Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1611993 original size:11 final size:12
Alignment explanation
Indices: 1611977--1612033 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 12
1611967 TTTGGGTTTG
*
1611977 TAATAAT-TATT
1 TAATAATATATA
1611988 TAATAATA-ATA
1 TAATAATATATA
1611999 TAATATATATAATA
1 TAATA-ATAT-ATA
*
1612013 TAATAATAATATT
1 TAATAAT-ATATA
1612026 TAATAATA
1 TAATAATA
1612034 ATAATAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 14 0.36
12 4 0.10
13 11 0.28
14 10 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAATATATA
Found at i:1611994 original size:3 final size:3
Alignment explanation
Indices: 1611988--1612041 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
1611978 AATAATTATT
*
1611988 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
1612032 TAA TAA TAA T
1 TAA TAA TAA T
1612042 TTAAGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1612015 original size:22 final size:24
Alignment explanation
Indices: 1611979--1612041 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 24
1611969 TGGGTTTGTA
*
1611979 ATAATTATTTAATAATAAT-ATAAT
1 ATAA-TATATAATAATAATAATAAT
1612003 AT-ATATA-ATATAATAATAAT-AT
1 ATAATATATA-ATAATAATAATAAT
*
1612025 TTAATA-ATAATAATAAT
1 ATAATATATAATAATAAT
1612042 TTAAGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
21 1 0.03
22 23 0.70
23 7 0.21
24 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAATATATAATAATAATAATAAT
Found at i:1612292 original size:76 final size:76
Alignment explanation
Indices: 1612195--1613132 Score: 1749
Period size: 76 Copynumber: 12.4 Consensus size: 76
1612185 GAGGTCTTAA
*
1612195 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612260 AGGCTTTTTGG
66 AGGCTTTTTGG
1612271 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612336 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1612347 AAACATCATGCACTGCAGAACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612412 AGGCTTTTTGG
66 AGGCTTTTTGG
1612423 -AACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612487 AGGCTTTTTGG
66 AGGCTTTTTGG
1612498 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612563 AGGCTTTTTGG
66 AGGCTTTTTGG
1612574 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612639 AGGCTTTTTGG
66 AGGCTTTTTGG
1612650 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612715 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1612726 AAACATCATGCACTGCAGGACTTACAGATGACCCTAGGGTTTTGAAAACATTAAAAAGCTCCTGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612791 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1612802 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612867 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1612878 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCACAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1612943 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1612954 AAACATCATGCACTGCAGGAC-TACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1613018 AGGC-TTTTGG
66 AGGCTTTTTGG
* *
1613028 AAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1613093 AGGC-TTTTGG
66 AGGCTTTTTGG
1613103 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
1613133 TGGGAAATAG
Statistics
Matches: 840, Mismatches: 20, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
74 27 0.03
75 197 0.23
76 616 0.73
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1616616 original size:113 final size:113
Alignment explanation
Indices: 1616465--1616672 Score: 362
Period size: 113 Copynumber: 1.8 Consensus size: 113
1616455 TCATCTTCCT
* * *
1616465 AATCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATCCAATGATTGGTTCTGGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1616530 AGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATTCATTTTCA
66 AGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATTCATTTTCA
* *
1616578 AATCCAATGATTGGTTTTGGGATTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATCCAATGATTGGTTCTGGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
*
1616643 AGATGCTATTGGGTCTTTTTATTTCTACTA
66 AGATGCTATTGGGTCTTCTTATTTCTACTA
1616673 CGAGAACGTG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (113 bp):
AATCCAATGATTGGTTCTGGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
AGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATTCATTTTCA
Found at i:1618355 original size:32 final size:32
Alignment explanation
Indices: 1618313--1618374 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1618303 GAAGAAATGA
* *
1618313 TTGTTTTGCTCATCTTGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTGGTAGAGATACTTCTCG
1618345 TTGTTATGCTCATCTGGTAGAGATACTTCT
1 TTGTTATGCTCATCTGGTAGAGATACTTCT
1618375 TGTGTATGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (32 bp):
TTGTTATGCTCATCTGGTAGAGATACTTCTCG
Found at i:1618999 original size:13 final size:13
Alignment explanation
Indices: 1618981--1619030 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
1618971 CTTGATTCAA
1618981 TTTTCCTTCTTTT
1 TTTTCCTTCTTTT
*
1618994 TTTTCCTTTTTGTT
1 TTTTCCTTCTT-TT
*
1619008 TTTTTCTT-TTTT
1 TTTTCCTTCTTTT
*
1619020 TTTTTCTTCTT
1 TTTTCCTTCTT
1619031 CTTTCTTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 10 0.30
13 14 0.42
14 9 0.27
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTCCTTCTTTT
Found at i:1619029 original size:15 final size:15
Alignment explanation
Indices: 1618990--1619030 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1618980 ATTTTCCTTC
1618990 TTTTTTTTC--CTTT
1 TTTTTTTTCTTCTTT
*
1619003 TTGTTTTT-TTCTTT
1 TTTTTTTTCTTCTTT
1619017 TTTTTTTTCTTCTT
1 TTTTTTTTCTTCTT
1619031 CTTTCTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.30
14 11 0.48
15 5 0.22
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTTTTTCTTCTTT
Found at i:1619339 original size:2 final size:2
Alignment explanation
Indices: 1619332--1619367 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1619322 ACAACAAATG
1619332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1619368 TTAAAAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1621589 original size:17 final size:15
Alignment explanation
Indices: 1621567--1621609 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
1621557 AAATGTAATG
1621567 TAAATGCGAAAAATGAA
1 TAAATGC-AAAAAT-AA
1621584 TAAATGCCAAAAATAA
1 TAAATG-CAAAAATAA
1621600 -AAATGCAAAA
1 TAAATGCAAAA
1621610 TGTGCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 2 0.08
17 12 0.48
18 1 0.04
ACGTcount: A:0.63, C:0.09, G:0.12, T:0.16
Consensus pattern (15 bp):
TAAATGCAAAAATAA
Found at i:1624925 original size:2 final size:2
Alignment explanation
Indices: 1624918--1624973 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
1624908 TATTTAAAAG
1624918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1624960 TT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT
1624974 GACTGATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1626259 original size:11 final size:11
Alignment explanation
Indices: 1626243--1626328 Score: 85
Period size: 11 Copynumber: 8.3 Consensus size: 11
1626233 TTTGGGCTTG
*
1626243 TAATAATTATT
1 TAATAATAATT
*
1626254 TAATAATAATA
1 TAATAATAATT
*
1626265 TAAT-AT-ATA
1 TAATAATAATT
1626274 TAAT-ATAA--
1 TAATAATAATT
1626282 TAATAAT-ATT
1 TAATAATAATT
*
1626292 TAATAATAATAA
1 TAATAATAAT-T
1626304 TAATAATAATT
1 TAATAATAATT
1626315 TAATAATAATT
1 TAATAATAATT
1626326 TAA
1 TAA
1626329 GTAAAATAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
8 5 0.08
9 11 0.17
10 10 0.15
11 29 0.45
12 10 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:1626260 original size:3 final size:3
Alignment explanation
Indices: 1626254--1626324 Score: 78
Period size: 3 Copynumber: 24.3 Consensus size: 3
1626244 AATAATTATT
*
1626254 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
*
1626298 TAA TAA TAA TAA TAA T-T TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1626325 TTAAGTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
2 7 0.12
3 46 0.79
4 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1626288 original size:25 final size:26
Alignment explanation
Indices: 1626254--1626324 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
1626244 AATAATTATT
1626254 TAATAATAATATAAT-ATATATAAT-A
1 TAATAATAATATAATAATA-ATAATAA
*
1626279 TAATAATAATAT-TTAATAATAATAA
1 TAATAATAATATAATAATAATAATAA
*
1626304 TAATAATAATTTAATAATAAT
1 TAATAATAATATAATAATAAT
1626325 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 6 0.15
25 27 0.68
26 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAATAATATAATAATAATAATAA
Found at i:1626304 original size:36 final size:38
Alignment explanation
Indices: 1626254--1626337 Score: 70
Period size: 36 Copynumber: 2.2 Consensus size: 38
1626244 AATAATTATT
* *
1626254 TAATAATAATATAAT-ATATATAATATAATAATAATAT-T
1 TAATAATAATATAATAATA-AT-ATTTAATAATAATATAA
*
1626292 TAATAAT-A-ATAATAATAATAATTTAATAATAATTTAA
1 TAATAATAATATAATAATAAT-ATTTAATAATAATATAA
1626329 GTAA-AATAA
1 -TAATAATAA
1626338 AAAATTGGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
36 21 0.54
37 7 0.18
38 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (38 bp):
TAATAATAATATAATAATAATATTTAATAATAATATAA
Found at i:1629029 original size:6 final size:6
Alignment explanation
Indices: 1629018--1629045 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1629008 CTTAATTGCG
1629018 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
1629046 GTATTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:1630471 original size:13 final size:14
Alignment explanation
Indices: 1630435--1630479 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
1630425 TATTTTTTTC
1630435 AAATAATCATAATAA
1 AAATAAT-ATAATAA
1630450 ATAATAATATAATAA
1 A-AATAATATAATAA
*
1630465 AAA-AATATAACAA
1 AAATAATATAATAA
1630478 AA
1 AA
1630480 TTACCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 11 0.39
14 2 0.07
15 9 0.32
16 6 0.21
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATATAATAA
Found at i:1630471 original size:16 final size:16
Alignment explanation
Indices: 1630435--1630468 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1630425 TATTTTTTTC
1630435 AAATAATCATAATAAA
1 AAATAATCATAATAAA
*
1630451 TAATAAT-ATAATAAA
