size: 163 Copynumber: 3.6 Consensus size: 164
1722946 CCTGTGAGTG
* * *
1722956 TCCGTAGGGGTATAAAAGATTTCAAAAACATTTCGTATCTTTTCAGGCTACCATTAAGGTACGAA
1 TCCGTAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAA
* * *
1723021 ATGGTATTTTAAAAAATAAATAAAATTAAATTAAATTAACACTTTCGTAATCAAGATACATTTTA
66 ATGATATTTTAGAAAATAAATAAAATAAAATTAAATTAACACTTTCGTAATCAAGATACATTTTA
1723086 ATCA-TTTTTTT-ATCTTTTATACTTTTTTGGACA
131 ATCATTTTTTTTAATCTTTTATA-TTTTTTGGACA
* * * *
1723119 TCCGTAGGAGTATAAAAAATTTCAAAAACTTTTTGTATCTTTTCAGGCTTCCATTGAGGTACAAA
1 TCCGTAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAA
* * *
1723184 ATGATATATTCGAAAATAAATAAAATAAAATAAAATTAACACTTTCGTAATCAAGATACATTTTA
66 ATGATATTTTAGAAAATAAATAAAATAAAATTAAATTAACACTTTCGTAATCAAGATACATTTTA
* *
1723249 ATCATTTTTTTTAATCTTTTATATTTCTATAGACA
131 ATCATTTTTTTTAATCTTTTATATTT-TTTGGACA
* * * *
1723284 TCCGAAGGGGTATAAAAGATTTCAAAAACTTTTTGTATCTTTTCAGGCTTCCATTAAGGTATGAA
1 TCCGTAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAA
* * * *
1723349 ATGGTATTTTCGAAAATAAATAAAATAAAATTAAATTAACACTTTCGTAATCGAGATACGTTTTA
66 ATGATATTTTAGAAAATAAATAAAATAAAATTAAATTAACACTTTCGTAATCAAGATACATTTTA
*
1723414 ATCATTTTTTTCTAATCTTTTATA--TTTTGGGCA
131 ATCATTTTTTT-TAATCTTTTATATTTTTTGGACA
* * * * *
1723447 ACCGCAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCGGGTTTCCATTAGGGTACGAA
1 TCCGTAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAA
1723512 ATGATATTTTTGAGAAAAT-AATAAAAT
66 ATGATA-TTTT-AGAAAATAAATAAAAT
1723539 TAAACATAAC
Statistics
Matches: 375, Mismatches: 39, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
163 188 0.50
164 23 0.06
165 152 0.41
166 12 0.03
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (164 bp):
TCCGTAGGGGTATAAAAAATTTCAAAAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAA
ATGATATTTTAGAAAATAAATAAAATAAAATTAAATTAACACTTTCGTAATCAAGATACATTTTA
ATCATTTTTTTTAATCTTTTATATTTTTTGGACA
Found at i:1727081 original size:52 final size:52
Alignment explanation
Indices: 1727003--1727131 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1726993 CGAAATATGA
* *
1727003 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
1727055 AAATTTGCCTGAATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1727107 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1727132 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1727144 original size:52 final size:51
Alignment explanation
Indices: 1727003--1727151 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
1726993 CGAAATATGA
*
1727003 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
1727055 AAATTTGCCTGAATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
1727107 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1727152 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1727158 original size:13 final size:13
Alignment explanation
Indices: 1727140--1727164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1727130 CAAAGATCAG
1727140 TGTATCGATACAA
1 TGTATCGATACAA
1727153 TGTATCGATACA
1 TGTATCGATACA
1727165 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1727242 original size:33 final size:33
Alignment explanation
Indices: 1727205--1727271 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1727195 AGTAGCTTAA
*
1727205 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
* ***
1727238 ATTGTATCAATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
1727271 A
1 A
1727272 AATCATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAAAAAAATATGTATCGATAC
Found at i:1737837 original size:51 final size:52
Alignment explanation
Indices: 1737741--1737851 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 52
1737731 ATACATTAAG
* * * * * *
1737741 AATGTATCAATATATTTGGGTTAAAAACTCAGAATATATCGATACAATGAAC
1 AATGTATCAATAAATTTGGGTTAAAAACCCAGAATACATCAATACAATAAAA
* * *
1737793 AATGTATGAATAAATTTGGG-TCAAAACCCAGAATGCATCAATACAATAAAA
1 AATGTATCAATAAATTTGGGTTAAAAACCCAGAATACATCAATACAATAAAA
1737844 AATGTATC
1 AATGTATC
1737852 GATTCATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
51 31 0.63
52 18 0.37
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (52 bp):
AATGTATCAATAAATTTGGGTTAAAAACCCAGAATACATCAATACAATAAAA
Found at i:1737921 original size:21 final size:21
Alignment explanation
Indices: 1737897--1737972 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
1737887 GACATGGTCT
1737897 TGTATCGATACATTTTAGACA
1 TGTATCGATACATTTTAGACA
* **
1737918 TGTATCAATACA-TTTACTCA
1 TGTATCGATACATTTTAGACA
1737938 TGTATCGATACATTTTAGACA
1 TGTATCGATACATTTTAGACA
1737959 TGTATCGATACATT
1 TGTATCGATACATT
1737973 CACTATTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTTAGACA
Found at i:1740414 original size:43 final size:45
Alignment explanation
Indices: 1740350--1740444 Score: 122
Period size: 43 Copynumber: 2.1 Consensus size: 45
1740340 AATTGTATGT
* * * *
1740350 AAACCTAAAAAGGCATTAAAAAAC-AAAC-AAAAAAGATGGATGA
1 AAACCCAAAAAGGCATAAAAAAACAAAACAAAAAAAAATCGATGA
*
1740393 AAACCCAAAAGGGCATAAAAAAACAAAAACAAAAAAAAATCGATGA
1 AAACCCAAAAAGGCATAAAAAAAC-AAAACAAAAAAAAATCGATGA
1740439 AAACCC
1 AAACCC
1740445 GAAATTGTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 21 0.48
45 4 0.09
46 19 0.43
ACGTcount: A:0.64, C:0.16, G:0.12, T:0.08
Consensus pattern (45 bp):
AAACCCAAAAAGGCATAAAAAAACAAAACAAAAAAAAATCGATGA
Found at i:1741422 original size:66 final size:64
Alignment explanation
Indices: 1741329--1742068 Score: 476
Period size: 66 Copynumber: 11.3 Consensus size: 64
1741319 TTTGCGCCTA
* * * *
1741329 AGGTTTTACCCTGGTCAC-TATTTTGTTGATGTGATGGTTTTGCCCTAGTTAATCTCTTTTTGAC
1 AGGTTTCACCCTAGTCACTTA-TTTGTTGATGTGATGGTTTCGCCCTAGTCAA-CT-TTTTTGAC
1741393 TT
63 TT
* * * *
1741395 AGGTTTTACCCTAGTCACTTATTTGTTGACGTGATGGTTTCGACCTGGTCAACTTTCGTTTGACT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTTT--TTTGACT
1741460 T
64 T
