Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_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: 1382630
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 4 of 5
Found at i:886443 original size:28 final size:28
Alignment explanation
Indices: 886369--886433 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
886359 CTTGATACAA
886369 TTTTGTGAAAAAATCTTTGAGATTGTTTC
1 TTTTG-GAAAAAATCTTTGAGATTGTTTC
*
886398 TTTTGGAAAAAATCTTTGAGTTTGTTTC
1 TTTTGGAAAAAATCTTTGAGATTGTTTC
886426 -TTTGGAAA
1 TTTTGGAAA
886434 CAAAATTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 8 0.23
28 22 0.63
29 5 0.14
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (28 bp):
TTTTGGAAAAAATCTTTGAGATTGTTTC
Found at i:886481 original size:67 final size:68
Alignment explanation
Indices: 886388--886561 Score: 264
Period size: 68 Copynumber: 2.6 Consensus size: 68
886378 AAAATCTTTG
* * * *
886388 AGATTGTTTCTTTTG-GA-AAAAATCTTTGAGTTTGTTTCTTTGG-AAACAAAATTTTGTCTCTC
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAAAATTTCGTCTCTC
886450 TTA
66 TTA
886453 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAAAATTTCGTCTCTC
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAAAATTTCGTCTCTC
886518 TTA
66 TTA
* * *
886521 AGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
886562 CTTAAAATGA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
65 14 0.14
66 1 0.01
67 26 0.26
68 58 0.59
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (68 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAAAATTTCGTCTCTC
TTA
Found at i:886584 original size:68 final size:66
Alignment explanation
Indices: 886405--886585 Score: 229
Period size: 68 Copynumber: 2.7 Consensus size: 66
886395 TTCTTTTGGA
* * * *
886405 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAATCTGTTTCTTT-GAAAAAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
886470 AC
65 AC
* * *
886472 AAAAATCTTTGAGTTTGTTTCTTTGGAAAAAAAAATTTCGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAATCTTTGAATCTGTTTCTTT-G-AAAAAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
886537 AAC
64 AAC
** *
886540 AAAAATCTTTGAATCTGTTTCTCTT-AAAATGAATTTTGTATCTCTT
1 AAAAATCTTTGAATCTGTTTCT-TTGAAAAAAAATTTTGTCTCTCTT
886586 GAGACCGTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
66 17 0.17
67 26 0.25
68 58 0.56
69 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (66 bp):
AAAAATCTTTGAATCTGTTTCTTTGAAAAAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAA
C
Found at i:887731 original size:40 final size:40
Alignment explanation
Indices: 887676--888045 Score: 217
Period size: 40 Copynumber: 8.8 Consensus size: 40
887666 CTTTAGATGG
*
887676 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGA
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCATCAGCTGA
887716 CCAGATCTCTTCATCACGTATGAGCCGTGTCATCAGCTGA
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCATCAGCTGA
* * * * *
887756 CCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAA
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCA---TCAGCTGA
* * * * * * *
887799 CCAG-CCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGA
1 CCAGATC-TCTTCATCACGTATGAGCCGTGTCATCAGC--T-GA
* * * * *
887842 TGGCCAGAACTCTTCATCACATATGAGCCGTGTCTTTC-TCCGA
1 ---CCAGATCTCTTCATCACGTATGAGCCGTGTC-ATCAGCTGA
* * * *
887885 CCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCTTAGATAA
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCA---TCAGCTGA
* * * * * * *
887928 CCAG-CCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGA
1 CCAGATC-TCTTCATCACGTATGAGCCGTGTCATCAGC--T-GA
* * * *
887971 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCTTTC-TCCGA
1 ---CCAGATCTCTTCATCACGTATGAGCCGTGTC-ATCAGCTGA
888014 CCAGATCTCTTCATCACGTATGAGCCGTGTCA
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCA
888046 CCCTAGATAA
Statistics
Matches: 252, Mismatches: 53, Indels: 51
0.71 0.15 0.14
Matches are distributed among these distances:
40 131 0.52
42 5 0.02
43 63 0.25
46 47 0.19
47 6 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (40 bp):
CCAGATCTCTTCATCACGTATGAGCCGTGTCATCAGCTGA
Found at i:887849 original size:129 final size:129
Alignment explanation
Indices: 887716--888124 Score: 714
Period size: 129 Copynumber: 3.2 Consensus size: 129
887706 CATCAGCTGA
* * * * *
887716 CCAGATCTCTTCATCACGTATGAGCCGTGTC-ATCAGCTGACCAGATCTCCTCATCACGTAGGAG
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTC-TCCGACCAGATCTCTTCATCACGTAGGAG
887780 CCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
65 CCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
*
887845 CCAGAACTCTTCATCACATATGAGCCGTGTCTTTCTCCGACCAGATCTCTTCATCACGTAGGAGC
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTCTCCGACCAGATCTCTTCATCACGTAGGAGC
887910 CGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
66 CGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
*
887974 CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTCTCCGACCAGATCTCTTCATCACGTATGAGC
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTCTCCGACCAGATCTCTTCATCACGTAGGAGC
* *
888039 CGTGTCACCC-TAGATAACCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGG
66 CGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
888102 CCAGAACTCTTCATCACGTATGA
1 CCAGAACTCTTCATCACGTATGA
888125 ACAGTGTCGT
Statistics
Matches: 269, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 74 0.28
129 193 0.72
130 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (129 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTCTCCGACCAGATCTCTTCATCACGTAGGAGC
CGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
Found at i:887889 original size:169 final size:169
Alignment explanation
Indices: 887597--887916 Score: 552
Period size: 169 Copynumber: 1.9 Consensus size: 169
887587 CTAGCCGTCT
*
887597 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTA
1 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTA
* *
887662 TCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCTT
66 TCACCTTTAGATGGCCAGAACTCTTCATCACATATGAGCCGTGTCATCAGCCGACCAGATCTCTT
*
887727 CATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCC
131 CATCACGTAGGAGCCGTGTCATCAGCTGACCAGATCTCC
* *
887766 TCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTA
1 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTA
* *
887831 TCACCTTTAGATGGCCAGAACTCTTCATCACATATGAGCCGTGTCTTTC-TCCGACCAGATCTCT
66 TCACCTTTAGATGGCCAGAACTCTTCATCACATATGAGCCGTGTC-ATCAGCCGACCAGATCTCT
887895 TCATCACGTAGGAGCCGTGTCA
130 TCATCACGTAGGAGCCGTGTCA
887917 CCCTTAGATA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
169 140 0.99
170 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (169 bp):
TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTA
TCACCTTTAGATGGCCAGAACTCTTCATCACATATGAGCCGTGTCATCAGCCGACCAGATCTCTT
CATCACGTAGGAGCCGTGTCATCAGCTGACCAGATCTCC
Found at i:888292 original size:3 final size:3
Alignment explanation
Indices: 888281--888320 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
888271 TTTTTTATCG
888281 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
888321 GTTTATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:888326 original size:9 final size:8
Alignment explanation
Indices: 888281--888328 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
888271 TTTTTTATCG
888281 TTATTTTA
1 TTATTTTA
888289 TTATTATTA
1 TTATT-TTA
888298 TTATTATTTA
1 TTA-T-TTTA
888308 TTATTATTA
1 TTATT-TTA
888317 TTATGTTTA
1 TTAT-TTTA
888326 TTA
1 TTA
888329 ATTACATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.17
9 20 0.57
10 8 0.23
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTATTTTA
Found at i:888326 original size:22 final size:22
Alignment explanation
Indices: 888287--888332 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
888277 ATCGTTATTT
*
888287 TATTATTATTATTATTATTTAT
1 TATTATTATTATTATTATTAAT
888309 TATTATTATTATGT-TTATTAAT
1 TATTATTATTAT-TATTATTAAT
888331 TA
1 TA
888333 CATATTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTATTATTATTATTAAT
Found at i:888332 original size:19 final size:17
Alignment explanation
Indices: 888281--888328 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 17
888271 TTTTTTATCG
888281 TTATTTTATTATTATTA
1 TTATTTTATTATTATTA
888298 TTATTATTTATTATTATTA
1 TTA-T-TTTATTATTATTA
888317 TTATGTTTATTA
1 TTAT-TTTATTA
888329 ATTACATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 3 0.11
18 9 0.32
19 16 0.57
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTTTATTATTATTA
Found at i:888427 original size:26 final size:25
Alignment explanation
Indices: 888388--888463 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
888378 CAATCAACCC
888388 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
888413 ATCAGATTTAGGGTTTTAAACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
*
888439 ATTAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
888464 TCCCCTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 24 0.51
26 23 0.49
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:890101 original size:20 final size:21
Alignment explanation
Indices: 890062--890105 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
890052 CGATACGGCA
890062 TTGTGTATTTAAGCATAGTAAT
1 TTGTGTATTTAA-CATAGTAAT
*
890084 TTGTGTGTTTAA-ATAGTAAT
1 TTGTGTATTTAACATAGTAAT
890104 TT
1 TT
890106 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (21 bp):
TTGTGTATTTAACATAGTAAT
Found at i:895615 original size:3 final size:3
Alignment explanation
Indices: 895601--895639 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
895591 AAAGCAAATA
895601 TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
895640 CAAATTCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:898548 original size:13 final size:13
Alignment explanation
Indices: 898530--898579 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
898520 GTCATAACCC
898530 GACCCGACCCGTT