1 AAATAATCATAATAAA
1630466 AAA
1 AAA
1630469 ATATAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATCATAATAAA
Found at i:1639279 original size:23 final size:23
Alignment explanation
Indices: 1639245--1639312 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1639235 CACCACAGCT
*
1639245 CGTATAAA-GCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1639267 CGTAGAATTGCACCTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
1639290 TGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1639313 AATAAATGTC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 6 0.16
23 31 0.84
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1639411 original size:21 final size:22
Alignment explanation
Indices: 1639378--1639436 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 22
1639368 AAGGACCAAG
1639378 TATGTGTCTCAAAAGACCT-CATA
1 TATGT-TC-CAAAAGACCTACATA
*
1639401 TATGTTCCAAAGGA--TACATA
1 TATGTTCCAAAAGACCTACATA
* *
1639421 TATGTCCCGAAAGACC
1 TATGTTCCAAAAGACC
1639437 GCGTAGACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 6 0.21
22 2 0.07
23 5 0.17
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (22 bp):
TATGTTCCAAAAGACCTACATA
Found at i:1639813 original size:19 final size:18
Alignment explanation
Indices: 1639773--1639820 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1639763 AGTCATGCAT
* *
1639773 ACATATAATTAATATAAT
1 ACATATAATCAATATAAC
*
1639791 ACATATAATCACATATAGC
1 ACATATAATCA-ATATAAC
1639810 ACATATAATCA
1 ACATATAATCA
1639821 TAACAAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (18 bp):
ACATATAATCAATATAAC
Found at i:1641122 original size:13 final size:13
Alignment explanation
Indices: 1641106--1641135 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1641096 CTTAATTGAG
1641106 AAAATTAAAATTT
1 AAAATTAAAATTT
1641119 AAAATTAAAATTT
1 AAAATTAAAATTT
1641132 AAAA
1 AAAA
1641136 ACTCGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:1641261 original size:5 final size:6
Alignment explanation
Indices: 1641245--1641302 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
1641235 GGAAAAATTT
* * *
1641245 TAAAAA TAAAAA TAAAAA TATTAAAG GAAAAGA AAAAAA TAAAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TA--AAAA TAAAA-A TAAAAA TAAAAA TAAAAA
1641295 TAAAAA TA
1 TAAAAA TA
1641303 TTAAATAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.12
6 30 0.70
7 4 0.09
8 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:1641280 original size:19 final size:19
Alignment explanation
Indices: 1641253--1641307 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
1641243 TTTAAAAATA
*
1641253 AAAATAAAAATATTAAAGG
1 AAAATAAAAATATTAAAAG
* * * *
1641272 AAAAGAAAAAAATAAAAAT
1 AAAATAAAAATATTAAAAG
1641291 AAAATAAAAATATTAAA
1 AAAATAAAAATATTAAA
1641308 TAAATTAAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAATAAAAATATTAAAAG
Found at i:1641342 original size:18 final size:18
Alignment explanation
Indices: 1641247--1641342 Score: 59
Period size: 19 Copynumber: 5.2 Consensus size: 18
1641237 AAAAATTTTA
*
1641247 AAAATAAAAATAAAAATATT
1 AAAAT-AAAATAAAAA-AAT
** *
1641267 AAAGGAAAAGAAAAAAAT
1 AAAATAAAATAAAAAAAT
*
1641285 AAAAATAAAATAAAAATAT
1 -AAAATAAAATAAAAAAAT
* * ***
1641304 TAAATAAATTAAAGGGA-
1 AAAATAAAATAAAAAAAT
*
1641321 AAAACAAAATAAAAAAAT
1 AAAATAAAATAAAAAAAT
1641339 AAAA
1 AAAA
1641343 AATGTTAAAT
Statistics
Matches: 55, Mismatches: 19, Indels: 6
0.69 0.24 0.08
Matches are distributed among these distances:
17 11 0.20
18 18 0.33
19 23 0.42
20 3 0.05
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAATAAAATAAAAAAAT
Found at i:1641373 original size:43 final size:44
Alignment explanation
Indices: 1641247--1641375 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 44
1641237 AAAAATTTTA
*
1641247 AAAATAAAAATA-AAAATATT-AAAGGAAAAGAAAAAAATAAAAAT
1 AAAATAAAAATATTAAATATTAAAAGG-AAA-AAAAAAATAAAAAT
* *
1641291 AAAATAAAAATATTAAATAAATTAAAGGGAAAAACAAAATAAAAA-
1 AAAATAAAAATATTAAAT--ATTAAAAGGAAAAAAAAAATAAAAAT
* * *
1641336 AATA-AAAAATGTTAAATATTAAAAGTATAAAAAAAAATAA
1 AAAATAAAAATATTAAATATTAAAAGGA-AAAAAAAAATAA
1641376 TAACAACAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
42 8 0.11
43 11 0.15
44 24 0.33
45 7 0.10
46 12 0.17
47 6 0.08
48 4 0.06
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (44 bp):
AAAATAAAAATATTAAATATTAAAAGGAAAAAAAAAATAAAAAT
Found at i:1646165 original size:21 final size:21
Alignment explanation
Indices: 1646139--1646238 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
1646129 AGGGTGTCAA
1646139 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
** *
1646160 AGTGCATCCACACACCCCTGC
1 AGTGCATCCATGCACCCCTAC
1646181 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
* * **
1646203 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTAC
1646224 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1646239 TCCATTTTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
20 14 0.22
21 32 0.51
22 2 0.03
23 15 0.24
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:1646238 original size:43 final size:42
Alignment explanation
Indices: 1646139--1646238 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
1646129 AGGGTGTCAA
*
1646139 AGTGCATCCATGCACCCCTACAGTGCATCCACACACCCCTGC
1 AGTGCATCCATGCACCCCTACAGTGCATCCACACACCCATGC
* ** *
1646181 AGTGCATCCATGCACCTGCC-ACTAGTGCATCGATGCA-CCATGT
1 AGTGCATCCATGCACC--CCTAC-AGTGCATCCACACACCCATGC
1646224 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1646239 TCCATTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 16 0.32
43 21 0.42
44 13 0.26
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.20
Consensus pattern (42 bp):
AGTGCATCCATGCACCCCTACAGTGCATCCACACACCCATGC
Found at i:1649402 original size:21 final size:21
Alignment explanation
Indices: 1649376--1649415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1649366 AAACAATTGG
1649376 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
1649397 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
1649416 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:1649688 original size:23 final size:21
Alignment explanation
Indices: 1649637--1649715 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
1649627 AAGGTGTCAA
*
1649637 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTAC
1649658 AGTGCATCCATGCACCTACC-AC
1 AGTGCATCCATGCACC--CCTAC
* * **
1649680 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTAC
1649701 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1649716 TCTATTTCGA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 14 0.30
21 16 0.34
22 2 0.04
23 15 0.32
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:1650676 original size:90 final size:89
Alignment explanation
Indices: 1650519--1650694 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 89
1650509 AACACACACA
* * *
1650519 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATTTATAT
1 CTTTTATAGCAAAGTTACCCTAATCATATTAGGGCTTTATTATTTCAAATTAATTAAATCTATAT
* *
1650584 TTAATTAATTGGAATTTAATAATC
66 TTAATTAATTGAAATTAAATAATC
* *
1650608 CTTTTATATCAAAGTTACCCTAATCATATTAGGGACTTTATTGTTTCAAATTAATTAAATCTATA
1 CTTTTATAGCAAAGTTACCCTAATCATATTAGGG-CTTTATTATTTCAAATTAATTAAATCTATA
1650673 TTTAATTAATTGAAATTAAATA
65 TTTAATTAATTGAAATTAAATA
1650695 TTCAGGATTA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 32 0.41
90 47 0.59
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (89 bp):
CTTTTATAGCAAAGTTACCCTAATCATATTAGGGCTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGAAATTAAATAATC
Found at i:1655440 original size:16 final size:15
Alignment explanation
Indices: 1655399--1655478 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 15
1655389 ATTTAAATTT
*
1655399 TAAAAGTAATAAAAA
1 TAAAAATAATAAAAA
1655414 TAAAAATAATAAAAA
1 TAAAAATAATAAAAA
1655429 GTAAAACA-AATAAAACA
1 -TAAAA-ATAATAAAA-A
* *
1655446 -AATAATAATTAGAAA
1 TAAAAATAA-TAAAAA
1655461 -AAAAAT-A-AAAAA
1 TAAAAATAATAAAAA
1655473 TAAAAA
1 TAAAAA
1655479 AACATACTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
12 4 0.07
13 5 0.09
14 2 0.04
15 25 0.46
16 16 0.30
17 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (15 bp):
TAAAAATAATAAAAA
Found at i:1655462 original size:28 final size:27
Alignment explanation
Indices: 1655417--1655470 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1655407 ATAAAAATAA
*
1655417 AAATAATAAAAAGTAAAACAAATAAAAC
1 AAATAATAAAAAG-AAAAAAAATAAAAC
**
1655445 AAATAATAATTAGAAAAAAAATAAAA
1 AAATAATAAAAAGAAAAAAAATAAAA
1655471 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (27 bp):
AAATAATAAAAAGAAAAAAAATAAAAC
Found at i:1655473 original size:25 final size:26
Alignment explanation
Indices: 1655400--1655480 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 26
1655390 TTTAAATTTT
*
1655400 AAAAGTAATAAAAAT-AAAAATAATA
1 AAAAGTAAAAAAAATAAAAAATAATA
*
1655425 AAAAGTAAAACAAATAAAACAAATAATA
1 AAAAGTAAAAAAAAT-AAA-AAATAATA
**
1655453 ATTAG-AAAAAAAATAAAAAATAA-A
1 AAAAGTAAAAAAAATAAAAAATAATA
1655477 AAAA
1 AAAA
1655481 CATACTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
24 3 0.07
25 19 0.41
26 3 0.07
27 10 0.22
28 11 0.24
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (26 bp):
AAAAGTAAAAAAAATAAAAAATAATA
Found at i:1655479 original size:16 final size:16
Alignment explanation
Indices: 1655409--1655480 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 16
1655399 TAAAAGTAAT
1655409 AAAAAT-AAAAATAATA
1 AAAAATAAAAAATAA-A
*
1655425 AAAAGTAAAACAAATAAA
1 AAAAAT-AAA-AAATAAA
* * *
1655443 ACAAATAATAATTAGAAA
1 AAAAATAA-AA-AATAAA
1655461 AAAAATAAAAAATAAA
1 AAAAATAAAAAATAAA
1655477 AAAA
1 AAAA
1655481 CATACTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
16 13 0.30
17 5 0.12
18 19 0.44
19 6 0.14
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAATAAAAAATAAA
Found at i:1655596 original size:10 final size:10
Alignment explanation
Indices: 1655581--1655610 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
1655571 TATAAAGGAT
1655581 CAAATTGAAA
1 CAAATTGAAA
1655591 CAAATTGAAA
1 CAAATTGAAA
1655601 CAAATTGAAA
1 CAAATTGAAA
1655611 TTGATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (10 bp):
CAAATTGAAA
Found at i:1656734 original size:16 final size:18
Alignment explanation
