Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
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: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 7 of 17
Found at i:1172493 original size:20 final size:21
Alignment explanation
Indices: 1172414--1172492 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
1172404 AATGTCCAAA
*
1172414 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
1172434 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
1172459 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
1172479 TTGTATCGATACAT
1 ATGTATCGATACAT
1172493 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:1172497 original size:13 final size:13
Alignment explanation
Indices: 1172479--1172517 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1172469 ACATTTTTCT
1172479 TTGTATCGATACA
1 TTGTATCGATACA
1172492 TTGTATCGATACA
1 TTGTATCGATACA
*
1172505 CTGTATCGATACA
1 TTGTATCGATACA
1172518 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1174983 original size:20 final size:20
Alignment explanation
Indices: 1174960--1175032 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1174950 ACAATTCAAA
1174960 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1174980 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1175001 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1175021 GTATCGATACAT
1 GTATCGATACAT
1175033 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1175011 original size:41 final size:42
Alignment explanation
Indices: 1174960--1175054 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1174950 ACAATTCAAA
*
1174960 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1175001 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1175043 GTATCGATACAT
1 GTATCGATACAT
1175055 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1175111 original size:13 final size:13
Alignment explanation
Indices: 1175093--1175118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1175083 TACAGCAAGT
1175093 ATGTATCGATACA
1 ATGTATCGATACA
1175106 ATGTATCGATACA
1 ATGTATCGATACA
1175119 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1177947 original size:13 final size:13
Alignment explanation
Indices: 1177929--1177954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1177919 CAATTTTTTG
1177929 TGTATCGATACAT
1 TGTATCGATACAT
1177942 TGTATCGATACAT
1 TGTATCGATACAT
1177955 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1178019 original size:21 final size:21
Alignment explanation
Indices: 1177993--1178068 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1177983 CTGCCAAGAA
1177993 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1178014 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1178034 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
1178055 ATGCATCGATACAT
1 ATGTATCGATACAT
1178069 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1178038 original size:20 final size:20
Alignment explanation
Indices: 1178013--1178086 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1178003 ACATCTTTTT
1178013 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1178033 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
1178054 CATGCATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1178074 CATGTATCGATAC
1 CATGTATCGATAC
1178087 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1178050 original size:41 final size:41
Alignment explanation
Indices: 1177993--1178086 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1177983 CTGCCAAGAA
*
1177993 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGCATCGATACATTGCAAC
1178034 ATGTATCGATACATCTTTTTCATGCATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGCATCGATACATTGCAAC
1178075 ATGTATCGATAC
1 ATGTATCGATAC
1178087 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGCATCGATACATTGCAAC
Found at i:1184238 original size:6 final size:6
Alignment explanation
Indices: 1184221--1184255 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
1184211 TCCCTTAACG
1184221 AACAAA AA-AAA AACAAA AACAAA AACAAA AA-AAA A
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA A
1184256 GAAGAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:1184243 original size:17 final size:17
Alignment explanation
Indices: 1184221--1184255 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1184211 TCCCTTAACG
1184221 AACAAAAA-AAAAACAAA
1 AACAAAAACAAAAA-AAA
1184238 AACAAAAACAAAAAAAA
1 AACAAAAACAAAAAAAA
1184255 A
1 A
1184256 GAAGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AACAAAAACAAAAAAAA
Found at i:1185187 original size:13 final size:13
Alignment explanation
Indices: 1185169--1185194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1185159 TACACAAAGT
1185169 ATGTATCGATACA
1 ATGTATCGATACA
1185182 ATGTATCGATACA
1 ATGTATCGATACA
1185195 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1185192 original size:32 final size:33
Alignment explanation
Indices: 1185151--1185214 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1185141 TAGCCAAACT
**
1185151 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1185183 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1185215 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1185711 original size:13 final size:13
Alignment explanation
Indices: 1185693--1185717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1185683 TTTTCCAAAT
1185693 TGTATCGATACAA
1 TGTATCGATACAA
1185706 TGTATCGATACA
1 TGTATCGATACA
1185718 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1186023 original size:12 final size:12
Alignment explanation
Indices: 1186006--1186032 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1185996 ATTTGTTTGA
1186006 TTTGTGTGCTGG
1 TTTGTGTGCTGG
1186018 TTTGTGTGCTGG
1 TTTGTGTGCTGG
1186030 TTT
1 TTT
1186033 CATTCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.37, T:0.56
Consensus pattern (12 bp):
TTTGTGTGCTGG
Found at i:1186834 original size:235 final size:235
Alignment explanation
Indices: 1186423--1186893 Score: 942
Period size: 235 Copynumber: 2.0 Consensus size: 235
1186413 AAATTATTGG
1186423 TATAAATTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTTATTGGT
1 TATAAATTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTTATTGGT
1186488 TTAAGGGTGACAACGTATTAAGGGGGAGAGTTTGTATAAATTTTGTATTAAAGGGAAGAACACTT
66 TTAAGGGTGACAACGTATTAAGGGGGAGAGTTTGTATAAATTTTGTATTAAAGGGAAGAACACTT
1186553 GTATTAAGGGGGAGAGCTTGCATAAACGTTTGGTATTAGTTGCATGAATAACAAAAAGGGAGAAA
131 GTATTAAGGGGGAGAGCTTGCATAAACGTTTGGTATTAGTTGCATGAATAACAAAAAGGGAGAAA
1186618 ATAGACTTGGCCTAATAAAAAGGGGGAGAAAGGAGATGTT
196 ATAGACTTGGCCTAATAAAAAGGGGGAGAAAGGAGATGTT
1186658 TATAAATTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTTATTGGT
1 TATAAATTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTTATTGGT
1186723 TTAAGGGTGACAACGTATTAAGGGGGAGAGTTTGTATAAATTTTGTATTAAAGGGAAGAACACTT
66 TTAAGGGTGACAACGTATTAAGGGGGAGAGTTTGTATAAATTTTGTATTAAAGGGAAGAACACTT
1186788 GTATTAAGGGGGAGAGCTTGCATAAACGTTTGGTATTAGTTGCATGAATAACAAAAAGGGAGAAA
131 GTATTAAGGGGGAGAGCTTGCATAAACGTTTGGTATTAGTTGCATGAATAACAAAAAGGGAGAAA
1186853 ATAGACTTGGCCTAATAAAAAGGGGGAGAAAGGAGATGTT
196 ATAGACTTGGCCTAATAAAAAGGGGGAGAAAGGAGATGTT
1186893 T
1 T
1186894 CACAATGGAG
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 236 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (235 bp):
TATAAATTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTTATTGGT
TTAAGGGTGACAACGTATTAAGGGGGAGAGTTTGTATAAATTTTGTATTAAAGGGAAGAACACTT
GTATTAAGGGGGAGAGCTTGCATAAACGTTTGGTATTAGTTGCATGAATAACAAAAAGGGAGAAA
ATAGACTTGGCCTAATAAAAAGGGGGAGAAAGGAGATGTT
Found at i:1187977 original size:13 final size:13
Alignment explanation
Indices: 1187959--1187984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1187949 TACACAAAGT
1187959 ATGTATCGATACA
1 ATGTATCGATACA
1187972 ATGTATCGATACA
1 ATGTATCGATACA
1187985 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1187982 original size:32 final size:33
Alignment explanation
Indices: 1187941--1188004 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1187931 TAGCCAAACT
**
1187941 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1187973 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1188005 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1189511 original size:31 final size:30
Alignment explanation
Indices: 1189466--1189622 Score: 163
Period size: 31 Copynumber: 5.1 Consensus size: 30
1189456 TTCAAATACC
* * *
1189466 TTCTTAAAGTCCACGACTCAATGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
* * *
1189497 TTCTCAAAGCCCACGATTCAGTGACAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1189526 TGTCTCAAAGTCCACGACTCAGTGGCATCTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATC-TT
1189558 TTCCTCAAAGTCCACGACTCAGTGGCATCTT
1 TT-CTCAAAGTCCACGACTCAGTGGCATCTT
** * *
1189589 TTCTTCAAAACCCACAACTCCGTGGCACTCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCA-TCTT
1189621 TT
1 TT
1189623 TCCTTTAAAG