1 GACCCGACCCGTT
898543 GACCCGACCCGACATGTT
1 GACCCGA-CC--C--GTT
898561 GACCCGACCCGTT
1 GACCCGACCCGTT
898574 GACCCG
1 GACCCG
898580 TTGACCAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 16 0.50
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 10 0.31
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:898549 original size:18 final size:18
Alignment explanation
Indices: 898526--898585 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
898516 ACCGGTCATA
898526 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
**
898544 ACCCGACCCGACATGTTG
1 ACCCGACCCGACCCGTTG
898562 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
898583 ACC
1 ACC
898586 AGTTGACCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 25 0.71
21 10 0.29
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:901150 original size:24 final size:24
Alignment explanation
Indices: 901032--901147 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
901022 TTCGATTTGA
901032 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
901056 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
* *
901080 ATTCTGATCTGATACTTGACTTAG
1 ATTCTGATCTGATACTTGACATGG
* *
901104 ATTCTGATCTGATACTTGGCCTGG
1 ATTCTGATCTGATACTTGACATGG
*
901128 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
901148 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 1 0.01
24 78 0.95
25 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:906475 original size:38 final size:36
Alignment explanation
Indices: 906402--906476 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
906392 GTTGGAAAAT
* *
906402 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
*
906438 ATTTATATAATTTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-A-TTTTCTTTA-AAAATTAAAAATCATAAA
906476 A
1 A
906477 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.24
37 1 0.03
38 14 0.42
39 10 0.30
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:908937 original size:27 final size:27
Alignment explanation
Indices: 908881--908938 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
908871 AATCCGATAT
* **
908881 GACTTGAGAAATATACACTCTTTGTTC
1 GACTTGAAAAATATACACTCTTTGCCC
*
908908 GACTTGAAAAATATATACTCTTTGCCC
1 GACTTGAAAAATATACACTCTTTGCCC
908935 GACT
1 GACT
908939 CTGACCTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (27 bp):
GACTTGAAAAATATACACTCTTTGCCC
Found at i:911521 original size:23 final size:23
Alignment explanation
Indices: 911494--911563 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
911484 GTCACCACAG
* * *
911494 CTCATATAAATGCACCGAAGTGC
1 CTCATAGAATTGCACCGTAGTGC
911517 CTCATAGAATTGCACCGTAGTGC
1 CTCATAGAATTGCACCGTAGTGC
* *
911540 CGCGTAGAATTGCACCGTAGTGC
1 CTCATAGAATTGCACCGTAGTGC
911563 C
1 C
911564 GTATAATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
CTCATAGAATTGCACCGTAGTGC
Found at i:911753 original size:103 final size:103
Alignment explanation
Indices: 911580--911797 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
911570 TAATGTCCAT
* *
911580 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
911645 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
911683 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
911748 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
911786 AAGGACCACATA
1 AAGGACCACATA
911798 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:913006 original size:21 final size:21
Alignment explanation
Indices: 912976--913020 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
912966 TTTTATTCGT
* *
912976 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
912997 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
913018 TTG
1 TTG
913021 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:914421 original size:17 final size:18
Alignment explanation
Indices: 914399--914436 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
914389 TAAAATGTTT
914399 AAATAC-TCAAACTTATG
1 AAATACTTCAAACTTATG
* *
914416 AAATACTTGAAATTTATG
1 AAATACTTCAAACTTATG
914434 AAA
1 AAA
914437 GCTTAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATACTTCAAACTTATG
Found at i:915027 original size:27 final size:28
Alignment explanation
Indices: 914970--915028 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
914960 AACTTGAAAT
*
914970 AAAAAATCGAAGCTCGAATCGAACTCGA
1 AAAAAATCGAAGCTCGAATCGAACTCAA
* *
914998 AAAAAAT-GAAGCTTGACTCGATA-TCAA
1 AAAAAATCGAAGCTCGAATCGA-ACTCAA
915025 AAAA
1 AAAA
915029 CTTGAACTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (28 bp):
AAAAAATCGAAGCTCGAATCGAACTCAA
Found at i:918171 original size:17 final size:17
Alignment explanation
Indices: 918149--918181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
918139 ATTTAAATTT
918149 AATT-AAATCGATTAATA
1 AATTAAAATC-ATTAATA
918166 AATTAAAATCATTAAT
1 AATTAAAATCATTAAT
918182 TCTATAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTAAAATCATTAATA
Found at i:918454 original size:29 final size:29
Alignment explanation
Indices: 918421--918479 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
918411 ATTGATGGCT
918421 ATTTCAATTGCATTTAGATATGGTAACGC
1 ATTTCAATTGCATTTAGATATGGTAACGC
918450 ATTTCAATTGCATTTAGATATGGTAACGC
1 ATTTCAATTGCATTTAGATATGGTAACGC
918479 A
1 A
918480 GTCTTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (29 bp):
ATTTCAATTGCATTTAGATATGGTAACGC
Found at i:919969 original size:16 final size:16
Alignment explanation
Indices: 919948--919992 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
919938 CCAGAGCCTC
919948 TGAATCATTCAACATT
1 TGAATCATTCAACATT
*
919964 TGAATCATTCAGCATT
1 TGAATCATTCAACATT
919980 TGAATCATTCAAC
1 TGAATCATTCAAC
919993 GCTTAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:921531 original size:9 final size:9
Alignment explanation
Indices: 921515--921569 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
921505 TCTTAACATG
921515 CATC-CCAT
1 CATCACCAT
*
921523 CATGACCAT
1 CATCACCAT
*
921532 CATCATCAT
1 CATCACCAT
921541 CATCACCAT
1 CATCACCAT
* * *
921550 CACCATCAC
1 CATCACCAT
921559 CATCACCAT
1 CATCACCAT
921568 CA
1 CA
921570 CCATCATGCT
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
8 3 0.08
9 33 0.92
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.22
Consensus pattern (9 bp):
CATCACCAT
Found at i:921540 original size:6 final size:6
Alignment explanation
Indices: 921527--921575 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
921517 TCCCATCATG
* *
921527 ACCATC ATCATC ATCATC ACCATC ACCATC ACCATC ACCATC ACCATC
1 ACCATC ACCATC ACCATC ACCATC ACCATC ACCATC ACCATC ACCATC
921575 A
1 A
921576 TGCTCCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (6 bp):
ACCATC
Found at i:921543 original size:18 final size:18
Alignment explanation
Indices: 921520--921576 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
921510 ACATGCATCC
* *
921520 CATCATGACCATCATCAT
1 CATCATCACCATCACCAT
921538 CATCATCACCATCACCAT
1 CATCATCACCATCACCAT
*
921556 CACCATCACCATCACCAT
1 CATCATCACCATCACCAT
921574 CAT
1 CAT
921577 GCTCCAAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (18 bp):
CATCATCACCATCACCAT
Found at i:923268 original size:35 final size:35
Alignment explanation
Indices: 923229--923298 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
923219 TGATTAAAAT
**
923229 TTTAGTATGGATCCAATTTAAAAATATATATTAGG
1 TTTAGTATGGATAAAATTTAAAAATATATATTAGG
923264 TTTAGTATGGATAAAATTTAAAAATATATATTAGG
1 TTTAGTATGGATAAAATTTAAAAATATATATTAGG
923299 GTCAAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (35 bp):
TTTAGTATGGATAAAATTTAAAAATATATATTAGG
Found at i:924157 original size:31 final size:31
Alignment explanation
Indices: 924119--924272 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
924109 GGGTCGAGGG
924119 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
924150 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
924181 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
924212 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
924243 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
924273 GTCCTTCGGG
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:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:925058 original size:2 final size:2
Alignment explanation
Indices: 925051--925109 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
925041 GAGTTATGAG
925051 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
925093 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
925110 GATAGATGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:928350 original size:31 final size:31
Alignment explanation
Indices: 928312--928465 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
928302 GGGTCGAGGG
928312 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
928343 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
928374 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
928405 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
928436 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
928466 GTCCTTCGGG
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:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:929154 original size:27 final size:28
Alignment explanation
Indices: 929097--929155 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
929087 AACTTGAAAT
*
929097 AAAAAATCGAAGCTCGAATCGAACTCGA
1 AAAAAATCGAAGCTCGAATCGAACTCAA
* *
929125 AAAAAAT-GAAGCTTGACTCGATA-TCAA
1 AAAAAATCGAAGCTCGAATCGA-ACTCAA
929152 AAAA
1 AAAA
929156 CTTGAACTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (28 bp):
AAAAAATCGAAGCTCGAATCGAACTCAA
Found at i:932076 original size:29 final size:29
Alignment explanation
Indices: 932034--932090 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
932024 TGCATGAATA
932034 CTAAAGACGCATGATGTTCTCGACGTCTC
1 CTAAAGACGCATGATGTTCTCGACGTCTC
*
932063 CTAAAGACGCATGATGTTTTCGACGTCT
1 CTAAAGACGCATGATGTTCTCGACGTCT
932091 TTACATTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (29 bp):