** ** * * * *
1741461 AGGTTTCACCCTAGTTGCCCATTAGTTGATGTGATGGTTTTGTCCTAGTCAAACTTTTCTCGACT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTC-AACTTTT-TTGACT
1741526 T
64 T
* * * * * * * * * *
1741527 AGGCTTGACCCTAGTCGCCTT-TATGTTGACGTGATGGTTTCACCATGGTCAACTTCCATTCGAC
1 AGGTTTCACCCTAGTC-ACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTT--TTTTGAC
1741591 TT
63 TT
* * * * *
1741593 AGGTTTCGCCCTAGTCACCTATTAGTTGATGTGATGGTTTCTCCCTAGTTAACTTTTTTTGACTT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAAC-TTTTTTGACTT
* * * *
1741658 AGGTTTCACCCTAGTTGC-CTT-TTTGTTGACGTGATGGTTTGGCCCTCGTCAACCTCTTTTTAA
1 AGGTTTCACCCTAG-T-CACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAA-CT-TTTTTGA
1741721 CTT
62 CTT
* * * * * *
1741724 AGGTTTCATCCTAGTCACTTATTCGTTGATATGATGGTCTCACCCTAGTCAACTTTCGTTCGACT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTTT--TTTGACT
1741789 T
64 T
* ** * * * * * *
1741790 AGGTTTCACCCTAGTCGCCCATTAGTTGATGTAATGGTTTC-ACCTGGTGAACTTATTCTCGACT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTT-TT-TTGACT
1741854 T
64 T
** * *
1741855 AGGTTTCA-CCTAAGTTGC-CTT-TTATGTTGACATGATGGTTTCGCCATGGTCAAC-TTTTTGA
1 AGGTTTCACCCT-AG-T-CACTTATT-TGTTGATGTGATGGTTTCGCCCTAGTCAACTTTTTTGA
1741916 CTT
62 CTT
** * * * ** * * * *
1741919 ACATTTCGCCCTAGTCACCTATTAGTCAATGTGATGGTTTCACCTTGGTCAACTTTTTCTCAACT
1 AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTTTTT-T-GACT
1741984 T
64 T
* * * * *
1741985 AGGTTTCACCCTAGTTGC-CTT-TTATGTCGATGGGATGGTTTTGCCTTGGTCAACTTTTTTTTG
1 AGGTTTCACCCTAG-T-CACTTATT-TGTTGATGTGATGGTTTCGCCCTAGTCAAC--TTTTTTG
*
1742048 ACTA
61 ACTT
* *
1742052 AGGTTTCGCCCTGGTCA
1 AGGTTTCACCCTAGTCA
1742069 ACTTCTTTTA
Statistics
Matches: 526, Mismatches: 111, Indels: 74
0.74 0.16 0.10
Matches are distributed among these distances:
62 1 0.00
63 26 0.05
64 28 0.05
65 98 0.19
66 301 0.57
67 65 0.12
68 2 0.00
69 5 0.01
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (64 bp):
AGGTTTCACCCTAGTCACTTATTTGTTGATGTGATGGTTTCGCCCTAGTCAACTTTTTTGACTT
Found at i:1741424 original size:32 final size:34
Alignment explanation
Indices: 1741329--1741434 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
1741319 TTTGCGCCTA
*
1741329 AGGTTTTACCCTGGTCAC-TATTTTGTTGA-TGTG
1 AGGTTTTACCCTAGTCACTTA-TTTGTTGACTGTG
* * * *
1741362 ATGGTTTTGCCCTAGTTAATCTCTTT-TTGACT-T-
1 A-GGTTTTACCCTAGTCACT-TATTTGTTGACTGTG
1741395 AGGTTTTACCCTAGTCACTTATTTGTTGAC-GTG
1 AGGTTTTACCCTAGTCACTTATTTGTTGACTGTG
1741428 ATGGTTT
1 A-GGTTT
1741435 CGACCTGGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
31 4 0.07
32 21 0.38
33 3 0.05
34 23 0.41
35 4 0.07
36 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (34 bp):
AGGTTTTACCCTAGTCACTTATTTGTTGACTGTG
Found at i:1741554 original size:132 final size:127
Alignment explanation
Indices: 1741353--1742043 Score: 595
Period size: 132 Copynumber: 5.3 Consensus size: 127
1741343 TCACTATTTT
* * * *
1741353 GTTGATGTGATGGTTTTGCCCTAGTTAATCTCTTTTTGACTTAGGTTTTACCCTAGTC-ACTTAT
1 GTTGATGTGATGGTTTTGCCCTAGTCAA-CT-TTTTCGACTTAGGTTTCACCCTAGTCGCCTT-T
* *
1741417 TTGTTGACGTGATGGTTTCGACCTGGTCAACTTTCGTTTGACTTAGGTTTCACCCTAGTTGCCCA
63 ATGTTGACGTGATGGTTTC-ACCTGGTCAACTTT--TTTGACTTAGGTTTCACCCTAGTTGCCTA
1741482 TTA
125 TTA
* * *
1741485 GTTGATGTGATGGTTTTGTCCTAGTCAAACTTTTCTCGACTTAGGCTTGACCCTAGTCGCCTTTA
1 GTTGATGTGATGGTTTTGCCCTAGTC-AACTTTT-TCGACTTAGGTTTCACCCTAGTCGCCTTTA
* * * **
1741550 TGTTGACGTGATGGTTTCACCATGGTCAACTTCCATTCGACTTAGGTTTCGCCCTAGTCACCTAT
64 TGTTGACGTGATGGTTTCACC-TGGTCAACTT--TTTTGACTTAGGTTTCACCCTAGTTGCCTAT
1741615 TA
126 TA
* * * *
1741617 GTTGATGTGATGGTTTCT-CCCTAGTTAACTTTTTTTGACTTAGGTTTCACCCTAGTTGCCTTTT
1 GTTGATGTGATGGTTT-TGCCCTAGTCAAC-TTTTTCGACTTAGGTTTCACCCTAGTCGCCTTTA
* * * ** *
1741681 TGTTGACGTGATGGTTTGGC-CCTCGTCAACCTCTTTTTAACTTAGGTTTCATCCTAGTCACTTA
64 TGTTGACGTGATGGTTT--CACCTGGTCAA-CT-TTTTTGACTTAGGTTTCACCCTAGTTGCCTA
*
1741745 TTC
125 TTA
* * ** *
1741748 GTTGATATGATGGTCTCACCCTAGTCAACTTTCGTTCGACTTAGGTTTCACCCTAGTCGCCCATT
1 GTTGATGTGATGGTTTTGCCCTAGTCAACTTT--TTCGACTTAGGTTTCACCCTAGTCG-CCTTT
* * * * *
1741813 A-GTTGATGTAATGGTTTCACCTGGTGAACTTATTCTCGACTTAGGTTTCA-CCTAAGTTGCCTT
63 ATGTTGACGTGATGGTTTCACCTGGTCAACTT-TT-TTGACTTAGGTTTCACCCT-AGTTGCCTA
1741876 TTA
125 TTA
** * * * ** * *
1741879 TGTTGACATGATGGTTTCGCCATGGTCAACTTTTT-GACTTACATTTCGCCCTAGTCACCTATTA
1 -GTTGATGTGATGGTTTTGCCCTAGTCAACTTTTTCGACTTAGGTTTCACCCTAGTCGCCT-TTA
** * * *
1741943 -GTCAATGTGATGGTTTCACCTTGGTCAACTTTTTCTCAACTTAGGTTTCACCCTAGTTGCCTTT
64 TGTTGACGTGATGGTTTCACC-TGGTCAACTTTTT-T-GACTTAGGTTTCACCCTAGTTGCCTAT
1742007 TA
126 TA
* * * *
1742009 TGTCGATGGGATGGTTTTGCCTTGGTCAACTTTTT
1 -GTTGATGTGATGGTTTTGCCCTAGTCAACTTTTT
1742044 TTTGACTAAG
Statistics
Matches: 464, Mismatches: 69, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
128 3 0.01
129 41 0.09
130 75 0.16
131 137 0.30
132 196 0.42
133 12 0.03
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.41
Consensus pattern (127 bp):
GTTGATGTGATGGTTTTGCCCTAGTCAACTTTTTCGACTTAGGTTTCACCCTAGTCGCCTTTATG
TTGACGTGATGGTTTCACCTGGTCAACTTTTTTGACTTAGGTTTCACCCTAGTTGCCTATTA
Found at i:1741726 original size:197 final size:196
Alignment explanation
Indices: 1741390--1742063 Score: 581
Period size: 197 Copynumber: 3.4 Consensus size: 196
1741380 ATCTCTTTTT
* * * * *
1741390 GACTTAGGTTTTACCCTAGTCACTTATTTGTTGACGTGATGGTTTCGACCTGGTCAACTTTCGTT
1 GACTTAGGTTTCACCCTAGTCACCTATTAGTTGATGTGATGGTTTC-ACCTGGTCAACTTT-TTT
** * * * *
1741455 TGACTTAGGTTTCACCCTAGTTGCCCATTAGTTGATGTGATGGTTTTGTCCTAGTCAAACTTTTC
64 TGACTTAGGTTTCACCCTAGTTGCCTTTTTGTTGACGTGATGGTTTGGCCCTAGTCAAACTTTTC
* * * * * *
1741520 TCGACTTAGGCTTGACCCTAGTCGCCTT-TAT-GTTGACGTGATGGTTTCACCATGGTCAACTTC
129 TCAACTTAGGCTTCACCCTAGTC-ACTTAT-TCGTTGACATGATGGTCTCACCATAGTCAACTTC
1741583 CATTC
192 CATTC
* * * *
1741588 GACTTAGGTTTCGCCCTAGTCACCTATTAGTTGATGTGATGGTTTCTCCCTAGTTAACTTTTTTT
1 GACTTAGGTTTCACCCTAGTCACCTATTAGTTGATGTGATGGTTTC-ACCTGGTCAACTTTTTTT