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.02
30 26 0.24
31 44 0.41
32 35 0.33
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1189533 original size:30 final size:30
Alignment explanation
Indices: 1189466--1189649 Score: 154
Period size: 31 Copynumber: 5.9 Consensus size: 30
1189456 TTCAAATACC
* * * *
1189466 TTCTTAAAGTCCACGACTCAATGGCAATCTC
1 TTCTCAAAGCCCACGACTCAGTGGC-ATCTT
* *
1189497 TTCTCAAAGCCCACGATTCAGTGACAT-TT
1 TTCTCAAAGCCCACGACTCAGTGGCATCTT
*
1189526 TGTCTCAAAGTCCACGACTCAGTGGCATCTTT
1 T-TCTCAAAGCCCACGACTCAGTGGCATC-TT
*
1189558 TTCCTCAAAGTCCACGACTCAGTGGCATCTT
1 TT-CTCAAAGCCCACGACTCAGTGGCATCTT
* * *
1189589 TTCTTCAAAACCCACAACTCCGTGGCACTCTTT
1 TTC-TCAAAGCCCACGACTCAGTGGCA-TC-TT
* * *
1189622 TTCCTTTAAAGCCCACAACTCTGTGGCA
1 TT-C-TCAAAGCCCACGACTCAGTGGCA
1189650 CTATTTTTCT
Statistics
Matches: 129, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.02
30 26 0.20
31 44 0.34
32 31 0.24
33 4 0.03
34 22 0.17
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (30 bp):
TTCTCAAAGCCCACGACTCAGTGGCATCTT
Found at i:1189638 original size:34 final size:34
Alignment explanation
Indices: 1189532--1190112 Score: 496
Period size: 34 Copynumber: 17.3 Consensus size: 34
1189522 ATTTTGTCTC
* * *
1189532 AAAGTCCACGACTCAGTGGCA-TCTTTTTCC-TC
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
1189564 AAAGTCCACGACTCAGTGGCA-TC-TTTT-CTTC
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
**
1189595 AAAACCCACAACTCCGTGGCACTCTTTTTCCTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
1189629 AAAGCCCACAACTCTGTGGCACTATTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
*
1189663 CAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCC-TTT
* *
1189697 AAAGCCCACAACTCCGTGGCACTCCTTTTCCTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
1189731 TAAGTTCACAACTCCGTGGCA-TCTCTTTCCTTC
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
1189764 AAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGT
1 AAAGTCCACAACTCCGTGGCA-CTCTTTTTCCTTT
*
1189799 -AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
1189831 CAAAGCCCACCACTCTGTGGCAC-C-TTTTCCTTT
1 -AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* *
1189864 TAAGTCCACAACTCCGTGGCA-T-TTCTTTCCTTC
1 AAAGTCCACAACTCCGTGGCACTCTT-TTTCCTTT
* * * *
1189897 AAGGTCCACAACTCAGTGGCATCCCTTTTTCCTGT
1 AAAGTCCACAACTCCGTGGCA-CTCTTTTTCCTTT
*
1189932 -AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
1189964 CAAAGCCCACCACTCTGTGGCA--CATTTTCCTTT
1 -AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
1189997 TAAGTCCACAACTTCGTGGCATCTTTTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCA-C-TCTTTTTCCTTT
* * * *
1190033 TAAGTCCACAACTTCGTGGCATCTTTTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCA-C-TCTTTTTCCTTT
* * *
1190069 TAAGTCCACAACTTCGTGGCA-TCTTTCTCCTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
* *
1190102 TAAGCCCACAA
1 AAAGTCCACAA
1190113 GTTAGTGGCA
Statistics
Matches: 458, Mismatches: 69, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.00
31 23 0.05
32 77 0.17
33 100 0.22
34 169 0.37
35 21 0.05
36 67 0.15
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (34 bp):
AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
Found at i:1189912 original size:133 final size:133
Alignment explanation
Indices: 1189533--1190110 Score: 643
Period size: 133 Copynumber: 4.3 Consensus size: 133
1189523 TTTTGTCTCA
* * * * * * * * *
1189533 AAGTCCACGACTCAGTGGCATCTTTTTC--CTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTC
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCCTTT
* ** * * * **
1189595 AAAACCCACAACTCCGTGGCACTCTT-TTTCCTTTAAAGCCCACAACTCTGTGGCA-CTATTTTT
66 TAAGTCCACAACTCCGTGGCA-T-TTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTT
* *
1189658 CTTTT
129 CCTGT
* *
1189663 CAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACTCCTTTTC
1 -AAGTCCACAACTCCGTGGCACCTTTTT-CTTTTCAAAGCCCACCACTCTGTGGCA--CCTTTTC
* *
1189727 CTTTTAAGTTCACAACTCCGTGGCATCTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTT
62 CTTTTAAGTCCACAACTCCGTGGCATTTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTT
1189792 TTCCTGT
127 TTCCTGT
1189799 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCCTTT
*
1189864 TAAGTCCACAACTCCGTGGCATTTCTTTCCTTCAAGGTCCACAACTCAGTGGCATCCCTTTTTCC
66 TAAGTCCACAACTCCGTGGCATTTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCC
1189929 TGT
131 TGT
*
1189932 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACATTTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCCTTT
* * * ** **
1189997 TAAGTCCACAACTTCGTGGCATCTTTTTTTTCTTTTTAAGTCCACAACTTC-GTGGCATCTTTTT
66 TAAGTCCACAACTCCGTGGCA---TTTCTTTCCTTCAAAGTCCACAAC-TCAGTGGCATC-CCTT
* *
1190061 TTTCTTTTT
126 TTTC-CTGT
* * *
1190070 AAGTCCACAACTTCGTGGCATCTTTCTCCTTTT--AAGCCCAC
1 AAGTCCACAACTCCGTGGCACCTTT-TTCTTTTCAAAGCCCAC
1190111 AAGTTAGTGG
Statistics
Matches: 391, Mismatches: 40, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
131 24 0.06
132 1 0.00
133 178 0.46
134 7 0.02
135 78 0.20
136 56 0.14
137 16 0.04
138 25 0.06
139 6 0.02
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (133 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCCTTT
TAAGTCCACAACTCCGTGGCATTTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCC
TGT
Found at i:1190034 original size:36 final size:36
Alignment explanation
Indices: 1189988--1190094 Score: 205
Period size: 36 Copynumber: 3.0 Consensus size: 36
1189978 CTGTGGCACA
*
1189988 TTTTCCTTTTAAGTCCACAACTTCGTGGCATCTTTT
1 TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTTT
1190024 TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTTT
1 TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTTT
1190060 TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTT
1 TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTT
1190095 CTCCTTTTAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (36 bp):
TTTTCTTTTTAAGTCCACAACTTCGTGGCATCTTTT
Found at i:1190254 original size:49 final size:49
Alignment explanation
Indices: 1190201--1190628 Score: 381
Period size: 49 Copynumber: 8.7 Consensus size: 49
1190191 AAGTCTAATA
1190201 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* * *
1190250 TCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
*
1190293 TCGCTGGCCTTGAATCAGCATATTGGCACCATTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* * *
1190342 TCGCTGGCCTTGAATCAACA-AGTTGGCA-C-----CTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATA-TTGGCACCTTTGTCTTTAAGACCAATG
* * *
1190385 TCGCTGGCCTTGAATCATCATATTAGCACCTTTGTCTTTAAGACCAAAG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* *
1190434 TCGCTGGCCTTGAATTAGTATATTGGCACCAGCATATTGTCGCCTTTGTCATCTTTTAAGACCAA
1 TCGCTGGCCTTGAATCAGCATATT-G-----GC--A------CCTTTG---TC-TTTAAGACCAA
1190499 TG
48 TG
*
1190501 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* * * *
1190550 TCGCTTGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* *
1190593 TCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1190629 ATCTTTTAAG
Statistics
Matches: 310, Mismatches: 31, Indels: 76
0.74 0.07 0.18
Matches are distributed among these distances:
43 110 0.35
44 4 0.01
48 4 0.01
49 136 0.44
50 1 0.00
53 6 0.02
55 2 0.01
57 1 0.00
59 1 0.00
61 2 0.01
63 6 0.02
66 3 0.01
67 34 0.11
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
Found at i:1190345 original size:92 final size:91
Alignment explanation
Indices: 1190188--1190463 Score: 453
Period size: 92 Copynumber: 3.0 Consensus size: 91
1190178 GGCATCTTCT
*
1190188 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1190253 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCA-ATTGGCACC
*
1190280 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
1190345 CTGGCCTTGAATCAACAAGTTGGCACC
66 CTGGCCTTGAATCAGCAA-TTGGCACC
* * *
1190372 TTTAAGTCCAATATCGCTGGCCTTGAATCATCATATTAGCACCTTTGTCTTTAAGACCAAAGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* *
1190437 CTGGCCTTGAATTAGTATATTGGCACC
66 CTGGCCTTGAATCAGCA-ATTGGCACC
1190464 AGCATATTGT
Statistics
Matches: 172, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
91 1 0.01
92 170 0.99
93 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (91 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCAATTGGCACC
Found at i:1190603 original size:43 final size:43
Alignment explanation
Indices: 1190537--1190625 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
1190527 CACCTTTGTT
* * *
1190537 TTTAAGACCAATGTCGCTTGCCTTGAATCAGCACATTGGCACC
1 TTTAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACC
* * *
1190580 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCC
1 TTTAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACC
1190623 TTT
1 TTT
1190626 GTCATCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
TTTAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACC
Found at i:1190618 original size:159 final size:155
Alignment explanation