CTAAAGACGCATGATGTTCTCGACGTCTC
Found at i:932317 original size:17 final size:17
Alignment explanation
Indices: 932295--932327 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
932285 ATTTAAATTT
932295 AATT-AAATCGATTAATA
1 AATTAAAATC-ATTAATA
932312 AATTAAAATCATTAAT
1 AATTAAAATCATTAAT
932328 TCTATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTAAAATCATTAATA
Found at i:935640 original size:12 final size:12
Alignment explanation
Indices: 935625--935663 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
935615 ACATGCATCC
*
935625 CATCATGACCAT
1 CATCATCACCAT
935637 CATCATCACCAT
1 CATCATCACCAT
*
935649 CACCATCACCAT
1 CATCATCACCAT
935661 CAT
1 CAT
935664 GCTCCAAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.41, G:0.03, T:0.23
Consensus pattern (12 bp):
CATCATCACCAT
Found at i:935649 original size:6 final size:6
Alignment explanation
Indices: 935632--935662 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
935622 TCCCATCATG
*
935632 ACCATC ATCATC ACCATC ACCATC ACCATC A
1 ACCATC ACCATC ACCATC ACCATC ACCATC A
935663 TGCTCCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (6 bp):
ACCATC
Found at i:941814 original size:26 final size:26
Alignment explanation
Indices: 941785--941838 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
941775 AATGATTATT
941785 CTATCAAATGTTAGGGGTTTTTTTAC
1 CTATCAAATGTTAGGGGTTTTTTTAC
* *
941811 CTATTAAATGTTTGGGGTTTTTTTAC
1 CTATCAAATGTTAGGGGTTTTTTTAC
941837 CT
1 CT
941839 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.19, T:0.50
Consensus pattern (26 bp):
CTATCAAATGTTAGGGGTTTTTTTAC
Found at i:942030 original size:32 final size:33
Alignment explanation
Indices: 941970--942034 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 33
941960 ATAGTGTGTT
*
941970 AAATGCTAACCCATATTTATTATAGTTTGAGTATC
1 AAATACTAACCCATA-TTATTATAGTTTG-GTATC
942005 AAATACTAACCCATA-T-TTATAGTTTGGTAT
1 AAATACTAACCCATATTATTATAGTTTGGTAT
942035 ATATGAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 10 0.34
33 1 0.03
35 14 0.48
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (33 bp):
AAATACTAACCCATATTATTATAGTTTGGTATC
Found at i:942883 original size:50 final size:50
Alignment explanation
Indices: 942828--942929 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
942818 GCGAATTAGG
942828 GTACCAAAGTCGTTAGGACATGGAGAAGGAACTGTTTTTGGTCATTGTAA
1 GTACCAAAGTCGTTAGGACATGGAGAAGGAACTGTTTTTGGTCATTGTAA
942878 GTACCAAAGTCGTTAGGACATGGAGAAGGAACTGTTTTTGGTCATTGTAA
1 GTACCAAAGTCGTTAGGACATGGAGAAGGAACTGTTTTTGGTCATTGTAA
942928 GT
1 GT
942930 GATCGTTATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (50 bp):
GTACCAAAGTCGTTAGGACATGGAGAAGGAACTGTTTTTGGTCATTGTAA
Found at i:944898 original size:23 final size:23
Alignment explanation
Indices: 944871--944923 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
944861 AAAACTACCA
944871 AAAGACA-ATGATAAATGTGCCAC
1 AAAGACAGA-GATAAATGTGCCAC
* *
944894 AAAGACAGAGATAAATGTGTCAT
1 AAAGACAGAGATAAATGTGCCAC
944917 AAAGACA
1 AAAGACA
944924 TACTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (23 bp):
AAAGACAGAGATAAATGTGCCAC
Found at i:945170 original size:4 final size:4
Alignment explanation
Indices: 945161--945223 Score: 72
Period size: 4 Copynumber: 15.8 Consensus size: 4
945151 TAATCCATAA
* * * *
945161 TTTC TTTC TTTC TTTC ATTC ATTC ATTC TTTC TTTC TTTC TTTC ATTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
945209 ATTC ATTC TTTC TTT
1 TTTC TTTC TTTC TTT
945224 TCTTCTATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:945229 original size:28 final size:28
Alignment explanation
Indices: 945161--945223 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
945151 TAATCCATAA
945161 TTTCTTTCTTTCTTTCATTCATTCATTC
1 TTTCTTTCTTTCTTTCATTCATTCATTC
945189 TTTCTTTCTTTCTTTCATTCATTCATTC
1 TTTCTTTCTTTCTTTCATTCATTCATTC
945217 TTTCTTT
1 TTTCTTT
945224 TCTTCTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTCTTTCTTTCTTTCATTCATTCATTC
Found at i:946051 original size:60 final size:60
Alignment explanation
Indices: 945950--946136 Score: 227
Period size: 60 Copynumber: 3.1 Consensus size: 60
945940 GCATCTATGT
* *
945950 TCCT-AAATTATGATTCTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCA
1 TCCTCAAACTATGACTCTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCA
* * * *
946009 TCCTCAAACTATGACTCTCATTTTAAATTACTCTTTAAACTTTTGAACATTCAAATTTCA
1 TCCTCAAACTATGACTCTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCA
* ** * *
946069 TCC-CTAAACTATGACTCTCATTCTATGTTAGTCCTTAAACTTTTGAATC-TTCTAATTTCA
1 TCCTC-AAACTATGACTCTCATTTTAAATTAGTCATTAAACTTTT-AAACATTCTAATTTCA
*
946129 TCCCCAAA
1 TCCTCAAA
946137 TTCATCCAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.05
60 102 0.93
61 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.42
Consensus pattern (60 bp):
TCCTCAAACTATGACTCTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCA
Found at i:946364 original size:62 final size:63
Alignment explanation
Indices: 946272--946429 Score: 177
Period size: 62 Copynumber: 2.6 Consensus size: 63
946262 GGGATGAAAT
* * *
946272 TGAAATGTTCAAAAAGTTTAGGGATCAATTTAGAATG-AAGATCATAGTTTGGGGATGAAAAAA
1 TGAAATGTTCAAAAAGTTTAGGGACCAATTTAGAATGTAAG-TCAAAGTTTAGGGATGAAAAAA
* **
946335 TGAAATGTTC-AAAAGTTT-GAGGACCAATTTAGAATGTTAGTCAAAGTTTAGGGATGAAATTA
1 TGAAATGTTCAAAAAGTTTAG-GGACCAATTTAGAATGTAAGTCAAAGTTTAGGGATGAAAAAA
*
946397 -GAATAT-TT--AAAAGTTTAGGGACTAATTTAGAAT
1 TGAA-ATGTTCAAAAAGTTTAGGGACCAATTTAGAAT
946430 AATGTCATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
60 22 0.26
61 7 0.08
62 43 0.51
63 12 0.14
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (63 bp):
TGAAATGTTCAAAAAGTTTAGGGACCAATTTAGAATGTAAGTCAAAGTTTAGGGATGAAAAAA
Found at i:953870 original size:19 final size:18
Alignment explanation
Indices: 953832--953880 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
953822 TTAATTTTAT
*
953832 AAATATAAAAAATCAGAA
1 AAATACAAAAAATCAGAA
*
953850 AAATACAAAAAATCCGAA
1 AAATACAAAAAATCAGAA
953868 AAATTACAAAAAA
1 AAA-TACAAAAAA
953881 ATTAGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.71, C:0.10, G:0.04, T:0.14
Consensus pattern (18 bp):
AAATACAAAAAATCAGAA
Found at i:955307 original size:12 final size:12
Alignment explanation
Indices: 955287--955320 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
955277 GGGTGATGAA
*
955287 GAAGCTGAAGGT
1 GAAGATGAAGGT
955299 GAAGATGAAGGT
1 GAAGATGAAGGT
*
955311 GATGATGAAG
1 GAAGATGAAG
955321 AGGGTGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.41, T:0.18
Consensus pattern (12 bp):
GAAGATGAAGGT
Found at i:958133 original size:2 final size:2
Alignment explanation
Indices: 958126--958168 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
958116 GCTTGTTCGT
958126 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
958168 T
1 T
958169 GGATCTTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:967288 original size:11 final size:11
Alignment explanation
Indices: 967272--967298 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
967262 GTTGGCAAGT
967272 TATATATTATA
1 TATATATTATA
967283 TATATATTATA
1 TATATATTATA
967294 TATAT
1 TATAT
967299 GGTAATATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATTATA
Found at i:969453 original size:39 final size:39
Alignment explanation
Indices: 969399--969476 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
969389 CCTATATTCT
969399 AAATGCAATTTCAAAGATGGCACATCAAAAGATGAAACG
1 AAATGCAATTTCAAAGATGGCACATCAAAAGATGAAACG
969438 AAATGCAATTTCAAAGATGGCACATCAAAAGATGAAACG
1 AAATGCAATTTCAAAGATGGCACATCAAAAGATGAAACG
969477 TCTAAAGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (39 bp):
AAATGCAATTTCAAAGATGGCACATCAAAAGATGAAACG
Found at i:976495 original size:14 final size:14
Alignment explanation
Indices: 976476--976520 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
976466 CGTTTGATAT
976476 TTCATTCGTTTATG
1 TTCATTCGTTTATG
*
976490 TTCATTCATTTATG
1 TTCATTCGTTTATG
976504 TT-AGTTCGTTTATG
1 TTCA-TTCGTTTATG
976518 TTC
1 TTC
976521 GCTTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 26 0.96
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (14 bp):
TTCATTCGTTTATG
Found at i:976534 original size:24 final size:24
Alignment explanation
Indices: 976499--976545 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
976489 GTTCATTCAT
* *
976499 TTATGTTAGTTCGTTTATGTTCGC
1 TTATGTTAGTTCATTTATATTCGC
*
976523 TTATGTTTGTTCATTTATATTCG
1 TTATGTTAGTTCATTTATATTCG
976546 TTCGTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (24 bp):
TTATGTTAGTTCATTTATATTCGC
Found at i:976536 original size:38 final size:38
Alignment explanation
Indices: 976480--976554 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
976470 TGATATTTCA
* *
976480 TTCGTTTATGTTCATTCATTTATGTTAGTTCGTTTATG
1 TTCGCTTATGTTCATTCATTTATATTAGTTCGTTTATG
** *
976518 TTCGCTTATGTTTGTTCATTTATATTCGTTCGTTTAT
1 TTCGCTTATGTTCATTCATTTATATTAGTTCGTTTAT
976555 ATTCAACTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (38 bp):
TTCGCTTATGTTCATTCATTTATATTAGTTCGTTTATG
Found at i:976540 original size:14 final size:14
Alignment explanation
Indices: 976484--976554 Score: 60
Period size: 14 Copynumber: 5.4 Consensus size: 14
976474 ATTTCATTCG
*
976484 TTTATGTTCATTCA
1 TTTATGTTCGTTCA
* *
976498 TTTATGTTAGTTCG
1 TTTATGTTCGTTCA
976512 TTTATGTTCG--C-
1 TTTATGTTCGTTCA
*
976523 -TTATGTTTGTTCA
1 TTTATGTTCGTTCA
* *
976536 TTTATATTCGTTCG
1 TTTATGTTCGTTCA
976550 TTTAT
1 TTTAT
976555 ATTCAACTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.18
12 2 0.04
14 35 0.78
ACGTcount: A:0.15, C:0.11, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:976555 original size:14 final size:14
Alignment explanation
Indices: 976466--976558 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 14
976456 CGTTTGTGAA
*
976466 CGTTTGATATTTCATT
1 CGTTT-ATA-TTCGTT
* *
976482 CGTTTATGTTCATT
1 CGTTTATATTCGTT
* * *
976496 CATTTATGTTAGTT