Indices: 1656713--1656753 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
1656703 TTTAAAAAAG
1656713 AAAATAAAAA-AT-TAAT
1 AAAATAAAAACATATAAT
1656729 AAAATAAAAACATATAAT
1 AAAATAAAAACATATAAT
1656747 -AAATAAA
1 AAAATAAA
1656754 TATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 9 0.39
18 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATAAAAACATATAAT
Found at i:1656884 original size:39 final size:41
Alignment explanation
Indices: 1656767--1656933 Score: 151
Period size: 39 Copynumber: 4.2 Consensus size: 41
1656757 AATAATAATA
*
1656767 ATAT-TATATATATTTAAAAAT-A-TTTCAAAA--ATCATAT
1 ATATATATATATATTCAAAAATCATTTTCAAAACTAT-ATAT
*
1656804 A-ATATATAT-TTTTCAAAAATCATTTTCAAAACTATAATAT
1 ATATATATATATATTCAAAAATCATTTTCAAAACTAT-ATAT
*
1656844 ATATATATATATATAT-ATTCAAAAT-GTTTTCAAAACTATATAT
1 ATATATATATATAT-TCA---AAAATCATTTTCAAAACTATATAT
* *
1656887 -TATATAT-TTTTTTCAAAAATCATTTTCAAAACTATA-AT
1 ATATATATATATATTCAAAAATCATTTTCAAAACTATATAT
1656925 ATATATATA
1 ATATATATA
1656934 AACCAATTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
36 11 0.10
37 7 0.07
38 15 0.14
39 21 0.20
40 8 0.07
41 12 0.11
42 10 0.09
43 5 0.05
44 13 0.12
45 5 0.05
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (41 bp):
ATATATATATATATTCAAAAATCATTTTCAAAACTATATAT
Found at i:1656918 original size:83 final size:81
Alignment explanation
Indices: 1656758--1656933 Score: 252
Period size: 83 Copynumber: 2.2 Consensus size: 81
1656748 AATAAATATA
1656758 ATAATA-ATA-ATATTATATATATTTAAAAATATTTCAAAAATCATATAATATATATTTTTCAAA
1 ATAATATATATATATTATATATATTTAAAAATATTTCAAAAATCATATAATATATATTTTTCAAA
1656821 AATCATTTTCAAAACT
66 AATCATTTTCAAAACT
* * * *
1656837 ATAATATATATATA-TATATATATATTCAAAATGTTTTCAAAACTAT-ATATTATATATTTTTTT
1 ATAATATATATATATTATATATAT-TTAAAAAT-ATTTCAAAA--ATCATATAATATATATTTTT
1656900 CAAAAATCATTTTCAAAACT
62 CAAAAATCATTTTCAAAACT
1656920 ATAATATATATATA
1 ATAATATATATATA
1656934 AACCAATTTT
Statistics
Matches: 87, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
79 6 0.07
80 12 0.14
81 10 0.11
82 8 0.09
83 49 0.56
84 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (81 bp):
ATAATATATATATATTATATATATTTAAAAATATTTCAAAAATCATATAATATATATTTTTCAAA
AATCATTTTCAAAACT
Found at i:1657016 original size:12 final size:14
Alignment explanation
Indices: 1657002--1657063 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
1656992 ATATTTTTAA
1657002 AAATAT-TATATA-
1 AAATATATATATAT
1657014 AAAT-TATATATAT
1 AAATATATATATAT
*
1657027 ATATATATATATAT
1 AAATATATATATAT
*
1657041 ATATATATATATAT
1 AAATATATATATAT
*
1657055 ATATATATA
1 AAATATATA
1657064 ATCTAGACTA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
11 1 0.02
12 10 0.22
13 3 0.07
14 32 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:1657023 original size:2 final size:2
Alignment explanation
Indices: 1657018--1657063 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1657008 TATATAAAAT
1657018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1657060 TA TA
1 TA TA
1657064 ATCTAGACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1657024 original size:36 final size:39
Alignment explanation
Indices: 1656950--1657030 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 39
1656940 TTTTTAAACA
* *
1656950 ATATATATGTTTTCAAAAATCATTTTCTAAAAATTATAT
1 ATATATATGTTTTCAAAAATCATTATATAAAAATTATAT
1656989 AT-TATAT-TTTT-AAAAAT-ATTATAT-AAAATTATAT
1 ATATATATGTTTTCAAAAATCATTATATAAAAATTATAT
1657023 ATATATAT
1 ATATATAT
1657031 ATATATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 12 0.31
35 10 0.26
36 6 0.15
37 4 0.10
38 5 0.13
39 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (39 bp):
ATATATATGTTTTCAAAAATCATTATATAAAAATTATAT
Found at i:1661708 original size:13 final size:13
Alignment explanation
Indices: 1661690--1661716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1661680 CAAAATATTA
1661690 TAAGAATTTCTAC
1 TAAGAATTTCTAC
1661703 TAAGAATTTCTAC
1 TAAGAATTTCTAC
1661716 T
1 T
1661717 CGGCTTTATG
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAGAATTTCTAC
Found at i:1669156 original size:43 final size:43
Alignment explanation
Indices: 1669107--1669205 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
1669097 AATGCGCTTC
* *
1669107 GAAGAGGATCCCA-G-ACAGAAACATGACATGGATATTACCCTTT
1 GAAGAGGATCCCATGTA-A-AAACAGGACATGGATATTACCCTCT
* *
1669150 GTAGAGGATCCCATGTAAAATCAGGACATGGATATTACCCTCT
1 GAAGAGGATCCCATGTAAAAACAGGACATGGATATTACCCTCT
*
1669193 GAAGAGGAACCCA
1 GAAGAGGATCCCA
1669206 CTCAGACGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 45 0.94
44 2 0.04
45 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (43 bp):
GAAGAGGATCCCATGTAAAAACAGGACATGGATATTACCCTCT
Found at i:1671066 original size:35 final size:35
Alignment explanation
Indices: 1671009--1671081 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
1670999 TCATAACTAA
* * *
1671009 TTATGTGATAAGGTTTAGGGTTT-AGGATTTAGAGT
1 TTATGCGATAAGGTTTAAGGTTTAAAG-TTTAGAGT
1671044 TTATGCGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGCGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
1671079 TTA
1 TTA
1671082 GGGTTTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 3 0.09
35 28 0.85
36 2 0.06
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.42
Consensus pattern (35 bp):
TTATGCGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:1671082 original size:42 final size:42
Alignment explanation
Indices: 1671017--1671109 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
1671007 AATTATGTGA
** *
1671017 TAAGGTTTAGGGTTTAGGATTTAGAGTTTATGCGATAGGATT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGCGATAAGATT
* * *
1671059 TAAGGTTTAAAGTTTA-GAGTTTAGGGTTTATGTGTTAAGATT
1 TAAGGTTTAAAGTTTAGGA-TTTAGAGTTTATGCGATAAGATT
1671101 TAAGGTTTA
1 TAAGGTTTA
1671110 TGTGTTAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGCGATAAGATT
Found at i:1671110 original size:21 final size:21
Alignment explanation
Indices: 1671055--1671125 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
1671045 TATGCGATAG
*
1671055 GATTTAAGGTTTAAAGT-TT-A
1 GATTTAAGGTTT-ATGTGTTAA
*
1671075 GAGTTTAGGGTTTATGTGTTAA
1 GA-TTTAAGGTTTATGTGTTAA
*
1671097 GATTTAAGGTTTATGTGTTAG
1 GATTTAAGGTTTATGTGTTAA
*
1671118 GGTTTAAG
1 GATTTAAG
1671126 TTATGCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.12
21 35 0.81
22 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
GATTTAAGGTTTATGTGTTAA
Found at i:1671123 original size:42 final size:41
Alignment explanation
Indices: 1671017--1671136 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 41
1671007 AATTATGTGA
* * *
1671017 TAAGGTTTAGGGTTTAGGATTTAGAGTTTATGCGATAGGATT
1 TAAGGTTTAGTG-TTAGGGTTTAGAGTTTATGCGATAAGATT
* * * *
1671059 TAAGGTTTAAAGT-TTAGAGTTTAGGGTTTATGTGTTAAGATT
1 TAAGGTTT--AGTGTTAGGGTTTAGAGTTTATGCGATAAGATT
*
1671101 TAAGGTTTATGTGTTAGGGTTTA-AG-TTATGCCATAA
1 TAAGGTTTA-GTGTTAGGGTTTAGAGTTTATGCGATAA
1671137 AGGTAACATA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
40 9 0.15
41 3 0.05
42 48 0.77
44 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.42
Consensus pattern (41 bp):
TAAGGTTTAGTGTTAGGGTTTAGAGTTTATGCGATAAGATT
Found at i:1672843 original size:27 final size:27
Alignment explanation
Indices: 1672803--1672892 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
1672793 CCTAGTATTG
* * *
1672803 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTTTGTGCTTGGTGCTCTGTCCCTT
*
1672830 GTTTTTTTGCTTGGTGCTCTGTCCCTT
1 GTTTTTGTGCTTGGTGCTCTGTCCCTT
1672857 G-TTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTTGTGCTTGGTGCTCTGTCCCTT
1672883 GTTTTGTGTG
1 GTTTT-TGTG
1672893 TCTGCAGGGC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
26 25 0.45
27 27 0.48
28 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.27, T:0.54
Consensus pattern (27 bp):
GTTTTTGTGCTTGGTGCTCTGTCCCTT
Found at i:1672868 original size:26 final size:26
Alignment explanation
Indices: 1672803--1672890 Score: 131
Period size: 26 Copynumber: 3.3 Consensus size: 26
1672793 CCTAGTATTG
* *
1672803 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTT-GTGCTTGGTGCTCTGTCCCTT
*
1672830 GTTTTTTTGCTTGGTGCTCTGTCCCTT
1 G-TTTTGTGCTTGGTGCTCTGTCCCTT
1672857 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
1672883 GTTTTGTG
1 GTTTTGTG
1672891 TGTCTGCAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 32 0.57
27 20 0.36
28 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.26, T:0.55
Consensus pattern (26 bp):
GTTTTGTGCTTGGTGCTCTGTCCCTT
Found at i:1673284 original size:17 final size:17
Alignment explanation
Indices: 1673262--1673298 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1673252 ATTCGAGTTT
*
1673262 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
1673279 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
1673296 GAG
1 GAG
1673299 CTCAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:1673297 original size:11 final size:11
Alignment explanation
Indices: 1673283--1673346 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
1673273 TTAATCGAGT
*
1673283 TCGAGCTTGAA
1 TCGAGCTTAAA
*
1673294 TCGAGCTCAAAA
1 TCGAGCT-TAAA
*
1673306 TCGAGCTTGAA
1 TCGAGCTTAAA
*
1673317 TCGAGCTCAAAA
1 TCGAGCT-TAAA
*
1673329 TCGAGCTTCAA
1 TCGAGCTTAAA
1673340 TCGAGCT
1 TCGAGCT
1673347 CGAGCTCTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 25 0.58
12 18 0.42
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (11 bp):
TCGAGCTTAAA
Found at i:1673313 original size:23 final size:23
Alignment explanation
Indices: 1673283--1673347 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
1673273 TTAATCGAGT
1673283 TCGAGCTTGAATCGAGCTCAAAA
1 TCGAGCTTGAATCGAGCTCAAAA
1673306 TCGAGCTTGAATCGAGCTCAAAA
1 TCGAGCTTGAATCGAGCTCAAAA
*
1673329 TCGAGCTTCAATCGAGCTC
1 TCGAGCTTGAATCGAGCTC
1673348 GAGCTCTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCAAAA
Found at i:1673602 original size:17 final size:19
Alignment explanation
Indices: 1673578--1673617 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1673568 CCCCTCAAAA
*
1673578 TTTAAAATTAT-TATATAT
1 TTTAAATTTATCTATATAT
*
1673596 TTTAAATTTTTCTATATAT
1 TTTAAATTTATCTATATAT
1673615 TTT
1 TTT
1673618 TTATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAAATTTATCTATATAT
Found at i:1673995 original size:24 final size:24