Indices: 1190329--1190619 Score: 347
Period size: 159 Copynumber: 1.8 Consensus size: 155
1190319 CACCATTGTC
*
1190329 TTTAAGACCAATGTCGCTGGCCTTGAATCAACAAGTTGGCACCTTTAAGTCCAATATCGCTGGCC
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAACAAGTTGGCACCTTTAAGACCAATATCGCTGGCC
* * * * *
1190394 TTGAATCATCATATTAGCACCTTTGTCTTTAAGACCAAAGTCGCTGGCCTTGAATTAGTATATTG
66 TTGAATCAGCACATTAGCACC----TCTTTAAGACCAAAGTCACTGGCCTTGAATCAGCATATTG
1190459 GCACCAGCATATTGTCGCCTTTGTCATCT
127 GCACCAGCATATTGTCGCCTTTGTCATCT
* *
1190488 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATA-TTGGCACCTTTGTTTTTAAGACCAATGTC
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAACA-AGTTGGCACC------TTTAAGACCAATATC
* * *
1190552 GCTTGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATA-TCACTGGCCTTGAATCAGCAT
59 GCTGGCCTTGAATCAGCACATTAGCACCTCTTTAAGACCAA-AGTCACTGGCCTTGAATCAGCAT
1190614 ATTGGC
123 ATTGGC
1190620 GCCTTTGTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
159 75 0.66
160 2 0.02
164 1 0.01
165 35 0.31
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (155 bp):
TTTAAGACCAATGTCGCTGGCCTTGAATCAACAAGTTGGCACCTTTAAGACCAATATCGCTGGCC
TTGAATCAGCACATTAGCACCTCTTTAAGACCAAAGTCACTGGCCTTGAATCAGCATATTGGCAC
CAGCATATTGTCGCCTTTGTCATCT
Found at i:1193777 original size:52 final size:52
Alignment explanation
Indices: 1193699--1193823 Score: 189
Period size: 52 Copynumber: 2.4 Consensus size: 52
1193689 CAAAATATGA
* *
1193699 AAATTTG-CTTGCATGTATCGATACATTTCATAGTGTATCGATACCTCTAGGC
1 AAATTTGAC-TGCATGTATCGACACATTTCATAGTGTATCGATACATCTAGGC
* *
1193751 AAATTTGACTGTATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGACTGCATGTATCGACACATTTCATAGTGTATCGATACATCTAGGC
*
1193803 AAATTTGCCTGCATGTATCGA
1 AAATTTGACTGCATGTATCGA
1193824 TGCAAAGATC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 65 0.98
53 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGACTGCATGTATCGACACATTTCATAGTGTATCGATACATCTAGGC
Found at i:1193838 original size:52 final size:51
Alignment explanation
Indices: 1193699--1193847 Score: 133
Period size: 52 Copynumber: 2.9 Consensus size: 51
1193689 CAAAATATGA
* ** *
1193699 AAATTTGCTTGCATGTATCGATACATTTCAT-AGTGTATCGATACCTCTAGGC
1 AAATTTGCCTGCATGTATCGAT-CA-AACATCAGTGTATCGATACATCTAGGC
* * * *
1193751 AAATTTGACTGTATGTATCGA-CACATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATCA-A--ACATCAGTGTATCGATACATCTAGGC
* *
1193803 AAATTTGCCTGCATGTATCGATGCAAAGATCAGTGTATCAATACA
1 AAATTTGCCTGCATGTATCGAT-CAAACATCAGTGTATCGATACA
1193848 ATGTATCAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
50 2 0.03
51 2 0.03
52 73 0.91
53 1 0.01
54 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATCAAACATCAGTGTATCGATACATCTAGGC
Found at i:1193854 original size:13 final size:13
Alignment explanation
Indices: 1193836--1193860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1193826 CAAAGATCAG
1193836 TGTATCAATACAA
1 TGTATCAATACAA
1193849 TGTATCAATACA
1 TGTATCAATACA
1193861 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:1193923 original size:13 final size:13
Alignment explanation
Indices: 1193905--1193956 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1193895 AGCTTTATAG
1193905 CGATACATTGTAT
1 CGATACATTGTAT
1193918 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
1193937 CGATACATTGTAT
1 CGATACATTGTAT
1193950 CGATACA
1 CGATACA
1193957 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1194823 original size:49 final size:49
Alignment explanation
Indices: 1194752--1195460 Score: 742
Period size: 49 Copynumber: 15.0 Consensus size: 49
1194742 TAAAGATGAC
* * *
1194752 GAAGGCGCCAATATGCTAATTCAAGGCCAGCGATACTGGACTTAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1194801 GAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
** *
1194850 GACAAAGACGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
** * *
1194902 GAAGGTGCCAACGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAT
*
1194952 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-
1 G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * *
1194999 -AAGGTGCCGATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1195047 GAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTAGACTT----A-
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * * *
1195091 -AAGGTGCTAATGTGCTG-TTCAAGACCAGCTACATTGGACTTAAGGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1195138 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * *
1195182 -AAGGTACCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1195230 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1195274 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
*
1195322 GAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT----A-
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * *
1195366 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1195414 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATACTGGACTTAAAG
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1195461 GAAGATGCCA
Statistics
Matches: 549, Mismatches: 73, Indels: 76
0.79 0.10 0.11
Matches are distributed among these distances:
42 19 0.03
43 166 0.30
45 4 0.01
46 1 0.00
47 4 0.01
48 16 0.03
49 252 0.46
50 7 0.01
52 43 0.08
53 37 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
Found at i:1195016 original size:43 final size:43
Alignment explanation
Indices: 1194955--1195461 Score: 496
Period size: 43 Copynumber: 11.1 Consensus size: 43
1194945 AAAAGATGAC
* *
1194955 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1194998 AAAGGTGCCGATGTGCTGATTCACGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1195041 AAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTAGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1195090 AAAGGTGCTAATGTGCTG-TTCAAGACCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1195132 AAGGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1195181 AAAGGTACCAATGTGCTGATTTAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1195224 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1195273 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1195316 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTT
* *
1195365 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1195408 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATACTGGACTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1195457 AAAGG
1 AAAGG
1195462 AAGATGCCAC
Statistics
Matches: 386, Mismatches: 45, Indels: 66
0.78 0.09 0.13
Matches are distributed among these distances:
42 19 0.05
43 172 0.45
44 1 0.00
45 4 0.01
46 1 0.00
47 3 0.01
48 16 0.04
49 170 0.44
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1195096 original size:92 final size:92
Alignment explanation
Indices: 1194704--1195461 Score: 1018
Period size: 92 Copynumber: 8.0 Consensus size: 92
1194694 ATGAGAAGAA
* * * ** *
1194704 TGCCAATGTGCTGATTAAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATT-GGACTTAAAGAT---GAAGGTGCCAATATGCT
* *
1194769 AATTCAAGGCCAGCGATACTGGACTTAAAGATGAAGG
62 GATTCAAGGCCAGCGATATTGGACTT----A--AAGG
** *
1194806 TGCCAATGTGCTGATTCAAGGCCAG-TGACATTGGACTTAAAGATGACAAAGACGCTAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATG---AAGGTGCCAATATGCT
1194870 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
62 GATTCAAGGCCAGCGATATTGGACTT----A--AAGG
* *
1194907 TGCCAACGTGCTGATTCAAGGCCAG-TGACATTGGACTTAAAAGATGACAAAGGCGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTT-AAAGATG---AAGGTGCCAATATGC
1194971 TGATTCAAGGCCAGCGATATTGGACTTAAAGG
61 TGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * *
1195003 TGCCGATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
1195068 CAAGGCCAACGATATTAGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * *
1195095 TGCTAATGTGCTG-TTCAAGACCAGCTACATTGGACTTAAGGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1195159 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1195186 TACCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1195251 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
1195278 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*
1195343 CAAGGCCAGTGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
**
1195370 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
1195435 CAAGGCCAGCTATACTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
1195462 AAGATGCCAC
Statistics
Matches: 609, Mismatches: 40, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
91 83 0.14
92 305 0.50
95 7 0.01
96 37 0.06
97 1 0.00
98 2 0.00
101 96 0.16
102 78 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGG
Found at i:1195390 original size:21 final size:21
Alignment explanation
Indices: 1195323--1195390 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1195313 CTTAAAGATG
*
1195323 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* ** *
1195344 AA-G-GCCAGTGATATTGGACTTA
1 AAGGTGCCAATG-TGCT-GA-TTC
1195366 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1195387 AAGG