1 CGTTTATATTCGTT
976510 CG-TT-TA-T-GTT
1 CGTTTATATTCGTT
* * *
976520 CGCTTATGTTTGTT
1 CGTTTATATTCGTT
*
976534 CATTTATATTCGTT
1 CGTTTATATTCGTT
976548 CGTTTATATTC
1 CGTTTATATTC
976559 AACTCAATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
10 5 0.08
11 3 0.05
12 2 0.03
13 3 0.05
14 41 0.67
15 2 0.03
16 5 0.08
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.57
Consensus pattern (14 bp):
CGTTTATATTCGTT
Found at i:976803 original size:24 final size:25
Alignment explanation
Indices: 976761--976817 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
976751 TTCATTTACA
*
976761 TTCGTTTATGTTTCATTCGAATGTG
1 TTCGTTTACGTTTCATTCGAATGTG
**
976786 TTCGTTTACG-TTCATTCGTTTGTG
1 TTCGTTTACGTTTCATTCGAATGTG
*
976810 TTTGTTTA
1 TTCGTTTA
976818 TCATTTTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (25 bp):
TTCGTTTACGTTTCATTCGAATGTG
Found at i:980742 original size:200 final size:200
Alignment explanation
Indices: 980399--980999 Score: 1202
Period size: 200 Copynumber: 3.0 Consensus size: 200
980389 ATAACAGTAT
980399 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
1 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
980464 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
66 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
980529 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
131 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
980594 TTAAA
196 TTAAA
980599 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
1 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
980664 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
66 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
980729 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
131 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
980794 TTAAA
196 TTAAA
980799 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
1 CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
980864 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
66 GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
980929 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
131 AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
980994 TTAAA
196 TTAAA
980999 C
1 C
981000 TATCCCACAG
Statistics
Matches: 401, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 401 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (200 bp):
CCGGCTTGAACTCTTCCTTCTTTATCAATGCAAGTGCTTCCTTCCATTGCCCCGTTCTACAAAGC
GAATAAACATAATATCTTAGGGTAAATTTGTCCATGCGAACCCCGGCATCCGACATCTCTCTATA
AACCAAATGAGCAGTGCCTAACCTATCAGCTTGCAAAAACACTTGAAGCAATGCACAATAATATC
TTAAA
Found at i:981968 original size:60 final size:59
Alignment explanation
Indices: 981841--981977 Score: 136
Period size: 60 Copynumber: 2.3 Consensus size: 59
981831 ATAGTCGAGT
* *** *
981841 GACCATTTTGTAACTTTTAATAGCCGGAGAACTCAACAAAGTAATGTCCTGTAATCAGG
1 GACCATTTTGTAACTTTTAATAGCCGAAGAACTCAACAAAGTAACACCCTATAATCAGG
* * *
981900 GAATCATTTTGTAACTTTTAATAGTC-AATTG-ACTCAACAAAGTAACACCCTATAGTCATGG
1 G-ACCATTTTGTAACTTTTAATAGCCGAA--GAACTCAACAAAGTAACACCCTATAATCA-GG
981961 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
981978 ACCCTAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
59 2 0.03
60 55 0.86
61 7 0.11
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATAGCCGAAGAACTCAACAAAGTAACACCCTATAATCAGG
Found at i:990315 original size:2 final size:2
Alignment explanation
Indices: 990308--990333 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
990298 CTACTTGGAA
990308 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
990334 GGGAAGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:994234 original size:27 final size:27
Alignment explanation
Indices: 994192--994243 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
994182 TGAGGAAGGG
*
994192 AAGTGTAATGCTTGTGGTGAAAATAAC
1 AAGTGTAATGCATGTGGTGAAAATAAC
994219 AAGTGTAATGCATGTGGTGAAAATA
1 AAGTGTAATGCATGTGGTGAAAATA
994244 GCAATCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (27 bp):
AAGTGTAATGCATGTGGTGAAAATAAC
Found at i:996759 original size:18 final size:18
Alignment explanation
Indices: 996736--996776 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
996726 GGGTCTTTGA
*
996736 CCCATTCCCATATTCATC
1 CCCATTCCCAGATTCATC
* *
996754 CCCATTCCCGGATTCATG
1 CCCATTCCCAGATTCATC
996772 CCCAT
1 CCCAT
996777 GTTCATCCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.44, G:0.07, T:0.29
Consensus pattern (18 bp):
CCCATTCCCAGATTCATC
Found at i:996818 original size:33 final size:30
Alignment explanation
Indices: 996742--996825 Score: 123
Period size: 30 Copynumber: 2.7 Consensus size: 30
996732 TTGACCCATT
*
996742 CCCATATTCATCCCCATTCCCGGATTCATG
1 CCCATGTTCATCCCCATTCCCGGATTCATG
*
996772 CCCATGTTCATCCCCATTCCGGGATTCATG
1 CCCATGTTCATCCCCATTCCCGGATTCATG
996802 CCCATGTTGTTCATCCCCATTCCC
1 CCCA---TGTTCATCCCCATTCCC
996826 ATGCCCATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 32 0.67
33 16 0.33
ACGTcount: A:0.17, C:0.40, G:0.12, T:0.31
Consensus pattern (30 bp):
CCCATGTTCATCCCCATTCCCGGATTCATG
Found at i:996947 original size:6 final size:6
Alignment explanation
Indices: 996894--996935 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
996884 ATGGTCCACC
* * *
996894 ACCCAT TCCCAT ACCCAT ACCCAT ACCCAT GCCCAT GCCCAT
1 ACCCAT ACCCAT ACCCAT ACCCAT ACCCAT ACCCAT ACCCAT
996936 GCTACCCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.26, C:0.50, G:0.05, T:0.19
Consensus pattern (6 bp):
ACCCAT
Found at i:997639 original size:33 final size:33
Alignment explanation
Indices: 997614--997779 Score: 278
Period size: 33 Copynumber: 5.0 Consensus size: 33
997604 ATGGATTGGG
*
997614 ATTTGGCTGAGCAGGTTGACCATATGGATTAGC
1 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
997647 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
1 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
*
997680 ATTTGGTTGAGCAGGTTGACCATAAGGATTAGC
1 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
* *
997713 ATTTGGCTGAGCAGGTTGATCATAGGGATTAGC
1 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
* *
997746 ATTTGGCTGTGCAGGTTGACCATAGGGATTAGC
1 ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
997779 A
1 A
997780 CCGGATTGTG
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 126 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (33 bp):
ATTTGGCTGAGCAGGTTGACCATAAGGATTAGC
Found at i:1005223 original size:154 final size:148
Alignment explanation
Indices: 1004928--1005231 Score: 346
Period size: 154 Copynumber: 2.0 Consensus size: 148
1004918 ATATTTGCAA
* *
1004928 TTATATAAATACATATCTTCAACATATAGTATATACGTGTATTTTTAGATAAACTTGTATAATAT
1 TTATATAAATACATATCTTCAACATATAGTATATACGTGTATTTTTAGATAAACTCGTATAACAT
* * * *
1004993 TTTTCATATTTTAGTTTATTTCTTTCATTTTATTTTTACTTTTAAAAAATCTAATCGATTTTCTA
66 TTTTCATATTTTAATTTATTTCTTTCATTTTATCTTAACTTTTAAAAAATCTAATCAATTTTCTA
* *
1005058 GCATGATAATAGAAAATG
131 GCACGACAATAGAAAATG
* * *
1005076 TTATCTAAATGCATATCTTCAACATATA-T-TGTACGTGTATTTTTAGATAAACTCGTATAACAT
1 TTATATAAATACATATCTTCAACATATAGTATATACGTGTATTTTTAGATAAACTCGTATAACAT
* * * *
1005139 TTTATATATATATATATATATATTTTGTTCTTTCATTTTGTCTTAA-TCTTTATAAAATCTAATC
66 TTT-T-CATAT-T-T-TA-AT-TTAT-TTCTTTCATTTTATCTTAACT-TTTAAAAAATCTAATC
*
1005203 AATTTTCT-GTCACGACAATAGAAGATG
122 AATTTTCTAG-CACGACAATAGAAAATG
1005230 TT
1 TT
1005232 GCATGTCATG
Statistics
Matches: 130, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
146 34 0.26
147 2 0.02
148 30 0.23
149 1 0.01
150 1 0.01
151 2 0.02
152 1 0.01
153 5 0.04
154 54 0.42
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (148 bp):
TTATATAAATACATATCTTCAACATATAGTATATACGTGTATTTTTAGATAAACTCGTATAACAT
TTTTCATATTTTAATTTATTTCTTTCATTTTATCTTAACTTTTAAAAAATCTAATCAATTTTCTA
GCACGACAATAGAAAATG
Found at i:1006830 original size:2 final size:2
Alignment explanation
Indices: 1006823--1006884 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
1006813 CCGCACCGAT
* *
1006823 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA T- TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1006862 TA TA T- TA -A T- TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1006885 TTTATATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
1 7 0.14
2 43 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1006863 original size:9 final size:9
Alignment explanation
Indices: 1006822--1006909 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
1006812 CCCGCACCGA
1006822 TTATATATAT
1 TTATAT-TAT
*
1006832 ATATATATAT
1 TTATAT-TAT
* *
1006842 ATATAATATT
1 TTATATTA-T
1006852 TTATATTAT
1 TTATATTAT
*
1006861 TTATATTAA
1 TTATATTAT
1006870 TTATA-TA-
1 TTATATTAT
*
1006877 -TATAATATT
1 TTATATTA-T
*
1006886 TTATATTTT
1 TTATATTAT
*
1006895 TTATATTAA
1 TTATATTAT
1006904 TTATAT
1 TTATAT
1006910 ATATAATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 2 0.03
9 30 0.47
10 26 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATATTAT
Found at i:1006880 original size:34 final size:34
Alignment explanation
Indices: 1006837--1006921 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
1006827 TATATATATA
1006837 TATATATATAATATTTTATATTATTTATATTAAT
1 TATATATATAATATTTTATATTATTTATATTAAT
*
1006871 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTATTTATATTAAT
1006905 TATATATATAATATTTT
1 TATATATATAATATTTT
1006922 CGGGTTCGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTATTTATATTAAT
Found at i:1016421 original size:5 final size:5
Alignment explanation
Indices: 1016411--1016445 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
1016401 TCTTTGTAAG
1016411 GCTCT GCTCT GCTCT GCTCT GCTCT GCTCT GCTCT
1 GCTCT GCTCT GCTCT GCTCT GCTCT GCTCT GCTCT
1016446 TCTCCACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
GCTCT
Found at i:1016647 original size:15 final size:15
Alignment explanation
Indices: 1016623--1016661 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1016613 TACTTTAAAA