Alignment explanation
Indices: 1673971--1674015 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1673961 CGGTGCCGAC
1673971 CCCT-GGAGAAGAAGCAGCACAGA
1 CCCTGGGAGAAGAAGCAGCACAGA
*
1673994 CCTTGGGAGAAGAAGCAGCACA
1 CCCTGGGAGAAGAAGCAGCACA
1674016 ATCTTCCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.38, C:0.24, G:0.31, T:0.07
Consensus pattern (24 bp):
CCCTGGGAGAAGAAGCAGCACAGA
Found at i:1680509 original size:29 final size:31
Alignment explanation
Indices: 1680443--1680510 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 31
1680433 AACGATCCAG
* *
1680443 TGGTATAATTGAAACAAAATTCAAAGTTTAG
1 TGGTATAATTGAAACAAAATTCAAAGTTCAA
* *
1680474 TGATATAATTG-AA-AAAATTGAAAGTTCAA
1 TGGTATAATTGAAACAAAATTCAAAGTTCAA
1680503 TGGTATAA
1 TGGTATAA
1680511 ATGATACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.62
30 2 0.06
31 10 0.31
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.32
Consensus pattern (31 bp):
TGGTATAATTGAAACAAAATTCAAAGTTCAA
Found at i:1681520 original size:38 final size:39
Alignment explanation
Indices: 1681463--1681568 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 39
1681453 CAGGTAGAGA
* * *
1681463 GAGAGACGCATGAAGTGCAATGCGTCTTC-GGAGTAGGG
1 GAGAGACGCATGGACTGCAATACGTCTTCAGGAGTAGGG
*
1681501 GAGAGACGCATGGACTGCAATACGTCTTCGAGGGGTAGGG
1 GAGAGACGCATGGACTGCAATACGTCTTC-AGGAGTAGGG
* *
1681541 GAGAGACGAATAGACTGCAATACGTCTT
1 GAGAGACGCATGGACTGCAATACGTCTT
1681569 TGAGATGTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 26 0.43
40 34 0.57
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (39 bp):
GAGAGACGCATGGACTGCAATACGTCTTCAGGAGTAGGG
Found at i:1689434 original size:29 final size:29
Alignment explanation
Indices: 1689392--1689491 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
1689382 CTCTTTAATT
1689392 TTATTGCAATCCCATCAAGCTGATTCTGA
1 TTATTGCAATCCCATCAAGCTGATTCTGA
1689421 TTATTGCAATCCCATCAAGCTGATTCTGA
1 TTATTGCAATCCCATCAAGCTGATTCTGA
1689450 TTATTGCAATCCCATCAAGCTGATTCTGA
1 TTATTGCAATCCCATCAAGCTGATTCTGA
1689479 TTATTGCAATCCC
1 TTATTGCAATCCC
1689492 TACTCAAAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (29 bp):
TTATTGCAATCCCATCAAGCTGATTCTGA
Found at i:1689787 original size:25 final size:25
Alignment explanation
Indices: 1689759--1689838 Score: 133
Period size: 25 Copynumber: 3.1 Consensus size: 25
1689749 TCCAAGGTGG
1689759 TCTCATGGGTATGTTAATGGCAGAT
1 TCTCATGGGTATGTTAATGGCAGAT
1689784 TCTCATGGGTATGTTAATGGCAGAT
1 TCTCATGGGTATGTTAATGGCAGAT
*
1689809 TCTCATGGGTATTTTAATATGGCAGAT
1 TCTCATGGGTATGTT-A-ATGGCAGAT
1689836 TCT
1 TCT
1689839 TTTATATTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 39 0.75
26 1 0.02
27 12 0.23
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (25 bp):
TCTCATGGGTATGTTAATGGCAGAT
Found at i:1690058 original size:14 final size:13
Alignment explanation
Indices: 1690039--1690074 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1690029 ATACATAGTG
1690039 AATTTGTAGTATAT
1 AATTTGTA-TATAT
1690053 AATTTGT-TATAT
1 AATTTGTATATAT
1690065 AATTTGTATA
1 AATTTGTATA
1690075 CTTGCTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.57
13 2 0.10
14 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (13 bp):
AATTTGTATATAT
Found at i:1691580 original size:42 final size:42
Alignment explanation
Indices: 1691513--1691636 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
1691503 CCCTACTTTT
* * * * *
1691513 TCATCGAGTCAATTCTCCACTTCGACACCAAGATCCATCACC
1 TCATCGAGCCAATTCTACACCTCGACATCGAGATCCATCACC
*
1691555 TCATCGAGCCAATTCTACACCTCGACATCGAGATCCATCGCC
1 TCATCGAGCCAATTCTACACCTCGACATCGAGATCCATCACC
*
1691597 TC-T--AGCCAACTCTACACCTCGACATCGAGATCCATCACC
1 TCATCGAGCCAATTCTACACCTCGACATCGAGATCCATCACC
1691636 T
1 T
1691637 ATTCCATCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.47
41 1 0.01
42 38 0.51
ACGTcount: A:0.27, C:0.39, G:0.11, T:0.23
Consensus pattern (42 bp):
TCATCGAGCCAATTCTACACCTCGACATCGAGATCCATCACC
Found at i:1691615 original size:39 final size:41
Alignment explanation
Indices: 1691534--1691636 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 41
1691524 ATTCTCCACT
* * *
1691534 TCGACACCAAGATCCATCACCTCATCGAGCCAATTCTACACC
1 TCGACATCGAGATCCATCACCTCATC-AGCCAACTCTACACC
*
1691576 TCGACATCGAGATCCATCGCCTC-T-AGCCAACTCTACACC
1 TCGACATCGAGATCCATCACCTCATCAGCCAACTCTACACC
1691615 TCGACATCGAGATCCATCACCT
1 TCGACATCGAGATCCATCACCT
1691637 ATTCCATCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 35 0.62
41 1 0.02
42 20 0.36
ACGTcount: A:0.28, C:0.40, G:0.12, T:0.20
Consensus pattern (41 bp):
TCGACATCGAGATCCATCACCTCATCAGCCAACTCTACACC
Found at i:1691798 original size:21 final size:21
Alignment explanation
Indices: 1691736--1691911 Score: 133
Period size: 21 Copynumber: 8.4 Consensus size: 21
1691726 ACCTCCATGG
* * *
1691736 GATGAGTTAAGTGCTTTACGA
1 GATGAGGTAGGTGCTTTACGT
*
1691757 GTTGAGGTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
1691778 GATAAGGTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
** **
1691799 GATGA-CAATGGTGCTTTATAT
1 GATGAGGTA-GGTGCTTTACGT
*
1691820 GATGAGGTAGGCGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* * **
1691841 GATGAGGTAAGTGTTTTATAT
1 GATGAGGTAGGTGCTTTACGT
**
1691862 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
**
1691883 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
*
1691904 AATGAGGT
1 GATGAGGT
1691912 CTACGTGAGA
Statistics
Matches: 121, Mismatches: 30, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.02
21 118 0.98
22 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.35
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:1691886 original size:63 final size:63
Alignment explanation
Indices: 1691746--1691887 Score: 194
Period size: 63 Copynumber: 2.3 Consensus size: 63
1691736 GATGAGTTAA
* * * * *
1691746 GTGCTTTACGAGTTGAGGTAGGTGCTTTACGTGATAAGGTAGGTGCTTTACGTGATGACAATG
1 GTGCTTTACGTGATGAGGTAGGCGCTTTACGTGATAAGGTAAGTGCTTTACATGATGACAATG
** * * *
1691809 GTGCTTTATATGATGAGGTAGGCGCTTTACGTGATGAGGTAAGTGTTTTATATGATGACAATG
1 GTGCTTTACGTGATGAGGTAGGCGCTTTACGTGATAAGGTAAGTGCTTTACATGATGACAATG
1691872 GTGCTTTACGTGATGA
1 GTGCTTTACGTGATGA
1691888 CAATGGTGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (63 bp):
GTGCTTTACGTGATGAGGTAGGCGCTTTACGTGATAAGGTAAGTGCTTTACATGATGACAATG
Found at i:1691899 original size:63 final size:63
Alignment explanation
Indices: 1691764--1691911 Score: 181
Period size: 63 Copynumber: 2.3 Consensus size: 63
1691754 CGAGTTGAGG
* * * * **
1691764 TAGGTGCTTTACGTGATAAGGTAGGTGCTTTACGTGATGACAATGGTGCTTTATATGATGAGG
1 TAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGGTGCTTTACATGATGAAA
* * * *
1691827 TAGGCGCTTTACGTGATGAGGTAAGTGTTTTATATGATGACAATGGTGCTTTACGTGATGACAA
1 TAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGGTGCTTTACATGATGA-AA
*
1691891 T-GGTGCTTTACGTAATGAGGT
1 TAGGTGCTTTACGTGATGAGGT
1691912 CTACGTGAGA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 71 0.99
64 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.35
Consensus pattern (63 bp):
TAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGGTGCTTTACATGATGAAA
Found at i:1692379 original size:21 final size:21
Alignment explanation
Indices: 1692320--1692371 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1692310 GAGGCCCCTT
1692320 CCATCGTTCAGGATCCACCTC
1 CCATCGTTCAGGATCCACCTC
1692341 CCATCGTTCAGGATCCACC-C
1 CCATCGTTCAGGATCCACCTC
1692361 CACATCGTTCA
1 C-CATCGTTCA
1692372 AAATCCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.21, C:0.42, G:0.13, T:0.23
Consensus pattern (21 bp):
CCATCGTTCAGGATCCACCTC
Found at i:1693742 original size:20 final size:22
Alignment explanation
Indices: 1693717--1693774 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1693707 TTCCCCTTGA
1693717 AGTGCATCGATGCAT-TCT-AC
1 AGTGCATCGATGCATCTCTAAC
*
1693737 AGTGCATCGATGCATCCTTTAAC
1 AGTGCATCGATGCAT-CTCTAAC
1693760 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1693775 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 15 0.45
22 2 0.06
23 3 0.09
24 13 0.39
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATCTCTAAC
Found at i:1693916 original size:64 final size:64
Alignment explanation
Indices: 1693762--1693923 Score: 161
Period size: 63 Copynumber: 2.5 Consensus size: 64
1693752 CCTTTAACAT
* * * *
1693762 GTGCATCGATGCACTACC-CATGCATCGATACAC-AACTCACCTTCGATGTTTTAATATTAAGGG
1 GTGCATCGATGCA-TTCCTTATGCATCGATACACTAACTCACATTCGATGTTTTAATATTAACGG
* ** * * * *
1693825 GTGCATCGATGCACTATTTGTGCATCGATACACTGA-TGACATTCGATGTTTGT-ATTTTAAACG
1 GTGCATCGATGCATTCCTTATGCATCGATACACTAACTCACATTCGATGTTT-TAATATT-AACG
1693888 G
64 G
*
1693889 GTGCATCGATGCATTCCTTATGCATCGATGCACTA
1 GTGCATCGATGCATTCCTTATGCATCGATACACTA
1693924 TTGGTATTCG
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
63 43 0.55
64 35 0.45
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATTCCTTATGCATCGATACACTAACTCACATTCGATGTTTTAATATTAACGG
Found at i:1695077 original size:31 final size:31
Alignment explanation
Indices: 1695039--1695192 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
1695029 CCCGAAGGAC
* *
1695039 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1695070 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1695101 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1695132 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1695163 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1695193 CCCTCGACCC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1695893 original size:21 final size:21
Alignment explanation
Indices: 1695863--1695907 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1695853 ATTCTGTCGT
* *
1695863 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1695884 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1695905 TTG
1 TTG
1695908 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1698310 original size:20 final size:22
Alignment explanation
Indices: 1698285--1698342 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1698275 TTCCCCTTGA
1698285 AGTGCATCGATGCAT-TCT-AC
1 AGTGCATCGATGCATCTCTAAC
*
1698305 AGTGCATCGATGCATCCTTTAAC
1 AGTGCATCGATGCAT-CTCTAAC
1698328 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1698343 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 15 0.45