* *
1741653 GACTTAGGTTTCACCCTAGTTGCCTTTTTGTTGACGTGATGGTTTGGCCCTCGTCAACCTCTTT-
65 GACTTAGGTTTCACCCTAGTTGCCTTTTTGTTGACGTGATGGTTTGGCCCTAGTCAAACT-TTTC
* * * * * * *
1741717 TTAACTTAGGTTTCATCCTAGTCACTTATTCGTTGATATGATGGTCTCACCCTAGTCAACTTTCG
129 TCAACTTAGGCTTCACCCTAGTCACTTATTCGTTGACATGATGGTCTCACCATAGTCAACTTCCA
1741782 TTC
194 TTC
* * * * * *
1741785 GACTTAGGTTTCACCCTAGTCGCCCATTAGTTGATGTAATGGTTTCACCTGGTGAACTTATTCTC
1 GACTTAGGTTTCACCCTAGTCACCTATTAGTTGATGTGATGGTTTCACCTGGTCAACTT-TTTTT
* * * *
1741850 GACTTAGGTTTCA-CCTAAGTTGCCTTTTATGTTGACATGATGGTTTCGCCATGGTC-AACTTTT
65 GACTTAGGTTTCACCCT-AGTTGCCTTTT-TGTTGACGTGATGGTTTGGCCCTAGTCAAACTTTT
* *** * * * ** ** * * * *
1741913 -T-GACTTACATTTCGCCCTAGTCACCTATTAGTCAATGTGATGGTTTCACCTTGGTCAACTT-T
128 CTCAACTTAGGCTTCACCCTAGTCACTTATTCGTTGACATGATGGTCTCACCATAGTCAACTTCC
*
1741975 TTCTC
193 AT-TC
* ** * * * **
1741980 AACTTAGGTTTCACCCTAGTTGCCTTTTATGTCGATGGGATGGTTTTGCCTTGGTCAACTTTTTT
1 GACTTAGGTTTCACCCTAGTCACCTATTA-GTTGATGTGATGGTTTCACC-TGGTCAAC-TTTTT
* *
1742045 TTGACTAAGGTTTCGCCCT
63 TTGACTTAGGTTTCACCCT
1742064 GGTCAACTTC
Statistics
Matches: 391, Mismatches: 74, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
194 1 0.00
195 74 0.19
196 36 0.09
197 197 0.50
198 83 0.21
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (196 bp):
GACTTAGGTTTCACCCTAGTCACCTATTAGTTGATGTGATGGTTTCACCTGGTCAACTTTTTTTG
ACTTAGGTTTCACCCTAGTTGCCTTTTTGTTGACGTGATGGTTTGGCCCTAGTCAAACTTTTCTC
AACTTAGGCTTCACCCTAGTCACTTATTCGTTGACATGATGGTCTCACCATAGTCAACTTCCATT
C
Found at i:1742088 original size:32 final size:32
Alignment explanation
Indices: 1742021--1742090 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
1742011 TCGATGGGAT
* * * **
1742021 GGTTTTGCCTTGGTCAACTTTTTTTTGACTAA
1 GGTTTCGCCCTGGTCAACTTCTTTTAAACTAA
1742053 GGTTTCGCCCTGGTCAACTTCTTTTAAAC-ATA
1 GGTTTCGCCCTGGTCAACTTCTTTTAAACTA-A
1742085 GGTTTC
1 GGTTTC
1742091 ACTTTAGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (32 bp):
GGTTTCGCCCTGGTCAACTTCTTTTAAACTAA
Found at i:1742132 original size:99 final size:99
Alignment explanation
Indices: 1741954--1742162 Score: 231
Period size: 99 Copynumber: 2.1 Consensus size: 99
1741944 TCAATGTGAT
* * * * ** **
1741954 GGTTTCACCTTGGTCAACTTTTTCTCAACTTAGGTTTCACCCTAGTTGCCTTTTATGTCGATGGG
1 GGTTTCGCCCTGGTCAACTTTTTCTAAACATAGGTTTCACCCTAGTCACCTTTTATGTCGACAGG
* * **
1742019 ATGGTTTTGCCTTGGTCAACTTTTTTTTGACTAA
66 ATGGTTTCGCCTTGGTCAACTTCTTTTCAACTAA
** * *
1742053 GGTTTCGCCCTGGTCAACTTCTTT-TAAACATAGGTTTCACTTTAGTCACCTTTTATGTTGACAT
1 GGTTTCGCCCTGGTCAACTT-TTTCTAAACATAGGTTTCACCCTAGTCACCTTTTATGTCGACAG
* *
1742117 GATGGTTTCGTCTTGGTCAACTTCTTTTCAACTTA
65 GATGGTTTCGCCTTGGTCAACTTCTTTTCAACTAA
*
1742152 GGTTTTGCCCT
1 GGTTTCGCCCT
1742163 AATCACTTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 87 0.97
100 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (99 bp):
GGTTTCGCCCTGGTCAACTTTTTCTAAACATAGGTTTCACCCTAGTCACCTTTTATGTCGACAGG
ATGGTTTCGCCTTGGTCAACTTCTTTTCAACTAA
Found at i:1742200 original size:66 final size:64
Alignment explanation
Indices: 1742037--1742218 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 64
1742027 GCCTTGGTCA
* * * * ** *
1742037 ACTTTTTTTTGACTAA-GGTTTCGCCCTGGTCAACTTCTTTTAAACATAGGTTTCACTTTAGTC
1 ACTTTTTGTTGACTAATGGTTTCGCCTTGGTCAACTTCTTTTCAACTTAGGTTTCACCCTAATC
* * **
1742100 ACCTTTTATGTTGACATGATGGTTTCGTCTTGGTCAACTTCTTTTCAACTTAGGTTTTGCCCTAA
1 A-CTTTT-TGTTGAC-TAATGGTTTCGCCTTGGTCAACTTCTTTTCAACTTAGGTTTCACCCTAA
1742165 TC
63 TC
* * *
1742167 ACTTATTTGTTGACGTAATGGTTTCACCTTGGTCAACCCTCTTCTCAACTTA
1 ACTT-TTTGTTGAC-TAATGGTTTCGCCTTGGTCAA-CTTCTTTTCAACTTA
1742219 AATTCTACCC
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
63 1 0.01
64 5 0.05
65 6 0.06
66 30 0.31
67 54 0.56
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (64 bp):
ACTTTTTGTTGACTAATGGTTTCGCCTTGGTCAACTTCTTTTCAACTTAGGTTTCACCCTAATC
Found at i:1743686 original size:20 final size:20
Alignment explanation
Indices: 1743640--1743687 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
1743630 TTAGTTTTGA
1743640 AAATTTT-ATTTATTTTCTT
1 AAATTTTCATTTATTTTCTT
*
1743659 AAGTTTTTCATTT-TTTTCTT
1 AA-ATTTTCATTTATTTTCTT
1743679 GAAATTTTC
1 -AAATTTTC
1743688 CTATTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 16 0.67
21 6 0.25
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (20 bp):
AAATTTTCATTTATTTTCTT
Found at i:1743761 original size:167 final size:165
Alignment explanation
Indices: 1743469--1743908 Score: 530
Period size: 167 Copynumber: 2.6 Consensus size: 165
1743459 ACTAAATCGA
* * **
1743469 TTTTGAAAAATTCATTTATTTTCATAAG-TTTTCATTTTTTCTCTAAAATTCTT-TTGTTTC-CG
1 TTTTG-AAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCT-TGAAATT-TTCTTATTTCTAA
* * * *
1743531 AAAAACTGAGTTTTTTATTCCCTAAATATTTTTAGA-GGAATTTTTCTAGATTTAAAATTTTTAA
63 AAAAACTGAGTTTTCTATTCCATAAA-AGTTTTAGAGGGAATTTTTCTAGATTCAAAATTTTTAA
* *
1743595 AATTCATCTAACATTGTTATTCGACTCCCTTTCAATTAG
127 AATTCATCTAACATTGTCATTAGACTCCCTTTCAATTAG
* * *
1743634 TTTTGAAAATTTTATTTATTTTCTTAAGTTTTTCATTTTTTTCTTGAAATTTTCCTATTTCTAAA
1 TTTTGAAAA-TTCATTTATTTTCATAAGTTTTTCA-TTTTTTCTTGAAATTTTCTTATTTCTAAA
* * * **
1743699 AAAACTGAGTTTACTATTCCATAAAAGTTTTCGAGGGGATTTTTCTCTATTCAAAATTTTTAAAA
64 AAAACTGAGTTTTCTATTCCATAAAAGTTTTAGAGGGAATTTTTCTAGATTCAAAATTTTTAAAA
*
1743764 TTCATCTAATATTGTCATTAGACTCCCTTTCAATTAG
129 TTCATCTAACATTGTCATTAGACTCCCTTTCAATTAG
* * * *
1743801 TTTTGACAAATTCATTTATTTTCATAACTTTTTCAATTTTTTCTTGAAATTCTCTTATTTTTGAA
1 TTTTGA-AAATTCATTTATTTTCATAAGTTTTTC-ATTTTTTCTTGAAATTTTCTTATTTCTAAA
* * * *
1743866 AAATC-CAGTTTTCTATTCCATAAATGTTTTTGAGGGAATTTTT
64 AAAACTGAGTTTTCTATTCCATAAAAGTTTTAGAGGGAATTTTT
1743909 TTAAATTTTT
Statistics
Matches: 235, Mismatches: 32, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
164 4 0.02
165 23 0.10
166 57 0.24
167 147 0.63
168 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (165 bp):
TTTTGAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCTTGAAATTTTCTTATTTCTAAAAA
AACTGAGTTTTCTATTCCATAAAAGTTTTAGAGGGAATTTTTCTAGATTCAAAATTTTTAAAATT
CATCTAACATTGTCATTAGACTCCCTTTCAATTAG
Found at i:1746379 original size:20 final size:21
Alignment explanation
Indices: 1746342--1746380 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1746332 TTGGACATGT
1746342 TAAAATGCATGAAACATAGCA
1 TAAAATGCATGAAACATAGCA
1746363 TAAAATGCATG-AACATAG
1 TAAAATGCATGAAACATAG
1746381 GCTGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (21 bp):
TAAAATGCATGAAACATAGCA
Found at i:1748457 original size:16 final size:16
Alignment explanation
Indices: 1748422--1748477 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
1748412 ATTGATTTTA
* * *
1748422 ATTTTAACTTTTCTTA
1 ATTTTAAATTTACTTT
1748438 ATTTTAAATTTACTTT
1 ATTTTAAATTTACTTT
*
1748454 A-TTT--ATTTATTTT
1 ATTTTAAATTTACTTT
1748467 ATTTTAAATTT
1 ATTTTAAATTT
1748478 TATTAGGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
15 3 0.09
16 18 0.55
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTAAATTTACTTT
Found at i:1750802 original size:153 final size:152
Alignment explanation
Indices: 1750365--1750942 Score: 536
Period size: 153 Copynumber: 3.8 Consensus size: 152
1750355 TTCATAGTGG
* * * * * * * * *
1750365 TTTCGTGTCCTTTAGGGTAACGGGGATACTTTCATGTCGAAAGTATACATCAAGGGTATTTCGGT
1 TTTCATGTCCTTTAGGGTTACCGGAATACTTTCACGTCAAAAGTATAC-TTAAGGGCATTTTGGT
* * * *
1750430 AATTTTTTCTAAAATCGAGTTTTAGGTAGTCACTAGGTCACTTTTATGCTAAAGGTCTATGCTTA
65 AATTTTTTCTAAAACCGAG-TTTAAGTAGTCACTAGGTCGCTTTTATGCTAAAGGTCTACGCTTA
* *
1750495 GGACAGGCTCACCCTTTTACGATAT
129 GGATAGG-TCACCCTTTTACTATAT
* * * * * * *
1750520 TTTCGTGTCCTTTAAGGTTATCGGGATACTTTGACGTCAAAGGTATACTTAAGGGCATTTTGATA
1 TTTCATGTCCTTTAGGGTTACCGGAATACTTTCACGTCAAAAGTATACTTAAGGGCATTTTGGTA
* *
1750585 ATTTTCT-TATAACCGAGTTCTAAGTAGTCACTAGGTCGCTTTTATGCTAAAGGTCTACGCTTAG
66 ATTTTTTCTAAAACCGAGTT-TAAGTAGTCACTAGGTCGCTTTTATGCTAAAGGTCTACGCTTAG
* *
1750649 GATAGGTACGCCCTTTTACTATTT
130 GATAGGT-CACCCTTTTACTATAT
* * *
1750673 TTTCATGTCCTTTAGGGTTACCGGAATACTTTCACGTCCAATGTATACTTAAGAGCATTTTGGTA
1 TTTCATGTCCTTTAGGGTTACCGGAATACTTTCACGTCAAAAGTATACTTAAGGGCATTTTGGTA
* * * **
1750738 ATTTTTTCTAGAACCGAGTTTAATGTAGTCACT-GGTCGCTTTTATGC-CAAGTGTTTACAATTA
66 ATTTTTTCTAAAACCGAGTTTAA-GTAGTCACTAGGTCGCTTTTATGCTAAAG-GTCTACGCTTA
* * *
1750801 GGATAGGTTTAACCTTTTA-TAATCT
129 GGATAGG-TCACCCTTTTACT-ATAT
* * ** ** * **
1750826 TTTCAT-ACCTTTTAGGGTTACCGAAATACTTTCACGTTGAAAGTATACCCAAAGGCATTTTGAA
1 TTTCATGTCC-TTTAGGGTTACCGGAATACTTTCACGTCAAAAGTATACTTAAGGGCATTTTGGT
* * ** * * * *
1750890 AATTTTATCTACAATTGAGTCCTAGGTAATCACTAGGTCGCTTTGATGCTAAA
65 AATTTTTTCTAAAACCGAGT-TTAAGTAGTCACTAGGTCGCTTTTATGCTAAA
1750943 CGTGTGTATT
Statistics
Matches: 351, Mismatches: 61, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
152 9 0.03
153 245 0.70
154 55 0.16
155 42 0.12
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (152 bp):
TTTCATGTCCTTTAGGGTTACCGGAATACTTTCACGTCAAAAGTATACTTAAGGGCATTTTGGTA
ATTTTTTCTAAAACCGAGTTTAAGTAGTCACTAGGTCGCTTTTATGCTAAAGGTCTACGCTTAGG
ATAGGTCACCCTTTTACTATAT
Found at i:1753537 original size:26 final size:26
Alignment explanation
Indices: 1753501--1753552 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1753491 GGATGATTAC
* *
1753501 CATTTTACTTGAAGATGGTGTTAAAA
1 CATTTTACTTGAACATCGTGTTAAAA
* *
1753527 CATTTTTCTTGGACATCGTGTTAAAA
1 CATTTTACTTGAACATCGTGTTAAAA
1753553 TAACTATAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (26 bp):
CATTTTACTTGAACATCGTGTTAAAA
Found at i:1756152 original size:15 final size:15
Alignment explanation
Indices: 1756132--1756168 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1756122 TATAAATAAA
1756132 ATTAATAAAATATT-T
1 ATTAATAAAAT-TTGT
1756147 ATTAATAAAATTTGT
1 ATTAATAAAATTTGT
1756162 ATTAATA
1 ATTAATA
1756169 TATGAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
ATTAATAAAATTTGT
Found at i:1757434 original size:22 final size:22
Alignment explanation
Indices: 1757374--1757435 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
1757364 ATTGCTTCTA
*
1757374 ATTTTTTTTTTTAACTT-TTTAG
1 ATTTTTTTATTTAA-TTATTTAG
*
1757396 ATTTTTTTATTT-TTTATTT-G
1 ATTTTTTTATTTAATTATTTAG
1757416 ATTTTTTTACTTTAATTATT
1 ATTTTTTTA-TTTAATTATT
1757436 ACCTTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.35
21 6 0.18
22 16 0.47
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (22 bp):
ATTTTTTTATTTAATTATTTAG
Found at i:1757840 original size:16 final size:16
Alignment explanation
Indices: 1757805--1757841 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1757795 TTGATGAATT
1757805 TTAAAAAAAATTAAAC
1 TTAAAAAAAATTAAAC
1757821 -TAAAAAAAATCT-AAC
1 TTAAAAAAAAT-TAAAC
1757836 TTAAAA
1 TTAAAA
1757842 TTTTACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (16 bp):
TTAAAAAAAATTAAAC
Found at i:1759656 original size:34 final size:34
Alignment explanation
Indices: 1759618--1759726 Score: 148
Period size: 34 Copynumber: 3.2 Consensus size: 34
1759608 ACCTTCAAAA
*
1759618 AAGGCTTTTGAAATCTCTTAAAACATCTTCAAGG
1 AAGGCTTGTGAAATCTCTTAAAACATCTTCAAGG
*
1759652 AAGGCTTGTGAAATCTCTTAAAGCATCTTCAAGAG
1 AAGGCTTGTGAAATCTCTTAAAACATCTTCAAG-G
* * * *
1759687 AA-GCTTGTGAAATTTCTTAAAATATCCTCAAGA
1 AAGGCTTGTGAAATCTCTTAAAACATCTTCAAGG
1759720 AAGGCTT
1 AAGGCTT
1759727 ACAAACGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
33 2 0.03
34 61 0.92
35 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (34 bp):
AAGGCTTGTGAAATCTCTTAAAACATCTTCAAGG
Found at i:1760105 original size:20 final size:20
Alignment explanation
Indices: 1760059--1760134 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
1760049 ATACACATTT
1760059 AAATGTATCGATACA-GACTGC
1 AAATGTATCGATACATGAC--C
*
1760080 -ATTGTATCGATACATGACC
1 AAATGTATCGATACATGACC
* **
1760099 AAATGTATCGATACTTGAAA
1 AAATGTATCGATACATGACC