* *
1016623 TGATTTAGTGTTGAC
1 TGATTCAGTGCTGAC
1016638 TGATTCAGTGCTGAC
1 TGATTCAGTGCTGAC
1016653 TGATTCAGT
1 TGATTCAGT
1016662 AAAACAGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.41
Consensus pattern (15 bp):
TGATTCAGTGCTGAC
Found at i:1016930 original size:19 final size:19
Alignment explanation
Indices: 1016906--1016942 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1016896 TATTAAAAAG
1016906 TTATAAAATGA-TATTTTGA
1 TTATAAAAT-ATTATTTTGA
1016925 TTATAAAATATTATTTTG
1 TTATAAAATATTATTTTG
1016943 TTGAGTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTATAAAATATTATTTTGA
Found at i:1016942 original size:60 final size:60
Alignment explanation
Indices: 1016864--1016977 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
1016854 ATAATTTCAT
* * * *
1016864 ATTATAAGATATTGTTTTGTTTAGCCTCT-AATTATTAAAAAGTTATAAAATGATATTTTG
1 ATTATAAAATATTATTTTGTTGAGCCTCTCAACTATT-AAAAGTTATAAAATGATATTTTG
* *
1016924 ATTATAAAATATTATTTTGTTGAGTCTCTCGACTATTAAAAGTTATAAAATGAT
1 ATTATAAAATATTATTTTGTTGAGCCTCTCAACTATTAAAAGTTATAAAATGAT
1016978 CACCTAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 42 0.89
61 5 0.11
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (60 bp):
ATTATAAAATATTATTTTGTTGAGCCTCTCAACTATTAAAAGTTATAAAATGATATTTTG
Found at i:1017787 original size:20 final size:20
Alignment explanation
Indices: 1017762--1017800 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1017752 CACCAAATCT
1017762 TCTCAAATCCTCTCAACTTC
1 TCTCAAATCCTCTCAACTTC
* *
1017782 TCTCAACTTCTCTCAACTT
1 TCTCAAATCCTCTCAACTT
1017801 AAGGTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (20 bp):
TCTCAAATCCTCTCAACTTC
Found at i:1017798 original size:10 final size:10
Alignment explanation
Indices: 1017771--1017800 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
1017761 TTCTCAAATC
1017771 CTCTCAACTT
1 CTCTCAACTT
1017781 CTCTCAACTT
1 CTCTCAACTT
1017791 CTCTCAACTT
1 CTCTCAACTT
1017801 AAGGTATATT
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:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCAACTT
Found at i:1017852 original size:8 final size:8
Alignment explanation
Indices: 1017839--1017884 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
1017829 TATTAGTATT
1017839 TTATTTAA
1 TTATTTAA
1017847 TTATTTAA
1 TTATTTAA
1017855 TTATTTTAA
1 TTA-TTTAA
*
1017864 -TATTTTAT
1 TTA-TTTAA
1017872 TTATTT-A
1 TTATTTAA
1017879 TTATTT
1 TTATTT
1017885 TTTTACAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 6 0.18
8 21 0.62
9 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTATTTAA
Found at i:1017858 original size:16 final size:16
Alignment explanation
Indices: 1017839--1017884 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
1017829 TATTAGTATT
1017839 TTATTTAATTATTTAA
1 TTATTTAATTATTTAA
*
1017855 TTATTTTAA-TATTTTAT
1 TTA-TTTAATTA-TTTAA
1017872 TTATTT-ATTATTT
1 TTATTTAATTATTT
1017885 TTTTACAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
17 12 0.46
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTAATTATTTAA
Found at i:1017885 original size:16 final size:16
Alignment explanation
Indices: 1017838--1017889 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1017828 TTATTAGTAT
1017838 TTTATTTAATTA-TTTA
1 TTTATTT-ATTATTTTA
* *
1017854 ATTATTTTAATATTTTA
1 TTTA-TTTATTATTTTA
1017871 TTTATTTATTATTTT-
1 TTTATTTATTATTTTA
1017886 TTTA
1 TTTA
1017890 CAGTTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.13
16 16 0.53
17 10 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTATTATTTTA
Found at i:1018878 original size:37 final size:37
Alignment explanation
Indices: 1018830--1018914 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
1018820 GTATAATAAA
*
1018830 AAATACAATTTGTTGTAAGTAATAATTCATTGAGGAT
1 AAATACAATTTGTTGTAAGTAATAAATCATTGAGGAT
1018867 AAATACAATTTGTTGTAAGTAATAAATCATTGAGGAT
1 AAATACAATTTGTTGTAAGTAATAAATCATTGAGGAT
1018904 AAATACAATTT
1 AAATACAATTT
1018915 ATTTTTACTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (37 bp):
AAATACAATTTGTTGTAAGTAATAAATCATTGAGGAT
Found at i:1022164 original size:90 final size:89
Alignment explanation
Indices: 1022000--1022164 Score: 206
Period size: 90 Copynumber: 1.8 Consensus size: 89
1021990 ACTTTGACTC
* * *
1022000 TAAGTTTTGATTCTTACCAAACCAACCTAAAATGTTAAAGTATTAGTAACATTCTAAGTTGGAAA
1 TAAGTTTTGATACTTACCAAACCAAACTAAAATGTTAAAGTATTAGTAACATTCTAAGTTGAAAA
1022065 TGATAAGTATCGAATCTTGGATAA
66 TGATAAGTATCGAATCTTGGATAA
* * * * * * *
1022089 TAAGTTTTGATACTTATCAATCCAAATTAAAATGCTATATA-TATTGGTAACATTTTAGGTTGAA
1 TAAGTTTTGATACTTACCAAACCAAACTAAAATG-T-TAAAGTATTAGTAACATTCTAAGTTGAA
*
1022153 AATGGTAAGTAT
64 AATGATAAGTAT
1022165 GGGAACTCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
89 29 0.46
90 31 0.49
91 3 0.05
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (89 bp):
TAAGTTTTGATACTTACCAAACCAAACTAAAATGTTAAAGTATTAGTAACATTCTAAGTTGAAAA
TGATAAGTATCGAATCTTGGATAA
Found at i:1028116 original size:20 final size:20
Alignment explanation
Indices: 1028091--1028132 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1028081 AGATCTGATG
*
1028091 ACAAACATT-CAATATGAACA
1 ACAAAC-TTACAAGATGAACA
1028111 ACAAACTTACAAGATGAACA
1 ACAAACTTACAAGATGAACA
1028131 AC
1 AC
1028133 CATAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (20 bp):
ACAAACTTACAAGATGAACA
Found at i:1031454 original size:31 final size:31
Alignment explanation
Indices: 1031407--1031471 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
1031397 ACAACATCTG
1031407 ATTTATTGATATTAATTTATTAAAAAATAATT
1 ATTTATTGATATTAATTTATTAAAAAA-AATT
* *
1031439 ATTTATTTA-ATTAATTTTTTAAAAAAAATT
1 ATTTATTGATATTAATTTATTAAAAAAAATT
1031469 ATT
1 ATT
1031472 GACATGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 16 0.52
32 8 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTTATTGATATTAATTTATTAAAAAAAATT
Found at i:1036416 original size:2 final size:2
Alignment explanation
Indices: 1036409--1036470 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1036399 CATAAAAATA
1036409 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
1036451 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1036471 CGATAACATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1038984 original size:61 final size:60
Alignment explanation
Indices: 1038904--1039022 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 60
1038894 TTGAGTGACC
* * *
1038904 ATTTTGTAACTTTTAATAG-TCAGAGAATTTAATAAAACAACACCCTATAGTTGGGAGGATT
1 ATTTTATAACTTTTAATAGTTC-GAGAACTCAATAAAACAACACCCTATAGTT-GGAGGATT
* *
1038965 ATTTTATAATTTTTAATAGTTCGAGAACTCAATAAAACAACACCTTATAGTTGGAGGA
1 ATTTTATAACTTTTAATAGTTCGAGAACTCAATAAAACAACACCCTATAGTTGGAGGA
1039023 CCATTTGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 6 0.12
61 44 0.85
62 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTTCGAGAACTCAATAAAACAACACCCTATAGTTGGAGGATT
Found at i:1041395 original size:53 final size:53
Alignment explanation
Indices: 1041322--1041433 Score: 131
Period size: 53 Copynumber: 2.1 Consensus size: 53
1041312 GGTATCGCCT
* * *
1041322 AATATT-AACATTTATTGTAAAAAAAAAATATTTT-ATGTAATGTTTTACCGAA
1 AATATTAAACATTTATAGT-AAAAAAAAATATTTTAAGGTAAAGTTTTACCGAA
* * *
1041374 AATATTAAACATTT-TAAGTAAAAAATAATGTTTTAAGGTAAAGTTTTATCGAA
1 AATATTAAACATTTAT-AGTAAAAAAAAATATTTTAAGGTAAAGTTTTACCGAA
1041427 AATATTA
1 AATATTA
1041434 GAAAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
52 20 0.39
53 31 0.61
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (53 bp):
AATATTAAACATTTATAGTAAAAAAAAATATTTTAAGGTAAAGTTTTACCGAA
Found at i:1042937 original size:48 final size:48
Alignment explanation
Indices: 1042885--1043009 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
1042875 GTGATTTCAC
* * * *
1042885 TGGTGGGGGAGGTGAGTGGTAGTAGTATGGAGGAGGGGGCGAGGGAGA
1 TGGTGGGGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
* * * *
1042933 TGGTGGTGGG-GGAGATTTGTAGTGGTATGGGGGAGGGGGAGATGGTGA
1 TGGTGG-GGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
* *
1042981 TGGTGGAGGAGGGGAGTTGTAGTGGTATG
1 TGGTGGGGGAGGAGAGTTGTAGTGGTATG
1043010 TAGGTGCTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.03
48 59 0.92
49 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.58, T:0.22
Consensus pattern (48 bp):
TGGTGGGGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
Found at i:1046890 original size:48 final size:48
Alignment explanation
Indices: 1046838--1046962 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
1046828 GTGATTTCAC
* * * *
1046838 TGGTGGGGGAGGTGAGTGGTAGTAGTATGGAGGAGGGGGCGAGGGAGA
1 TGGTGGGGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
* * * *
1046886 TGGTGGTGGG-GGAGATTTGTAGTGGTATGGGGGAGGGGGAGATGGTGA
1 TGGTGG-GGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
* *
1046934 TGGTGGAGGAGGGGAGTTGTAGTGGTATG
1 TGGTGGGGGAGGAGAGTTGTAGTGGTATG
1046963 TAGGTGCTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.03
48 59 0.92
49 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.58, T:0.22
Consensus pattern (48 bp):
TGGTGGGGGAGGAGAGTTGTAGTGGTATGGAGGAGGGGGAGAGGGAGA
Found at i:1047068 original size:99 final size:98
Alignment explanation
Indices: 1046934--1047112 Score: 232
Period size: 99 Copynumber: 1.8 Consensus size: 98
1046924 GAGATGGTGA
* * *
1046934 TGGTGGAGGAGGGGAGTTGTAGTGGTATGTAGGTGCTGGAGCCTTCACCGGAGGTGGGGGTGACT
1 TGGTGGAGGAGGGGAGTTGTAGTGATAAGTAGGTGCTGGAGCCTTCACCGGAGGT-GGGGAGACT
1046999 TGTAATAGTATGGTGGGGGTGGTGAAGGAGATGG
65 TGTAATAGTATGGTGGGGGTGGTGAAGGAGATGG
* * * * * * ** *
1047033 TGGTGGTGGTGGGGATTTGTAGTGATAAGTTGGTGCTGGAGCTTTTATTGGGGGTGGGGAGACTT
1 TGGTGGAGGAGGGGAGTTGTAGTGATAAGTAGGTGCTGGAGCCTTCACCGGAGGTGGGGAGACTT
*
1047098 GTAGTAGTATGGTGG
66 GTAATAGTATGGTGG
1047113 TGGCGGAGAG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
98 23 0.34
99 44 0.66
ACGTcount: A:0.17, C:0.06, G:0.48, T:0.30
Consensus pattern (98 bp):
TGGTGGAGGAGGGGAGTTGTAGTGATAAGTAGGTGCTGGAGCCTTCACCGGAGGTGGGGAGACTT