1 AAGG
1195391 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 10 0.30
22 6 0.18
23 3 0.09
24 6 0.18
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1195537 original size:32 final size:33
Alignment explanation
Indices: 1195466--1195679 Score: 265
Period size: 32 Copynumber: 6.6 Consensus size: 33
1195456 TAAAGGAAGA
* *
1195466 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
*
1195499 TGCCACCAACTTGTGTGGGCTTTAG-AGGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
* *
1195531 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
* * *
1195564 TGCCATCGACTTGTGTGGGCTTT-GAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
* * *
1195596 TGCCACCGACTTGTGTGGGCTTT-GGAGGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
* *
1195628 TGCCACCAACTTGTGTGGGCTTTAG-AGAATGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAG-AGGGT
*
1195661 TGCCACCGACTTGTGTGGG
1 TGCCACCAACTTGTGTGGG
1195680 TTTTGAAAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
32 90 0.56
33 70 0.44
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAGAGGGT
Found at i:1195576 original size:65 final size:65
Alignment explanation
Indices: 1195466--1195694 Score: 284
Period size: 65 Copynumber: 3.5 Consensus size: 65
1195456 TAAAGGAAGA
* *
1195466 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * * *
1195531 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCATCGACTTGTGTGGGCTTT-GAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAG-AGAGGG
1195595 T
65 T
* * *** * *
1195596 TGCCACCGACTTGTGTGGGC-TTTGGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAATGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG-AGGG
1195660 T
65 T
* *
1195661 TGCCACCGACTTGTGTGGG-TTTTGAAAATGGTTG
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTG
1195695 TACAAGCTTG
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
64 30 0.22
65 109 0.78
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
Found at i:1195633 original size:97 final size:96
Alignment explanation
Indices: 1195462--1195694 Score: 351
Period size: 97 Copynumber: 2.4 Consensus size: 96
1195452 GACTTAAAGG
*
1195462 AAGA-TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
1 AAGATTGCCACCGACTTGTGTGGGC-TTTGAA-AAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
1195526 GGGGTTGCCACCAACTTGTGTGGGCTTTAGAAA
64 GGGGTTGCCACCAACTTGTGTGGGCTTTAGAAA
* * * *
1195559 AAGGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGG
1 AAGATTGCCACCGACTTGTGTGGGCTTTGAAAA-GGTTGCCACCAACTTGTGTGGGCTTTAGAGG
*
1195624 GGGTTGCCACCAACTTGTGTGGGCTTTAGAGA
65 GGGTTGCCACCAACTTGTGTGGGCTTTAGAAA
* *
1195656 ATGATTGCCACCGACTTGTGTGGGTTTTGAAAATGGTTG
1 AAGATTGCCACCGACTTGTGTGGGCTTTGAAAA-GGTTG
1195695 TACAAGCTTG
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
96 2 0.02
97 103 0.84
98 18 0.15
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (96 bp):
AAGATTGCCACCGACTTGTGTGGGCTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGG
GGTTGCCACCAACTTGTGTGGGCTTTAGAAA
Found at i:1195767 original size:33 final size:33
Alignment explanation
Indices: 1195720--1196022 Score: 173
Period size: 33 Copynumber: 9.6 Consensus size: 33
1195710 TTTTGAACGT
* * *
1195720 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
1195753 TGCCACGGAGTTGTGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
1195780 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAGAAAG-A
* * *
1195815 TGCCATGGAGTTGTGGGCTTAAAAGGA-ACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
* * *
1195848 TGGCACAGAGTTGTGGACTTAAAAAGG-G--TG-
1 TGCCACGGAGTTGTGGACTT-AAAAGGAGAAAGA
*
1195878 TG--ACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAGAAAG-A
* ** * *
1195911 TGGCACATAGTTGTGGGCTTAAAAGGA-ACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
**
1195944 TGCCATAGAGTTGTGGACTTTAAAA--AG---G-
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAGAAAGA
* **
1195972 TGCCACGGAGTCGTGGACTTTGAA-GA-AAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* *
1196003 TGCCACTGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
1196023 TGGAAAGAGA
Statistics
Matches: 214, Mismatches: 29, Indels: 56
0.72 0.10 0.19
Matches are distributed among these distances:
27 22 0.10
28 42 0.20
29 4 0.02
30 3 0.01
31 22 0.10
32 2 0.01
33 56 0.26
34 36 0.17
35 27 0.13
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
Found at i:1195785 original size:27 final size:27
Alignment explanation
Indices: 1195753--1195902 Score: 102
Period size: 28 Copynumber: 5.0 Consensus size: 27
1195743 AGGAGAAAGA
1195753 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1195780 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGG-----G
* *
1195813 AATGCCATGGAGTTGTGGGCTTAAAAGGAACAAGG
1 --TGCCACGGAGTTGTGGACTTAAAA-G-----GG
* *
1195848 TGGCACAGAGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
**
1195876 TGTGACGGAGTTGTGGACTTTAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGG
1195903 AAAAAGAATG
Statistics
Matches: 98, Mismatches: 9, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
27 18 0.18
28 31 0.32
29 2 0.02
33 18 0.18
34 10 0.10
35 18 0.18
40 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1195819 original size:35 final size:34
Alignment explanation
Indices: 1195780--1196245 Score: 170
Period size: 31 Copynumber: 14.7 Consensus size: 34
1195770 CTTAAAAGGG
*
1195780 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAG-A
** * * *
1195815 TGCCATGGAGTTGTGGGC-TTAAAAGGAACAAGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* *
1195848 TGGCACAGAGTTGTGGACTTAAAAAGG-----G-
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
** *
1195876 TGTGACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAG-A
* * * * *
1195911 TGGCACATAGTTGTGGGC-TTAAAAGGAACAAGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* *
1195944 TGCCATAGAGTTGTGGACTTT------AAAAAGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* * *
1195972 TGCCACGGAGTCGTGGACTTT-GAA-G-AAAAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* * *
1196003 TGCCACTGAGTCGTGGACTTT----GGAAAGAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* * *
1196033 TGCCACTA-AATTGTGGACTTT--GA-G-ACAAGA
1 TGCCAC-AGAGTTGTGGACTTTAAAAGGAAAAAGA
* *
1196063 TGCCACTA-AGTCGTGGATTTTAAGAAGG-AAAAGA
1 TGCCAC-AGAGTTGTGGACTTTAA-AAGGAAAAAGA
* *
1196097 TGCCACTA-AGTCGTGGACTTT-GAA-GAAAAGAGA
1 TGCCAC-AGAGTTGTGGACTTTAAAAGGAAAA-AGA
** * *
1196130 TGCCATTGAGTCGTGGACTTT-GAAGG--AAAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* * *
1196161 TGCCACTA-AGTCGTGGGCTTT-GAA-G-AAAAGA
1 TGCCAC-AGAGTTGTGGACTTTAAAAGGAAAAAGA
* ** *
1196192 TGCCACTGAGTCATGGACTTT----GGAAAGAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
* *
1196222 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACAGAGTTGTGGACTTTAAA
1196246 GAAAAGAAAT
Statistics
Matches: 344, Mismatches: 53, Indels: 70
0.74 0.11 0.15
Matches are distributed among these distances:
28 47 0.14
29 3 0.01
30 70 0.20
31 72 0.21
32 7 0.02
33 54 0.16
34 62 0.18
35 29 0.08
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (34 bp):
TGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA
Found at i:1195828 original size:62 final size:60
Alignment explanation
Indices: 1195720--1195840 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 60
1195710 TTTTGAACGT
* * *
1195720 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGACTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
* * *
1195780 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGGCTTAAAAGG
1 TGCCACGGACTTGTGGAC-TTAAAAGGAAAAAG-ATGCCACGGAGTTGTGGACTTAAAAGG
1195841 AACAAGGTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 15 0.28
61 13 0.25
62 25 0.47
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.22
Consensus pattern (60 bp):
TGCCACGGACTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1195909 original size:96 final size:96
Alignment explanation
Indices: 1195730--1195992 Score: 392
Period size: 96 Copynumber: 2.8 Consensus size: 96
1195720 TGCCACTGAC
* *
1195730 TTGTGGGCTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTG
1 TTGTGGGCTTAAAAGGA-ACAAGGTGCCACAGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTG
1195793 TGGACTTTAAAAGGAAAAAGAAT-GC-CATGGAG
65 TGGACTTTAAAAGGAAAAAGAATGGCACAT--AG
* **
1195825 TTGTGGGCTTAAAAGGAACAAGGTGGCACAGAGTTGTGGACTTAAAAAGGGTGTGACGGAGTTGT
1 TTGTGGGCTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGT
1195890 GGACTTTAAAAGGAAAAAGAATGGCACATAG
66 GGACTTTAAAAGGAAAAAGAATGGCACATAG
* *
1195921 TTGTGGGCTTAAAAGGAACAAGGTGCCATAGAGTTGTGGACTTTAAAAA-GGTGCCACGGAGTCG
1 TTGTGGGCTTAAAAGGAACAAGGTGCCACAGAGTTGTGGAC-TTAAAAAGGGTGCCACGGAGTTG
1195985 TGGACTTT
65 TGGACTTT
1195993 GAAGAAAAGA
Statistics
Matches: 153, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
94 1 0.01
95 38 0.25
96 102 0.67
97 9 0.06
98 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (96 bp):
TTGTGGGCTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGT
GGACTTTAAAAGGAAAAAGAATGGCACATAG
Found at i:1196007 original size:31 final size:31
Alignment explanation
Indices: 1195951--1196252 Score: 341
Period size: 31 Copynumber: 9.8 Consensus size: 31
1195941 AGGTGCCATA
* * *
1195951 GAGTTGTGGACTTT--A-AAAAGGTGCCACG
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1195979 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1196010 GAGTCGTGGACTTTG--GAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAA-AGATGCCACT
* * * *
1196040 AAATTGTGGACTTTG-AGACAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
1196070 AAGTCGTGGATTTTAAGAAGGAAAAGATGCCACT
1 GAGTCGTGGACTTT--GAA-GAAAAGATGCCACT
* *
1196104 AAGTCGTGGACTTTGAAGAAAAGAGATGCCATT
1 GAGTCGTGGACTTTGAAG-AAA-AGATGCCACT
*
1196137 GAGTCGTGGACTTTGAAGGAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
1196168 AAGTCGTGGGCTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
*
1196199 GAGTCATGGACTTTG--GAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAA-AGATGCCACT
*
1196229 GAGTCGTGGACTTTAAAGAAAAGA
1 GAGTCGTGGACTTTGAAGAAAAGA
1196253 AATTTGAAAA
Statistics
Matches: 236, Mismatches: 24, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
28 13 0.06
29 8 0.03
30 67 0.28
31 82 0.35
32 13 0.06
33 27 0.11
34 26 0.11
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (31 bp):
GAGTCGTGGACTTTGAAGAAAAGATGCCACT
Found at i:1204587 original size:52 final size:52
Alignment explanation
Indices: 1204441--1204569 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1204431 CGAAATATGA
1204441 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
1204493 AAATTTGTCTGTATGTATCGATTCATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1204545 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1204570 AAGATTAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1204596 original size:13 final size:13
Alignment explanation
Indices: 1204578--1204602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1204568 CAAAGATTAG
1204578 TGTATCGATACAA
1 TGTATCGATACAA
1204591 TGTATCGATACA
1 TGTATCGATACA
1204603 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1204710 original size:32 final size:32
Alignment explanation
Indices: 1204649--1204731 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
1204639 CTTTGTAGTG
* * * *
1204649 ATACATTATATCGATAAAAAACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCC
* *
1204681 ATATATTGTATTGATACAACACTTATGTATCC
1 ATACATTGTATCGATACAACACTTATGTATCC
1204713 ATACATTGTATCGATACAA
1 ATACATTGTATCGATACAA
1204732 ATCGTTGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCC
Found at i:1205078 original size:49 final size:49
Alignment explanation
Indices: 1205021--1205274 Score: 305
Period size: 49 Copynumber: 5.0 Consensus size: 49
1205011 GGTGTCTACA
1205021 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * **
1205070 AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TTT
* * *
1205123 AAGT-CAATGTCGCTGGCCTTAAATTAGCACATTAGCACCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * *
1205171 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGTGC-CTCTGTCATCTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCAC-CT-TCATC-TTT
*
1205224 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1205273 AA
1 AA
1205275 CATTCCTAAA
Statistics
Matches: 171, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
48 7 0.04
49 69 0.40
50 7 0.04
51 9 0.05
52 39 0.23
53 40 0.23
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
Found at i:1205201 original size:101 final size:102
Alignment explanation
Indices: 1205021--1205274 Score: 447
Period size: 101 Copynumber: 2.5 Consensus size: 102
1205011 GGTGTCTACA
*
1205021 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGCTG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTG
*
1205086 GCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTT
66 GCCTTGAATCAGCATATTGGTGCCTCTGTCATCTTTT
* * *
1205123 AAGT-CAATGTCGCTGGCCTTAAATTAGCACATTAGCACCTTCATCTTTAAGTCCAATATAGCTG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTG
1205187 GCCTTGAATCAGCATATTGGTGCCTCTGTCATCTTTT
66 GCCTTGAATCAGCATATTGGTGCCTCTGTCATCTTTT
*
1205224 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1205275 CATTCCTAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
101 96 0.68
102 46 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (102 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTG
GCCTTGAATCAGCATATTGGTGCCTCTGTCATCTTTT
Found at i:1211595 original size:20 final size:20
Alignment explanation
Indices: 1211570--1211623 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1211560 GTTATAAGTA
*
1211570 ATGTATCGATACAAT-TCTT
1 ATGTATCGATACAATGTCCT
1211589 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCCT
*
1211610 ATGTATTGATACAA
1 ATGTATCGATACAA
1211624 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCT
Found at i:1211694 original size:19 final size:20
Alignment explanation
Indices: 1211652--1211702 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1211642 CTGCCAGTTT
**
1211652 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1211672 CATGTATCGATAC-ATTGAA
1 CATGTATCGATACAATTGAA
1211691 CATGTATCGATA
1 CATGTATCGATA
1211703 TAATGTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1214233 original size:13 final size:13
Alignment explanation
Indices: 1214215--1214254 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
1214205 ATAGTAACCC
1214215 ATGTATCGATACA
1 ATGTATCGATACA
*
1214228 ATGTATCAATACA
1 ATGTATCGATACA
1214241 ATGTATCGATACA
1 ATGTATCGATACA
1214254 A
1 A
1214255 GGAATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1214313 original size:20 final size:21
Alignment explanation
Indices: 1214283--1214321 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1214273 ATTAGGGTTT
1214283 TTCAGATGTATCGATACATGC
1 TTCAGATGTATCGATACATGC
1214304 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
1214322 TCTGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATGC
Found at i:1220457 original size:13 final size:13
Alignment explanation
Indices: 1220439--1220468 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1220429 TAAATTCTTC
1220439 ATGTATCGATACA
1 ATGTATCGATACA
1220452 ATGTATCGATACA
1 ATGTATCGATACA
1220465 ATGT
1 ATGT
1220469 CCTATGTATT
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:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1220483 original size:33 final size:32
Alignment explanation
Indices: 1220419--1220485 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
1220409 CATTATAAGT
*
1220419 AATGTATCGATAAATTCTTCATGTATCGATAC
1 AATGTATCGATAAATTCCTCATGTATCGATAC
*
1220451 AATGTATCGATACAATGTCCT-ATGTATTGATAC
1 AATGTATCGATA-AAT-TCCTCATGTATCGATAC
1220484 AA
1 AA
1220486 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 12 0.39
33 16 0.52
34 3 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (32 bp):
AATGTATCGATAAATTCCTCATGTATCGATAC
Found at i:1220556 original size:19 final size:20
Alignment explanation
Indices: 1220514--1220564 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1220504 CTGCCAGTTT
**
1220514 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1220534 CATGTATCGATAC-ATTGAA
1 CATGTATCGATACAATTGAA
1220553 CATGTATCGATA
1 CATGTATCGATA
1220565 TAATGTATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1222489 original size:33 final size:32
Alignment explanation
Indices: 1222447--1222513 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
1222437 CCCTTAAATG
*
1222447 TATCGATACATATTACTTGGTATCGATACATTA
1 TATCGATACATATT-CTTGGTATCGATACACTA
* * *
1222480 TATCGATACATGTTCTTTGTATTGATACACTA
1 TATCGATACATATTCTTGGTATCGATACACTA
1222512 TA
1 TA
1222514 AAATGTATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (32 bp):
TATCGATACATATTCTTGGTATCGATACACTA
Found at i:1232314 original size:57 final size:58
Alignment explanation
Indices: 1232253--1232381 Score: 145
Period size: 57 Copynumber: 2.2 Consensus size: 58
1232243 CTATATCTTT
* * *
1232253 GAAAATGACCTAAACGACCCTAGT-ATACATAAAATTGCTTAAAAGCCCTTAG-TAATG
1 GAAAATGACCTAAACGACCC-AATCATACATAAAATTACATAAAAGCCCTTAGATAATG
* * * * * *
1232310 GAAAATTACCTAAATGACCCAATCATATATAAAATTACATAAAAGTCTTTAGATCATG
1 GAAAATGACCTAAACGACCCAATCATACATAAAATTACATAAAAGCCCTTAGATAATG
*
1232368 AAAAATGACCTAAA
1 GAAAATGACCTAAA
1232382 TAATCCCAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
56 2 0.03
57 41 0.69
58 16 0.27
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (58 bp):
GAAAATGACCTAAACGACCCAATCATACATAAAATTACATAAAAGCCCTTAGATAATG
Found at i:1232396 original size:58 final size:59
Alignment explanation
Indices: 1232281--1232547 Score: 180
Period size: 58 Copynumber: 4.6 Consensus size: 59
1232271 CCTAGTATAC
* * * * *
1232281 ATAAAATTGCTTAAAAG-CCCTTAG-TAATG-GAAAATTACCTAAATGA-CCCAATCATAT
1 ATAAAATTACATAAAAGTCCC-TAGATCATGAGAAAATAACCTAAATAATCCCAA-CATAT
** *
1232338 ATAAAATTACATAAAAGTCTTTAGATCATGA-AAAATGACCTAAATAATCCCAACATAT