22 2 0.06
23 3 0.09
24 13 0.39
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATCTCTAAC
Found at i:1702908 original size:3 final size:3
Alignment explanation
Indices: 1702900--1702942 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1702890 TCTTCGGGGA
1702900 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1702943 AGGGTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:1703213 original size:24 final size:24
Alignment explanation
Indices: 1703186--1703239 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1703176 CTGAAACATC
1703186 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
1703210 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1703234 ATCAAA
1 ATCAAA
1703240 TTTCAAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1703253 original size:24 final size:24
Alignment explanation
Indices: 1703202--1703253 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1703192 ATCCGAGTAT
* * *
1703202 TGACCAAGATCAAAGTCCGAGTAT
1 TGACCAAGATCAAAGTCCAAATAC
* *
1703226 TGACCAAGATCAAATTTCAAATAC
1 TGACCAAGATCAAAGTCCAAATAC
1703250 TGAC
1 TGAC
1703254 TAGCACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCAAATAC
Found at i:1704239 original size:20 final size:20
Alignment explanation
Indices: 1704216--1704273 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1704206 ACGAAAATCA
*
1704216 CAACTCGAAAATGAAATTTG
1 CAACTCAAAAATGAAATTTG
* *
1704236 CAACTCTAAAATGAAAATTG
1 CAACTCAAAAATGAAATTTG
1704256 CAACTCAAAAATGAAATT
1 CAACTCAAAAATGAAATT
1704274 CGATTTGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (20 bp):
CAACTCAAAAATGAAATTTG
Found at i:1704293 original size:20 final size:20
Alignment explanation
Indices: 1704272--1704449 Score: 221
Period size: 20 Copynumber: 8.9 Consensus size: 20
1704262 AAAAATGAAA
* **
1704272 TTCGATTTGCGAATTCGAAA
1 TTCGAGTTGCGAATTCGATT
1704292 TTCGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGATT
1704312 TTCGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGATT
**
1704332 TTCGAGTTGCGAATTCGAAA
1 TTCGAGTTGCGAATTCGATT
*
1704352 TTCAAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGATT
*
1704372 TTTGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGATT
*
1704392 TTCGAGTTGCGAATTCAATT
1 TTCGAGTTGCGAATTCGATT
* * * * *
1704412 TTCAAGTTACGAAATCCATA
1 TTCGAGTTGCGAATTCGATT
* *
1704432 TTCAAGTTACGAATTCGA
1 TTCGAGTTGCGAATTCGA
1704450 AAATTGAGTT
Statistics
Matches: 139, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 139 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (20 bp):
TTCGAGTTGCGAATTCGATT
Found at i:1704345 original size:60 final size:60
Alignment explanation
Indices: 1704272--1704449 Score: 250
Period size: 60 Copynumber: 3.0 Consensus size: 60
1704262 AAAAATGAAA
* *
1704272 TTCGATTTGCGAATTCGAAATTCGAGTTGCGAATTCGATTTTCGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGAAATTCAAGTTGCGAATTCGATTTTCGAGTTGCGAATTCGATT
*
1704332 TTCGAGTTGCGAATTCGAAATTCAAGTTGCGAATTCGATTTTTGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGAAATTCAAGTTGCGAATTCGATTTTCGAGTTGCGAATTCGATT
* * * * * * *
1704392 TTCGAGTTGCGAATTC-AATTTTCAAGTTACGAAATCCATATTCAAGTTACGAATTCGA
1 TTCGAGTTGCGAATTCGAA-ATTCAAGTTGCGAATTCGATTTTCGAGTTGCGAATTCGA
1704450 AAATTGAGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 2 0.02
60 104 0.98
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (60 bp):
TTCGAGTTGCGAATTCGAAATTCAAGTTGCGAATTCGATTTTCGAGTTGCGAATTCGATT
Found at i:1704495 original size:20 final size:19
Alignment explanation
Indices: 1704270--1704528 Score: 189
Period size: 20 Copynumber: 12.9 Consensus size: 19
1704260 TCAAAAATGA
*
1704270 AATTCGATTTGCGAATTCG
1 AATTCGAGTTGCGAATTCG
1704289 AAATTCGAGTTGCGAATTCG
1 -AATTCGAGTTGCGAATTCG
*
1704309 ATTTTCGAGTTGCGAATTCG
1 A-ATTCGAGTTGCGAATTCG
*
1704329 ATTTTCGAGTTGCGAATTCG
1 A-ATTCGAGTTGCGAATTCG
*
1704349 AAATTCAAGTTGCGAATTCG
1 -AATTCGAGTTGCGAATTCG
* *
1704369 ATTTTTGAGTTGCGAATTCG
1 A-ATTCGAGTTGCGAATTCG
*
1704389 ATTTTCGAGTTGCGAATTC-
1 A-ATTCGAGTTGCGAATTCG
* * * *
1704408 AATTTTCAAGTTACGAAATCC
1 AA--TTCGAGTTGCGAATTCG
* *
1704429 ATATTCAAGTTACGAATTCG
1 A-ATTCGAGTTGCGAATTCG
*
1704449 AAAATT-GAGTTGTGAAATTGGCG
1 --AATTCGAGTTGCG-AATT--CG
*
1704472 AATTCGAGTTGCGAAATCCG
1 AATTCGAGTTGCG-AATTCG
* *
1704492 AATTCGAGTTGTGAATTTG
1 AATTCGAGTTGCGAATTCG
**
1704511 AAAACTGAGTTGCGAATT
1 AATTC-GAGTTGCGAATT
1704529 TGAAAACTGA
Statistics
Matches: 200, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
19 10 0.05
20 162 0.81
21 13 0.06
22 13 0.06
23 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (19 bp):
AATTCGAGTTGCGAATTCG
Found at i:1704529 original size:20 final size:20
Alignment explanation
Indices: 1704497--1704550 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1704487 ATCCGAATTC
*
1704497 GAGTTGTGAATTTGAAAACT
1 GAGTTGCGAATTTGAAAACT
1704517 GAGTTGCGAATTTGAAAACT
1 GAGTTGCGAATTTGAAAACT
*
1704537 GAGTTTCGAATTTG
1 GAGTTGCGAATTTG
1704551 GCAAATTCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (20 bp):
GAGTTGCGAATTTGAAAACT
Found at i:1704578 original size:82 final size:82
Alignment explanation
Indices: 1704436--1704590 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 82
1704426 TCCATATTCA
* * *
1704436 AGTTACGAATTCGAAAATTGAGTTGTGAAATTGGCGAATTCGAGTTGCGAAATCCGAATTCGAGT
1 AGTTACGAATTCGAAAACTGAGTTGTGAAATTGGCAAATTCGAGTTGCGAAATCCAAATTCGAGT
1704501 TGTGAATTTGAAAACTG
66 TGTGAATTTGAAAACTG
* * * * ** **
1704518 AGTTGCGAATTTGAAAACTGAGTT-TCGAATTTGGCAAATTCGTGTTGCGAAATGTAAATTCTTG
1 AGTTACGAATTCGAAAACTGAGTTGT-GAAATTGGCAAATTCGAGTTGCGAAATCCAAATTCGAG
1704582 TTGTGAATT
65 TTGTGAATT
1704591 CGTTGGTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 1 0.02
82 60 0.98
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (82 bp):
AGTTACGAATTCGAAAACTGAGTTGTGAAATTGGCAAATTCGAGTTGCGAAATCCAAATTCGAGT
TGTGAATTTGAAAACTG
Found at i:1705215 original size:20 final size:21
Alignment explanation
Indices: 1705167--1705226 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
1705157 AACTCAGTTT
*
1705167 TCAA-ATTCGCAACGCGAATA
1 TCAAGATTCGCAACGCGATTA
* *
1705187 TCCAGATTCGCAACGCGATTG
1 TCAAGATTCGCAACGCGATTA
*
1705208 T-AAGATTCGCAATGCGATT
1 TCAAGATTCGCAACGCGATT
1705227 TTGAAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TCAAGATTCGCAACGCGATTA
Found at i:1705287 original size:19 final size:19
Alignment explanation
Indices: 1705231--1705280 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1705221 GCGATTTTGA
*
1705231 AAAATGTGTTGCTATAGTT
1 AAAATGTGTTGCAATAGTT
1705250 AAAATGTGTTGCAATAGTT
1 AAAATGTGTTGCAATAGTT
1705269 AAAATGTGTTGC
1 AAAATGTGTTGC
1705281 GAGAGTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (19 bp):
AAAATGTGTTGCAATAGTT
Found at i:1705324 original size:19 final size:19
Alignment explanation
Indices: 1705228--1705336 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 19
1705218 AATGCGATTT
*
1705228 TGAAAAATGTGTTGCTATAG
1 TGAAAAA-GTGTTGCGATAG
* * *
1705248 TTAAAATGTGTTGCAATAG
1 TGAAAAAGTGTTGCGATAG
* * *
1705267 TTAAAATGTGTTGCGAGAG
1 TGAAAAAGTGTTGCGATAG
1705286 TTTGAAAAATGTGTTGTTGCGATAG
1 --TGAAAAA---G-TGTTGCGATAG
*
1705311 TGAAAAAGTGTTGCGATGG
1 TGAAAAAGTGTTGCGATAG
1705330 TGAAAAA
1 TGAAAAA
1705337 TTCAAAATAA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
19 45 0.61
20 6 0.08
21 5 0.07
23 7 0.09
24 1 0.01
25 10 0.14
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAAAAGTGTTGCGATAG
Found at i:1705783 original size:21 final size:21
Alignment explanation
Indices: 1705758--1705859 Score: 136
Period size: 21 Copynumber: 4.9 Consensus size: 21
1705748 CGTTAATACG
*
1705758 TGTATTATCGCATTGCGATTT
1 TGTATTATCGCGTTGCGATTT
1705779 TGTATTATCGCGTTGCGATTT
1 TGTATTATCGCGTTGCGATTT
*
1705800 TGTGTTATCGCGTTGCGA--T
1 TGTATTATCGCGTTGCGATTT
* **
1705819 AGTCAGAATCGCGTTGCGATTT
1 TGT-ATTATCGCGTTGCGATTT
1705841 TGTATTATCGCGTTGCGAT
1 TGTATTATCGCGTTGCGAT
1705860 AGTCAAAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.04
20 12 0.17
21 51 0.74
22 3 0.04
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.42
Consensus pattern (21 bp):
TGTATTATCGCGTTGCGATTT
Found at i:1705830 original size:41 final size:41
Alignment explanation
Indices: 1705785--1705878 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1705775 ATTTTGTATT
* *
1705785 ATCGCGTTGCGATTTTGTGTTATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAA
1705826 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAA
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAA
1705867 ATCGCGTTGCGA
1 ATCGCGTTGCGA
1705879 ATCTGGAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAA
Found at i:1705831 original size:20 final size:20
Alignment explanation
Indices: 1705806--1705878 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1705796 ATTTTGTGTT
*
1705806 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAAA
* **
1705826 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAAA
1705847 ATCGCGTTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAAA
1705867 ATCGCGTTGCGA
1 ATCGCGTTGCGA
1705879 ATCTGGAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 13 0.30
22 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAAA
Found at i:1705928 original size:19 final size:19
Alignment explanation
Indices: 1705904--1705940 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1705894 TGTGATACTG
* *
1705904 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
1705923 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
1705941 TGATGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:1706529 original size:15 final size:15
Alignment explanation
Indices: 1706509--1706539 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1706499 ATATATACAA
1706509 GTGTGTTCAACTTAT
1 GTGTGTTCAACTTAT
1706524 GTGTGTTCAACTTAT
1 GTGTGTTCAACTTAT
1706539 G
1 G
1706540 ATAAGCTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (15 bp):
GTGTGTTCAACTTAT
Found at i:1708838 original size:5 final size:5
Alignment explanation
Indices: 1708828--1708946 Score: 229
Period size: 5 Copynumber: 23.6 Consensus size: 5
1708818 CTATATCTCT
1708828 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1708878 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1708928 TATAA TAATAA TATAA TAT