GTAATAGTATGGTGGGGGTGGTGAAGGAGATGG
Found at i:1047155 original size:48 final size:47
Alignment explanation
Indices: 1047088--1047785 Score: 326
Period size: 48 Copynumber: 14.6 Consensus size: 47
1047078 TATTGGGGGT
* * *
1047088 GGGGAGACTTGTAGTAGTATGGTGGTGGCGGAGAGTGAACCGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTG-ACTGGTGGTG
* * * *
1047136 GGGGTGATTTGTAGTAGTATGGTGGAT-GAAGAGA-TGGCGATGGAGGTG
1 GGGGAGATTTGTAGTAGTATGGTGG-TGGAGGAGAGTGAC--TGGTGGTG
* * * *
1047184 GTGGG-GACTTGTAGTAGTATGGGGGTGGAGGTGATGGTGA-TGGTGGAG
1 G-GGGAGATTTGTAGTAGTATGGTGGTGGAGGAGA--GTGACTGGTGGTG
* * * * ** ** * * *
1047232 GAGGAGAGTTGTAATGGTA-GGTAGGTGCCGGAGCCTTTATTGGAGGTG
1 GGGGAGATTTGTAGTAGTATGGT-GGTGGAGGAG-AGTGACTGGTGGTG
* * *
1047280 GGGGTGATTTGTAGTAATATGGTGGTGGA-GAGTG-GACTGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTGACTGGTGGTG
* * * * *
1047325 GTGGAGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGAACCGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTG-ACTGGTGGTG
* * * *
1047373 GGGGTGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACCGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGT-GACTGGTGGTG
* * * * *
1047421 GTGGAGATTTGTAATAATATGGTGGAGGA-GATG-GCGA-TGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGA-GAGTGACTGGTGGTG
* * * ****** **
1047466 GAGGAGATTTGTAGTAGTATGGGGGTTGTTCTTCGTGTTTTGGTGGTGGG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTG-ACTGGTGGT--G
* * * * * *
1047516 GGTGGGGACTTGTAATAGTATGGTGGAGGTGGAGAATAGACTGGTGGTG
1 GG-GGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGT-GACTGGTGGTG
* * ******** **
1047565 GTGGG-GATTTGTAGTAGTACGGGGGTTCCTCTTTGTGTTTGGTGGTGGG
1 G-GGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTGACTGGTGGT--G
* * * *
1047614 GGTGGGGACTTGTAGTAGTATGGTGGAGGAGGAGAATGGACTGGTGGTG
1 GG-GGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGT-GACTGGTGGTG
* * * * *
1047663 GTGGTGATTTGTAATAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTG
1 GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGT-GACTGGTGGTG
* * *
1047711 GCGGG-GATTTGTAATAGTATGGTGGAGGAGGAGACGGCGA-TGGTGG-G
1 G-GGGAGATTTGTAGTAGTATGGTGGTGGAGGAGA--GTGACTGGTGGTG
*
1047758 GGAGGAGATTTGTAGTAGTATGGGGGTG
1 GG-GGAGATTTGTAGTAGTATGGTGGTG
1047786 TTCTTCGTGT
Statistics
Matches: 483, Mismatches: 130, Indels: 74
0.70 0.19 0.11
Matches are distributed among these distances:
45 60 0.12
46 10 0.02
47 28 0.06
48 301 0.62
49 22 0.05
50 22 0.05
51 39 0.08
52 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.48, T:0.29
Consensus pattern (47 bp):
GGGGAGATTTGTAGTAGTATGGTGGTGGAGGAGAGTGACTGGTGGTG
Found at i:1047308 original size:96 final size:96
Alignment explanation
Indices: 1046890--1047330 Score: 315
Period size: 96 Copynumber: 4.5 Consensus size: 96
1046880 GGGAGATGGT
* * * * * *
1046890 GGTGGGGGAGATTTGTAGTGGTATGGGGGAGGGGGAGATGGTGATGGTGGAGGAGGGGAGTTGTA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGAGGTGATGGTGATGGTGGAGGAGGGGAGTTGTA
* * **
1046955 GTGGTATGTAGGTGCTGGAGCCTTCACCGGA
66 GTGGTAGGTAGGTGCTGGAGCCTTTATTGGA
* * * * * * * * *
1046986 GGTGGGGGTGACTTGTAATAGTATGGTGGGGGTGGTGAAGGAGATGGTGGTGGTGGTGGGGATTT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGAGGTG-ATG-G-TGATGGTGGAGGAGGGGAGTT
* * * * *
1047051 GTAGTGATAAGTTGGTGCTGGAGCTTTTATTGGG
63 GTAGTGGTAGGTAGGTGCTGGAGCCTTTATTGGA
* * * * *
1047085 GGT-GGGGAGACTTGTAGTAGTATGGTGGTGGCGGAGA--GTGAACCGGTGGTGG-GGGTGATTT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGAGGTGATGGTG-A-TGGTGGAGGAGGG-GAGTT
* ** * *
1047146 GTAGTAGTATGGT-GGATGAAGAGATGGC--GA-TGGA
63 GTAGTGGTA-GGTAGG-TGCTG-GA-GCCTTTATTGGA
* *
1047180 GGTGGTGGG-GACTTGTAGTAGTATGGGGGTGGAGGTGATGGTGATGGTGGAGGAGGAGAGTTGT
1 GGTGG-GGGAGACTTGTAGTAGTATGGTGGTGGAGGTGATGGTGATGGTGGAGGAGGGGAGTTGT
* *
1047244 AATGGTAGGTAGGTGCCGGAGCCTTTATTGGA
65 AGTGGTAGGTAGGTGCTGGAGCCTTTATTGGA
* * * *
1047276 GGTGGGGGTGATTTGTAGTAATATGGTGGTGGAGAGTGGACTGGTGGTGGTGGAG
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGAG-GT-GA-TGGTGATGGTGGAG
1047331 ACTTGTAGTA
Statistics
Matches: 268, Mismatches: 54, Indels: 43
0.73 0.15 0.12
Matches are distributed among these distances:
93 4 0.01
94 6 0.02
95 38 0.14
96 113 0.42
97 13 0.05
98 35 0.13
99 59 0.22
ACGTcount: A:0.18, C:0.05, G:0.50, T:0.27
Consensus pattern (96 bp):
GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGAGGTGATGGTGATGGTGGAGGAGGGGAGTTGTA
GTGGTAGGTAGGTGCTGGAGCCTTTATTGGA
Found at i:1047444 original size:93 final size:90
Alignment explanation
Indices: 1047276--1047487 Score: 248
Period size: 93 Copynumber: 2.3 Consensus size: 90
1047266 CTTTATTGGA
* * *
1047276 GGTGGGGGTGATTTGTAGTAATATGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTA
1 GGTGGGGGTGATTTGTAGTAGTATGGTGGTGGAGAGTGGACCGGTGGTGGTGGAGACTTGTAATA
* *
1047341 GTAGGGTGGTGGTGGAGAGTGA-ACCGGT
66 ATA--GTGGTGGAGGAGA-TGACA-CGGT
*
1047369 GGTGGGGGTGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACCGGTGGTGGTGGAGATTTGTA
1 GGTGGGGGTGATTTGTAGTAGTATGGT---GGTGGAGAGTGGACCGGTGGTGGTGGAGACTTGTA
* *
1047434 ATAATA-TGGTGGAGGAGATGGCGATGGT
63 ATAATAGTGGTGGAGGAGATGAC-ACGGT
* *
1047462 GGTGGAGGAGATTTGTAGTAGTATGG
1 GGTGGGGGTGATTTGTAGTAGTATGG
1047488 GGGTTGTTCT
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
92 2 0.02
93 64 0.62
94 1 0.01
96 37 0.36
ACGTcount: A:0.20, C:0.03, G:0.49, T:0.28
Consensus pattern (90 bp):
GGTGGGGGTGATTTGTAGTAGTATGGTGGTGGAGAGTGGACCGGTGGTGGTGGAGACTTGTAATA
ATAGTGGTGGAGGAGATGACACGGT
Found at i:1047772 original size:194 final size:190
Alignment explanation
Indices: 1047509--1047871 Score: 471
Period size: 194 Copynumber: 1.9 Consensus size: 190
1047499 CGTGTTTTGG
* * * * * *
1047509 TGGTGGGGGTGGGGACTTGTAATAGTATGGTGGAGGTGGAGAATAGACTGGTGGTGGTGGGGATT
1 TGGTGGGGGCGGGGACTTGTAATAGTATGGTGGAGGAGGAGAAGAGACTGGTGGGGGAGGAGATT
* *
1047574 TGTAGTAGTACGGGGGT-TCCTCTTTGTG-TTTGGTGGTGGGGGTGGGGACTTGTAGTAGTATGG
66 TGTAGTAGTACGGGGGTGT--TCTTCGTGTTTTGGTGGTGGAGGTGGGGACTTGTAGTAG-ATGG
* * *
1047637 TGGAGGAGGAGAATGGACTGGTGGTGGTGGTGATTTGTAATAGTATGGTGGAGGTGGAGAGTGGA
128 TGGAGGA-GAG--TGGACCGGTGGTGGTGGAGACTTGTAATAGTATGGTGGAGGTGGAGAGTGGA
1047702 C
190 C
* * * *
1047703 TGGTGGTGGCGGGGATTTGTAATAGTATGGTGGAGGAGGAGACGGCGA-TGGTGGGGGAGGAGAT
1 TGGTGGGGGCGGGGACTTGTAATAGTATGGTGGAGGAGGAGA-AGAGACTGGTGGGGGAGGAGAT
* *
1047767 TTGTAGTAGTATGGGGGTGTTCTTCGTGTTTTGGTGGTGGAGGTGGGGACTTGTAGTAGGTGGTG
65 TTGTAGTAGTACGGGGGTGTTCTTCGTGTTTTGGTGGTGGAGGTGGGGACTTGTAGTAGATGGTG
* *
1047832 GTGGAGAGTGGACCGGTGGTGGTGGAGACTTGTAGTAGTA
130 GAGGAGAGTGGACCGGTGGTGGTGGAGACTTGTAATAGTA
1047872 CGGAGGTGGT
Statistics
Matches: 147, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
190 28 0.19
192 3 0.02
193 16 0.11
194 97 0.66
195 3 0.02
ACGTcount: A:0.17, C:0.05, G:0.48, T:0.29
Consensus pattern (190 bp):
TGGTGGGGGCGGGGACTTGTAATAGTATGGTGGAGGAGGAGAAGAGACTGGTGGGGGAGGAGATT
TGTAGTAGTACGGGGGTGTTCTTCGTGTTTTGGTGGTGGAGGTGGGGACTTGTAGTAGATGGTGG
AGGAGAGTGGACCGGTGGTGGTGGAGACTTGTAATAGTATGGTGGAGGTGGAGAGTGGAC
Found at i:1047925 original size:36 final size:36
Alignment explanation
Indices: 1047876--1047995 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 36
1047866 GTAGTACGGA
*
1047876 GGTGGTGGTGACTTGTAAATATATGTGGGGCTTGGT
1 GGTGGTGGAGACTTGTAAATATATGTGGGGCTTGGT
* * * *
1047912 GGTGGTGGAGACTTGT-AGTAGTATG-GAGG--AGGA
1 GGTGGTGGAGACTTGTAAATA-TATGTGGGGCTTGGT
* *
1047945 GGTGGT---GACTTGTAAACATATGTGGGACTTGGT
1 GGTGGTGGAGACTTGTAAATATATGTGGGGCTTGGT
* *
1047978 GGCGGCGGAGACTTGTAA
1 GGTGGTGGAGACTTGTAA
1047996 TAGTATGGGG
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
30 11 0.17
31 4 0.06
33 14 0.22
35 6 0.10
36 28 0.44
ACGTcount: A:0.21, C:0.07, G:0.42, T:0.29
Consensus pattern (36 bp):
GGTGGTGGAGACTTGTAAATATATGTGGGGCTTGGT
Found at i:1047952 original size:66 final size:66
Alignment explanation
Indices: 1047846--1048003 Score: 232
Period size: 66 Copynumber: 2.4 Consensus size: 66
1047836 AGAGTGGACC
* * * *
1047846 GGTGGTGGTGGAGACTTGTAGTAGTA---CGGAGGTGGTGGTGACTTGTAAATATATGTGGGGCT
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTGGTGACTTGTAAACATATGTGGGACT
1047908 T
66 T
1047909 GGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTGGTGACTTGTAAACATATGTGGGACT
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTGGTGACTTGTAAACATATGTGGGACT
1047974 T
66 T
* * *
1047975 GGTGGCGGCGGAGACTTGTAATAGTATGG
1 GGTGGTGGTGGAGACTTGTAGTAGTATGG
1048004 GGGATTCTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
63 26 0.31
66 59 0.69
ACGTcount: A:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (66 bp):
GGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTGGTGACTTGTAAACATATGTGGGACT
T
Found at i:1048029 original size:114 final size:103
Alignment explanation
Indices: 1047885--1048255 Score: 367
Period size: 102 Copynumber: 3.5 Consensus size: 103
1047875 AGGTGGTGGT
** *
1047885 GACTTGTAAATATATGTGGG-GCTTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTG
1 GACTTGTAAACGTATGGGGGAGCTTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTG
* *
1047949 GTGACTTGTAAACATATGTGGGACTTGGTGGCGGCGGA
66 GTGACTTGTAAACATAGGTGGGACGTGGTGGCGGCGGA
1047987 GACTTGTAATA-GTATGGGGGATTCTCTACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTATG
1 GACTTGTAA-ACGTATGGGGG---------A-GCTT-GGTGGTGGTGGAGACTTGTAGTAGTATG
** * * *
1048051 GAGGAGGAGGTGGTGACTTGTAAACATAGGTGGGTGGTGGTGGTGGTGGT
54 GAGGAGGAGGTGGTGACTTGTAAACATAGGTGGGACGTGGTGGCGGCGGA
* * * *
1048101 GATTTGTAAACGTATGTGGGAG-TTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGAGGAGGTG
1 GACTTGTAAACGTATGGGGGAGCTTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTG
** * * *
1048165 GTGACTTGTAAACATAAGCAGGG--GTCGGTGGTGGTGGC
66 GTGACTTGTAAACAT-AGGTGGGACGT-GGTGGCGGCGGA
* * * *
1048203 GACTTGTAAACGTAAGTGGG-GCTCGGTGGTGGTGGGGACTTGTAGTAGTATGG
1 GACTTGTAAACGTATGGGGGAGCTTGGTGGTGGTGGAGACTTGTAGTAGTATGG
1048256 GGGGTTCACA
Statistics
Matches: 233, Mismatches: 19, Indels: 34
0.81 0.07 0.12
Matches are distributed among these distances:
101 3 0.01