1760119 AGAATGTATCGATACA
1 A-AATGTATCGATACA
1760135 GGTCATTGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 29 0.63
21 16 0.35
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (20 bp):
AAATGTATCGATACATGACC
Found at i:1760207 original size:32 final size:32
Alignment explanation
Indices: 1760166--1760265 Score: 150
Period size: 32 Copynumber: 3.1 Consensus size: 32
1760156 GTAGCCAAAT
*
1760166 TTGTATCGATACA-CAC-AATATGTATCGATATA
1 TTGTATCGATACATC-CTAA-ATGTATCGATACA
1760198 TTGTATCGATACATCCTAAATGTATCGATACA
1 TTGTATCGATACATCCTAAATGTATCGATACA
1760230 TTGTATCGATACATCCTAAAATGTATCGATACA
1 TTGTATCGATACATCCT-AAATGTATCGATACA
1760263 TTG
1 TTG
1760266 GCTTGTAACG
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
32 43 0.67
33 21 0.33
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATCCTAAATGTATCGATACA
Found at i:1760236 original size:13 final size:13
Alignment explanation
Indices: 1760218--1760243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1760208 ACATCCTAAA
1760218 TGTATCGATACAT
1 TGTATCGATACAT
1760231 TGTATCGATACAT
1 TGTATCGATACAT
1760244 CCTAAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1766166 original size:8 final size:8
Alignment explanation
Indices: 1766153--1766178 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1766143 ATTTGATTCA
1766153 ATTTTGTG
1 ATTTTGTG
1766161 ATTTTGTG
1 ATTTTGTG
1766169 ATTTTGTG
1 ATTTTGTG
1766177 AT
1 AT
1766179 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1768833 original size:20 final size:20
Alignment explanation
Indices: 1768802--1768858 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1768792 GTCAAAACCC
*
1768802 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
1768822 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
1768842 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
1768859 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:1768870 original size:20 final size:21
Alignment explanation
Indices: 1768847--1768897 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1768837 CAGATTGCAT
**
1768847 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
1768867 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
1768888 TGTATCGATA
1 TGTATCGATA
1768898 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:1770871 original size:56 final size:56
Alignment explanation
Indices: 1770764--1770873 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 56
1770754 AACTAGAAAT
* * * * *
1770764 CTAAAAATAACCAAGATGAAACCAAAGTTCAAACAAACTGCTTGGATAAAACCAGC
1 CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTACTAGGACAAAACCAGC
* * *
1770820 CTAAAAACAACCTAGATAAAACCAAAGTTTAAACTAACTACGTAGG-CAAAACCA
1 CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTAC-TAGGACAAAACCA
1770874 ATGACCTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
56 42 0.93
57 3 0.07
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (56 bp):
CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTACTAGGACAAAACCAGC
Found at i:1771256 original size:69 final size:69
Alignment explanation
Indices: 1771166--1771306 Score: 160
Period size: 69 Copynumber: 2.0 Consensus size: 69
1771156 TAAGAGAGAT
* * * *
1771166 TTTCAAAACTATGAAACACATCCTCAAAAAAGGTTTTTAAAACCTTT-AGAAAATATCCTCTAAA
1 TTTCAAAACTATGAAAAACATCCTCAAAAAAGGATTATAAAACCTTTGA-AAAATATCCTCAAAA
1771230 GAGGC
65 GAGGC
* * * * **
1771235 TTTCAAAATTA-GTAAAAACATCCTTAAGAAAGGATTATAAAATCTTTGAAAAATATTGTCAAAA
1 TTTCAAAACTATG-AAAAACATCCTCAAAAAAGGATTATAAAACCTTTGAAAAATATCCTCAAAA
1771299 GAGGC
65 GAGGC
1771304 TTT
1 TTT
1771307 TAACATCTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
68 1 0.02
69 58 0.97
70 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (69 bp):
TTTCAAAACTATGAAAAACATCCTCAAAAAAGGATTATAAAACCTTTGAAAAATATCCTCAAAAG
AGGC
Found at i:1771347 original size:70 final size:71
Alignment explanation
Indices: 1771215--1771396 Score: 199
Period size: 70 Copynumber: 2.6 Consensus size: 71
1771205 AAACCTTTAG
* * * ** ** *
1771215 AAAATATCCTCTAAAGAGGCTTTCAAAAT-TAGT-AAAAACATCCTTAAGAAAGGATTATAAAAT
1 AAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAAGTATCCTTAAGAAAGGATCATAAAAT
1771278 CTTTGA
66 CTTTGA
** * *
1771284 AAAATATTGTCAAAAGAGGCTTTTAACATCTCTTG-AAAGTATCCTTAAGAAGGGCTCATAAAAT
1 AAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAAGTATCCTTAAGAAAGGATCATAAAAT
1771348 CTTTGA
66 CTTTGA
* * * *
1771354 AAAGTATCCTTAAGAGAGGCTTTTGACATCTCTTGAAAAGTAT
1 AAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAAGTAT
1771397 ACTCAATAGA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
69 24 0.26
70 61 0.66
71 7 0.08
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (71 bp):
AAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAAGTATCCTTAAGAAAGGATCATAAAAT
CTTTGA
Found at i:1771361 original size:35 final size:35
Alignment explanation
Indices: 1771254--1771419 Score: 124
Period size: 35 Copynumber: 4.7 Consensus size: 35
1771244 TAGTAAAAAC
* * *
1771254 ATCCTTAAGAAAGGATTATAAAATCTTTGAAAAAT
1 ATCCTTAAGAAGGGCTTATAAAATCTTTGAAAAGT
** * * *
1771289 ATTGTCAA-AAGAGGCTTTTAACATCTCTTG-AAAGT
1 ATCCTTAAGAAG-GGCTTATAAAATCT-TTGAAAAGT
*
1771324 ATCCTTAAGAAGGGCTCATAAAATCTTTGAAAAGT
1 ATCCTTAAGAAGGGCTTATAAAATCTTTGAAAAGT
* * *
1771359 ATCCTTAAG-AGAGGCTTTTGACATCTCTTGAAAAGT
1 ATCCTTAAGAAG-GGCTTATAAAATCT-TTGAAAAGT
* * * *
1771395 ATACTCAA-TAGAGCTTATAAAATCT
1 ATCCTTAAGAAGGGCTTATAAAATCT
1771420 CTTAAGACAT
Statistics
Matches: 100, Mismatches: 24, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
34 7 0.07
35 70 0.70
36 23 0.23
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (35 bp):
ATCCTTAAGAAGGGCTTATAAAATCTTTGAAAAGT
Found at i:1771415 original size:70 final size:70
Alignment explanation
Indices: 1771269--1771505 Score: 201
Period size: 70 Copynumber: 3.5 Consensus size: 70
1771259 TAAGAAAGGA