1 TATAA T-ATAA TATAA TAT
1708947 TAAAGATTGT
Statistics
Matches: 113, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 108 0.96
6 5 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:1711678 original size:19 final size:21
Alignment explanation
Indices: 1711650--1711689 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1711640 ATGATTTTTT
1711650 TTTAAATTAT-ATAC-TCATG
1 TTTAAATTATCATACTTCATG
*
1711669 TTTAATTTATCATACTTCATG
1 TTTAAATTATCATACTTCATG
1711690 AAAGCCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTAAATTATCATACTTCATG
Found at i:1711943 original size:15 final size:15
Alignment explanation
Indices: 1711923--1711997 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
1711913 AAAAATAATA
*
1711923 ATATTTACATAATTC
1 ATATTTAAATAATTC
*
1711938 ATATTTAAATAATTG
1 ATATTTAAATAATTC
** *
1711953 ACGTGTTAAATAAAT-
1 ATAT-TTAAATAATTC
**
1711968 AGTAGATAAATAATTC
1 A-TATTTAAATAATTC
*
1711984 ATGTTTAAATAATT
1 ATATTTAAATAATT
1711998 TATGATAAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
15 34 0.77
16 10 0.23
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (15 bp):
ATATTTAAATAATTC
Found at i:1712297 original size:22 final size:21
Alignment explanation
Indices: 1712258--1712299 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1712248 CGCCTTTCTC
*
1712258 TAATCTTATGACATATTTTTT
1 TAATCTTATGACACATTTTTT
*
1712279 TAATCTTTATGACGCATTTTT
1 TAATC-TTATGACACATTTTT
1712300 ACGCATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAATCTTATGACACATTTTTT
Found at i:1714123 original size:20 final size:20
Alignment explanation
Indices: 1714098--1714139 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1714088 AAAAAAAACA
1714098 AAATGAATAA-AATAAATAAT
1 AAATGAATAATAA-AAATAAT
1714118 AAATGAATAATAAAAATAAT
1 AAATGAATAATAAAAATAAT
1714138 AA
1 AA
1714140 CAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATGAATAATAAAAATAAT
Found at i:1714246 original size:14 final size:12
Alignment explanation
Indices: 1714209--1714258 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
1714199 TATATATTAT
1714209 AAATA-TTT-AA
1 AAATATTTTCAA
*
1714219 AAATGTTTTCAAA
1 AAATATTTTC-AA
1714232 AAATATTTTCTAA
1 AAATATTTTC-AA
1714245 AAATATTTT-AA
1 AAATATTTTCAA
1714256 AAA
1 AAA
1714259 ACTATATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 8 0.24
13 22 0.65
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AAATATTTTCAA
Found at i:1714258 original size:12 final size:13
Alignment explanation
Indices: 1714217--1714259 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
1714207 ATAAATATTT
*
1714217 AAAAATGTTTTCA
1 AAAAATATTTTCA
*
1714230 AAAAATATTTTCT
1 AAAAATATTTTCA
1714243 AAAAATATTTT-A
1 AAAAATATTTTCA
1714255 AAAAA
1 AAAAA
1714260 CTATATAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
AAAAATATTTTCA
Found at i:1714295 original size:2 final size:2
Alignment explanation
Indices: 1714290--1714333 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1714280 ATTTTAAAAA
1714290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1714332 AT
1 AT
1714334 TTAAAATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1714365 original size:38 final size:35
Alignment explanation
Indices: 1714317--1714617 Score: 151
Period size: 35 Copynumber: 8.4 Consensus size: 35
1714307 TATATATATA
*
1714317 TATATATATATATATATTTAAAATGTTTTTTTAAAAC
1 TATATAT-TATATATTTTTAAAATG-TTTTTTAAAAC
* *
1714354 TATATATTATATAAGTTTTCAAAATG-ATTTT-AAA-
1 TATATATTATAT-A-TTTTTAAAATGTTTTTTAAAAC
* * *
1714388 -A-A-ATTATATA-TTATATATATGTTTTTAAAACTA-
1 TATATATTATATATTTTTA-AAATGTTTTTTAAA--AC
* ** * *
1714421 TATAT-TATATA-AGTTTTCAAAAATAATTTTAAAAAT
1 TATATAT-TATATA-TTTT-TAAAATGTTTTTTAAAAC
* *
1714457 TATATATTATATATTTTCCAAAATG-TTTTAAAAAC
1 TATATATTATATATTTT-TAAAATGTTTTTTAAAAC
*
1714492 TATATATTATATAGTTTTCAAAAATGTTTTTTTAAAAC
1 TATATATTATATA-TTTT-TAAAATG-TTTTTTAAAAC
* *
1714530 TATATATTTTATATATTTTCAAAATATTTTAATTTAAAAC
1 TATATA--TTATATATTTTTAAAAT-GTTT--TTTAAAAC
** *
1714570 TATATATTTTATATATTTTCCAAA--TATTTTAAAAC
1 TATATA--TTATATATTTTTAAAATGTTTTTTAAAAC
1714605 TATATATTATATA
1 TATATATTATATA
1714618 CGTAGTTTCA
Statistics
Matches: 217, Mismatches: 22, Indels: 54
0.74 0.08 0.18
Matches are distributed among these distances:
28 3 0.01
29 4 0.02
30 4 0.02
31 9 0.04
32 1 0.00
33 9 0.04
34 1 0.00
35 43 0.20
36 43 0.20
37 25 0.12
38 33 0.15
39 4 0.02
40 38 0.18
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (35 bp):
TATATATTATATATTTTTAAAATGTTTTTTAAAAC
Found at i:1714399 original size:65 final size:65
Alignment explanation
Indices: 1714327--1714516 Score: 226
Period size: 65 Copynumber: 2.8 Consensus size: 65
1714317 TATATATATA
*
1714327 TATATATT-TA-AAATGTTTTTTTAAAACTATATATTATATAAGTTTTC-AAAATGATTTTAAAA
1 TATATATTATATAAATG--TTTTTAAAACTATATATTATATAAGTTTTCAAAAATAATTTT-AAA
1714389 AAT
63 AAT
*
1714392 TATATATTATATATATGTTTTTAAAACTATATATTATATAAGTTTTCAAAAATAATTTTAAAAAT
1 TATATATTATATAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAAATAATTTTAAAAAT
*
1714457 TATATATTATATATTTTCCAAAATGTTTTAAAAACTATATATTATAT-AGTTTTCAAAAAT
1 TATATA-T-TATA---T---AAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAAAT
1714517 GTTTTTTTAA
Statistics
Matches: 110, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
65 50 0.45
66 13 0.12
67 8 0.07
70 1 0.01
72 13 0.12
73 25 0.23
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (65 bp):
TATATATTATATAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAAATAATTTTAAAAAT
Found at i:1714429 original size:25 final size:27
Alignment explanation
Indices: 1714387--1714442 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
1714377 ATGATTTTAA
* * *
1714387 AAAATTATATATTATATATATGTTTTT
1 AAAACTATATATTATATATAAGTTTTC
1714414 AAAACTATATA-T-TATATAAGTTTTC
1 AAAACTATATATTATATATAAGTTTTC
1714439 AAAA
1 AAAA
1714443 ATAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 15 0.58
26 1 0.04
27 10 0.38
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (27 bp):
AAAACTATATATTATATATAAGTTTTC
Found at i:1714470 original size:40 final size:34
Alignment explanation
Indices: 1714317--1714617 Score: 224
Period size: 38 Copynumber: 8.4 Consensus size: 34
1714307 TATATATATA
* *
1714317 TATATATATATATATATTT-AAAATGTTTTTTTAAAAC
1 TATATAT-TATATAT-TTTCAAAA--TATTTTAAAAAC
*
1714354 TATATATTATATAAGTTTTCAAAATGATTTTAAAAAAT
1 TATATATTATAT-A-TTTTCAAAAT-ATTTT-AAAAAC
* *
1714392 TATATATTATATA---T----ATGTTTTTAAAAC
1 TATATATTATATATTTTCAAAATATTTTAAAAAC
*
1714419 TATATATTATATAAGTTTTCAAAAATAATTTTAAAAAT
1 TATATATTATAT-A-TTTTC-AAAAT-ATTTTAAAAAC
*
1714457 TATATATTATATATTTTCCAAAATGTTTTAAAAAC
1 TATATATTATATATTTT-CAAAATATTTTAAAAAC
* *
1714492 TATATATTATATAGTTTTCAAAAATGTTTTTTTAAAAC
1 TATATATTATATA-TTTTC-AAAA--TATTTTAAAAAC
1714530 TATATATTTTATATATTTTCAAAATATTTTAATTTAAAAC
1 TATATA--TTATATATTTTCAAAATATTTT-A---AAAAC
*
1714570 TATATATTTTATATATTTTCCAAATATTTT-AAAAC
1 TATATA--TTATATATTTTCAAAATATTTTAAAAAC
1714605 TATATATTATATA
1 TATATATTATATA
1714618 CGTAGTTTCA
Statistics
Matches: 221, Mismatches: 16, Indels: 58
0.75 0.05 0.20
Matches are distributed among these distances:
27 16 0.07
28 5 0.02
29 2 0.01
32 1 0.00
33 8 0.04
35 34 0.15
36 28 0.13
37 20 0.09
38 61 0.28
39 5 0.02
40 41 0.19
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (34 bp):
TATATATTATATATTTTCAAAATATTTTAAAAAC
Found at i:1714558 original size:20 final size:20
Alignment explanation
Indices: 1714533--1714600 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
1714523 TTAAAACTAT
1714533 ATATTTTATATATTTTCAAA
1 ATATTTTATATATTTTCAAA
**
1714553 ATA-TTT-TA-ATTTAAAACTA
1 ATATTTTATATATTTTCAA--A
*
1714572 TATATTTTATATATTTTCCAA
1 -ATATTTTATATATTTTCAAA
1714593 ATATTTTA
1 ATATTTTA
1714601 AAACTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 6 0.16
18 2 0.05
19 4 0.11
20 14 0.38
21 4 0.11
22 2 0.05
23 5 0.14
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTTTATATATTTTCAAA
Found at i:1715379 original size:84 final size:83
Alignment explanation
Indices: 1715266--1716112 Score: 798
Period size: 84 Copynumber: 10.2 Consensus size: 83
1715256 TTGAATTTAA
* * *
1715266 TCGAACTCGAAGGTCTTCGGTTGGT--AGATAACCCTTCTCGGCTTCAGCTATGCTGCAAATGAT
1 TCGAACTCGAAGGTCTT---TTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1715329 GTGCCTTGGAGCTGAGCGTAG
63 GTGCCTTGGAGCTGAGCGTAG
* * * *
1715350 TCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAG-CATTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTTGGTG-CAGATAACCCTTCTCGAC-TTAAGTTATGCTGCAAATGATG
* * *
1715414 TGCCCTCGAAGCTGAGTC-TAA
64 TG-CCTTGGAGCTGAG-CGTAG
* * * * * * *
1715435 TCGAACACGAGGGTC-TTT-G-GCAGATAGCCCTTCTTGACTTAAGCTATTCTACAAATGATGTG
1 TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
1715497 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * *
1715515 TCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCC-TCATTGACTTAAGTTATACTGCAAATGAT
1 TCGAACTCGAAGGTCTTTTGG-T-GCAGATAACCCTTC-TCGACTTAAGTTATGCTGCAAATGAT
* *
1715578 ATGTCTTGGAGCTGAGCGTAG
63 GTGCCTTGGAGCTGAGCGTAG
* * * *
1715599 TCGAACTTGAAGGTCTTTTGGTGACAGATAACCCTTCT-AACCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTTGGTG-CAGATAACCCTTCTCGA-CTTAAGTTATGCTGCAAATGATG
* * * *
1715663 TGCCCTCGAAGCTGAGTGTAA
64 TG-CCTTGGAGCTGAGCGTAG
* * * * * *
1715684 TCGAACTTGAGGGT-TTTT-GT-CAAATAACCCTTTTCGACTTAAGCTATGCTACAAATGATGTG
1 TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
1715746 CCTTGGAGCTGAGCATAG
66 CCTTGGAGCTGAGCGTAG
* * *
1715764 TTGAACTCGAAAGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
1 TCGAACTCGAAGGTCTTTTGG-T-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
1715828 TACCTTGGAGCTGAGCGTAG
64 TGCCTTGGAGCTGAGCGTAG
* * * * * ** * *
1715848 TTGAACTCGAATGTCTTTTGGTGACAGATAACCCTTTTAGCCTTGGGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTG-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
** * *
1715913 G-CTATCTAAGCTGAGTGTAA
65 GCCT-T-GGAGCTGAGCGTAG
* * * *
1715933 TCGAACTCG-AGGTC-TTTGGT--AGATAGCCCTTCTCGACCTAAGCTATGCTACAAATGATGTG
1 TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
1715994 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * * * *
1716012 TCAAACTCGAAGTTC-TTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATA
1 TCGAACTCGAAGGTCTTTTG-GT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
1716076 TGCCTTGGAGCTGAGCGTAC
64 TGCCTTGGAGCTGAGCGTAG
1716096 TCGAACTCGAAGGTCTT
1 TCGAACTCGAAGGTCTT
1716113 GGCTGACAGA
Statistics
Matches: 619, Mismatches: 109, Indels: 69
0.78 0.14 0.09
Matches are distributed among these distances:
79 19 0.03
80 93 0.15
81 76 0.12
82 4 0.01
83 17 0.03
84 327 0.53
85 82 0.13
86 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:1715504 original size:165 final size:165
Alignment explanation
Indices: 1715263--1716112 Score: 774
Period size: 165 Copynumber: 5.1 Consensus size: 165
1715253 GAGTTGAATT
* * *
1715263 TAATCGAACTCGAAGGTCTTCGGTTGGTAGATAACCCTTCTCGGCTTCAGCTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTT---TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
1715328 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAG-CA
63 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAGAC-
* *
1715392 TTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTC-
127 TTAAGTTATGCTGCAAATGATGTG-CCTCGAAGCTGAG-CA
* * * * * *
1715432 TAATCGAACACGAGGGTC-TTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTACAAATGATGT
1 TAATCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
1715496 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCC-TCATTGACTT
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGG-TGACAGATAACCCTTC-TAGACTT
* * * * * *
1715559 AAGTTATACTGCAAATGATATGTCTTGGAGCTGAGCG
129 AAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCA
* * * * * *
1715596 TAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACCCTTCT-AACCTTGAGTTATGCTGTAAATG
1 TAATCGAACTCGAAGGTCTTTT-G-G-CAGATAACCCTTCTCGA-CTTAAGCTATGCTGCAAATG
* * * * * ** * * *
1715660 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGT-TTTT-GT--CAAATAACCCTTTTCGA
62 ATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAGA
* * * *
1715721 CTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCA
126 CTTAAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCA
* * * *
1715761 TAGTTGAACTCGAAAGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * * * * *
1715826 TATACCTTGGAGCTGAGCGTAGTTGAACTCGAATGTCTTTTGGTGACAGATAACCCTTTTAGCCT
63 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAGACT
** * * * * **
1715891 TGGGTTATGTTGTAAATGATGTGCTATCTAAGCTGAGTG
128 TAAGTTATGCTGCAAATGATGTGC-CTCGAAGCTGAGCA
* * * *
1715930 TAATCGAACTCG-AGGTC-TTTGGTAGATAGCCCTTCTCGACCTAAGCTATGCTACAAATGATGT
1 TAATCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
1715993 GCCTTGGAGCTGAGCGTAGTCAAACTCG-AAGT-TCTTTGATTGGCAGATAACCCTTCTCGACTT
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCT-TTTG-GTGACAGATAACCCTTCTAGACTT
* * * * *
1716056 AAGTTATACTGCAAATGATATGCCTTGGAGCTGAGCG
129 AAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCA
*
1716093 TACTCGAACTCGAAGGTCTT
1 TAATCGAACTCGAAGGTCTT
1716113 GGCTGACAGA
Statistics
Matches: 548, Mismatches: 108, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
162 1 0.00
163 28 0.05
164 160 0.29
165 208 0.38
166 10 0.02
167 4 0.01
168 75 0.14
169 62 0.11
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (165 bp):
TAATCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAGACTTAA
GTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCA
Found at i:1715725 original size:249 final size:249
Alignment explanation
Indices: 1715269--1716112 Score: 1264
Period size: 249 Copynumber: 3.4 Consensus size: 249
1715259 AATTTAATCG
* * * * * * *
1715269 AACTCGAAGGTCTTCGGTTGGTAGATAACCCTTCTCGGCTTCAGCTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
* *
1715334 TTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGGTGACAGATAACCCTTCTAGCATTGAGTT
66 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
* * * *
1715399 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACACGAGGGTCTTTGGCAGATAGCC
131 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGTCAGATAGCC
*
1715464 CTTCTT-GACTTAAGCTATTCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
196 CTT-TTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
* *
1715518 AACTCGAAGGTCTTTGGTTGGCAGATAACCC-TCATTGACTTAAGTTATACTGCAAATGATATGT
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC-TCGACTTAAGTTATACTGCAAATGATATGC
* *
1715582 CTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACCCTTCTAACCTTGAGT
65 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
* * *
1715647 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTTTTTGTCAAATAAC
130 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGTCAGATAGC
* **
1715712 CCTTTTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCATAGTTG
195 CCTTTTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
* * *
1715767 AACTCGAAAGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATACC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
* * * *
1715832 TTGGAGCTGAGCGTAGTTGAACTCGAATGTCTTTTGGTGACAGATAACCCTTTTAGCCTTGGGTT
66 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
* ** * *
1715897 ATGTTGTAAATGATGTGCTATCTAAGCTGAGTGTAATCGAACTCGA-GGTCTTTGGT-AGATAGC
131 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT-TTTTGTCAGATAGC
* *
1715960 CCTTCTCGACCTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
195 CCTTTTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
* *
1716015 AACTCGAAGTTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
*
1716080 TTGGAGCTGAGCGTACTCGAACTCGAAGGTCTT
66 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1716113 GGCTGACAGA
Statistics
Matches: 535, Mismatches: 56, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
248 152 0.28
249 381 0.71
250 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (249 bp):
AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGTCAGATAGCC
CTTTTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
Found at i:1717210 original size:95 final size:96
Alignment explanation
Indices: 1717085--1717269 Score: 318
Period size: 95 Copynumber: 1.9 Consensus size: 96
1717075 TGTAAACACC
* * *
1717085 TTTATCAGGTTAGTTGAATCTTATCCATAAAGCTGAGGCGTTTAACCAATTGCCTTAGAGGGACA
1 TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGACA
*
1717150 ACTCAAGTTTTATTGTATAT-TATAATCACA
66 ACTCAAGCTTTATTGTATATATATAATCACA
*
1717180 TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACA
1 TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGACA
1717245 ACTCAAGCTTTATTGTATATATATA
66 ACTCAAGCTTTATTGTATATATATA
1717270 TATAATATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 80 0.95
96 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (96 bp):
TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGACA
ACTCAAGCTTTATTGTATATATATAATCACA
Found at i:1719826 original size:86 final size:86
Alignment explanation
Indices: 1719724--1719890 Score: 298
Period size: 86 Copynumber: 1.9 Consensus size: 86
1719714 ATTGATCCAA
* *
1719724 AAAATGTGTCTGTTATTAGAAATAATCCTCATCCGAGACAAAAGTGTTACGTCTGAAGAGACAAA
1 AAAATGTATCTATTATTAGAAATAATCCTCATCCGAGACAAAAGTGTTACGTCTGAAGAGACAAA
*
1719789 AAAAAATTTGATGGTAGATCC
66 AAAAAAATTGATGGTAGATCC
*
1719810 AAAATGTATCTATTATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
1 AAAATGTATCTATTATTAGAAATAATCCTCATCCGAGACAAAAGTGTTACGTCTGAAGAGACAAA
1719875 AAAAAAATTGATGGTA
66 AAAAAAATTGATGGTA
1719891 TAGATCCCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (86 bp):
AAAATGTATCTATTATTAGAAATAATCCTCATCCGAGACAAAAGTGTTACGTCTGAAGAGACAAA
AAAAAAATTGATGGTAGATCC
Found at i:1720115 original size:365 final size:365
Alignment explanation
Indices: 1719445--1720152 Score: 1299
Period size: 365 Copynumber: 1.9 Consensus size: 365
1719435 ATTGATCCAA
* *
1719445 AAAATGTGTCTGTGATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
1 AAAATGTATCTATGATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
**
1719510 AAAAATTTTGATGGTATAGATCCCGAACAACCTTTGACAAGTTGATTCGTCTTCCATCTTGAGGT
66 AAAAAAATTGATGGTATAGATCCCGAACAACCTTTGACAAGTTGATTCGTCTTCCATCTTGAGGT
1719575 GTATCCAACGCTTGAGGTGGTGTATCCAGTATGTGTTCCTTTCGATGAGACATGCTTCTTGTTAG
131 GTATCCAACGCTTGAGGTGGTGTATCCAGTATGTGTTCCTTTCGATGAGACATGCTTCTTGTTAG
* *
1719640 TTAATGTGAATGTAAAGAAAAATAACAAAAATGTAAAATATGTCTAGATGCATAATGCATGCAAT
196 TTAATGCGAATGTAAAGAAAAATAACAAAAATGTAAAATATGTCTAGATGCATAATGCATACAAT
* *
1719705 GTTCGAGGCATTGATCCAAAAAATGTGTCTGTTATTAGAAATAATCCTCATCCGAGACAAAAGTG
261 GTTCGAGGCATTGATCCAAAAAATGTGTCTGTTAATAGAAATAATCCTCATCCGAGACAAAAATG
1719770 TTACGTCTGAAGAGACAAAAAAAAATTTGATGGTAGATCC
326 TTACGTCTGAAGAGACAAAAAAAAATTTGATGGTAGATCC
*
1719810 AAAATGTATCTATTATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
1 AAAATGTATCTATGATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
*
1719875 AAAAAAATTGATGGTATAGATCCCGAACAACCTTTGACAAGTTGATTCGTCTTCTATCTTGAGGT
66 AAAAAAATTGATGGTATAGATCCCGAACAACCTTTGACAAGTTGATTCGTCTTCCATCTTGAGGT
1719940 GTATCCAACGCTTGAGGTGGTGTATCCAGTATGTGTTCCTTTCGATGAGACATGCTTCTTGTTAG
131 GTATCCAACGCTTGAGGTGGTGTATCCAGTATGTGTTCCTTTCGATGAGACATGCTTCTTGTTAG
1720005 TTAATGCGAATGTAAAGAAAAATAACAAAAATGTAAAATATGTCTAGATGCATAATGCATACAAT
196 TTAATGCGAATGTAAAGAAAAATAACAAAAATGTAAAATATGTCTAGATGCATAATGCATACAAT
* **
1720070 GTTCGAGGCATTGATCCAAAAAATGTGTCTGTTAATAGAAATAATCCTTATTGGAGACAAAAATG
261 GTTCGAGGCATTGATCCAAAAAATGTGTCTGTTAATAGAAATAATCCTCATCCGAGACAAAAATG
1720135 TTACGTCTGAAGAGACAA
326 TTACGTCTGAAGAGACAA
1720153 TTTTTTTTGA
Statistics
Matches: 330, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
365 330 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (365 bp):
AAAATGTATCTATGATTAGAAATAATCCTCATCGGAGACAAAAGTGTTACGTCTGAAGAGACAAA
AAAAAAATTGATGGTATAGATCCCGAACAACCTTTGACAAGTTGATTCGTCTTCCATCTTGAGGT
GTATCCAACGCTTGAGGTGGTGTATCCAGTATGTGTTCCTTTCGATGAGACATGCTTCTTGTTAG
TTAATGCGAATGTAAAGAAAAATAACAAAAATGTAAAATATGTCTAGATGCATAATGCATACAAT
GTTCGAGGCATTGATCCAAAAAATGTGTCTGTTAATAGAAATAATCCTCATCCGAGACAAAAATG
TTACGTCTGAAGAGACAAAAAAAAATTTGATGGTAGATCC
Found at i:1721787 original size:17 final size:18
Alignment explanation
Indices: 1721749--1721788 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1721739 AAAAGAAGAA
1721749 AAAAATAGAAAATAAAAT
1 AAAAATAGAAAATAAAAT
1721767 -AAAATA-ATAAA-AAAAT
1 AAAAATAGA-AAATAAAAT
1721783 AAAAAT
1 AAAAAT
1721789 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAATAGAAAATAAAAT
Found at i:1723127 original size:4 final size:4
Alignment explanation