1 ATAAAATTACATAAAAGTCCCTAGATCATGAGAAAATAACCTAAATAATCCCAACATAT
* * * * * * *
1232396 ACAAAA-TAGCATAGAAGTCCCTAGATCA-CAGAAAGTAACTTAAATAACCCCAATATAT
1 ATAAAATTA-CATAAAAGTCCCTAGATCATGAGAAAATAACCTAAATAATCCCAACATAT
* * * ** * *
1232454 ATGAAATTACATAAAAATCCTTATTTCAT-AGAAAATAACCTAAATGACAT--TAACATAC
1 ATAAAATTACATAAAAGTCCCTAGATCATGAGAAAATAACCTAAAT-A-ATCCCAACATAT
* *
1232512 ATAAAATAATATAAAAGTCCCTA-AGTCATGA-AAAAT
1 ATAAAATTACATAAAAGTCCCTAGA-TCATGAGAAAAT
1232548 GACTAAAATG
Statistics
Matches: 162, Mismatches: 36, Indels: 23
0.73 0.16 0.10
Matches are distributed among these distances:
57 21 0.13
58 131 0.81
59 9 0.06
60 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (59 bp):
ATAAAATTACATAAAAGTCCCTAGATCATGAGAAAATAACCTAAATAATCCCAACATAT
Found at i:1232557 original size:58 final size:57
Alignment explanation
Indices: 1232495--1232655 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 57
1232485 AAAATAACCT
* * *
1232495 AAATGACATTAACATACATAAAATAATATAAAAGTCCCTAAGTCATGAAAAATGACTA
1 AAATGACATTAAAATACATGAAAT-ATATAAAAATCCCTAAGTCATGAAAAATGACTA
* * * **
1232553 AAATGACA-TAAAATGCATGAAGTGTCATAAAAATTACTAAGTCATGAAAAATGACTA
1 AAATGACATTAAAATACATGAAATAT-ATAAAAATCCCTAAGTCATGAAAAATGACTA
*
1232610 AAATGACATAAAAATACATGAAAT-TACCTAAAAATCCCTAAGTCAT
1 AAATGACATTAAAATACATGAAATATA--TAAAAATCCCTAAGTCAT
1232656 AGTCAATCAC
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
56 2 0.02
57 48 0.56
58 36 0.42
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (57 bp):
AAATGACATTAAAATACATGAAATATATAAAAATCCCTAAGTCATGAAAAATGACTA
Found at i:1232565 original size:19 final size:20
Alignment explanation
Indices: 1232542--1232624 Score: 68
Period size: 19 Copynumber: 4.3 Consensus size: 20
1232532 CTAAGTCATG
1232542 AAAAATGACTAAAATGACAT
1 AAAAATGACTAAAATGACAT
* * *
1232562 -AAAATG-CATGAAGTGTCAT
1 AAAAATGAC-TAAAATGACAT
* *
1232581 AAAAATTACT--AA-GTCAT
1 AAAAATGACTAAAATGACAT
1232598 GAAAAATGACTAAAATGACAT
1 -AAAAATGACTAAAATGACAT
1232619 AAAAAT
1 AAAAAT
1232625 ACATGAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 5 0.10
18 11 0.22
19 14 0.29
20 14 0.29
21 5 0.10
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (20 bp):
AAAAATGACTAAAATGACAT
Found at i:1232604 original size:18 final size:17
Alignment explanation
Indices: 1232576--1232610 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1232566 TGCATGAAGT
*
1232576 GTCATAAAAATTACTAA
1 GTCATAAAAATGACTAA
1232593 GTCATGAAAAATGACTAA
1 GTCAT-AAAAATGACTAA
1232611 AATGACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (17 bp):
GTCATAAAAATGACTAA
Found at i:1232671 original size:58 final size:57
Alignment explanation
Indices: 1232454--1232655 Score: 212
Period size: 58 Copynumber: 3.5 Consensus size: 57
1232444 CCCAATATAT
* ** * *
1232454 ATGAAATTACATAAAAATCCTTATTTCAT-AGAAAATAACCT-AAATGACATTAACATAC
1 ATGAAATTACATAAAAATCCCTAAGTCATGA-AAAATGA-CTAAAATGACA-TAAAATAC
* * * * *
1232512 ATAAAATAATATAAAAGTCCCTAAGTCATGAAAAATGACTAAAATGACATAAAATGC
1 ATGAAATTACATAAAAATCCCTAAGTCATGAAAAATGACTAAAATGACATAAAATAC
* **
1232569 ATGAAGTGT-CATAAAAATTACTAAGTCATGAAAAATGACTAAAATGACATAAAAATAC
1 ATGAAAT-TACATAAAAATCCCTAAGTCATGAAAAATGACTAAAATGACAT-AAAATAC
*
1232627 ATGAAATTACCTAAAAATCCCTAAGTCAT
1 ATGAAATTACATAAAAATCCCTAAGTCAT
1232656 AGTCAATCAC
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
57 51 0.44
58 65 0.56
59 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (57 bp):
ATGAAATTACATAAAAATCCCTAAGTCATGAAAAATGACTAAAATGACATAAAATAC
Found at i:1234972 original size:33 final size:33
Alignment explanation
Indices: 1234925--1234988 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1234915 ACACCCTGAG
*
1234925 GTATCGATACAAATTGCTAAGTATCGATACATT
1 GTATCAATACAAATTGCTAAGTATCGATACATT
* **
1234958 GTATCAATATAAATTGCTTTGTATCGATACA
1 GTATCAATACAAATTGCTAAGTATCGATACA
1234989 CTAAGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (33 bp):
GTATCAATACAAATTGCTAAGTATCGATACATT
Found at i:1241122 original size:19 final size:20
Alignment explanation
Indices: 1241074--1241131 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
1241064 CTGGGTTTTC
*
1241074 CAAATTGTATCGATACAATA
1 CAAATTGTATCGATACATTA
*
1241094 CAATTTGTATCGATACATTA
1 CAAATTGTATCGATACATTA
1241114 -AAATTGTATCGATACATT
1 CAAATTGTATCGATACATT
1241132 TTTACTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (20 bp):
CAAATTGTATCGATACATTA
Found at i:1243693 original size:10 final size:10
Alignment explanation
Indices: 1243680--1243722 Score: 59
Period size: 10 Copynumber: 4.0 Consensus size: 10
1243670 CATAATCCAC
1243680 CAAATTTATA
1 CAAATTTATA
1243690 CAAATTTATAA
1 CAAATTTAT-A
1243701 CACTAATTTATA
1 CA--AATTTATA
1243713 CAAATTTATA
1 CAAATTTATA
1243723 ACACTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 17 0.57
11 3 0.10
12 3 0.10
13 7 0.23
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTTATA
Found at i:1243708 original size:23 final size:23
Alignment explanation
Indices: 1243682--1243727 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1243672 TAATCCACCA
1243682 AATTTATACAAATTTATAACACT
1 AATTTATACAAATTTATAACACT
1243705 AATTTATACAAATTTATAACACT
1 AATTTATACAAATTTATAACACT
1243728 TTGGTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTTATACAAATTTATAACACT
Found at i:1243710 original size:13 final size:13
Alignment explanation
Indices: 1243692--1243727 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 13
1243682 AATTTATACA
1243692 AATTTATAACACT
1 AATTTATAACACT
1243705 AATTTAT-ACA--
1 AATTTATAACACT
1243715 AATTTATAACACT
1 AATTTATAACACT
1243728 TTGGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.35
11 3 0.15
12 3 0.15
13 7 0.35
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
AATTTATAACACT
Found at i:1250138 original size:19 final size:20
Alignment explanation
Indices: 1250116--1250166 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1250106 CTTGTTTAGA
*
1250116 TTAAATAATTTATTTAA-AT
1 TTAAATAATTTATTCAATAT
1250135 TTAAAT-ATTTATTCAATAT
1 TTAAATAATTTATTCAATAT
*
1250154 TTGAGATAATTTA
1 TT-AAATAATTTA
1250167 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.33
19 10 0.37
20 3 0.11
21 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
TTAAATAATTTATTCAATAT
Found at i:1250195 original size:19 final size:19
Alignment explanation
Indices: 1250166--1250205 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1250156 GAGATAATTT
*
1250166 AAATAAAATAACTTTGAAAA
1 AAATAAAATAAATTT-AAAA
1250186 AAAT-AAATAAATTTAAAA
1 AAATAAAATAAATTTAAAA
1250204 AA
1 AA
1250206 TGAGCTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAAAATAAATTTAAAA
Found at i:1251956 original size:16 final size:16
Alignment explanation
Indices: 1251935--1251968 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1251925 AAAGTGGGGA
* *
1251935 TTCAAAGTTATTTATT
1 TTCAAAGATAATTATT
1251951 TTCAAAGATAATTATT
1 TTCAAAGATAATTATT
1251967 TT
1 TT
1251969 ATTTCTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTCAAAGATAATTATT
Found at i:1252946 original size:2 final size:2
Alignment explanation
Indices: 1252939--1253007 Score: 59
Period size: 2 Copynumber: 34.0 Consensus size: 2
1252929 CTAATTATTG
* * * ** *
1252939 AT AT AT AT AT AT AT AT GCT TT AT AT ACT AT AC AT GC AT GT AT -T
1 AT AT AT AT AT AT AT AT -AT AT AT AT A-T AT AT AT AT AT AT AT AT
1252982 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
1253008 GCACTTATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
1 1 0.02
2 49 0.92
3 3 0.06
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1253010 original size:35 final size:37
Alignment explanation
Indices: 1252944--1253018 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 37
1252934 TATTGATATA
* *
1252944 TATATATATATGCTTTATATACTATACATGCA-TGTAT
1 TATATATATATGATATATATACTATACATGCACT-TAT
*
1252981 TATATATATAT-ATATATATA-TATATATGCACTTAT
1 TATATATATATGATATATATACTATACATGCACTTAT
1253016 TAT
1 TAT
1253019 TGAATCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 15 0.44
36 8 0.24
37 11 0.32
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (37 bp):
TATATATATATGATATATATACTATACATGCACTTAT
Found at i:1255738 original size:3 final size:3
Alignment explanation
Indices: 1255730--1255755 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1255720 TTTATACTCA
1255730 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1255756 CAACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1257637 original size:19 final size:19
Alignment explanation
Indices: 1257613--1257649 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1257603 GAATGATGCA
1257613 AATGCTCAGATGCATATGT
1 AATGCTCAGATGCATATGT
*
1257632 AATGCTCATATGCATATG
1 AATGCTCAGATGCATATG
1257650 GATGATGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGCTCAGATGCATATGT
Found at i:1260718 original size:41 final size:41
Alignment explanation
Indices: 1260672--1260751 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
1260662 TTTTTTTAAC