102 128 0.55
103 8 0.03
104 1 0.00
105 1 0.00
113 5 0.02
114 87 0.37
ACGTcount: A:0.20, C:0.08, G:0.43, T:0.29
Consensus pattern (103 bp):
GACTTGTAAACGTATGGGGGAGCTTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTG
GTGACTTGTAAACATAGGTGGGACGTGGTGGCGGCGGA
Found at i:1048099 original size:36 final size:35
Alignment explanation
Indices: 1048059--1048246 Score: 161
Period size: 36 Copynumber: 5.4 Consensus size: 35
1048049 TGGAGGAGGA
* *
1048059 GGTGGTGACTTGTAAACATAGGTGGGTGGTGGTGGT
1 GGTGGTGACTTGTAAACGTAAGTGGG-GGTGGTGGT
* * *
1048095 GGTGGTGATTTGTAAACGTATGTGGGAGTTGGTGGT
1 GGTGGTGACTTGTAAACGTAAGTGGG-GGTGGTGGT
* ** * *
1048131 GGTGGGGACTTGT--A-GT-AGTATGGG-GGAGGA
1 GGTGGTGACTTGTAAACGTAAGTGGGGGTGGTGGT
* **
1048161 GGTGGTGACTTGTAAACATAAGCAGGGGTCGGTGGT
1 GGTGGTGACTTGTAAACGTAAGTGGGGGT-GGTGGT
* *
1048197 GGTGGCGACTTGTAAACGTAAGTGGGGCTCGGTGGT
1 GGTGGTGACTTGTAAACGTAAGTGGGGGT-GGTGGT
*
1048233 GGTGGGGACTTGTA
1 GGTGGTGACTTGTA
1048247 GTAGTATGGG
Statistics
Matches: 121, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
30 16 0.13
31 1 0.01
32 4 0.03
33 3 0.02
34 7 0.06
36 90 0.74
ACGTcount: A:0.18, C:0.07, G:0.46, T:0.28
Consensus pattern (35 bp):
GGTGGTGACTTGTAAACGTAAGTGGGGGTGGTGGT
Found at i:1048351 original size:36 final size:36
Alignment explanation
Indices: 1048311--1048429 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 36
1048301 TGGTGGAGGA
*
1048311 GGTGGTGACTTATAGACATAGGTAGGACTTGGTGGT
1 GGTGGTGACTTATAAACATAGGTAGGACTTGGTGGT
* * * * ** *
1048347 GGTGGAGATTTGTAAACATAGGTGGGTGTTGGAGGT
1 GGTGGTGACTTATAAACATAGGTAGGACTTGGTGGT
* * *
1048383 GGTGGTGACTTATAAACATAAGTAGGAGC-CGGTGGA
1 GGTGGTGACTTATAAACATAGGTAGGA-CTTGGTGGT
1048419 GGTGGTGACTT
1 GGTGGTGACTT
1048430 GTAGACGTAA
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.24, C:0.08, G:0.40, T:0.29
Consensus pattern (36 bp):
GGTGGTGACTTATAAACATAGGTAGGACTTGGTGGT
Found at i:1048384 original size:150 final size:150
Alignment explanation
Indices: 1048123--1048393 Score: 373
Period size: 150 Copynumber: 1.8 Consensus size: 150
1048113 TATGTGGGAG
* * * *
1048123 TTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAAGCAGGG
1 TTGGTGGTGGTGGAGACTTGTAGTAATATGGGGGAGGAGGTGGTGACTTATAAACATAAGCAGGA
* * * *
1048188 GTCGGTGGTGGTGGCGACTTGTAAACGTAAGTGGGGCTCGGTGGTGGTGGGGACTTGTAGTAGTA
66 CTCGGTGGTGGTGGAGACTTGTAAACATAAGTGGGGCTCGGAGGTGGTGGGGACTTGTAGTAGTA
1048253 TGGGGGGTTCACAACATGCT
131 TGGGGGGTTCACAACATGCT
* * * *
1048273 TTGGTGGTGGTGGAGACTTGTAGTAATATGGTGGAGGAGGTGGTGACTTATAGACATAGGTAGGA
1 TTGGTGGTGGTGGAGACTTGTAGTAATATGGGGGAGGAGGTGGTGACTTATAAACATAAGCAGGA
* * * * *
1048338 CTTGGTGGTGGTGGAGATTTGTAAACATAGGTGGGTG-TTGGAGGTGGTGGTGACTT
66 CTCGGTGGTGGTGGAGACTTGTAAACATAAGTGGG-GCTCGGAGGTGGTGGGGACTT
1048394 ATAAACATAA
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
150 102 0.99
151 1 0.01
ACGTcount: A:0.20, C:0.08, G:0.44, T:0.29
Consensus pattern (150 bp):
TTGGTGGTGGTGGAGACTTGTAGTAATATGGGGGAGGAGGTGGTGACTTATAAACATAAGCAGGA
CTCGGTGGTGGTGGAGACTTGTAAACATAAGTGGGGCTCGGAGGTGGTGGGGACTTGTAGTAGTA
TGGGGGGTTCACAACATGCT
Found at i:1048455 original size:252 final size:248
Alignment explanation
Indices: 1047945--1048455 Score: 587
Period size: 252 Copynumber: 2.0 Consensus size: 248
1047935 TGGAGGAGGA
* * *
1047945 GGTGGTGACTTGTAAACATATGTGGGACTTGGTGGCGGCGGAGACTTGTAATAGTATGGGGGATT
1 GGTGGCGACTTGTAAACATAAGTGGGACTCGGTGGCGGCGGAGACTTGTAATAGTATGGGGGATT
* * * *
1048010 CTCTACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGAGGTGGTGACTTGTAAA
66 CACAACATGCTTCGGTGGTGGTGGAGACTTGTAGTAATATGGAGGAGGAGGTGGTGACTTATAAA
* ** * * * *
1048075 CATAGGTGGGTGGTGGTGGTGGTGGTGATTTGTAAACGTATGTGGGAGTTGGTGGTGGTGGGGAC
131 CATAGGTAGGACGTGGTGGTGGTGGAGATTTGTAAACATAGGTGGGAGTTGGAGGTGGTGGGGAC
* * * **
1048140 TTGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAAGCAGGGGTCGGTGGT
196 TTATAATAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAA-CA---GCCGGTGAC
* * * * * * *
1048197 GGTGGCGACTTGTAAACGTAAGTGGGGCTCGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGGTT
1 GGTGGCGACTTGTAAACATAAGTGGGACTCGGTGGCGGCGGAGACTTGTAATAGTATGGGGGATT
* * *
1048262 CACAACATGCTTTGGTGGTGGTGGAGACTTGTAGTAATATGGTGGAGGAGGTGGTGACTTATAGA
66 CACAACATGCTTCGGTGGTGGTGGAGACTTGTAGTAATATGGAGGAGGAGGTGGTGACTTATAAA
* * *
1048327 CATAGGTAGGACTTGGTGGTGGTGGAGATTTGTAAACATAGGTGGGTGTTGGAGGTGGTGGTGAC
131 CATAGGTAGGACGTGGTGGTGGTGGAGATTTGTAAACATAGGTGGGAGTTGGAGGTGGTGGGGAC
* * *
1048392 TTATAAACATAAGTA-GGAGCCGGTGGAGGTGGTGACTTGTAGACGTAA-A-CCGGTGAC
196 TTAT--A-AT-AGTATGG-G--GGAGGAGGTGGTGACTTGTAAACATAACAGCCGGTGAC
1048449 GGTGGCG
1 GGTGGCG
1048456 GTGGAGATTT
Statistics
Matches: 217, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
252 183 0.84
254 1 0.00
255 3 0.01
256 6 0.03
258 24 0.11
ACGTcount: A:0.21, C:0.09, G:0.42, T:0.28
Consensus pattern (248 bp):
GGTGGCGACTTGTAAACATAAGTGGGACTCGGTGGCGGCGGAGACTTGTAATAGTATGGGGGATT
CACAACATGCTTCGGTGGTGGTGGAGACTTGTAGTAATATGGAGGAGGAGGTGGTGACTTATAAA
CATAGGTAGGACGTGGTGGTGGTGGAGATTTGTAAACATAGGTGGGAGTTGGAGGTGGTGGGGAC
TTATAATAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAACAGCCGGTGAC
Found at i:1049574 original size:99 final size:99
Alignment explanation
Indices: 1049450--1050456 Score: 1459
Period size: 99 Copynumber: 10.2 Consensus size: 99
1049440 GTGCTTCGGT
*
1049450 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGCTTCGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
1049515 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
1049549 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGAGGAGGGGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
*
1049614 CTTGTAGACGTATGGAGGTGGTGGGGATGGGGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * *
1049648 GGTGGTGGAGGAGACTTGTAGTAGTATGGGGGCAGCT-CTACATGTTTCGGTGGTGGTGGTGGGG
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCT-CGTGTTTCGGTGGTGGTGGTGGAG
* *
1049712 ATTTATAGACGTATGGAGGTGGTGGGGATGGTGAA
65 ACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* *
1049747 GGTGGTGGTGGAGACTTGTAGTAATA-CGGGG--GCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
1049809 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * *
1049843 GGTGGTGGTGGAGACTTGTAGTAGTACGGGGGCTGCTCCTCATGTTTTGGTGGTGGTGGAGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
1049908 TTTGTAAACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * *
1049942 GGTGGTGGTGGAGACTTGTAATAGTACGGGGGCTGCTCCTCATGTTTTGGTGGTGGTGGAGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
1050007 TTTGTAAACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
1050041 GGTGGTGGAGGAGACTTGTAGTAGTATGGGGGTTGCTCCTCGTGTTTAGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
*
1050106 CTTGTAGACGTAAGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
1050140 GGTGGTGGAGGAGACTTGTAGTAGTATGGGGGTTGCTCCTCGTGTTTTGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* * *
1050205 TTTGTATATGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* *
1050239 GGTGGTGGTGGAGACTTGTAGTAGTACGGGGGCTGCTCCTCGTG-TTAGGTGGTGGTGGTGGGAG
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGT-GGAG
* * *
1050303 ACTTATACACGTATGGAGGTGGAGGGGATGGTGAA
65 ACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
1050338 GGTGGTGGTGGAGACTTATAG-ACGTATGGGGGCTGCTCCTCGTGTTTAGGTGGTGGCGGTGGAG
1 GGTGGTGGTGGAGACTTGTAGTA-GTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAG
* * * * * * * *
1050402 ACTTATAAACATACGGAGGAGGTGGTGATGGAGAT
65 ACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* *
1050437 GGAGGAGGTGGAGACTTGTA
1 GGTGGTGGTGGAGACTTGTA
1050457 CTCATAAGGA
Statistics
Matches: 834, Mismatches: 66, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
96 83 0.10
97 6 0.01
98 21 0.03
99 710 0.85
100 14 0.02
ACGTcount: A:0.17, C:0.08, G:0.46, T:0.28
Consensus pattern (99 bp):
GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
Found at i:1050468 original size:48 final size:48
Alignment explanation
Indices: 1050388--1050543 Score: 170
Period size: 48 Copynumber: 3.2 Consensus size: 48
1050378 CGTGTTTAGG
* * * * *
1050388 TGGTGGCGGTGGAGACTTATAAACATACGGAGGAGGTGGTGATGGAGA
1 TGGTGGTGGTGGAGACTTATACACATAAGGAGGAGGTGGAGAAGGAGA
* * * * * * *
1050436 TGGAGGAGGTGGAGACTTGTACTCATAAGGAGGTGGAGGAGAAGGTGA
1 TGGTGGTGGTGGAGACTTATACACATAAGGAGGAGGTGGAGAAGGAGA
*
1050484 TGGTGGTGGTGGAGACTTATACACATAAGGCGGCA-GTGGAGAAGGAGA
1 TGGTGGTGGTGGAGACTTATACACATAAGGAGG-AGGTGGAGAAGGAGA
*
1050532 AGGTGGTGGTGG
1 TGGTGGTGGTGG
1050544 TGATTTGTAC
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.27, C:0.08, G:0.46, T:0.20
Consensus pattern (48 bp):
TGGTGGTGGTGGAGACTTATACACATAAGGAGGAGGTGGAGAAGGAGA
Found at i:1050510 original size:96 final size:96
Alignment explanation
Indices: 1050388--1050575 Score: 243
Period size: 96 Copynumber: 2.0 Consensus size: 96
1050378 CGTGTTTAGG
* * * *
1050388 TGGTGGCGGTGGAGACTTATAAACATACGGAGG-AGGTGGTGATGGAGATGGAGGAGGTGGAGAC
1 TGGTGGCGGTGGAGACTTATAAACATAAGGAGGCA-GTGGAGAAGGAGAAGGAGGAGGTGGAGAC
1050452 TTGTACTCATAAGGAGGTGGAGGAGAAGGTGA
65 TTGTACTCATAAGGAGGTGGAGGAGAAGGTGA
* * * * * * *
1050484 TGGTGGTGGTGGAGACTTATACACATAAGGCGGCAGTGGAGAAGGAGAAGGTGGTGGTGGTGATT
1 TGGTGGCGGTGGAGACTTATAAACATAAGGAGGCAGTGGAGAAGGAGAAGGAGGAGGTGGAGACT
* *
1050549 TGTACTTATAAGGAGGTGGAGGCGAAG
66 TGTACTCATAAGGAGGTGGAGGAGAAG
1050576 AATAAATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 77 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.44, T:0.21
Consensus pattern (96 bp):
TGGTGGCGGTGGAGACTTATAAACATAAGGAGGCAGTGGAGAAGGAGAAGGAGGAGGTGGAGACT
TGTACTCATAAGGAGGTGGAGGAGAAGGTGA
Found at i:1051078 original size:21 final size:21
Alignment explanation
Indices: 1051039--1051078 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1051029 AAATTTCAAT
*
1051039 TATATTATTATATTTTTTCAC
1 TATATTATTATATATTTTCAC
1051060 TATATTAATT-TATATTTTC
1 TATATT-ATTATATATTTTC
1051079 TCATAACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATTATTATATATTTTCAC
Found at i:1052792 original size:4 final size:4
Alignment explanation
Indices: 1052778--1054559 Score: 3455
Period size: 4 Copynumber: 448.8 Consensus size: 4
1052768 ATCCTATCTC
*
1052778 ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1052826 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1052874 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1052922 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1052970 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053018 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053064 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053112 ACAT ACAT AC-- ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1053157 ACAT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053205 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053253 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053301 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053349 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053397 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053445 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053541 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053586 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053634 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053682 ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053729 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053777 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053824 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053872 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053920 ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1053967 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054015 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054063 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054111 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054159 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054207 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054255 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054303 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054351 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054399 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054445 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1054541 ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACA
1054560 CACGATTAGG
Statistics
Matches: 1761, Mismatches: 4, Indels: 26
0.98 0.00 0.01
Matches are distributed among these distances:
2 8 0.00
3 15 0.01
4 1738 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:1057007 original size:23 final size:22
Alignment explanation
Indices: 1056972--1057021 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1056962 ATAAATAAAT
* * *
1056972 AAATATGGTACCCTTGACCTCA
1 AAATACGGTACCCGTGACCTAA
*
1056994 AAATACGGTTACCCGTGACTTAA
1 AAATACGG-TACCCGTGACCTAA
1057017 AAATA
1 AAATA
1057022 TGGGTACTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (22 bp):
AAATACGGTACCCGTGACCTAA
Found at i:1057720 original size:2 final size:2
Alignment explanation
Indices: 1057713--1057772 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
1057703 AAACGAAGTG
1057713 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
1057755 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1057773 TTGGTCACTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1058161 original size:21 final size:21
Alignment explanation
Indices: 1058135--1058213 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
1058125 TCCTAAAATC
*
1058135 AAACCTCAAACTCTAAATCAT
1 AAACCTTAAACTCTAAATCAT
* * *
1058156 AAACCTTAAACACTAAAACTT
1 AAACCTTAAACTCTAAATCAT
** * *
1058177 AAATATTAAACTATAAATCCT
1 AAACCTTAAACTCTAAATCAT
*
1058198 AAACC-TAAACCCTAAA
1 AAACCTTAAACTCTAAA
1058214 AAAATTATTT
Statistics
Matches: 44, Mismatches: 14, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
20 9 0.20
21 35 0.80
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCTTAAACTCTAAATCAT
Found at i:1058165 original size:14 final size:15
Alignment explanation
Indices: 1058148--1058203 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
1058138 CCTCAAACTC
1058148 TAAATCA-TAAACCT
1 TAAATCACTAAACCT
*
1058162 TAAA-CACTAAAACT
1 TAAATCACTAAACCT
*
1058176 TAAAT-ATTAAA-CT
1 TAAATCACTAAACCT
1058189 ATAAATC-CTAAACCT
1 -TAAATCACTAAACCT
1058204 AAACCCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 4 0.12
14 28 0.82
15 2 0.06
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCACTAAACCT
Found at i:1059065 original size:26 final size:27
Alignment explanation
Indices: 1059014--1059067 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
1059004 TTAATAAAGT
1059014 AGTACCCTATAGTCAGGGGACATTTGTA
1 AGTACCCTATAGT-AGGGGACATTTGTA
1059042 AGTACCCTATAGT-GGGGACATTTGTA
1 AGTACCCTATAGTAGGGGACATTTGTA
1059068 TAATTTACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 13 0.50
28 13 0.50
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (27 bp):
AGTACCCTATAGTAGGGGACATTTGTA
Found at i:1059431 original size:2 final size:2
Alignment explanation
Indices: 1059424--1059481 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1059414 GATCATATCT
1059424 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
1059466 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
1059482 GAATAAGATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1062281 original size:21 final size:20
Alignment explanation
Indices: 1062247--1062287 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1062237 ATAATAAATA
*
1062247 TTTATTTATATTTTCATATT
1 TTTATTAATATTTTCATATT
*
1062267 TTTATTAATTATTTTTATATT
1 TTTATTAA-TATTTTCATATT
1062288 CCACTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTAATATTTTCATATT
Found at i:1063080 original size:3 final size:3
Alignment explanation
Indices: 1063072--1063097 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1063062 TATCATTTTT
1063072 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1063098 GTATTATTAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1068341 original size:16 final size:17
Alignment explanation
Indices: 1068293--1068344 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
1068283 TAAAAAATTA
1068293 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
1068310 GA-TTG-AA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
1068325 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
1068341 AATT
1 AATT
1068345 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 7 0.24
16 13 0.45
17 3 0.10
18 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:1072072 original size:22 final size:22
Alignment explanation
Indices: 1072044--1072151 Score: 182
Period size: 22 Copynumber: 5.0 Consensus size: 22
1072034 CTAAGACAAC
*
1072044 CGTGTCAGACCCGGGTTTAGCT
1 CGTGTCAAACCCGGGTTTAGCT
1072066 CGTGTCAAACCCGGGTTTAGCT
1 CGTGTCAAACCCGGGTTTAGCT
*
1072088 CGTGTCAAACCCGGGTTTAACT
1 CGTGTCAAACCCGGGTTTAGCT
*
1072110 CGTGTCAAACCCGGGTTTAGGT
1 CGTGTCAAACCCGGGTTTAGCT
1072132 CGTGTCAAA-CCGGGTTTAGC
1 CGTGTCAAACCCGGGTTTAGC
1072152 AAGTCTAACA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
21 10 0.12
22 71 0.88
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (22 bp):
CGTGTCAAACCCGGGTTTAGCT
Found at i:1081546 original size:16 final size:16
Alignment explanation
Indices: 1081525--1081558 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1081515 GGTCACCGTG
1081525 ACGCAATATTAACGCA
1 ACGCAATATTAACGCA
1081541 ACGCAATATTAACGCA
1 ACGCAATATTAACGCA
1081557 AC
1 AC
1081559 ACGATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (16 bp):
ACGCAATATTAACGCA
Found at i:1083534 original size:18 final size:19
Alignment explanation
Indices: 1083499--1083535 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1083489 CACGGAATGT
1083499 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1083519 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1083536 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1087897 original size:17 final size:17
Alignment explanation
Indices: 1087875--1087907 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1087865 TTGTTGTAGC
1087875 TATATAGTTCTCGATGT
1 TATATAGTTCTCGATGT
1087892 TATATAGTTCTCGATG
1 TATATAGTTCTCGATG
1087908 ATGCTAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (17 bp):
TATATAGTTCTCGATGT
Found at i:1105668 original size:17 final size:16
Alignment explanation
Indices: 1105613--1105656 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
1105603 GGTGTGCAAA
1105613 TTCGGGTATCCGGATT
1 TTCGGGTATCCGGATT
1105629 TTCGGGTATCCGGATT
1 TTCGGGTATCCGGATT
1105645 TTCGGGTATCCG
1 TTCGGGTATCCG
1105657 AAACTTTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.11, C:0.20, G:0.32, T:0.36
Consensus pattern (16 bp):
TTCGGGTATCCGGATT
Found at i:1106276 original size:36 final size:36
Alignment explanation
Indices: 1106234--1106319 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 36
1106224 TGAATGCAGT
*
1106234 GAAGGAGAAGAGGAAGAGTAAAGAATG-GATTGTGAA
1 GAAGGAGAAGAGGAAGAGTAAAGAATGAG-TCGTGAA
*
1106270 GAAGGAGAAGA--AAGAGTGAAGAATGAGTCGTGAA
1 GAAGGAGAAGAGGAAGAGTAAAGAATGAGTCGTGAA
*
1106304 GAATGAG-AGAGGAAGA
1 GAAGGAGAAGAGGAAGA
1106320 AGAAGTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 3 0.07
34 25 0.57
35 5 0.11
36 11 0.25
ACGTcount: A:0.48, C:0.01, G:0.40, T:0.12
Consensus pattern (36 bp):
GAAGGAGAAGAGGAAGAGTAAAGAATGAGTCGTGAA
Found at i:1115428 original size:32 final size:32
Alignment explanation
Indices: 1115387--1115452 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
1115377 AAATCCAGAT
1115387 TTTAAAGAGAAACTTTTGATTACTGGAGAGTA
1 TTTAAAGAGAAACTTTTGATTACTGGAGAGTA
1115419 TTTAAAGAGAAACTTTTGATTACTGGAGAGTA
1 TTTAAAGAGAAACTTTTGATTACTGGAGAGTA
1115451 TT
1 TT
1115453 AATTTAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (32 bp):
TTTAAAGAGAAACTTTTGATTACTGGAGAGTA
Done.