** * *
1771269 TTATAAAATCTTTGAAAAATATTGTCAAAAGAGGCTTTTAACATCTCTTGAAAGTATCCTTAAGA
1 TTATAAAATCTTTGAAAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAGTATACTCAAGA
*
1771334 AGGGC
66 AGAGC
* * * * *
1771339 TCATAAAATCTTTGAAAAGTATCCTTAAGAGAGGCTTTTGACATCTCTTGAAAAGTATACTCAA-
1 TTATAAAATCTTTGAAAAATATCCTCAAAAGAGGCTTTTAACATCTCTTG-AAAGTATACTCAAG
*
1771403 TAGAGC
65 AAGAGC
* * * * *
1771409 TTATAAAATCTCTT-AAGACAT-T-CT--TAAGAGG-TTTTAACAATCT-TTGAAATTATCCTAA
1 TTATAAAATCT-TTGAA-AAATATCCTCAAAAGAGGCTTTTAAC-ATCTCTTGAAAGTATACTCA
1771467 AG-AGAGGC
63 AGAAGA-GC
1771475 TT-TAAAAT-TTT-AAAAATATCCTCAAAAGAGG
1 TTATAAAATCTTTGAAAAATATCCTCAAAAGAGG
1771506 TGTCGCAACG
Statistics
Matches: 135, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
62 3 0.02
63 5 0.04
64 3 0.02
65 19 0.14
66 19 0.14
67 9 0.07
69 2 0.01
70 60 0.44
71 15 0.11
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (70 bp):
TTATAAAATCTTTGAAAAATATCCTCAAAAGAGGCTTTTAACATCTCTTGAAAGTATACTCAAGA
AGAGC
Found at i:1771479 original size:34 final size:32
Alignment explanation
Indices: 1771434--1771505 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
1771424 AGACATTCTT
* * *
1771434 AAGAGGTTTTAACAATCTTTGAAATTATCCT-AA
1 AAGAGGCTTTAA-AAT-TTTAAAAATATCCTCAA
1771467 AGAGAGGCTTTAAAATTTTAAAAATATCCTCAA
1 A-AGAGGCTTTAAAATTTTAAAAATATCCTCAA
1771500 AAGAGG
1 AAGAGG
1771506 TGTCGCAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 17 0.50
33 7 0.21
34 10 0.29
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (32 bp):
AAGAGGCTTTAAAATTTTAAAAATATCCTCAA
Found at i:1771495 original size:32 final size:34
Alignment explanation
Indices: 1771185--1771505 Score: 111
Period size: 35 Copynumber: 9.4 Consensus size: 34
1771175 TATGAAACAC
* * *
1771185 ATCCTCAAAAAAGGTTTTTAA-AACCTTTAGAAAAT
1 ATCCTCAAAAGAGG-CTTTAACAATCTTTA-AAAAT
* * *
1771220 ATCCTCTAAAGAGGCTTTCAA-AAT-TAGTAAAAAC
1 ATCCTCAAAAGAGGCTTT-AACAATCT-TTAAAAAT
* *
1771254 ATCCTTAAGAA-AGGATTATAA-AATCTTTGAAAAAT
1 ATCCTCAA-AAGAGGCTT-TAACAATCTTT-AAAAAT
** * *
1771289 ATTGTCAAAAGAGGCTTTTAAC-ATCTCTTGAAAGT
1 ATCCTCAAAAGAGGC-TTTAACAATCT-TTAAAAAT
* * *
1771324 ATCCTTAAGAAG-GGCTCATAA-AATCTTTGAAAAGT
1 ATCCTCAA-AAGAGGCT-TTAACAATCTTT-AAAAAT
* * * *
1771359 ATCCTTAAGAGAGGCTTTTGAC-ATCTCTTGAAAAGT
1 ATCCTCAAAAGAGGC-TTTAACAATCT-TT-AAAAAT
* * *
1771395 ATACTCAATAGA-GCTTATAA-AATCTCTTAAGACAT
1 ATCCTCAAAAGAGGCTT-TAACAATCT-TTAA-AAAT
* * * *
1771430 -T-CT--TAAGAGGTTTTAACAATCTTTGAAATT
1 ATCCTCAAAAGAGGCTTTAACAATCTTTAAAAAT
1771460 ATCCT-AAAGAGAGGCTTTAA-AAT-TTTAAAAAT
1 ATCCTCAAA-AGAGGCTTTAACAATCTTTAAAAAT
1771492 ATCCTCAAAAGAGG
1 ATCCTCAAAAGAGG
1771506 TGTCGCAACG
Statistics
Matches: 217, Mismatches: 41, Indels: 59
0.68 0.13 0.19
Matches are distributed among these distances:
30 2 0.01
31 10 0.05
32 27 0.12
33 9 0.04
34 47 0.22
35 96 0.44
36 26 0.12
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (34 bp):
ATCCTCAAAAGAGGCTTTAACAATCTTTAAAAAT
Found at i:1774794 original size:20 final size:20
Alignment explanation
Indices: 1774747--1774821 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1774737 AAAAAGACAT
*
1774747 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1774766 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1774787 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1774807 AATGTATCGATACAT
1 AATGTATCGATACAT
1774822 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1774815 original size:40 final size:39
Alignment explanation
Indices: 1774744--1774821 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1774734 GGTAAAAAGA
* *
1774744 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1774783 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1774822 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1775179 original size:33 final size:32
Alignment explanation
Indices: 1775112--1775188 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
1775102 AACTCTCTAA
* * *
1775112 AAGAGAGCTTTAACAATCTCAAAAATCATTCTC
1 AAGAGAGGTTTAAAAATCTCAAAAAT-ATCCTC
1775145 AAGAGAGGTTTCAAAAATCTCTAAAAAT-TCCTC
1 AAGAGAGGTTT-AAAAATCTC-AAAAATATCCTC
1775178 AAGAGAGGTTT
1 AAGAGAGGTTT
1775189 TTGAATTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 25 0.64
34 8 0.21
35 6 0.15
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
AAGAGAGGTTTAAAAATCTCAAAAATATCCTC
Found at i:1777151 original size:9 final size:9
Alignment explanation
Indices: 1777137--1777197 Score: 61
Period size: 9 Copynumber: 6.4 Consensus size: 9
1777127 TTTCATTTAA
1777137 TTTTAATTT
1 TTTTAATTT
1777146 TTTTAATTT
1 TTTTAATTT
*
1777155 TTTTCATTT
1 TTTTAATTT
1777164 TTATT-ATTT
1 TT-TTAATTT
*
1777173 ATTTTTATGATT
1 -TTTTAAT--TT
1777185 TTTTAATTT
1 TTTTAATTT
1777194 TTTT
1 TTTT
1777198 TCACACCCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
9 31 0.69
10 6 0.13
11 6 0.13
12 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTAATTT
Found at i:1777158 original size:10 final size:10
Alignment explanation
Indices: 1777137--1777198 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
1777127 TTTCATTTAA
1777137 TTTTAA-TTT
1 TTTTAATTTT
1777146 TTTTAA-TTT
1 TTTTAATTTT
*
1777155 TTTTCATTTT
1 TTTTAATTTT
*
1777165 TATT-ATTTAT
1 TTTTAATTT-T
*
1777175 TTTT-ATGATT
1 TTTTAAT-TTT
1777185 TTTTAATTTT
1 TTTTAATTTT
1777195 TTTT
1 TTTT
1777199 CACACCCCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 18 0.41
10 23 0.52
11 3 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:1783114 original size:21 final size:21
Alignment explanation
Indices: 1783063--1783114 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1783053 AGCACATTTT
*
1783063 GGTCCAAATGTATCGATACAT
1 GGTCCAAATGTATCGATACAA
* * *
1783084 TGTTCTAATGTATCGATACAA
1 GGTCCAAATGTATCGATACAA
*
1783105 GGTCCCAATG
1 GGTCCAAATG
1783115 GTCAAAAATT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
GGTCCAAATGTATCGATACAA
Found at i:1783179 original size:13 final size:13