1260672 CTTATATGCTTTTCATTATAATATCCTCATGACTAGGTGTT
1 CTTATATGCTTTTCATTATAATATCCTCATGACTAGGTGTT
1260713 CTTATATGCTTTTCATTATAATATCCTCATGACTAGGTG
1 CTTATATGCTTTTCATTATAATATCCTCATGACTAGGTG
1260752 CTTTGTTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (41 bp):
CTTATATGCTTTTCATTATAATATCCTCATGACTAGGTGTT
Found at i:1264520 original size:13 final size:13
Alignment explanation
Indices: 1264502--1264532 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1264492 ACAATTCATT
1264502 ATGTATCGATACA
1 ATGTATCGATACA
1264515 ATGTATCGATACA
1 ATGTATCGATACA
1264528 ATGTA
1 ATGTA
1264533 CCATGTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1264621 original size:19 final size:19
Alignment explanation
Indices: 1264576--1264627 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1264566 ACTGCCAGTT
*
1264576 TCATCTATCGATACAATTG
1 TCATGTATCGATACAATTG
1264595 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
1264614 ATCATGTATCGATA
1 -TCATGTATCGATA
1264628 TATTGTATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:1264659 original size:33 final size:32
Alignment explanation
Indices: 1264599--1264660 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1264589 CAATTGTCCA
* *
1264599 TGTATCGATACAATGATCATGTATCGATATAT
1 TGTATCGATACAAAGATAATGTATCGATATAT
*
1264631 TGTATCGCTACAAAGCATAATGTATCGATA
1 TGTATCGATACAAAG-ATAATGTATCGATA
1264661 CTTCAAGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAAAGATAATGTATCGATATAT
Found at i:1264674 original size:20 final size:21
Alignment explanation
Indices: 1264651--1264689 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1264641 CAAAGCATAA
1264651 TGTATCGATAC-TTCAAGGTG
1 TGTATCGATACATTCAAGGTG
*
1264671 TGTATTGATACATTCAAGG
1 TGTATCGATACATTCAAGG
1264690 GTTTTGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCAAGGTG
Found at i:1267154 original size:13 final size:13
Alignment explanation
Indices: 1267136--1267160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1267126 TAGTAACCCA
1267136 TGTATCGATACAT
1 TGTATCGATACAT
1267149 TGTATCGATACA
1 TGTATCGATACA
1267161 AGGAATGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1269812 original size:20 final size:20
Alignment explanation
Indices: 1269789--1269861 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
1269779 ACAATTCAAA
*
1269789 GTATTGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1269809 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1269830 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1269850 GTATCGATACAT
1 GTATCGATACAT
1269862 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1269833 original size:21 final size:21
Alignment explanation
Indices: 1269807--1269882 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1269797 ACATGTTGCA
1269807 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1269828 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1269848 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1269869 ATGTATCGATACAT
1 ATGTATCGATACAT
1269883 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1269845 original size:41 final size:41
Alignment explanation
Indices: 1269789--1269882 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1269779 ACAATTCAAA
* *
1269789 GTATTGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1269830 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1269871 GTATCGATACAT
1 GTATCGATACAT
1269883 TTCTTGGCAG
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:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1269939 original size:13 final size:13
Alignment explanation
Indices: 1269921--1269946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1269911 TACAGCAAGT
1269921 ATGTATCGATACA
1 ATGTATCGATACA
1269934 ATGTATCGATACA
1 ATGTATCGATACA
1269947 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1276140 original size:13 final size:13
Alignment explanation
Indices: 1276119--1276157 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1276109 ACATTTTTCT
*
1276119 TTGTTTCGATACA
1 TTGTATCGATACA
1276132 TTGTATCGATACA
1 TTGTATCGATACA
*
1276145 CTGTATCGATACA
1 TTGTATCGATACA
1276158 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1278623 original size:20 final size:20
Alignment explanation
Indices: 1278600--1278672 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1278590 ACAATTCAAA
1278600 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1278620 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1278641 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1278661 GTATCGATACAT
1 GTATCGATACAT
1278673 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1278644 original size:21 final size:21
Alignment explanation
Indices: 1278618--1278693 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1278608 ACATGTTGCA
1278618 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1278639 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1278659 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1278680 ATGTATCGATACAT
1 ATGTATCGATACAT
1278694 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1278651 original size:41 final size:41
Alignment explanation
Indices: 1278600--1278693 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1278590 ACAATTCAAA
*
1278600 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1278641 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1278682 GTATCGATACAT
1 GTATCGATACAT
1278694 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1278750 original size:13 final size:13
Alignment explanation
Indices: 1278732--1278757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1278722 TACAGCAAGT
1278732 ATGTATCGATACA
1 ATGTATCGATACA
1278745 ATGTATCGATACA
1 ATGTATCGATACA
1278758 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1282290 original size:13 final size:13
Alignment explanation
Indices: 1282272--1282297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1282262 AATTTTTTTG
1282272 TGTATCGATACAT
1 TGTATCGATACAT
1282285 TGTATCGATACAT
1 TGTATCGATACAT
1282298 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1283036 original size:21 final size:21
Alignment explanation
Indices: 1282995--1283038 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1282985 CTCCCCTTTA
* *
1282995 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1283016 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1283037 TC
1 TC
1283039 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1284859 original size:13 final size:13
Alignment explanation
Indices: 1284841--1284879 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1284831 ATAATCACCC
1284841 TGTATCGATACAA
1 TGTATCGATACAA
1284854 TGTATCGATACAA
1 TGTATCGATACAA
1284867 TGTATCGATACAA
1 TGTATCGATACAA
1284880 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1286978 original size:15 final size:15
Alignment explanation
Indices: 1286958--1286988 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1286948 ATTTTGTTTG
*
1286958 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1286973 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1286988 G
1 G
1286989 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1288819 original size:21 final size:21
Alignment explanation
Indices: 1288790--1288834 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1288780 CAAGTTTCAT
*
1288790 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1288810 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1288832 TTT
1 TTT
1288835 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1291072 original size:13 final size:13
Alignment explanation
Indices: 1291054--1291079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1291044 AATTTTTTTG
1291054 TGTATCGATACAT
1 TGTATCGATACAT
1291067 TGTATCGATACAT
1 TGTATCGATACAT
1291080 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1293354 original size:19 final size:19
Alignment explanation
Indices: 1293309--1293360 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1293299 ACTGCCAGTT
*
1293309 TCATCTATTGATACAATTG
1 TCATGTATTGATACAATTG
1293328 TCCATGTATTGATACAA-TG
1 T-CATGTATTGATACAATTG
*
1293347 ATCATGTATCGATA
1 -TCATGTATTGATA
1293361 TATTGTATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (19 bp):
TCATGTATTGATACAATTG
Found at i:1293392 original size:33 final size:32
Alignment explanation
Indices: 1293332--1293393 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1293322 CAATTGTCCA
* * *
1293332 TGTATTGATACAATGATCATGTATCGATATAT
1 TGTATCGATACAAAGATAATGTATCGATATAT
1293364 TGTATCGATACAAAGCATAATGTATCGATA
1 TGTATCGATACAAAG-ATAATGTATCGATA
1293394 CTTCTGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAGATAATGTATCGATATAT
Found at i:1299013 original size:51 final size:51
Alignment explanation
Indices: 1298853--1299023 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1298843 GAAATAACGA
* * *