Indices: 1723120--1723165 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
1723110 AAAAAAAGAA
*
1723120 AAAT AAAT AAAAT AAAT -AAT AAAT GAAT -AAT AAAT AAAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AA
1723166 TATATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
3 6 0.16
4 23 0.62
5 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1723131 original size:9 final size:9
Alignment explanation
Indices: 1723119--1723165 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
1723109 AAAAAAAAGA
1723119 AAAATAAAT
1 AAAATAAAT
1723128 AAAATAAAT
1 AAAATAAAT
1723137 --AATAAAT
1 AAAATAAAT
1723144 GAATAATAAAT
1 -AA-AATAAAT
1723155 AAAATAAAT
1 AAAATAAAT
1723164 AA
1 AA
1723166 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.21
9 18 0.53
10 2 0.06
11 7 0.21
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
AAAATAAAT
Found at i:1723172 original size:2 final size:2
Alignment explanation
Indices: 1723165--1723192 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1723155 AAAATAAATA
1723165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1723193 TCTAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1723267 original size:12 final size:12
Alignment explanation
Indices: 1723250--1723290 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1723240 ATACATATTT
*
1723250 AAAAATGTTTTC
1 AAAAATATTTTC
1723262 AAAAATATTTTC
1 AAAAATATTTTC
1723274 TAAAAATATTTT-
1 -AAAAATATTTTC
1723286 AAAAA
1 AAAAA
1723291 ACTATATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 11 0.41
13 11 0.41
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (12 bp):
AAAAATATTTTC
Found at i:1723278 original size:13 final size:13
Alignment explanation
Indices: 1723249--1723285 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
1723239 TATACATATT
*
1723249 TAAAAATGTTTTC
1 TAAAAATATTTTC
1723262 -AAAAATATTTTC
1 TAAAAATATTTTC
1723274 TAAAAATATTTT
1 TAAAAATATTTT
1723286 AAAAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (13 bp):
TAAAAATATTTTC
Found at i:1723387 original size:38 final size:37
Alignment explanation
Indices: 1723293--1723599 Score: 311
Period size: 38 Copynumber: 8.2 Consensus size: 37
1723283 TTTAAAAAAC
* *
1723293 TATATAAGTTTTCAAAATGATTTTAAAAACTATATAT
1 TATATAATTTTTCAAAATTATTTTAAAAACTATATAT
* * *
1723330 TATATATATGTTTTTAAAATTTTCTTTTAAAACTATATAT
1 TATATA-AT-TTTTCAAAATTAT-TTTAAAAACTATATAT
* *
1723370 TATATAATTTTTCAAAATGATTTTAAAAAATTATATAT
1 TATATAATTTTTCAAAATTATTTT-AAAAACTATATAT
* * *
1723408 TATATATATGTTTTTAAAA-TATTTTTAAAACTATATAG
1 TATATA-AT-TTTTCAAAATTATTTTAAAAACTATATAT
* *
1723446 TATATAAGTTTTCAAAAATAATTTTAAAAACTATATAT
1 TATATAATTTTTC-AAAATTATTTTAAAAACTATATAT
* *
1723484 TATAT-ATTTTCCAAAA-TGTTTTAAAAACTATATAT
1 TATATAATTTTTCAAAATTATTTTAAAAACTATATAT
* * *
1723519 TATAT-AGTTTTCAAAAATGTTTTAAAAAAACTATATAT
1 TATATAATTTTTCAAAATTATTTT--AAAAACTATATAT
*
1723557 TATATATATATTTTCAAAA-TGTTTT-AAAACTATATAT
1 TATATA-AT-TTTTCAAAATTATTTTAAAAACTATATAT
1723594 TATATA
1 TATATA
1723600 TATAGTTTCA
Statistics
Matches: 229, Mismatches: 27, Indels: 28
0.81 0.10 0.10
Matches are distributed among these distances:
35 31 0.14
36 14 0.06
37 37 0.16
38 83 0.36
39 19 0.08
40 36 0.16
41 9 0.04
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (37 bp):
TATATAATTTTTCAAAATTATTTTAAAAACTATATAT
Found at i:1723637 original size:76 final size:77
Alignment explanation
Indices: 1723293--1723640 Score: 339
Period size: 76 Copynumber: 4.6 Consensus size: 77
1723283 TTTAAAAAAC
* * * *
1723293 TATATA-AGTTTTC-AAAATGATTTTAAAAACTATATATTATATATATGTTTTTAAAATTTTCTT
1 TATATATAG-TTTCAAAAATGATTTAAAAAACTATATATTATATATATATTTTCAAAA---TGTT
1723356 TTAAAACTATATATTA
62 TTAAAACTATATATTA
* * * * *
1723372 TATA-AT-TTTTC-AAAATGATTTTAAAAAATTATATATTATATATATGTTTTTAAAATATTTTT
1 TATATATAGTTTCAAAAATGA-TTTAAAAAACTATATATTATATATATATTTTCAAAAT-GTTTT
*
1723434 AAAACTATATA--G
64 AAAACTATATATTA
* * *
1723446 TATATA-AGTTTTCAAAAATAATTTTAAAAACTATATA-T-TATATAT-TTTCCAAAATGTTTTA
1 TATATATAG-TTTCAAAAATGATTTAAAAAACTATATATTATATATATATTTTCAAAATGTTTT-
1723507 AAAACTATATATTA
64 AAAACTATATATTA
* *
1723521 TATA-GT--TTTCAAAAATGTTTTAAAAAAACTATATATTATATATATATTTTCAAAATGTTTTA
1 TATATATAGTTTCAAAAATGATTT-AAAAAACTATATATTATATATATATTTTCAAAATGTTTTA
1723583 AAACTATATATTA
65 AAACTATATATTA
* * * *
1723596 TATATATAGTTTCAAAAATCATTTGAAATA-TATATAATATATATA
1 TATATATAGTTTCAAAAATGATTTAAAAAACTATATATTATATATA
1723641 GATAGATATA
Statistics
Matches: 227, Mismatches: 24, Indels: 39
0.78 0.08 0.13
Matches are distributed among these distances:
72 17 0.07
73 31 0.14
74 12 0.05
75 32 0.14
76 62 0.27
77 21 0.09
78 48 0.21
79 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (77 bp):
TATATATAGTTTCAAAAATGATTTAAAAAACTATATATTATATATATATTTTCAAAATGTTTTAA
AACTATATATTA
Found at i:1723639 original size:37 final size:36
Alignment explanation
Indices: 1723293--1723641 Score: 170
Period size: 37 Copynumber: 9.2 Consensus size: 36
1723283 TTTAAAAAAC
1723293 TATATA-AGTTTTC-AAAATGATTTTAAAAACTATATATTA
1 TATATATAG-TTTCAAAAAT-ATTTT--AAA-TATATATTA
* * *
1723332 TATATAT-GTTTTTAAAATTTTCTTTTAAAACTATATATTA
1 TATATATAG-TTTCAAAA--ATATTTT-AAA-TATATATTA
*
1723372 TATA-AT-TTTTC-AAAATGATTTTAAAAAATTATATATTA
1 TATATATAGTTTCAAAAAT-ATTTT---AAA-TATATATTA
**
1723410 TATATAT-GTTTTTAAAATATTTTTAAA-ACTATA-TA
1 TATATATAGTTTCAAAAATA-TTTTAAATA-TATATTA
*
1723445 GTATATA-AGTTTTCAAAAATAATTTTAAAAACTATA-TA
1 -TATATATAG-TTTCAAAAAT-ATTTTAAATA-TATATTA
* * * *
1723483 T-TATATATTTTCCAAAATGTTTTAAAAACTATA-TA
1 TATATATAGTTTCAAAAATATTTTAAATA-TATATTA
*
1723518 T-TATATAGTTTTCAAAAATGTTTTAAAAAAACTATATATTA
1 TATATATAG-TTTCAAAAATATTTT----AAA-TATATATTA
* *
1723559 TATATATATTTTC-AAAATGTTTTAAAACTATATATTA
1 TATATATAGTTTCAAAAATATTTT-AAA-TATATATTA
* *
1723596 TATATATAGTTTCAAAAATCATTTGAAATATATATAA
1 TATATATAGTTTCAAAAAT-ATTTTAAATATATATTA
1723633 TATATATAG
1 TATATATAG
1723642 ATAGATATAT
Statistics
Matches: 260, Mismatches: 23, Indels: 56
0.77 0.07 0.17
Matches are distributed among these distances:
35 27 0.10
36 42 0.16
37 66 0.25
38 37 0.14
39 22 0.08
40 47 0.18
41 12 0.05
42 7 0.03
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATATAGTTTCAAAAATATTTTAAATATATATTA
Found at i:1726711 original size:19 final size:19
Alignment explanation
Indices: 1726689--1726725 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1726679 ATTAACATTT
*
1726689 TATAATATAATAATATATC
1 TATAATATAAGAATATATC
*
1726708 TATAGTATAAGAATATAT
1 TATAATATAAGAATATAT
1726726 TAATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAATATAAGAATATATC
Found at i:1728684 original size:111 final size:111
Alignment explanation
Indices: 1728489--1729060 Score: 862
Period size: 111 Copynumber: 5.1 Consensus size: 111
1728479 TTGTCAGTTT
* *
1728489 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
1728554 GGTATATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACC-GATATATTGAAA
** * *
1728601 GTGTCGATACTTTATAAAAATGTATTTATCTATAAC-ATATAACAAGTAAAAAAATGACAAAACA
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
1728665 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGATATATTGAAA
*
1728711 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* *
1728776 GGTCTATAAATGAC-AAACAGGTAAAACGCTACCAATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGATATATTGAAA
* * *
1728821 GTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAACGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAAATGACAAAAC
* * * *
1728886 CGGTATATAAATGACAAAACAGATAAAGCGCTACCAGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACC-GATATATTGAAA
* * *
1728934 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAAATGACAAAAC
* * *
1728999 CGGTCTAT-AATGACAAAACAAGTAAAGCGCTACCGGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACC-GATATATTGAAA
1729046 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1729061 TATAATTACG
Statistics
Matches: 426, Mismatches: 30, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
110 120 0.28
111 128 0.30
112 101 0.24
113 77 0.18
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (111 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGATATATTGAAA
Found at i:1729256 original size:181 final size:179
Alignment explanation
Indices: 1728933--1729383 Score: 665
Period size: 181 Copynumber: 2.5 Consensus size: 179
1728923 ATATGTTGAT
* *
1728933 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT-ATACAGGT-AAAAATATGA-AAAA
* ** * *
1728998 TCGGTCT-ATAATGACAAAACAAGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATT
63 TCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATT
* *
1729062 ATAATTACGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG-CTAATAA
128 ATAAGTACGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTC-AATAA
* * *
1729114 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATACATGTAAAAGTATGATAAAACC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATACAGGTAAAAATATGA-AAAATC
*
1729179 GGTCTCAAAATGATAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTAT
65 GGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTAT
1729244 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAATAA
130 AAGTA-CGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAATAA
*
1729295 AATGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT-AACAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT-ACAGGTAAAAATATGAA-AAAT
* *
1729359 CGATCTCGAAATGACAAAACCGGTA
64 CGGTCTCAAAATGACAAAACCGGTA
1729384 GTAAAAAAGT
Statistics
Matches: 244, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
179 18 0.07
180 64 0.26
181 149 0.61
182 13 0.05
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (179 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATACAGGTAAAAATATGAAAAATCG
GTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
AGTACGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAATAA
Found at i:1730316 original size:16 final size:17
Alignment explanation
Indices: 1730289--1730329 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
1730279 GAACTTTAAA
*
1730289 AAAATATAAAGA-ATAGT
1 AAAAT-TAAAGAGAGAGT
1730306 AAAATTAAAGAGAGAGT
1 AAAATTAAAGAGAGAGT
1730323 AAAATTA
1 AAAATTA
1730330 TAAAATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (17 bp):
AAAATTAAAGAGAGAGT
Done.