Alignment explanation
Indices: 1783161--1783185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1783151 CATAAAGTGT
1783161 TGTATCGATACAA
1 TGTATCGATACAA
1783174 TGTATCGATACA
1 TGTATCGATACA
1783186 TTTTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1783265 original size:13 final size:13
Alignment explanation
Indices: 1783247--1783271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1783237 ATCACTTAAA
1783247 TGTATCGATACAT
1 TGTATCGATACAT
1783260 TGTATCGATACA
1 TGTATCGATACA
1783272 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1783336 original size:52 final size:52
Alignment explanation
Indices: 1783280--1783408 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1783270 CACTGATCTT
* *
1783280 TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1783332 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1783384 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1783409 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1798360 original size:21 final size:21
Alignment explanation
Indices: 1798323--1798370 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1798313 TGTTTCATTT
* *
1798323 ATTTTAATTTTTAATTTTTTC
1 ATTTTTATTTTTAATTTTATC
*
1798344 ATTTTTATTATTT-ATTTTATG
1 ATTTTTATT-TTTAATTTTATC
1798365 ATTTTT
1 ATTTTT
1798371 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTATTTTTAATTTTATC
Found at i:1798381 original size:8 final size:8
Alignment explanation
Indices: 1798324--1798381 Score: 52
Period size: 8 Copynumber: 7.8 Consensus size: 8
1798314 GTTTCATTTA
1798324 TTTTAA-T
1 TTTTAATT
1798331 TTTTAATT
1 TTTTAATT
*
1798339 TTTTCA-T
1 TTTTAATT
1798346 TTTT-ATT
1 TTTTAATT
*
1798353 ATTT-ATT
1 TTTTAATT
* *
1798360 TTATGATT
1 TTTTAATT
1798368 TTTTAATT
1 TTTTAATT
1798376 TTTTAA
1 TTTTAA
1798382 ACCCCTCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
6 1 0.02
7 20 0.48
8 21 0.50
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTAATT
Found at i:1804527 original size:15 final size:15
Alignment explanation
Indices: 1804507--1804535 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1804497 CACTTTTAAC
1804507 TGTATCGATTACCAT
1 TGTATCGATTACCAT
1804522 TGTATCGATTACCA
1 TGTATCGATTACCA
1804536 CTGATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
TGTATCGATTACCAT
Found at i:1813549 original size:56 final size:56
Alignment explanation
Indices: 1813442--1813551 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 56
1813432 AACTAGAAAT
* * * * *
1813442 CTAAAAATAACCAAGATGAAACCAAAGTTCAAACAAACTGCTTGGATAAAACCAGC
1 CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTACTAGGACAAAACCAGC
* * *
1813498 CTAAAAACAACCTAGATAAAACCAAAGTTTAAACTAACTACGTAGG-CAAAACCA
1 CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTAC-TAGGACAAAACCA
1813552 ATGACCTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
56 42 0.93
57 3 0.07
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (56 bp):
CTAAAAACAACCAAGATAAAACCAAAGTTCAAACAAACTACTAGGACAAAACCAGC
Found at i:1813931 original size:68 final size:67
Alignment explanation
Indices: 1813842--1813979 Score: 163
Period size: 68 Copynumber: 2.0 Consensus size: 67
1813832 TAAGAGAGAT
* *
1813842 TTTCAAAACTATGAAACACATCCTCAAAAAAGGTTTTTAAAACCTTTAGAAAATATCCTCTAAAG
1 TTTCAAAACTATGAAACACATCCTCAAAAAAGGATTATAAAACCTTT-GAAAATATCCTC-AAAG
1813907 AGGC
64 AGGC
* * * * **
1813911 TTTCAAAATTA-GTAAA-ACATCCTTAAGAAAGGATTATAAAATCTTTGAAAATATTGTCAAAGA
1 TTTCAAAACTATG-AAACACATCCTCAAAAAAGGATTATAAAACCTTTGAAAATATCCTCAAAGA
1813974 GGC
65 GGC
1813977 TTT
1 TTT
1813980 TAACATCTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
66 11 0.18
67 10 0.17
68 26 0.43
69 13 0.22
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (67 bp):
TTTCAAAACTATGAAACACATCCTCAAAAAAGGATTATAAAACCTTTGAAAATATCCTCAAAGAG
GC
Found at i:1814001 original size:68 final size:67
Alignment explanation
Indices: 1813929--1814164 Score: 216
Period size: 69 Copynumber: 3.5 Consensus size: 67
1813919 TTAGTAAAAC
* *
1813929 ATCCTTAAGAAAGGATTATAAAATCTTTGAAAATATTGTCAAAGAGGCTTTTAACATCTCTTGAA
1 ATCCTTAAGAAAGGCTTATAAAATCTTTGAAAATATTCT-AAAGAGGCTTTTAACATCTCTTGAA
1813994 AGT
65 AGT
* * * * *
1813997 ATCCTTAAGAAGGGCTCATAAAATCTTTGAAAGTATCCTTAAGAGAGGCTTTTGACATCTCTTGA
1 ATCCTTAAGAAAGGCTTATAAAATCTTTGAAAATATTC-TAA-AGAGGCTTTTAACATCTCTTG-
1814062 AAAGT
63 AAAGT
* * * * * * *
1814067 ATACTCAATAGA-GCTTATAAAATCTCTT-AAGACATTCTTAAGAGG-TTTTAACAATCT-TTGA
1 ATCCTTAAGAAAGGCTTATAAAATCT-TTGAAAATATTCTAAAGAGGCTTTTAAC-ATCTCTTGA
*
1814128 AATT
64 AAGT
* *
1814132 ATCC-TAAGAGAGGCTT-TAAAAT-TTTAAAAATAT
1 ATCCTTAAGAAAGGCTTATAAAATCTTTGAAAATAT
1814165 CCTCAAAAGA
Statistics
Matches: 136, Mismatches: 25, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
62 2 0.01
63 6 0.04
64 11 0.08
65 11 0.08
66 9 0.07
67 9 0.07
68 36 0.26
69 38 0.28
70 14 0.10
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (67 bp):
ATCCTTAAGAAAGGCTTATAAAATCTTTGAAAATATTCTAAAGAGGCTTTTAACATCTCTTGAAA
GT
Found at i:1814092 original size:35 final size:34
Alignment explanation
Indices: 1813944--1814176 Score: 123
Period size: 34 Copynumber: 7.0 Consensus size: 34
1813934 TAAGAAAGGA
* **
1813944 TTATAAAATCT-TTGAAAATATTGTCAAAGAGGC
1 TTATAAAATCTCTTGAAAGTATCCTCAAAGAGGC
* * *
1813977 TTTTAACATCTCTTGAAAGTATCCT-TAAGAAGGGC
1 TTATAAAATCTCTTGAAAGTATCCTCAAAG-A-GGC
* *
1814012 TCATAAAATCT-TTGAAAGTATCCTTAAGAGAGGC
1 TTATAAAATCTCTTGAAAGTATCCTCAA-AGAGGC
* * * *
1814046 TTTTGACATCTCTTGAAAAGTATACTCAATAGA-GC
1 TTATAAAATCTCTTG-AAAGTATCCTCAA-AGAGGC
* * *
1814081 TTATAAAATCTCTT--AAGACATTCT-TAAGAGG-
1 TTATAAAATCTCTTGAAAG-TATCCTCAAAGAGGC
* *
1814112 TTTTAACAATCT-TTGAAATTATCCT-AAGAGAGGC
1 TTATAA-AATCTCTTGAAAGTATCCTCAA-AGAGGC
* *
1814146 TT-TAAAAT-T-TTAAAAATATCCTCAAAAGAGG
1 TTATAAAATCTCTTGAAAGTATCCTC-AAAGAGG
1814177 TGTCGCAACG
Statistics
Matches: 154, Mismatches: 30, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