1298853 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1298905 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1298958 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1299009 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1299024 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1299069 original size:27 final size:28
Alignment explanation
Indices: 1299006--1299081 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1298996 AAAATAAAGT
*
1299006 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1299034 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1299061 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1299082 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1301570 original size:13 final size:13
Alignment explanation
Indices: 1301552--1301577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1301542 ACAAAGATCC
1301552 ATGTATCGATACA
1 ATGTATCGATACA
1301565 ATGTATCGATACA
1 ATGTATCGATACA
1301578 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1301573 original size:33 final size:33
Alignment explanation
Indices: 1301531--1301597 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1301521 AAAATTTCCA
***
1301531 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1301564 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1301597 A
1 A
1301598 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1301641 original size:19 final size:18
Alignment explanation
Indices: 1301617--1301684 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1301607 CAGTAGCTAA
1301617 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1301636 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1301651 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1301668 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1301685 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1301657 original size:13 final size:13
Alignment explanation
Indices: 1301639--1301663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1301629 ACAATACTTA
1301639 TGTATCGATACAT
1 TGTATCGATACAT
1301652 TGTATCGATACA
1 TGTATCGATACA
1301664 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1301661 original size:32 final size:32
Alignment explanation
Indices: 1301620--1301682 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1301610 TAGCTAATTA
*
1301620 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1301652 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1301683 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1301764 original size:21 final size:21
Alignment explanation
Indices: 1301740--1301796 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1301730 CATTTGTAGG
1301740 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1301761 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1301782 ATGTATCGATACATT
1 ATGTATCGATACATT
1301797 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1302499 original size:55 final size:55
Alignment explanation
Indices: 1302415--1302982 Score: 864
Period size: 55 Copynumber: 10.3 Consensus size: 55
1302405 ATAAATTGTA
* * * * * *
1302415 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1302470 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1302525 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1302580 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1302635 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1302690 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1302745 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1302800 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1302855 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1302910 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAACGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1302965 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1302983 AAAAAGCGGA
Statistics
Matches: 484, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
53 2 0.00
54 6 0.01
55 464 0.96
56 10 0.02
57 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1303967 original size:1 final size:1
Alignment explanation
Indices: 1303963--1304015 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
1303953 CTTTTCTCTC
* * * * * *
1303963 TTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTCTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1304016 GAAGAGAAGG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (1 bp):
T
Found at i:1303981 original size:31 final size:27
Alignment explanation
Indices: 1303963--1304015 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1303953 CTTTTCTCTC
* *
1303963 TTTTTCTTTGTTTTGTTTTTTTGTTTT
1 TTTTTCTTTCTTTTGTTTTTTTTTTTT
1303990 TTTTTCTTTCTTTT-TTTTTTTTTTTT
1 TTTTTCTTTCTTTTGTTTTTTTTTTTT
1304016 GAAGAGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (27 bp):
TTTTTCTTTCTTTTGTTTTTTTTTTTT
Found at i:1312065 original size:1 final size:1
Alignment explanation
Indices: 1312059--1312084 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1312049 ACACATGAAG
1312059 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
1312085 TTGGGTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1316662 original size:51 final size:51
Alignment explanation
Indices: 1316502--1316672 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1316492 GAAATAACGA
* * *
1316502 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1316554 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1316607 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1316658 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1316673 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1316718 original size:27 final size:28
Alignment explanation
Indices: 1316655--1316730 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1316645 AAAATAAAGT
*
1316655 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1316683 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1316710 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1316731 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1319217 original size:13 final size:13
Alignment explanation
Indices: 1319199--1319224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1319189 ACAAAGATCC
1319199 ATGTATCGATACA
1 ATGTATCGATACA
1319212 ATGTATCGATACA
1 ATGTATCGATACA
1319225 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1319220 original size:33 final size:33
Alignment explanation
Indices: 1319178--1319244 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1319168 AAAATTTCCA
***
1319178 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1319211 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1319244 A
1 A
1319245 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1319288 original size:19 final size:18
Alignment explanation
Indices: 1319264--1319331 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1319254 CAGTAGCTAA
1319264 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1319283 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1319298 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1319315 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1319332 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1319304 original size:13 final size:13
Alignment explanation
Indices: 1319286--1319310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319276 ACAATACTTA
1319286 TGTATCGATACAT
1 TGTATCGATACAT
1319299 TGTATCGATACA
1 TGTATCGATACA
1319311 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1319308 original size:32 final size:32
Alignment explanation
Indices: 1319267--1319329 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1319257 TAGCTAATTA
*
1319267 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1319299 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1319330 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1319411 original size:21 final size:21
Alignment explanation
Indices: 1319387--1319443 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1319377 CATTTGTAGG
1319387 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1319408 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1319429 ATGTATCGATACATT
1 ATGTATCGATACATT
1319444 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1322704 original size:15 final size:15
Alignment explanation
Indices: 1322684--1322713 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1322674 CATAAAAAAA
1322684 TTATTAACTATTTTT
1 TTATTAACTATTTTT
*
1322699 TTATTAATTATTTTT
1 TTATTAACTATTTTT
1322714 AATAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTAACTATTTTT
Found at i:1323306 original size:21 final size:22
Alignment explanation
Indices: 1323275--1323328 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
1323265 TTATAATCAC
*
1323275 ATATT-TTATTATTAAT-TTTA
1 ATATTATTATTATTAATATTAA
*
1323295 ATTTTATTATTA-TAATATTAA
1 ATATTATTATTATTAATATTAA
1323316 ATATTATTATTAT
1 ATATTATTATTAT
1323329 CATAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATTATTATTATTAATATTAA
Done.