31 22 0.14
32 23 0.15
33 28 0.18
34 36 0.23
35 29 0.19
36 16 0.10
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (34 bp):
TTATAAAATCTCTTGAAAGTATCCTCAAAGAGGC
Found at i:1814166 original size:31 final size:34
Alignment explanation
Indices: 1813861--1814176 Score: 87
Period size: 34 Copynumber: 9.4 Consensus size: 34
1813851 TATGAAACAC
* * *
1813861 ATCCTCAAAAAAGGTTTTTAA-AACCTTTAGAAAAT
1 ATCCTCAAAAGAGG-CTTTAACAATCTTTA-AAAAT
* * *
1813896 ATCCTCTAAAGAGGCTTTCAA-AAT-TAGT-AAAAC
1 ATCCTCAAAAGAGGCTTT-AACAATCT-TTAAAAAT
* * *
1813929 ATCCTTAAGAA-AGGATTATAA-AATCTTTGAAAAT
1 ATCCTCAA-AAGAGGCTT-TAACAATCTTTAAAAAT
** * *
1813963 ATTGTC-AAAGAGGCTTTTAAC-ATCTCTTGAAAGT
1 ATCCTCAAAAGAGGC-TTTAACAATCT-TTAAAAAT
* * * *
1813997 ATCCTTAAGAAG-GGCTCATAA-AATCTTTGAAAGT
1 ATCCTCAA-AAGAGGCT-TTAACAATCTTTAAAAAT
* * * *
1814031 ATCCTTAAGAGAGGCTTTTGAC-ATCTCTTGAAAAGT
1 ATCCTCAAAAGAGGC-TTTAACAATCT-TT-AAAAAT
* * *
1814067 ATACTCAATAGA-GCTTATAA-AATCTCTTAAGACAT
1 ATCCTCAAAAGAGGCTT-TAACAATCT-TTAA-AAAT
* * * *
1814102 -T-CT--TAAGAGGTTTTAACAATCTTTGAAATT
1 ATCCTCAAAAGAGGCTTTAACAATCTTTAAAAAT
*
1814132 ATCCT-AAGAGAGGCTTTAA-AAT-TTTAAAAAT
1 ATCCTCAAAAGAGGCTTTAACAATCTTTAAAAAT
1814163 ATCCTCAAAAGAGG
1 ATCCTCAAAAGAGG
1814177 TGTCGCAACG
Statistics
Matches: 211, Mismatches: 42, Indels: 59
0.68 0.13 0.19
Matches are distributed among these distances:
30 2 0.01
31 22 0.10
32 22 0.10
33 46 0.22
34 58 0.27
35 44 0.21
36 17 0.08
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (34 bp):
ATCCTCAAAAGAGGCTTTAACAATCTTTAAAAAT
Found at i:1817461 original size:20 final size:20
Alignment explanation
Indices: 1817414--1817487 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
1817404 AAAAAGACAT
*
1817414 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1817433 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1817454 CATGTATCGATATA-TGAAA
1 AATGTATCGATACATTCATA
1817473 AATGTATCGATACAT
1 AATGTATCGATACAT
1817488 CAGGGTATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 15 0.35
20 26 0.60
21 2 0.05
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1817487 original size:39 final size:39
Alignment explanation
Indices: 1817411--1817487 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
1817401 GGTAAAAAGA
* *
1817411 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1817450 CATACATGTATCGATATA-TGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1817488 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 21 0.64
40 12 0.36
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1817845 original size:33 final size:32
Alignment explanation
Indices: 1817778--1817854 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
1817768 AACTCTCTAA
* * *
1817778 AAGAGAGCTTTAACAATCTCAAAAATCATTCTC
1 AAGAGAGGTTTAAAAATCTCAAAAAT-ATCCTC
1817811 AAGAGAGGTTTCAAAAATCTCTAAAAAT-TCCTC
1 AAGAGAGGTTT-AAAAATCTC-AAAAATATCCTC
1817844 AAGAGAGGTTT
1 AAGAGAGGTTT
1817855 TTGAATTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 25 0.64
34 8 0.21
35 6 0.15
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
AAGAGAGGTTTAAAAATCTCAAAAATATCCTC
Found at i:1819815 original size:9 final size:9
Alignment explanation
Indices: 1819801--1819860 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
1819791 TTTCATTTAA
1819801 TTTTAATTT
1 TTTTAATTT
1819810 TTTTAA-TT
1 TTTTAATTT
*
1819818 TTTTCATTT
1 TTTTAATTT
1819827 TTATT-ATTT
1 TT-TTAATTT
*
1819836 ATTTTTATGATT
1 -TTTTAAT--TT
1819848 TTTTAATTT
1 TTTTAATTT
1819857 TTTT
1 TTTT
1819861 TTCACACCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 7 0.16
9 22 0.51
10 6 0.14
11 6 0.14
12 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTAATTT
Found at i:1819819 original size:8 final size:8
Alignment explanation
Indices: 1819801--1819859 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
1819791 TTTCATTTAA
1819801 TTTTAATTT
1 TTTTAA-TT
1819810 TTTTAATT
1 TTTTAATT
*
1819818 TTTTCA-T
1 TTTTAATT
1819825 TTTT-ATT
1 TTTTAATT
*
1819832 ATTT-ATT
1 TTTTAATT
*
1819839 TTTATGATT
1 TTT-TAATT
1819848 TTTTAATT
1 TTTTAATT
1819856 TTTT
1 TTTT
1819860 TTTCACACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.02
7 14 0.33
8 16 0.37
9 12 0.28
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:1819840 original size:21 final size:20
Alignment explanation
Indices: 1819815--1819864 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
1819805 AATTTTTTTA
*
1819815 ATTTTTTCATTTTTATTATTT
1 ATTTTTTCATTTTT-TAATTT
*
1819836 ATTTTTATGATTTTTTAATTT
1 ATTTTT-TCATTTTTTAATTT
1819857 -TTTTTTCA
1 ATTTTTTCA
1819865 CACCCCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 5 0.20
21 11 0.44
22 7 0.28
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTTTCATTTTTTAATTT
Found at i:1819841 original size:22 final size:21
Alignment explanation
Indices: 1819811--1819862 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
1819801 TTTTAATTTT
* *
1819811 TTTAATTTTTTCATTTTTATTA
1 TTTATTTTTTTCATTTTT-TAA
* *
1819833 TTTATTTTTATGATTTTTTAA
1 TTTATTTTTTTCATTTTTTAA
1819854 TTT-TTTTTT
1 TTTATTTTTT
1819863 CACACCCCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 5 0.20
21 5 0.20
22 15 0.60
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTATTTTTTTCATTTTTTAA
Found at i:1825810 original size:13 final size:13
Alignment explanation
Indices: 1825792--1825816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1825782 CATAAAGTGT
1825792 TGTATCGATACAA
1 TGTATCGATACAA
1825805 TGTATCGATACA
1 TGTATCGATACA
1825817 TTTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1825897 original size:13 final size:13
Alignment explanation
Indices: 1825879--1825903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1825869 ATCACTTCAA
1825879 TGTATCGATACAT
1 TGTATCGATACAT
1825892 TGTATCGATACA
1 TGTATCGATACA
1825904 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.